Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 110 of 135
Found at i:33290435 original size:18 final size:19
Alignment explanation
Indices: 33290408--33290448 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
33290398 TTTTGAAATT
*
33290408 TTTTATAAATAATTTT-AA
1 TTTTAAAAATAATTTTGAA
*
33290426 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATAATTTTGAA
33290445 TTTT
1 TTTT
33290449 TTTTGTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATAATTTTGAA
Found at i:33292215 original size:19 final size:19
Alignment explanation
Indices: 33292177--33292215 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33292167 ATTTTTTATA
*
33292177 TTAATATAATAATAATTAT
1 TTAATATAATAATAAATAT
33292196 TTAATATTAAT-ATAAATAT
1 TTAATA-TAATAATAAATAT
33292215 T
1 T
33292216 AATGTAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATATAATAATAAATAT
Found at i:33297428 original size:22 final size:22
Alignment explanation
Indices: 33297385--33297428 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
33297375 ATAATACGGG
* * *
33297385 TTTAAAAGTTTGTTTTATTTTT
1 TTTAAAAGTTAGTTTAAGTTTT
*
33297407 TTTAAGAGTTAGTTTAAGTTTT
1 TTTAAAAGTTAGTTTAAGTTTT
33297429 GTGAAAAAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTAAAAGTTAGTTTAAGTTTT
Found at i:33298701 original size:54 final size:54
Alignment explanation
Indices: 33298610--33299066 Score: 360
Period size: 54 Copynumber: 8.5 Consensus size: 54
33298600 CAGATTAGTT
* * * *
33298610 CACTGATTTACGATCACGACCTTCTACTTACGAGATTTTATTAATCTCGCAATC
1 CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
* * * * *
33298664 CACTAATTTACGATAACGACCTTCGACTTATGGGATTTTATGAATCTCGCGGTC
1 CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
* * * * *
33298718 TACTGATTTACGATGACGACTTTCTACTTACGAGATTTTATGAATCTCACGGTC
1 CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
* * * * * * *
33298772 CGCTGATTTATGATTACGAACTTCTACTTACGGGATTTCACGAATCTTGCAGTC
1 CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
* * *
33298826 CACTAATTTACGATGACGACCTTCTACTTACGGGATTTTACGAATCTCACAGTC
1 CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
*** * * * ** * *
33298880 TGTTGATTTTCGTTCACGACCTTCTACTTACAAGATTTTACGAATCTCG-TGATC
1 CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAG-TC
** * * * * *** *
33298934 TGCTGATTTACGATCG-TGACCTTTTACTTACGAGATTTTACGAATCTCATGGTT
1 CACTGATTTACGAT-GACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
** * ** * ** ***
33298988 CGTTGATTTACGATCACGATTTTCTACTGACGGGATTTTACAAATCTTATAGTC
1 CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
* * *
33299042 CGCTGATTTACGATCACGACTTTCT
1 CACTGATTTACGATGACGACCTTCT
33299067 GCATTCAATA
Statistics
Matches: 327, Mismatches: 72, Indels: 8
0.80 0.18 0.02
Matches are distributed among these distances:
53 1 0.00
54 325 0.99
55 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (54 bp):
CACTGATTTACGATGACGACCTTCTACTTACGGGATTTTATGAATCTCGCAGTC
Found at i:33298737 original size:108 final size:108
Alignment explanation
Indices: 33298611--33299034 Score: 445
Period size: 108 Copynumber: 3.9 Consensus size: 108
33298601 AGATTAGTTC
* * * * * *
33298611 ACTGATTTACGATCACGACCTTCTACTTACGAGATTTTATTAATCTCGCAATCCACTAATTTACG
1 ACTGATTTACGATGACGACCTTCTACTTACGAGATTTTATGAATCTCACAGTCCGCTGATTTACG
* * *
33298676 ATAACGACCTTCGACTTATGGGATTTTATGAATCTCGCGGTCT
66 ATAACGACCTTCTACTTACGGGATTTTACGAATCTCGCGGTCT
* * *
33298719 ACTGATTTACGATGACGACTTTCTACTTACGAGATTTTATGAATCTCACGGTCCGCTGATTTATG
1 ACTGATTTACGATGACGACCTTCTACTTACGAGATTTTATGAATCTCACAGTCCGCTGATTTACG
* * * * * *
33298784 ATTACGAACTTCTACTTACGGGATTTCACGAATCTTGCAGTCC
66 ATAACGACCTTCTACTTACGGGATTTTACGAATCTCGCGGTCT
* * * * * *
33298827 ACTAATTTACGATGACGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCTGTTGATTTTCG
1 ACTGATTTACGATGACGACCTTCTACTTACGAGATTTTATGAATCTCACAGTCCGCTGATTTACG
* * ** * *
33298892 TTCACGACCTTCTACTTACAAGATTTTACGAATCTCGTGATCT
66 ATAACGACCTTCTACTTACGGGATTTTACGAATCTCGCGGTCT
* * * * ** * *
33298935 GCTGATTTACGATCG-TGACCTTTTACTTACGAGATTTTACGAATCTCATGGTTCGTTGATTTAC
1 ACTGATTTACGAT-GACGACCTTCTACTTACGAGATTTTATGAATCTCACAGTCCGCTGATTTAC
* ** * *
33298999 GATCACGATTTTCTACTGACGGGATTTTACAAATCT
65 GATAACGACCTTCTACTTACGGGATTTTACGAATCT
33299035 TATAGTCCGC
Statistics
Matches: 260, Mismatches: 55, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
108 259 1.00
109 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (108 bp):
ACTGATTTACGATGACGACCTTCTACTTACGAGATTTTATGAATCTCACAGTCCGCTGATTTACG
ATAACGACCTTCTACTTACGGGATTTTACGAATCTCGCGGTCT
Found at i:33298999 original size:162 final size:161
Alignment explanation
Indices: 33298612--33299066 Score: 471
Period size: 162 Copynumber: 2.8 Consensus size: 161
33298602 GATTAGTTCA
* * ** * *
33298612 CTGATTTACGATCACGACCTTCTACTTACGAGATTTTATTAATCTCGCAATCCACTAATTTACGA
1 CTGATTTACGATCACGAACTTCTACTTACGAGATTTCACGAATCTTG-AGTCCACTAATTTACGA
* * * * * * *
33298677 TAACGACCTTCGACTTATGGGATTTTATGAATCTCGCGGTCTACTGATTTACGATGACGACTTTC
65 TAACGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCTGCTGATTTACGATCACGACTTTC
* * *
33298742 TACTTACGAGATTTTATGAATCTCACGGTCCG
130 TACTTACAAGATTTTACGAATCTCACGATCCG
* * *
33298774 CTGATTTATGATTACGAACTTCTACTTACGGGATTTCACGAATCTTGCAGTCCACTAATTTACGA
1 CTGATTTACGATCACGAACTTCTACTTACGAGATTTCACGAATCTTG-AGTCCACTAATTTACGA
* * * * *
33298839 TGACGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCTGTTGATTTTCGTTCACGACCTTC
65 TAACGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCTGCTGATTTACGATCACGACTTTC
** *
33298904 TACTTACAAGATTTTACGAATCTCGTGATCTG
130 TACTTACAAGATTTTACGAATCTCACGATCCG
** * * * * ** *
33298936 CTGATTTACGATCGTGACCTTTTACTTACGAGATTTTACGAATCTCATG-GTTCGTTGATTTACG
1 CTGATTTACGATCACGAACTTCTACTTACGAGATTTCACGAATCT--TGAGTCCACTAATTTACG
* ** * * * * *
33299000 ATCACGATTTTCTACTGACGGGATTTTACAAATCTTATAGTCCGCTGATTTACGATCACGACTTT
64 ATAACGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCTGCTGATTTACGATCACGACTTT
33299065 CT
129 CT
33299067 GCATTCAATA
Statistics
Matches: 240, Mismatches: 51, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
162 238 0.99
164 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (161 bp):
CTGATTTACGATCACGAACTTCTACTTACGAGATTTCACGAATCTTGAGTCCACTAATTTACGAT
AACGACCTTCTACTTACGGGATTTTACGAATCTCACAGTCTGCTGATTTACGATCACGACTTTCT
ACTTACAAGATTTTACGAATCTCACGATCCG
Found at i:33299329 original size:23 final size:23
Alignment explanation
Indices: 33299303--33299347 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33299293 ATTTTCGAAT
**
33299303 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
33299326 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
33299348 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:33299639 original size:58 final size:58
Alignment explanation
Indices: 33299571--33299685 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 58
33299561 ATCAACAAAC
* * *
33299571 TAAACTCAAATATTTTTAAACTCACATATAATTTCATTCTTCAAA-AACACTCATAAAT
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTT-AAATAACACTCATAAAT
*
33299629 TAAACCCAAATATTTTTAAACCCAAATATAATTTTATTCTTAAATAACACTCATAAA
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAA
33299686 CAACTTCTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 3 0.06
58 49 0.94
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (58 bp):
TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTAAATAACACTCATAAAT
Found at i:33300856 original size:29 final size:29
Alignment explanation
Indices: 33300792--33300891 Score: 164
Period size: 29 Copynumber: 3.4 Consensus size: 29
33300782 TAAAATTATG
*
33300792 TAATAATTTTATTATTTCAAAAAAATAATTT
1 TAATAATTTTA-TATTT-TAAAAAATAATTT
33300823 TAATAATTTTATATTTTAAAAAATAATTT
1 TAATAATTTTATATTTTAAAAAATAATTT
*
33300852 AAATAATTTTATATTTTAAAAAATAATTT
1 TAATAATTTTATATTTTAAAAAATAATTT
33300881 TAATAATTTTA
1 TAATAATTTTA
33300892 AAATCATTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
29 50 0.76
30 5 0.08
31 11 0.17
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (29 bp):
TAATAATTTTATATTTTAAAAAATAATTT
Found at i:33300877 original size:20 final size:22
Alignment explanation
Indices: 33300852--33300894 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
33300842 AAAATAATTT
33300852 AAATAATTTT-AT-ATTTTAAA
1 AAATAATTTTAATAATTTTAAA
33300872 AAATAATTTTAATAATTTTAAA
1 AAATAATTTTAATAATTTTAAA
33300894 A
1 A
33300895 TCATTTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
22 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATAATTTTAATAATTTTAAA
Found at i:33302169 original size:6 final size:6
Alignment explanation
Indices: 33302158--33302199 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
33302148 ATGGAGGAGG
33302158 AACAGA AACAGA AACAGA AACAGA AACAGA AACAGA AACAGA
1 AACAGA AACAGA AACAGA AACAGA AACAGA AACAGA AACAGA
33302200 TTGAGCCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (6 bp):
AACAGA
Found at i:33310066 original size:15 final size:14
Alignment explanation
Indices: 33310026--33310067 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
33310016 AAATTGGAAT
33310026 TTATTTTTAAA-TA
1 TTATTTTTAAATTA
*
33310039 -TATTTTTATATTA
1 TTATTTTTAAATTA
33310052 TTATTTTTGAAATTA
1 TTATTTTT-AAATTA
33310067 T
1 T
33310068 AAAACATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 9 0.38
13 2 0.08
14 7 0.29
15 6 0.25
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTTTTAAATTA
Found at i:33311389 original size:5 final size:5
Alignment explanation
Indices: 33311379--33311418 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
33311369 AGTGGGGAGA
33311379 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG
1 GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG GAAGG
33311419 CCACCTCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (5 bp):
GAAGG
Found at i:33317140 original size:6 final size:6
Alignment explanation
Indices: 33317129--33317175 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
33317119 ATAACATTGG
* * *
33317129 AGATGA AGATGA AGATGA AGAT-A GAGAGGA AGATGA TGATGA TGATG
1 AGATGA AGATGA AGATGA AGATGA -AGATGA AGATGA AGATGA AGATG
33317176 TGGCATGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
5 1 0.03
6 34 0.94
7 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.36, T:0.19
Consensus pattern (6 bp):
AGATGA
Found at i:33317652 original size:19 final size:19
Alignment explanation
Indices: 33317607--33317645 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33317597 AATTAATAGG
33317607 TGAAAATCTGGAACTTAAT
1 TGAAAATCTGGAACTTAAT
33317626 TGAAAATCTGGAACTTAAT
1 TGAAAATCTGGAACTTAAT
33317645 T
1 T
33317646 ATAAATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (19 bp):
TGAAAATCTGGAACTTAAT
Found at i:33319112 original size:6 final size:6
Alignment explanation
Indices: 33319101--33319138 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
33319091 TTTAGAAGCT
33319101 CTCAGA CTCAGA CTCAGA CTCAGA CTCAGA CTCAGA CT
1 CTCAGA CTCAGA CTCAGA CTCAGA CTCAGA CTCAGA CT
33319139 ACAGTCTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (6 bp):
CTCAGA
Found at i:33320063 original size:18 final size:18
Alignment explanation
Indices: 33320027--33320064 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
33320017 TGATTTTCAG
*
33320027 GAAGATAAACAAAGGGTT
1 GAAGATAAACAAAGAGTT
33320045 GAAGA-AAACAATAGAGTT
1 GAAGATAAACAA-AGAGTT
33320063 GA
1 GA
33320065 GATCTTATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.53, C:0.05, G:0.26, T:0.16
Consensus pattern (18 bp):
GAAGATAAACAAAGAGTT
Found at i:33327839 original size:23 final size:23
Alignment explanation
Indices: 33327791--33327841 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
33327781 AAATTTAAAC
* * *
33327791 TTTTATTTTGAATATGTAGATTT
1 TTTTATTTTGAATATATACATAT
*
33327814 TTTTATTTTTAATATATACATAT
1 TTTTATTTTGAATATATACATAT
33327837 TTTTA
1 TTTTA
33327842 ACTTATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (23 bp):
TTTTATTTTGAATATATACATAT
Found at i:33330482 original size:16 final size:15
Alignment explanation
Indices: 33330455--33330502 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
33330445 ACTTCAATAT
*
33330455 TTAATTATAATTTAA
1 TTAAATATAATTTAA
33330470 TTAAATAATAATTTAA
1 TTAAAT-ATAATTTAA
*
33330486 ATAAAT-TAATTTAA
1 TTAAATATAATTTAA
33330500 TTA
1 TTA
33330503 CTAAGTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 10 0.34
15 5 0.17
16 14 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTAAATATAATTTAA
Found at i:33337681 original size:23 final size:23
Alignment explanation
Indices: 33337651--33337697 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
33337641 ATAATAATAT
*
33337651 TATTATCTCCTATGTGTACTGAC
1 TATTATCTCCTATGTATACTGAC
33337674 TATTATCTCCTATGTATACTGAC
1 TATTATCTCCTATGTATACTGAC
33337697 T
1 T
33337698 CGTACTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (23 bp):
TATTATCTCCTATGTATACTGAC
Found at i:33341214 original size:89 final size:89
Alignment explanation
Indices: 33341063--33341329 Score: 462
Period size: 89 Copynumber: 3.0 Consensus size: 89
33341053 AAAATGGTGA
* *
33341063 AAACATTGAGTGATGAGTCTTTGCACCCTTAGAAACTTTAGAATTGGTCCCTATAGGCGACAAGT
1 AAACATTGAGTGATGAGTCTTTGCACCCTTAAAAACTTTAGAATTGATCCCTATAGGCGACAAGT
33341128 GTAGAATTTTCTGAGTAATTTTAT
66 GTAGAATTTTCTGAGTAATTTTAT
* *
33341152 AAACATTAAGTGACGAGTCTTTGCACCCTTAAAAACTTTAGAATTGATCCCTATAGGCGACAAGT
1 AAACATTGAGTGATGAGTCTTTGCACCCTTAAAAACTTTAGAATTGATCCCTATAGGCGACAAGT
33341217 GTAGAATTTTCTGAGTAATTTTAT
66 GTAGAATTTTCTGAGTAATTTTAT
* *
33341241 AAACATTGAGTGATGAGTCTTTGCACCCTTAAAAACTTTAGAATTGATCCCTATAAGCAACAAGT
1 AAACATTGAGTGATGAGTCTTTGCACCCTTAAAAACTTTAGAATTGATCCCTATAGGCGACAAGT
* *
33341306 GCAGAATTTTTTGAGTAATTTTAT
66 GTAGAATTTTCTGAGTAATTTTAT
33341330 GTTTTGGGTT
Statistics
Matches: 168, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 168 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (89 bp):
AAACATTGAGTGATGAGTCTTTGCACCCTTAAAAACTTTAGAATTGATCCCTATAGGCGACAAGT
GTAGAATTTTCTGAGTAATTTTAT
Found at i:33347658 original size:18 final size:18
Alignment explanation
Indices: 33347635--33347686 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
33347625 AATTTATATA
33347635 AAAATCCCAGAAGGATTT
1 AAAATCCCAGAAGGATTT
33347653 AAAATCCCAGAAGGATTT
1 AAAATCCCAGAAGGATTT
*
33347671 AAAATCCCTGAAGGAT
1 AAAATCCCAGAAGGAT
33347687 ATAGAGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.21
Consensus pattern (18 bp):
AAAATCCCAGAAGGATTT
Found at i:33349545 original size:17 final size:17
Alignment explanation
Indices: 33349523--33349556 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33349513 TAAGTGGATG
33349523 TCTAACTCCTTTAAACC
1 TCTAACTCCTTTAAACC
*
33349540 TCTAACTTCTTTAAACC
1 TCTAACTCCTTTAAACC
33349557 CTCATTAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.38
Consensus pattern (17 bp):
TCTAACTCCTTTAAACC
Found at i:33351603 original size:50 final size:50
Alignment explanation
Indices: 33351558--33351656 Score: 121
Period size: 50 Copynumber: 2.0 Consensus size: 50
33351548 TATATATTAT
*
33351558 ACAAGATCTCAACAAAAT-A-ATATAAATAAATATTTATATTAATATAAAAA
1 ACAAGATCTAAAC-AAATCACAT-TAAATAAATATTTATATTAATATAAAAA
* * * *
33351608 ATAAGATTTAAACAAATCACATTAAATAAATATTTATATTTATTTAAAA
1 ACAAGATCTAAACAAATCACATTAAATAAATATTTATATTAATATAAAA
33351657 CATCATATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
49 4 0.10
50 36 0.86
51 2 0.05
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (50 bp):
ACAAGATCTAAACAAATCACATTAAATAAATATTTATATTAATATAAAAA
Found at i:33354794 original size:30 final size:31
Alignment explanation
Indices: 33354756--33354827 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 31
33354746 AGTCGAGATT
** *
33354756 AAAT-GTAATTTTTTGGATGC-TCGGGGGCA
1 AAATGGTAATTTTTTGGACACTTCGAGGGCA
33354785 AAATGGTAA--TTTTGGACACTTCGAGGGCA
1 AAATGGTAATTTTTTGGACACTTCGAGGGCA
33354814 AAATGGTAATTTTT
1 AAATGGTAATTTTT
33354828 GGAAGTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 8 0.22
29 21 0.58
30 4 0.11
31 3 0.08
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (31 bp):
AAATGGTAATTTTTTGGACACTTCGAGGGCA
Found at i:33354901 original size:29 final size:30
Alignment explanation
Indices: 33354778--33355022 Score: 159
Period size: 29 Copynumber: 8.3 Consensus size: 30
33354768 TTGGATGCTC
* * *
33354778 GGGGGCAAAATGGTAA-TTTTGGACACTTC
1 GGGGGTAAAATGGTAATTTTTGGACAGTTT
* *
33354807 GAGGGCAAAATGGTAATTTTTGGA-AGTTT
1 GGGGGTAAAATGGTAATTTTTGGACAGTTT
* * *
33354836 TGGGGTCAAAAATGG-AATTTTTAGACA-TTC
1 GGGGGT--AAAATGGTAATTTTTGGACAGTTT
*
33354866 GGAGGTAAAATGGTAATTTTTGGA-AGTTT
1 GGGGGTAAAATGGTAATTTTTGGACAGTTT
** ** * *
33354895 TAGGGTAAAAAAT-AAAATTTTTAGATA-TTT
1 GGGGGT--AAAATGGTAATTTTTGGACAGTTT
* ** *
33354925 GGGGGTAAAATGGTAATTTTTAGATGGTTC
1 GGGGGTAAAATGGTAATTTTTGGACAGTTT
* * *
33354955 GAGGTTAAAAATGG-AATTTTTGG-GAGTTT
1 GGGGGT-AAAATGGTAATTTTTGGACAGTTT
*
33354984 GGGGGTAAAAT-GTAATTTTTGGAAAGTTT
1 GGGGGTAAAATGGTAATTTTTGGACAGTTT
*
33355013 GGGGTTAAAA
1 GGGGGTAAAA
33355023 AAGGAATTTT
Statistics
Matches: 168, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.01
28 27 0.16
29 67 0.40
30 52 0.31
31 21 0.12
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.35
Consensus pattern (30 bp):
GGGGGTAAAATGGTAATTTTTGGACAGTTT
Found at i:33355032 original size:29 final size:30
Alignment explanation
Indices: 33354813--33355070 Score: 153
Period size: 29 Copynumber: 8.7 Consensus size: 30
33354803 CTTCGAGGGC
*
33354813 AAAATGGTAATTTTTGG-AAGTTTTGGGGTCA
1 AAAATGG-AATTTTTGGAAAG-TTTGGGGTTA
* * *
33354844 AAAATGGAATTTTTAGACA-TTCGGAGG-T-
1 AAAATGGAATTTTTGGAAAGTTTGG-GGTTA
* *
33354872 AAAATGGTAATTTTTGG-AAGTTTTAGGGTAA
1 AAAATGG-AATTTTTGGAAAG-TTTGGGGTTA
** * * *
33354903 AAAATAAAATTTTTAGATA-TTTGGGGGT-
1 AAAATGGAATTTTTGGAAAGTTTGGGGTTA
* ** * *
33354931 AAAATGGTAATTTTTAGATGGTTCGAGGTTA
1 AAAATGG-AATTTTTGGAAAGTTTGGGGTTA
* *
33354962 AAAATGGAATTTTTGG-GAGTTTGGGGGT-
1 AAAATGGAATTTTTGGAAAGTTTGGGGTTA
*
33354990 AAAATGTAATTTTTGGAAAGTTTGGGGTTA
1 AAAATGGAATTTTTGGAAAGTTTGGGGTTA
* * * *
33355020 AAAAAGGAA-TTTTGGAAAGTTCGACGGTCA
1 AAAATGGAATTTTTGGAAAGTTTG-GGGTTA
33355050 AAATAT--AATTTTTGGAAAGTT
1 AAA-ATGGAATTTTTGGAAAGTT
33355071 CAGCGACCTT
Statistics
Matches: 174, Mismatches: 37, Indels: 33
0.71 0.15 0.14
Matches are distributed among these distances:
28 28 0.16
29 63 0.36
30 61 0.35
31 22 0.13
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.36
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAAGTTTGGGGTTA
Found at i:33355053 original size:59 final size:58
Alignment explanation
Indices: 33354794--33355070 Score: 206
Period size: 59 Copynumber: 4.7 Consensus size: 58
33354784 AAAATGGTAA
* * *
33354794 TTTTGGACACTTCGAGGGCAAAATGGTAATTTTTGG-AAGTTTTGGGGTCAAAAATGGAAT
1 TTTTGGACA-TTCGA-GGTAAAATGGTAATTTTTGGAAAG-TTTGGGGTTAAAAAAGGAAT
* * **
33354854 TTTTAGACATTCGGAGGTAAAATGGTAATTTTTGG-AAGTTTTAGGG-TAAAAAATAAAAT
1 TTTTGGACATTC-GAGGTAAAATGGTAATTTTTGGAAAG-TTTGGGGTTAAAAAA-GGAAT
* * * * * ** * * *
33354913 TTTTAGATATTTGGGGGTAAAATGGTAATTTTTAGATGGTTCGAGGTTAAAAATGGAAT
1 TTTTGGACA-TTCGAGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTTAAAAAAGGAAT
** * *
33354972 TTTTGGGAGTTTGGGGGTAAAAT-GTAATTTTTGGAAAGTTTGGGGTTAAAAAAGGAA-
1 TTTT-GGACATTCGAGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTTAAAAAAGGAAT
* *
33355029 TTTTGGAAAGTTCGACGGTCAAAAT-ATAATTTTTGGAAAGTT
1 TTTTGGACA-TTCGA-GGT-AAAATGGTAATTTTTGGAAAGTT
33355071 CAGCGACCTT
Statistics
Matches: 175, Mismatches: 33, Indels: 19
0.77 0.15 0.08
Matches are distributed among these distances:
56 3 0.02
57 7 0.04
58 36 0.21
59 108 0.62
60 21 0.12
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (58 bp):
TTTTGGACATTCGAGGTAAAATGGTAATTTTTGGAAAGTTTGGGGTTAAAAAAGGAAT
Found at i:33355065 original size:30 final size:29
Alignment explanation
Indices: 33354990--33355071 Score: 85
Period size: 30 Copynumber: 2.8 Consensus size: 29
33354980 GTTTGGGGGT
* * * *
33354990 AAAATGTAATTTTTGGAAAGTTTGGGGTT
1 AAAATATAATTTTTGGAAAGTTCGCGGTC
* *
33355019 AAAAAAGGAA-TTTTGGAAAGTTCGACGGTC
1 AAAATA-TAATTTTTGGAAAGTTCG-CGGTC
33355049 AAAATATAATTTTTGGAAAGTTC
1 AAAATATAATTTTTGGAAAGTTC
33355072 AGCGACCTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.34
Consensus pattern (29 bp):
AAAATATAATTTTTGGAAAGTTCGCGGTC
Found at i:33356095 original size:27 final size:26
Alignment explanation
Indices: 33356028--33356100 Score: 76
Period size: 27 Copynumber: 2.8 Consensus size: 26
33356018 TATTTTTCTT
* *
33356028 TTATTATTATTATTATTTATTAATAA
1 TTATTATTAATATTATTAATTAATAA
* * *
33356054 TTAATAAT-GTCATTATTAATATAATAA
1 TTATTATTAAT-ATTATTAAT-TAATAA
33356081 TTATTATTAATATTATTAAT
1 TTATTATTAATATTATTAAT
33356101 GAAATTGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.03
26 14 0.38
27 21 0.57
28 1 0.03
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATTATTAATATTATTAATTAATAA
Found at i:33356884 original size:17 final size:17
Alignment explanation
Indices: 33356858--33356923 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
33356848 GGACTTTTTT
* *
33356858 AATTTTAATTTAAAGTA
1 AATTTAAATCTAAAGTA
* *
33356875 AATTTAAATTTTAAAATA
1 AATTTAAA-TCTAAAGTA
* *
33356893 AATTTAAACCCAAAGTA
1 AATTTAAATCTAAAGTA
*
33356910 AGTTTAAATCTAAA
1 AATTTAAATCTAAA
33356924 CTTAAGATAA
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 23 0.59
18 16 0.41
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.38
Consensus pattern (17 bp):
AATTTAAATCTAAAGTA
Found at i:33356889 original size:18 final size:18
Alignment explanation
Indices: 33356866--33356900 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33356856 TTAATTTTAA
*
33356866 TTTAAAGTAAATTTAAAT
1 TTTAAAATAAATTTAAAT
33356884 TTTAAAATAAATTTAAA
1 TTTAAAATAAATTTAAA
33356901 CCCAAAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TTTAAAATAAATTTAAAT
Found at i:33357555 original size:39 final size:39
Alignment explanation
Indices: 33357450--33357634 Score: 118
Period size: 39 Copynumber: 4.7 Consensus size: 39
33357440 GCTAATGATG
* * * *
33357450 ATCTGCCCTAGGCTCGGAGTAGGAGATCGAGTGACTGTA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGAATGACTGTA
* * * * *
33357489 ATCTGCTCTAGGTTCGAGGTAAAAGATTGAATGGCTGTA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGAATGACTGTA
* * ** * ** *
33357528 ATCTACCCCAGGCTCGGGGTAAGAGATTGGTTTACAATG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGAATGACTGTA
* * * ** *
33357567 ATCTGCCCCAGGCTTGGGGTAAAAGATCAAATGGCTGTA
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTGAATGACTGTA
* * * * *
33357606 TTTTGCGCTAGGCTCAGGTTAAGAGATTG
1 ATCTGCCCTAGGCTCGGGGTAAGAGATTG
33357635 GTTAATGATG
Statistics
Matches: 102, Mismatches: 44, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (39 bp):
ATCTGCCCTAGGCTCGGGGTAAGAGATTGAATGACTGTA
Found at i:33357784 original size:51 final size:51
Alignment explanation
Indices: 33357714--33357885 Score: 136
Period size: 51 Copynumber: 3.4 Consensus size: 51
33357704 ATCCAACTTC
*
33357714 ACTGCAACTTCAG-GAAGATAGGATTTGATGTTAAAGCTTCATCTTGCTCTT
1 ACTGCAACTTCAGAG-AGATAGGAATTGATGTTAAAGCTTCATCTTGCTCTT
* * * * * *** * ***
33357765 ACTACAACTTCAGAGAGATAAAGACTTGCTATT-ATTTTTAATCCAACT-TT
1 ACTGCAACTTCAGAGAGAT-AGGAATTGATGTTAAAGCTTCATCTTGCTCTT
* * * *
33357815 ATTGTAACTTCA-AGAGGATAGGAATTAACGTTAAAGCTTCATCTTGCTCTT
1 ACTGCAACTTCAGAGA-GATAGGAATTGATGTTAAAGCTTCATCTTGCTCTT
33357866 ACTGCAACTTCAGAGAGATA
1 ACTGCAACTTCAGAGAGATA
33357886 AAAACTTGCC
Statistics
Matches: 85, Mismatches: 30, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
49 10 0.12
50 22 0.26
51 40 0.47
52 13 0.15
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (51 bp):
ACTGCAACTTCAGAGAGATAGGAATTGATGTTAAAGCTTCATCTTGCTCTT
Found at i:33357813 original size:101 final size:101
Alignment explanation
Indices: 33357699--33357900 Score: 305
Period size: 101 Copynumber: 2.0 Consensus size: 101
33357689 GCTGTTATAG
* * * *
33357699 TTTTAATCCAACTTCACTGCAACTTCAGGAAGATAGGATTTGATGTTAAAGCTTCATCTTGCTCT
1 TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTAACGTTAAAGCTTCATCTTGCTCT
* *
33357764 TACTACAACTTCAGAGAGATAAAGACTTGCTATTAT
66 TACTACAACTTCAGAGAGATAAAAACTTGCCATTAT
* * * *
33357800 TTTTAATCCAACTTTATTGTAACTTCAAGAGGATAGGAATTAACGTTAAAGCTTCATCTTGCTCT
1 TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTAACGTTAAAGCTTCATCTTGCTCT
*
33357865 TACTGCAACTTCAGAGAGATAAAAACTTGCCATTAT
66 TACTACAACTTCAGAGAGATAAAAACTTGCCATTAT
33357901 AGTTTTGATC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 90 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (101 bp):
TTTTAATCCAACTTCACTGCAACTTCAAGAAGATAGGAATTAACGTTAAAGCTTCATCTTGCTCT
TACTACAACTTCAGAGAGATAAAAACTTGCCATTAT
Found at i:33358038 original size:49 final size:49
Alignment explanation
Indices: 33357979--33358857 Score: 511
Period size: 49 Copynumber: 18.1 Consensus size: 49
33357969 AAGTTTCTAA
* ** **
33357979 GGTACCGGATTCGCCATTGTAACTTAAACCTTTCCCTTCAAATCTTCAT
1 GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* * * * *
33358028 GGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTATGTCTCTGA-
1 GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCT-TCAT
* * *
33358077 GGTACAAGG-TTTGCCATTGCGACTTAAACCTTTCCC-TCTATGTCTTCGT
1 GGTAC-TGGATTCGCCATTGCGACTTAAACCTTTCCCTTC-ATGTCTTCAT
* * * * * * * *
33358126 GGTACTGGATCCACCGTTGC-AGCTTAGATCTTCCCCTTCATTTCTCTGA-
1 GGTACTGGATTCGCCATTGCGA-CTTAAACCTTTCCCTTCATGTCT-TCAT
* *
33358175 GGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCCTT-GTGTCTTCGT
1 GGTACT-GGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* * * * *
33358223 GGTACTGGATTCGCCATTGC-AGTTTAGATCTCTCCCTT-GTGTCTTCAT
1 GGTACTGGATTCGCCATTGCGA-CTTAAACCTTTCCCTTCATGTCTTCAT
* * ** * * * *
33358271 GGTACTAGATCCGCCATCACGTCTTAGATCTTTCCCTTCATGTCTCTGA-
1 GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCT-TCAT
* * * *
33358320 GGTACTAGG-TTCGCCATTGTGACTTAAATCTTTCCCTT-GTGTCTTCGT
1 GGTACT-GGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* * * * * * * *
33358368 GGTACTGGATCCACCGTCGCGGCTTAGATCTTTCCCTTCATGTCTCTGA-
1 GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCT-TCAT
* * * *
33358417 GGTACT-AAGTTCGCCATTGCGACTTAAACCTTTCCCCT-GTGTCTTCGT
1 GGTACTGGA-TTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* * * * * * *
33358465 GGTACTGAATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGA-
1 GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCT-TCAT
* * * * *
33358514 GGTACTAGG-TTCGCCGTTGCGAATTAAACATTTCCCTT-GTGTCTTCGT
1 GGTACT-GGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* ** * * *
33358562 GGTACTGGATCCGCCATTGCGGTTTAGATCTTTCCCTTCATGTCTCTGA-
1 GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCT-TCAT
* * * ** *
33358611 GGTGCTAGG-TTCG-C-TGTACGACTTAAACCTTTTCCTTTGTGTCTTCGT
1 GGTACT-GGATTCGCCAT-TGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* * * * * *
33358659 GGTACTAGA-TCTGCCGTTACGGCTTAGATCTTTCCCTTCATGT-TTC-T
1 GGTACTGGATTC-GCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* * *
33358706 GAGGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCTCTT-GTGTCTTCGT
1 --GGTACT-GGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
* * * * * *
33358756 GGTACTGGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCACGTCTCTGA-
1 GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCT-TCAT
* * *
33358805 GGTACAAGG-TTCACCGTTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
1 GGTAC-TGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
33358854 GGTA
1 GGTA
33358858 ATGAAACCTG
Statistics
Matches: 623, Mismatches: 158, Indels: 98
0.71 0.18 0.11
Matches are distributed among these distances:
47 19 0.03
48 243 0.39
49 334 0.54
50 27 0.04
ACGTcount: A:0.16, C:0.27, G:0.20, T:0.37
Consensus pattern (49 bp):
GGTACTGGATTCGCCATTGCGACTTAAACCTTTCCCTTCATGTCTTCAT
Found at i:33358315 original size:97 final size:98
Alignment explanation
Indices: 33358175--33358857 Score: 764
Period size: 97 Copynumber: 7.0 Consensus size: 98
33358165 ATTTCTCTGA
* * * * * * *
33358175 GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTT-GTGTCT-TCGTGGTACT-GGATTCGC
1 GGTACTAGATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCT-GAGGTACTAGG-TTCGC
* * * *
33358237 CATTGCAG-TTTAGATCTCTCCCTTGTGTCTTCAT
64 CATTGCAGACTTAAATCTTTCCCTTGTGTCTTCGT
** *
33358271 GGTACTAGATCCGCCATCACGTCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCA
1 GGTACTAGATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCA
*
33358336 TTG-TGACTTAAATCTTTCCCTTGTGTCTTCGT
66 TTGCAGACTTAAATCTTTCCCTTGTGTCTTCGT
* * * * *
33358368 GGTACTGGATCCACCGTCGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCA
1 GGTACTAGATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCA
* *
33358433 TTGC-GACTTAAACCTTTCCCCTGTGTCTTCGT
66 TTGCAGACTTAAATCTTTCCCTTGTGTCTTCGT
*
33358465 GGTACT-GAATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
1 GGTACTAG-ATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCC
* *
33358529 GTTGC-GAATTAAA-CATTTCCCTTGTGTCTTCGT
65 ATTGCAGACTTAAATC-TTTCCCTTGTGTCTTCGT
* * *
33358562 GGTACTGGATCCGCCATTGCGGTTTAGATCTTTCCCTTCATGTCTCTGAGGTGCTAGGTTCG-C-
1 GGTACTAGATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCA
* * *
33358625 -TGTACGACTTAAACCTTTTCCTTTGTGTCTTCGT
66 TTGCA-GACTTAAATC-TTTCCCTTGTGTCTTCGT
* * * *
33358659 GGTACTAGATCTGCCGTTACGGCTTAGATCTTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCA
1 GGTACTAGATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCA
* *
33358724 TTGC-GACTTAAACCTTTCTCTTGTGTCTTCGT
66 TTGCAGACTTAAATCTTTCCCTTGTGTCTTCGT
* * * * * * * * *
33358756 GGTACTGGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCACGTCTCTGAGGTACAAGGTTCACCG
1 GGTACTAGATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCA
* * *
33358821 TTGC-GACTTAAACCTTTCCCTTCATGTCTTCAT
66 TTGCAGACTTAAATCTTTCCCTT-GTGTCTTCGT
33358854 GGTA
1 GGTA
33358858 ATGAAACCTG
Statistics
Matches: 513, Mismatches: 59, Indels: 28
0.86 0.10 0.05
Matches are distributed among these distances:
94 2 0.00
96 42 0.08
97 440 0.86
98 27 0.05
100 2 0.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.37
Consensus pattern (98 bp):
GGTACTAGATCCGCCATTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGGTTCGCCA
TTGCAGACTTAAATCTTTCCCTTGTGTCTTCGT
Found at i:33358317 original size:145 final size:144
Alignment explanation
Indices: 33358028--33358696 Score: 524
Period size: 145 Copynumber: 4.6 Consensus size: 144
33358018 AAATCTTCAT
* * * * * * *
33358028 GGTACT-GGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTATGTC-TCTGAGGTACAAGG-TTTG
1 GGTACTAGG-TTCGCCATTGCGACTTAAACCTTTCCC-TTGTGTCTTC-GTGGTAC-TGGATTCG
* * * * * * * *
33358090 CCATTGCGACTTAAACCTTTCCCTCTATGTCTTCGTGGTACTGGATCCACCGTTGCAG-CTTAGA
62 CCGTTGCGA-TTAGATCTTTCCCT-TGTGTCTTCATGGTACTAGATCCGCCATTGC-GTCTTAGA
* *
33358154 TCTTCCCCTTCATTTCTCTGA
124 TCTTTCCCTTCATGTCTCTGA
*
33358175 GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATTCGCCAT
1 GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATTCGCCGT
* * **
33358240 TGCAGTTTAGATCTCTCCCTTGTGTCTTCATGGTACTAGATCCGCCATCACGTCTTAGATCTTTC
66 TGC-GATTAGATCTTTCCCTTGTGTCTTCATGGTACTAGATCCGCCATTGCGTCTTAGATCTTTC
33358305 CCTTCATGTCTCTGA
130 CCTTCATGTCTCTGA
* * * *
33358320 GGTACTAGGTTCGCCATTGTGACTTAAATCTTTCCCTTGTGTCTTCGTGGTACTGGATCCACCGT
1 GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATTCGCCGT
* * * * * * * *
33358385 CGCGGCTTAGATCTTTCCCTTCATGTCTCTGA-GGTACTA-AGTTCGCCATTGCGACTTAAACCT
66 TGC-GATTAGATCTTTCCCTT-GTGTCT-TCATGGTACTAGA-TCCGCCATTGCGTCTTAGATCT
* * *
33358448 TTCCCCT-GTGTCT-TCGT
127 TTCCCTTCATGTCTCT-GA
* * * * * * * *
33358465 GGTACT-GAATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTC-TCTGAGGTACTAGG-TTCG
1 GGTACTAG-GTTCGCCATTGCGACTTAAACCTTTCCCTT-GTGTCTTC-GTGGTACT-GGATTCG
* * *
33358527 CCGTTGCGAATTA-AACATTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCATTGCGGT-TTAGA
62 CCGTTGCG-ATTAGATC-TTTCCCTTGTGTCTTCATGGTACTAGATCCGCCATTGC-GTCTTAGA
33358590 TCTTTCCCTTCATGTCTCTGA
124 TCTTTCCCTTCATGTCTCTGA
* * * *
33358611 GGTGCTAGGTTCG-C-TGTACGACTTAAACCTTTTCCTTTGTGTCTTCGTGGTACTAGA-TCTGC
1 GGTACTAGGTTCGCCAT-TGCGACTTAAACC-TTTCCCTTGTGTCTTCGTGGTACTGGATTC-GC
* *
33358673 CGTTACGGCTTAGATCTTTCCCTT
63 CGTTGC-GATTAGATCTTTCCCTT
33358697 CATGTTTCTG
Statistics
Matches: 416, Mismatches: 78, Indels: 58
0.75 0.14 0.11
Matches are distributed among these distances:
144 8 0.02
145 242 0.58
146 125 0.30
147 39 0.09
148 2 0.00
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (144 bp):
GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTGTCTTCGTGGTACTGGATTCGCCGT
TGCGATTAGATCTTTCCCTTGTGTCTTCATGGTACTAGATCCGCCATTGCGTCTTAGATCTTTCC
CTTCATGTCTCTGA
Found at i:33358447 original size:242 final size:243
Alignment explanation
Indices: 33358021--33358502 Score: 732
Period size: 242 Copynumber: 2.0 Consensus size: 243
33358011 TCCCTTCAAA
* * * ** *
33358021 TCTTCATGGTACTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTTATGTCTCTGAGGTACAAGG
1 TCTTCATGGTACTAGATCCGCCATCACGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGG
* *
33358086 TTTGCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCGTGGTACTGGATCCACCGTTGCAGCTT
66 TTCGCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCGTGGTACTGGATCCACCGTCGCAGCTT
* * *
33358151 AGATCTTCCCCTTCATTTCTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTTTCCCTTGTG
131 AGATCTTCCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCTTTCCCCTGTG
* * *
33358216 TCTTCGTGGTACTGGATTCGCCATTGCAGTTTAGATCTCTCCCTTGTG
196 TCTTCGTGGTACTGAATCCGCCATTGCAGCTTAGATCTCTCCCTTGTG
* * *
33358264 TCTTCATGGTACTAGATCCGCCATCACGTCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAGG
1 TCTTCATGGTACTAGATCCGCCATCACGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGG
* * * *
33358329 TTCGCCATTGTGACTTAAATCTTTCCCT-TGTGTCTTCGTGGTACTGGATCCACCGTCGCGGCTT
66 TTCGCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCGTGGTACTGGATCCACCGTCGCAGCTT
*
33358393 AGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCTTTCCCCTGTG
131 AGATCTTCCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCTTTCCCCTGTG
* * *
33358458 TCTTCGTGGTACTGAATCCGCCGTTGCGGCTTAGATCTTTCCCTT
196 TCTTCGTGGTACTGAATCCGCCATTGCAGCTTAGATCTCTCCCTT
33358503 CATGTCTCTG
Statistics
Matches: 214, Mismatches: 25, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
242 133 0.62
243 81 0.38
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.37
Consensus pattern (243 bp):
TCTTCATGGTACTAGATCCGCCATCACGGCTTAAATCTTTCCCTTCATGTCTCTGAGGTACAAGG
TTCGCCATTGCGACTTAAACCTTTCCCTCTATGTCTTCGTGGTACTGGATCCACCGTCGCAGCTT
AGATCTTCCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCTTTCCCCTGTG
TCTTCGTGGTACTGAATCCGCCATTGCAGCTTAGATCTCTCCCTTGTG
Found at i:33358493 original size:194 final size:192
Alignment explanation
Indices: 33358255--33358857 Score: 852
Period size: 194 Copynumber: 3.1 Consensus size: 192
33358245 TTTAGATCTC
* * * *
33358255 TCCCTTGTGTCTTCATGGTACTAGATCCGCCATCACGTCTTAGATCTTTCCCTTCATGTCTCTGA
1 TCCCTTGTGTCTTCGTGGTACTAGATCCGCCGTTACGGCTTAGATCTTTCCCTTCATGTCTCTGA
* *
33358320 GGTACTAGGTTCGCCATTGTGACTTAAATCTTTCCCTTGTGTCTTCGTGGTACTGGATCCACCGT
66 GGTACTAGGTTCGCCATTGCGACTTAAA-CTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGT
*
33358385 CGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCTT
130 TGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCC-TTGCGACTTAAACCTT
* *
33358449 TCCCCTGTGTCTTCGTGGTACT-GAATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTG
1 TCCCTTGTGTCTTCGTGGTACTAG-ATCCGCCGTTACGGCTTAGATCTTTCCCTTCATGTCTCTG
* * *
33358513 AGGTACTAGGTTCGCCGTTGCGAATTAAACATTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCA
65 AGGTACTAGGTTCGCCATTGCGACTTAAAC-TTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCG
* * * *
33358578 TTGCGGTTTAGATCTTTCCCTTCATGTCTCTGAGGTGCTAGGTTCG-CTGTACGACTTAAACCTT
129 TTGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCT-TGCGACTTAAACC-T
33358642 T
192 T
* * *
33358643 TCCTTTGTGTCTTCGTGGTACTAGATCTGCCGTTACGGCTTAGATCTTTCCCTTCATGTTTCTGA
1 TCCCTTGTGTCTTCGTGGTACTAGATCCGCCGTTACGGCTTAGATCTTTCCCTTCATGTCTCTGA
* *
33358708 GGTACTAGGTTCGCCATTGCGACTTAAACCTTTCTCTTGTGTCTTCGTGGTACTGGATTCGCCGT
66 GGTACTAGGTTCGCCATTGCGACTTAAA-CTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGT
* * * *
33358773 TGAGGCTTAAATCTTTCCCTTCACGTCTCTGAGGTAC-AAGGTTCACCGTTGCGACTTAAACCTT
130 TGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAA-GTTCGCC-TTGCGACTTAAACCTT
* *
33358837 TCCCTTCATGTCTTCATGGTA
1 TCCCTT-GTGTCTTCGTGGTA
33358858 ATGAAACCTG
Statistics
Matches: 362, Mismatches: 37, Indels: 19
0.87 0.09 0.05
Matches are distributed among these distances:
192 1 0.00
193 16 0.04
194 317 0.88
195 27 0.07
196 1 0.00
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.37
Consensus pattern (192 bp):
TCCCTTGTGTCTTCGTGGTACTAGATCCGCCGTTACGGCTTAGATCTTTCCCTTCATGTCTCTGA
GGTACTAGGTTCGCCATTGCGACTTAAACTTTCCCTTGTGTCTTCGTGGTACTGGATCCGCCGTT
GCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCTTGCGACTTAAACCTT
Found at i:33358591 original size:291 final size:290
Alignment explanation
Indices: 33358255--33358857 Score: 897
Period size: 291 Copynumber: 2.1 Consensus size: 290
33358245 TTTAGATCTC
33358255 TCCCTTGTGTCTTCATGGTACTAGATCCGCCATCACGTCTTAGATCTTTCCCTTCATGTCTCTGA
1 TCCCTTGTGTCTTCATGGTACTAGATCCGCCATCACGTCTTAGATCTTTCCCTTCATGTCTCTGA
* *
33358320 GGTACTAGGTTCGCCATTGT-GACTTAAATC-TTTCCCTTGTGTCTTCGTGGTACTGGATCCACC
66 GGTACTAGGTTCG-C--TGTAGACTTAAACCTTTTCCCTTGTGTCTTCGTGGTACTAGATCCACC
*
33358383 GTCGCGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCT
128 GTCACGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCT
* * *
33358448 TTCCCCTGTGTCTTCGTGGTACTGAATCCGCCGTTGCGGCTTAGATCTTTCCCTTCATGTCTCTG
193 TTCCCCTGTGTCTTCGTGGTACTGAATCCGCCGTTGAGGCTTAAATCTTTCCCTTCACGTCTCTG
* *
33358513 AGGTACTAGGTTCGCCGTTGCGAATTAAACATT
258 AGGTACAAGGTTCACCGTTGCGAATTAAACATT
* * **
33358546 TCCCTTGTGTCTTCGTGGTACTGGATCCGCCATTGCGGT-TTAGATCTTTCCCTTCATGTCTCTG
1 TCCCTTGTGTCTTCATGGTACTAGATCCGCCATCAC-GTCTTAGATCTTTCCCTTCATGTCTCTG
* * **
33358610 AGGTGCTAGGTTCGCTGTACGACTTAAACCTTTTCCTTTGTGTCTTCGTGGTACTAGATCTGCCG
65 AGGTACTAGGTTCGCTGTA-GACTTAAACCTTTTCCCTTGTGTCTTCGTGGTACTAGATCCACCG
* * *
33358675 TTACGGCTTAGATCTTTCCCTTCATGTTTCTGAGGTACTAGGTTCGCCATTGCGACTTAAACCTT
129 TCACGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCTT
* * * *
33358740 TCTCTTGTGTCTTCGTGGTACTGGATTCGCCGTTGAGGCTTAAATCTTTCCCTTCACGTCTCTGA
194 TCCCCTGTGTCTTCGTGGTACTGAATCCGCCGTTGAGGCTTAAATCTTTCCCTTCACGTCTCTGA
* *
33358805 GGTACAAGGTTCACCGTTGCGACTTAAACCTT
259 GGTACAAGGTTCACCGTTGCGAATTAAACATT
*
33358837 TCCCTTCATGTCTTCATGGTA
1 TCCCTT-GTGTCTTCATGGTA
33358858 ATGAAACCTG
Statistics
Matches: 280, Mismatches: 27, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
288 3 0.01
290 10 0.04
291 253 0.90
292 14 0.05
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.37
Consensus pattern (290 bp):
TCCCTTGTGTCTTCATGGTACTAGATCCGCCATCACGTCTTAGATCTTTCCCTTCATGTCTCTGA
GGTACTAGGTTCGCTGTAGACTTAAACCTTTTCCCTTGTGTCTTCGTGGTACTAGATCCACCGTC
ACGGCTTAGATCTTTCCCTTCATGTCTCTGAGGTACTAAGTTCGCCATTGCGACTTAAACCTTTC
CCCTGTGTCTTCGTGGTACTGAATCCGCCGTTGAGGCTTAAATCTTTCCCTTCACGTCTCTGAGG
TACAAGGTTCACCGTTGCGAATTAAACATT
Found at i:33365223 original size:30 final size:28
Alignment explanation
Indices: 33365185--33365318 Score: 117
Period size: 29 Copynumber: 4.6 Consensus size: 28
33365175 AGTCGAGATT
**
33365185 AAATGTAATTTTTTGGATGCTCGGGGGCA
1 AAATGTAA-TTTTTGGACACTCGGGGGCA
*
33365214 AAATGGTAA-TTTTGGACACTTCGAGGGCA
1 AAAT-GTAATTTTTGGACAC-TCGGGGGCA
*
33365243 AAATGGTAATTTTTGGACACTCGAGGGGTAA
1 AAAT-GTAATTTTTGGACACTCG-GGGG-CA
* *** *
33365274 AAATGTAATTTTTGGACATTTAAGGGTA
1 AAATGTAATTTTTGGACACTCGGGGGCA
33365302 AAATGGTAATTTTTGGA
1 AAAT-GTAATTTTTGGA
33365319 AGTTTTTGGG
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
28 13 0.15
29 39 0.44
30 32 0.36
31 5 0.06
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
AAATGTAATTTTTGGACACTCGGGGGCA
Found at i:33365282 original size:59 final size:60
Alignment explanation
Indices: 33365185--33365377 Score: 197
Period size: 59 Copynumber: 3.3 Consensus size: 60
33365175 AGTCGAGATT
* * *
33365185 AAAT-GTAATTTTTTGGATGCTCG-GGGG-C-AAAATGGTAA-TTTTGGACACTTCGAGGGCA
1 AAATGGTAA-TTTTTGGA-ACTCGAGGGGTCAAAAATAGTAATTTTTGGACA-TTCGAGGGTA
**
33365243 AAATGGTAATTTTTGGACACTCGAGGGGT-AAAAAT-GTAATTTTTGGACATTTAAGGGTA
1 AAATGGTAATTTTTGGA-ACTCGAGGGGTCAAAAATAGTAATTTTTGGACATTCGAGGGTA
* ****
33365302 AAATGGTAATTTTTGGAAGTTTTTGGGTCAAAAATAG-AATTTTTGGACATTCGAGGGTA
1 AAATGGTAATTTTTGGAACTCGAGGGGTCAAAAATAGTAATTTTTGGACATTCGAGGGTA
33365361 AAATGGTAA-TTTTGGAA
1 AAATGGTAATTTTTGGAA
33365378 GGTTCGAGAT
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
58 30 0.26
59 71 0.61
60 15 0.13
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (60 bp):
AAATGGTAATTTTTGGAACTCGAGGGGTCAAAAATAGTAATTTTTGGACATTCGAGGGTA
Found at i:33365383 original size:29 final size:30
Alignment explanation
Indices: 33365213--33365464 Score: 185
Period size: 29 Copynumber: 8.6 Consensus size: 30
33365203 GCTCGGGGGC
* *
33365213 AAAATGGTAA-TTTTGGACACTTCGAGGG-C
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGTA
*
33365242 AAAATGGTAATTTTTGGACA-CTCGAGGGGTA
1 AAAATGGTAATTTTTGGA-AGTTCGA-GGGTA
**
33365273 AAAAT-GTAATTTTTGGACA-TTTAAGGGT-
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGTA
***
33365301 AAAATGGTAATTTTTGGAAGTTTTTGGGTCA
1 AAAATGGTAATTTTTGGAAGTTCGAGGGT-A
*
33365332 AAAATAG-AATTTTTGGACA-TTCGAGGGT-
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGTA
**
33365360 AAAATGGTAA-TTTTGGAAGGTTCGAGATTA
1 AAAATGGTAATTTTTGGAA-GTTCGAGGGTA
*
33365390 AAAATGG-AATTTTT-AAGAGTTC-AGGGTA
1 AAAATGGTAATTTTTGGA-AGTTCGAGGGTA
* *
33365418 AAAAT-GTAATTTTTGGAAAGTTTGA-GGTT
1 AAAATGGTAATTTTTGG-AAGTTCGAGGGTA
33365447 AAAAT-GTAATTTTTGGAA
1 AAAATGGTAATTTTTGGAA
33365465 AGTTTAGGGA
Statistics
Matches: 185, Mismatches: 20, Indels: 37
0.76 0.08 0.15
Matches are distributed among these distances:
27 2 0.01
28 37 0.20
29 76 0.41
30 58 0.31
31 12 0.06
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTCGAGGGTA
Found at i:33371336 original size:31 final size:31
Alignment explanation
Indices: 33371301--33371368 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
33371291 AAAAAATATT
* *
33371301 AATAGTTCAGTGACTTAAATAAAAACTTTTG
1 AATAGTTCAGTAACTTAAATAAAAACTTTCG
33371332 AATAGTTCAGTAACTTAAATAAAAACTTTCG
1 AATAGTTCAGTAACTTAAATAAAAACTTTCG
33371363 AATAGT
1 AATAGT
33371369 AATGACCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (31 bp):
AATAGTTCAGTAACTTAAATAAAAACTTTCG
Found at i:33374879 original size:25 final size:24
Alignment explanation
Indices: 33374818--33374879 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
33374808 GATAATTACG
33374818 TTTATTTTATTTAAATTAAGAGTTA
1 TTTATTTTA-TTAAATTAAGAGTTA
* * *
33374843 TTT-TTTTAATTACATATATGATTTA
1 TTTATTTT-ATTAAAT-TAAGAGTTA
33374868 TTTATTTTATTA
1 TTTATTTTATTA
33374880 TTTTTGACAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 9 0.29
25 18 0.58
26 4 0.13
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (24 bp):
TTTATTTTATTAAATTAAGAGTTA
Found at i:33377562 original size:28 final size:28
Alignment explanation
Indices: 33377509--33377562 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
33377499 ACGACTATAT
* **
33377509 GTTTTATCTTTAATTGTATTTTTTTGAA
1 GTTTTATCTTTAATTATATTAATTTGAA
33377537 GTTTTATCTTTAGATTATA-TAATTTG
1 GTTTTATCTTTA-ATTATATTAATTTG
33377563 GATTTATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.61
Consensus pattern (28 bp):
GTTTTATCTTTAATTATATTAATTTGAA
Found at i:33383447 original size:26 final size:26
Alignment explanation
Indices: 33383418--33383467 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
33383408 TTAAAAAAAT
33383418 AAAATAAATAAGACTTAGAATCTAAC
1 AAAATAAATAAGACTTAGAATCTAAC
* *
33383444 AAAATAAATGAGACTTAGGATCTA
1 AAAATAAATAAGACTTAGAATCTA
33383468 TATAAAGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (26 bp):
AAAATAAATAAGACTTAGAATCTAAC
Found at i:33385064 original size:18 final size:17
Alignment explanation
Indices: 33385041--33385075 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33385031 TATCTGTACT
*
33385041 TTTAACTAATTTATATAA
1 TTTAACCAATTTA-ATAA
33385059 TTTAACCAATTTAATAA
1 TTTAACCAATTTAATAA
33385076 GTAATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAACCAATTTAATAA
Found at i:33389326 original size:21 final size:20
Alignment explanation
Indices: 33389301--33389340 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
33389291 AAAATGTTTT
*
33389301 TAAATTAATTTTTAATTAAA
1 TAAAATAATTTTTAATTAAA
* *
33389321 TAAAATATTTTTTTATTAAA
1 TAAAATAATTTTTAATTAAA
33389341 AAACAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAAATAATTTTTAATTAAA
Found at i:33399252 original size:18 final size:18
Alignment explanation
Indices: 33399225--33399275 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
33399215 AATTTTCTTT
*
33399225 ATTTTCATAATTTT-AAA
1 ATTTTAATAATTTTGAAA
* *
33399242 ATTTCTTATAATATTTGAAT
1 ATTT-TAATAAT-TTTGAAA
33399262 ATTTTAATAATTTT
1 ATTTTAATAATTTT
33399276 TCTAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.14
18 9 0.32
19 9 0.32
20 6 0.21
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTTAATAATTTTGAAA
Found at i:33399326 original size:19 final size:18
Alignment explanation
Indices: 33399304--33399365 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 18
33399294 CATTTAAATT
33399304 TTTTCTATAATTTTAATAA
1 TTTTCTATAATTTT-ATAA
33399323 TTTTCTATAATAATTTATAA
1 TTTTCTATAAT--TTTATAA
*
33399343 ATTTCTAATAATTTTATAA
1 TTTTCT-ATAATTTTATAA
33399362 TTTT
1 TTTT
33399366 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 21 0.55
20 9 0.24
21 8 0.21
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTCTATAATTTTATAA
Found at i:33400075 original size:28 final size:28
Alignment explanation
Indices: 33400044--33400104 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
33400034 ACGGTGCAAA
33400044 TTTAAAATATTGTTGTGTATTTTTTATT
1 TTTAAAATATTGTTGTGTATTTTTTATT
33400072 TTTAAAATATTGTTGTGTATTTTTTATT
1 TTTAAAATATTGTTGTGTATTTTTTATT
33400100 TTTAA
1 TTTAA
33400105 TGGATTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (28 bp):
TTTAAAATATTGTTGTGTATTTTTTATT
Found at i:33400545 original size:23 final size:23
Alignment explanation
Indices: 33400491--33400547 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
33400481 TGATGTGGCT
*
33400491 TCCAGTCAACAGCTTCTAGAAGG
1 TCCAGTCAGCAGCTTCTAGAAGG
*
33400514 TCTAGTCAGCAGCTTCTAGAAGG
1 TCCAGTCAGCAGCTTCTAGAAGG
*
33400537 TCCAATCAGCA
1 TCCAGTCAGCA
33400548 AGGATGGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (23 bp):
TCCAGTCAGCAGCTTCTAGAAGG
Found at i:33407080 original size:15 final size:14
Alignment explanation
Indices: 33407046--33407092 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
33407036 CCCATTGTTT
*
33407046 TTTTATTT-TATTA
1 TTTTATTTCGATTA
33407059 TTTTATTTCGATTA
1 TTTTATTTCGATTA
*
33407073 TTTATATTTCTATTGA
1 TTT-TATTTCGATT-A
33407089 TTTT
1 TTTT
33407093 TATCTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 8 0.28
14 7 0.24
15 10 0.34
16 4 0.14
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (14 bp):
TTTTATTTCGATTA
Found at i:33408062 original size:14 final size:13
Alignment explanation
Indices: 33408001--33408064 Score: 65
Period size: 13 Copynumber: 4.6 Consensus size: 13
33407991 GAGTTCGAAT
33408001 AAAGAAGAAAAAATA
1 AAAG-AGAAAAAA-A
33408016 AAAGAAGAAAAAAA
1 AAAG-AGAAAAAAA
* * *
33408030 GAACAGCAAAAAA
1 AAAGAGAAAAAAA
33408043 AAAGAGAAAAAAGA
1 AAAGAGAAAAAA-A
33408057 AAAGAGAA
1 AAAGAGAA
33408065 GACTGTTCGT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
13 17 0.40
14 12 0.29
15 13 0.31
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAA
Found at i:33410067 original size:16 final size:17
Alignment explanation
Indices: 33410032--33410066 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33410022 CGCATAATAT
33410032 AATAAACATATTTAAAA
1 AATAAACATATTTAAAA
33410049 AATAAACAT-TTATAAAA
1 AATAAACATATT-TAAAA
33410066 A
1 A
33410067 TTTAATGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
AATAAACATATTTAAAA
Found at i:33411127 original size:30 final size:30
Alignment explanation
Indices: 33411093--33411202 Score: 118
Period size: 30 Copynumber: 3.7 Consensus size: 30
33411083 GGTCAAAACA
*
33411093 TAATTTTAGAAAAGTTTAGGGATAAAAATG
1 TAATTTTAGAAAAGTTTAGGGATCAAAATG
33411123 TAATTTT-GAGAAAGTTTAGAGG-TCAAAATG
1 TAATTTTAGA-AAAGTTTAG-GGATCAAAATG
* * * *
33411153 TGATTTTGGAAAAGATT-GGGATCAAAATA
1 TAATTTTAGAAAAGTTTAGGGATCAAAATG
* *
33411182 TGATTTTAGGAAAGTTTAGGG
1 TAATTTTAGAAAAGTTTAGGG
33411203 GTTAAATTTT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
28 2 0.03
29 24 0.35
30 38 0.56
31 4 0.06
ACGTcount: A:0.40, C:0.02, G:0.25, T:0.34
Consensus pattern (30 bp):
TAATTTTAGAAAAGTTTAGGGATCAAAATG
Found at i:33411178 original size:29 final size:30
Alignment explanation
Indices: 33411095--33411225 Score: 117
Period size: 30 Copynumber: 4.4 Consensus size: 30
33411085 TCAAAACATA
* * *
33411095 ATTTTAGAAAAGTTTAGGGATAAAAATGTA
1 ATTTTGGAAAAGTTTAGGGATCAAAATGTG
33411125 ATTTT-GAGAAAGTTTAGAGG-TCAAAATGTG
1 ATTTTGGA-AAAGTTTAG-GGATCAAAATGTG
* *
33411155 ATTTTGGAAAAGATT-GGGATCAAAATATG
1 ATTTTGGAAAAGTTTAGGGATCAAAATGTG
* * * *
33411184 ATTTTAGG-AAAGTTTAGGGGTTAAATTTTG
1 ATTTT-GGAAAAGTTTAGGGATCAAAATGTG
*
33411214 ATTTTGGGAAAG
1 ATTTTGGAAAAG
33411226 ATTGGGGCTC
Statistics
Matches: 85, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.02
29 25 0.29
30 54 0.64
31 4 0.05
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (30 bp):
ATTTTGGAAAAGTTTAGGGATCAAAATGTG
Found at i:33411195 original size:59 final size:59
Alignment explanation
Indices: 33411095--33411231 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 59
33411085 TCAAAACATA
* * *
33411095 ATTTTAGAAAAGTTTAGGGATAAAAATGTAATTTTGAGAAAGTTTAGAGGTCAAAATGTG
1 ATTTTGGAAAAGATT-GGGATAAAAATATAATTTTGAGAAAGTTTAGAGGTCAAAATGTG
* * * * * *
33411155 ATTTTGGAAAAGATTGGGATCAAAATATGATTTT-AGGAAAGTTTAGGGGTTAAATTTTG
1 ATTTTGGAAAAGATTGGGATAAAAATATAATTTTGA-GAAAGTTTAGAGGTCAAAATGTG
*
33411214 ATTTTGGGAAAGATTGGG
1 ATTTTGGAAAAGATTGGG
33411232 GCTCTTTTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
58 1 0.02
59 52 0.79
60 13 0.20
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.35
Consensus pattern (59 bp):
ATTTTGGAAAAGATTGGGATAAAAATATAATTTTGAGAAAGTTTAGAGGTCAAAATGTG
Found at i:33412641 original size:37 final size:37
Alignment explanation
Indices: 33412590--33412664 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 37
33412580 TTGCTTTATT
33412590 GATTTAGCCTACTTCTCTGTATCTCATCAAGAAGATG
1 GATTTAGCCTACTTCTCTGTATCTCATCAAGAAGATG
33412627 GATTTAGTCC-ACTTCTCTGTATCTCATCAAGAAGATG
1 GATTTAG-CCTACTTCTCTGTATCTCATCAAGAAGATG
33412664 G
1 G
33412665 CCGCTTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (37 bp):
GATTTAGCCTACTTCTCTGTATCTCATCAAGAAGATG
Found at i:33413292 original size:85 final size:85
Alignment explanation
Indices: 33413191--33413399 Score: 226
Period size: 85 Copynumber: 2.5 Consensus size: 85
33413181 GATGGTAGGC
**
33413191 TCATTGATTT-AATCCACTTCTCTGTATCTTATTAGGAAGAAAAATTTGGTTCACTTCTCTGTTT
1 TCATTG-TTTCAATCCACTTCTCTGTATCTTATTAGGAAGAAAAATTTGGTTCACTTCTCTGCAT
** *
33413255 CTCATTTGGAAGATGACCTCT
65 CTCATCAGGAAGATGACCACT
* * * ***
33413276 TCATTGTTTCAATCCACTTCTTTGTATCTCATCAGGAAGACGGATTTGGTTCACTTCTCTGCATC
1 TCATTGTTTCAATCCACTTCTCTGTATCTTATTAGGAAGAAAAATTTGGTTCACTTCTCTGCATC
*
33413341 TCGTCAGGAAGATGACCACT
66 TCATCAGGAAGATGACCACT
* * * * *
33413361 T-ATTGGTTCGA-CTTACTTCTCTATATCTTATTAAGAAGA
1 TCATTGTTTCAATC-CACTTCTCTGTATCTTATTAGGAAGA
33413400 TGGAGTTTGA
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
83 1 0.01
84 31 0.30
85 70 0.69
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (85 bp):
TCATTGTTTCAATCCACTTCTCTGTATCTTATTAGGAAGAAAAATTTGGTTCACTTCTCTGCATC
TCATCAGGAAGATGACCACT
Found at i:33413295 original size:208 final size:207
Alignment explanation
Indices: 33412791--33413315 Score: 640
Period size: 208 Copynumber: 2.5 Consensus size: 207
33412781 GAGACCTCCT
* * * *** * *
33412791 CTTCTTTGTATCTTATCAAGAAGACTGATTTAGTCTACTTCTCTGTATCTCATCAAGAAGATGAC
1 CTTCTCTGTATCTCATCAGGAAGAAAAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC
*
33412856 CGCTTTATTGTTTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTCG
66 CTCTTTATTG-TTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTCG
* * * * * * *
33412921 TATTCAGCTTCGTTTAATTGATTTGGTTTGCTTCTCTGTATCTCATCAGGAAGATGACTATCTTA
130 TATTCAGCTTCGCTTAATTGATTTGGTCTACTTCTCGGTATCTCATCAAGAAGATGACTAGCTCA
*
33412986 TTTATTTAATCCA
195 TTGATTTAATCCA
*** * * *
33412999 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCATTTCTCTATATCTCATCAAGAAGAT-AA
1 CTTCTCTGTATCTCATCAGGAAGAAAAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC
* *
33413063 CTGCTTTATTGCGTTGACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTC
66 CT-CTTTATTG-TTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTC
* * *
33413128 GTATTGAGCTTCGCTTCATTGATTTGGTCTACTTCTCGGTATCTCATCAAGAAGATG-GTAGGCT
129 GTATTCAGCTTCGCTTAATTGATTTGGTCTACTTCTCGGTATCTCATCAAGAAGATGACTA-GCT
33413192 CATTGATTTAATCCA
193 CATTGATTTAATCCA
* * * * ***
33413207 CTTCTCTGTATCTTATTAGGAAGAAAAATTTGGTTCACTTCTCTGTTTCTCATTTGGAAGATGAC
1 CTTCTCTGTATCTCATCAGGAAGAAAAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC
* * * *
33413272 CTCTTCATTGTTTCAATCCACTTCTTTGTATCTCATCAGGAAGA
66 CTCTTTATTGTTT-GACCCACTTCTTTGTATCTCATCAAGAAGA
33413316 CGGATTTGGT
Statistics
Matches: 270, Mismatches: 43, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
207 6 0.02
208 261 0.97
209 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (207 bp):
CTTCTCTGTATCTCATCAGGAAGAAAAATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC
CTCTTTATTGTTTGACCCACTTCTTTGTATCTCATCAAGAAGATGGGGTTTGAAGTCTCATTCGT
ATTCAGCTTCGCTTAATTGATTTGGTCTACTTCTCGGTATCTCATCAAGAAGATGACTAGCTCAT
TGATTTAATCCA
Found at i:33413686 original size:49 final size:49
Alignment explanation
Indices: 33413632--33414600 Score: 614
Period size: 49 Copynumber: 19.7 Consensus size: 49
33413622 CTAGGCTCGT
* *
33413632 CGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* *** * * * * * * * *
33413681 TGTTGCGATTTCGATCCTTT-TCAT-AACGTCTTTTAAGGTACCAGGCTCGC
1 CGTTGCGGCCTC-AACCTTTCCCTTCAA-ATC-TTCATGGTACCGGGTTCGC
* * * *
33413731 TTGTTGCAGCCTCAACCTTTCCTTTCAAATCTTCATGGTACCGGGTCCGC
1 -CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
** * * * * *
33413781 CGTTGCAACCTCAACCTTTCCCATCAAGTCTTTTAAGGTACTGGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATC-TTCATGGTACCGGGTTCGC
** * *
33413831 CGTTATGGCCTCAACCCTTT-CCTTCATATCTTCATGGTACCAGGTTCGC
1 CGTTGCGGCCTCAA-CCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * * **
33413880 CGTTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTATCGGATTCAT
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * * * * **
33413929 CGTTGCGACCTCAACTTTTCCCATCACATCTTCTAAGGTATTGGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTC-ATGGTACCGGGTTCGC
** * ** * *
33413979 CGTTGCAACCTCAACCTTTCCCTTTAAATCTTCATAATAACGGGTTTGC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * * * *
33414028 CATTACAGCCTCAACATTTTCCTT-AATATCTTCATGGTACC--G---G-
1 CGTTGCGGCCTCAACCTTTCCCTTCAA-ATCTTCATGGTACCGGGTTCGC
* * ** * * * * *
33414071 -GTTGCGGCCTTAACTTTTCCAATCATATCTTCTAAGGTATCAGGTTTGC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTC-ATGGTACCGGGTTCGC
* * * ** * * * * *
33414120 CATTGCGGCCTCAACCTTTTCCATCACGTCTTTTAAGGTATCGAGTTCAC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATC-TTCATGGTACCGGGTTCGC
* * *
33414170 CTGTTGAGACCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTGGC
1 C-GTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* ** ** **
33414220 CGTTGCGACCTCAATATTTCCCTTCAAATCTTCATGGTTTCGGGTTTAC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * * * * * *
33414269 CGTTACGACCTCAACCTTTCACATCATATATTCTAAGGTACCGGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTC-ATGGTACCGGGTTCGC
** * * * * * **
33414319 CGTTGCGAACTCAACCTTTCCATTTAAATCTTTATGGTAACGAGTTTAC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * * * *** *
33414368 CGTTGCGGCCTCAA-CTATTTCTTTCATATCTTTATGGTAATAGGTTCAC
1 CGTTGCGGCCTCAACCT-TTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * * *
33414417 CGTTGCGGCCTCAACC-TTGCCTATCACATCTTCTAAGGTACCAGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCT-TCAAATCTTC-ATGGTACCGGGTTCGC
* ** *
33414467 CGTTGCGGCCTCAACATTTCCCTTCAAATCTTCATGGTATAGGGTTCGT
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * * * *
33414516 CGTTGTGGTCTCAACCTTTCCCTTTAAATTTTCATGGTAACGGGTTCGC
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
* * *
33414565 CGTTACGACCTCAACCTTTCCCATCAAATCTTCATG
1 CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATG
33414601 TTTTCTTGAT
Statistics
Matches: 696, Mismatches: 196, Indels: 56
0.73 0.21 0.06
Matches are distributed among these distances:
42 21 0.03
43 7 0.01
44 1 0.00
45 1 0.00
47 1 0.00
48 15 0.02
49 371 0.53
50 232 0.33
51 45 0.06
52 2 0.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.35
Consensus pattern (49 bp):
CGTTGCGGCCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTCGC
Found at i:33413812 original size:100 final size:99
Alignment explanation
Indices: 33413619--33414588 Score: 336
Period size: 99 Copynumber: 9.9 Consensus size: 99
33413609 CTTTCTAAAA
* *
33413619 GTACTAGGCTCG-TCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCTG
1 GTACTAGGCTCGCTCGTTGCGGCCTCAACCTTT-CCTTCATATCTTCATGGTACCGGGTTCGCCG
** * *
33413683 TTGCGATTTCGATCCTTT-TCATAACGTCTTTTAAG
65 TTGCGACCTC-AACCTTTCCCATAACGTCTTTTAAG
* * * * *
33413718 GTACCAGGCTCGCTTGTTGCAGCCTCAACCTTTCCTTTCAAATCTTCATGGTACCGGGTCCGCCG
1 GTACTAGGCTCGCTCGTTGCGGCCTCAACCTTTCC-TTCATATCTTCATGGTACCGGGTTCGCCG
*
33413783 TTGCAACCTCAACCTTTCCCATCAA-GTCTTTTAAG
65 TTGCGACCTCAACCTTTCCCAT-AACGTCTTTTAAG
* * ** *
33413818 GTACTGGGTTCGC-CGTTATGGCCTCAACCCTTTCCTTCATATCTTCATGGTACCAGGTTCGCCG
1 GTACTAGGCTCGCTCGTTGCGGCCTCAA-CCTTTCCTTCATATCTTCATGGTACCGGGTTCGCCG
* * * * *
33413882 TTGCGGCCTCAACCTTTCCCTTTAA-ATC-TTCATG
65 TTGCGACCTCAACCTTTCCC-ATAACGTCTTTTAAG
* * * * * * * * **
33413916 GTA-TCGGATTC-ATCGTTGCGACCTCAACTTTTCCCATCACATCTTCTAAGGTATTGGGTTCGC
1 GTACTAGG-CTCGCTCGTTGCGGCCTCAACCTTT-CCTTCATATCTTC-ATGGTACCGGGTTCGC
* * * *
33413979 CGTTGCAACCTCAACCTTTCCCTTTAA-ATCTTCATAA-
63 CGTTGCGACCTCAACCTTTCCC-ATAACGTCTT-TTAAG
* * * * * * * *
33414016 -TAAC-GGGTTTGC-CATTACAGCCTCAACATTTTCCTTAATATCTTCATGGTACCGGGTT-G-C
1 GT-ACTAGGCTCGCTCGTTGCGGCCTCAAC-CTTTCCTTCATATCTTCATGGTACCGGGTTCGCC
* * * * ** *
33414076 ---G-G-CCTTAACTTTTCCAATCATATCTTCTAAG
64 GTTGCGACCTCAACCTTTCCCATAACGTCTTTTAAG
* * * * ** * * * * *
33414107 GTA-TCAGGTTTGC-CATTGCGGCCTCAACCTTTTCCATCACGTCTTTTAAGGTATCGAGTTCAC
1 GTACT-AGGCTCGCTCGTTGCGGCCTCAACC-TTTCCTTCATATC-TTCATGGTACCGGGTTCGC
* * * * *
33414170 CTGTTGAGACCTCAACCTTTCCCTTCAA-ATC-TTCATG
63 C-GTTGCGACCTCAACCTTTCCCAT-AACGTCTTTTAAG
** * * * ** * ** **
33414207 GTACCGGGTTGGC-CGTTGCGACCTCAATATTTCCCTTCAAATCTTCATGGTTTCGGGTTTACCG
1 GTACTAGGCTCGCTCGTTGCGGCCTCAACCTTT-CCTTCATATCTTCATGGTACCGGGTTCGCCG
* * * ** * *
33414271 TTACGACCTCAACCTTTCACATCATATATTCTAAG
65 TTGCGACCTCAACCTTTCCCATAACGTCTTTTAAG
** * ** * * * * * **
33414306 GTACCGGGTTCGC-CGTTGCGAACTCAACCTTTCCATTTAAATCTTTATGGTAACGAGTTTACCG
1 GTACTAGGCTCGCTCGTTGCGGCCTCAACCTTTCC-TTCATATCTTCATGGTACCGGGTTCGCCG
* * * *
33414370 TTGCGGCCTCAACTATTTCTTTCAT-A--TC-TTTATG
65 TTGCGACCTCAAC-CTTTC--CCATAACGTCTTTTAAG
* * * * * * *
33414404 GTAATAGGTTCAC-CGTTGCGGCCTCAACCTTGCCTATCACATCTTCTAAGGTACCAGGTTCGCC
1 GTACTAGGCTCGCTCGTTGCGGCCTCAACCTTTCCT-TCATATCTTC-ATGGTACCGGGTTCGCC
* * * * * *
33414468 GTTGCGGCCTCAACATTTCCCTTCAA-ATC-TTCATG
64 GTTGCGACCTCAACCTTTCCCAT-AACGTCTTTTAAG
* * * * * * *
33414503 GTA-TAGGGTTCG-TCGTTGTGGTCTCAACCTTTCCCTTTAAATTTTCATGGTAACGGGTTCGCC
1 GTACTA-GGCTCGCTCGTTGCGGCCTCAACCTTT-CCTTCATATCTTCATGGTACCGGGTTCGCC
*
33414566 GTTACGACCTCAACCTTTCCCAT
64 GTTGCGACCTCAACCTTTCCCAT
33414589 CAAATCTTCA
Statistics
Matches: 664, Mismatches: 159, Indels: 97
0.72 0.17 0.11
Matches are distributed among these distances:
90 5 0.01
91 17 0.03
92 30 0.05
93 13 0.02
95 1 0.00
96 3 0.00
97 10 0.02
98 144 0.22
99 290 0.44
100 128 0.19
101 19 0.03
102 4 0.01
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (99 bp):
GTACTAGGCTCGCTCGTTGCGGCCTCAACCTTTCCTTCATATCTTCATGGTACCGGGTTCGCCGT
TGCGACCTCAACCTTTCCCATAACGTCTTTTAAG
Found at i:33413881 original size:99 final size:98
Alignment explanation
Indices: 33413619--33413901 Score: 304
Period size: 100 Copynumber: 2.8 Consensus size: 98
33413609 CTTTCTAAAA
* * *
33413619 GTACTAGGCTCG-TCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTACCGGATTCGCTG
1 GTACCAGGCTCGCTCGTTACGGCCTCAACCTTT-CCTTCATATCTTCATGGTACCGG-TTCGCCG
** * *
33413683 TTGCGATTTCGATCCTTT-TCATAACGTCTTTTAAG
64 TTGCGACCTC-AACCTTTCCCATAACGTCTTTTAAG
* * * * *
33413718 GTACCAGGCTCGCTTGTTGCAGCCTCAACCTTTCCTTTCAAATCTTCATGGTACCGGGTCCGCCG
1 GTACCAGGCTCGCTCGTTACGGCCTCAACCTTTCC-TTCATATCTTCATGGTACC-GGTTCGCCG
*
33413783 TTGCAACCTCAACCTTTCCCATCAA-GTCTTTTAAG
64 TTGCGACCTCAACCTTTCCCAT-AACGTCTTTTAAG
** * *
33413818 GTACTGGGTTCGC-CGTTATGGCCTCAACCCTTTCCTTCATATCTTCATGGTACCAGGTTCGCCG
1 GTACCAGGCTCGCTCGTTACGGCCTCAA-CCTTTCCTTCATATCTTCATGGTACC-GGTTCGCCG
*
33413882 TTGCGGCCTCAACCTTTCCC
64 TTGCGACCTCAACCTTTCCC
33413902 TTTAAATCTT
Statistics
Matches: 155, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
99 73 0.47
100 78 0.50
101 4 0.03
ACGTcount: A:0.16, C:0.31, G:0.19, T:0.34
Consensus pattern (98 bp):
GTACCAGGCTCGCTCGTTACGGCCTCAACCTTTCCTTCATATCTTCATGGTACCGGTTCGCCGTT
GCGACCTCAACCTTTCCCATAACGTCTTTTAAG
Found at i:33413933 original size:148 final size:147
Alignment explanation
Indices: 33413715--33414598 Score: 609
Period size: 148 Copynumber: 6.0 Consensus size: 147
33413705 AACGTCTTTT
* * * *
33413715 AAGGTACCAGGCTCGCTTGTTGCAGCCTCAACCTTT-CCTTTCAAATCTTCATGGTACCGGGTCC
1 AAGGTACCAGGTTCGC-CGTTGCGGCCTCAACCTTTCCCTTT-AAATCTTCATGGTACCGGGTTC
* * *
33413779 GCCGTTGCAACCTCAACCTTTCCCATCA-AGTCTTTTAAGGTACTGGGTTCGCCGTTATGGCCTC
64 GCCGTTGCGACCTCAACCTTTCCCATCATA-TCTTTTAAGGTACTGGGTTCGCCGTTACGACCTC
* *
33413843 AACCCTTTCCTTCATATCTTC
128 AA-CCTTTCCATCAAATCTTC
* * * **
33413864 ATGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTATCGGATTCAT
1 AAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACCGGGTTCGC
* * * * * *
33413929 CGTTGCGACCTCAACTTTTCCCATCACATCTTCTAAGGTATTGGGTTCGCCGTTGCAACCTCAAC
66 CGTTGCGACCTCAACCTTTCCCATCATATCTTTTAAGGTACTGGGTTCGCCGTTACGACCTCAAC
* *
33413994 CTTTCCCTTTAAATCTTC
131 CTTT-CCATCAAATCTTC
* * * * * * * * *
33414012 ATA-ATAACGGGTTTGCCATTACAGCCTCAACATTTTCC-TTAATATCTTCATGGTACCGGGTT-
1 A-AGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTAA-ATCTTCATGGTACCGGGTTC
* * * * * * * * *
33414074 G-C---G-G-CCTTAACTTTTCCAATCATATCTTCTAAGGTA-TCAGGTTTGCCATTGCGGCCTC
64 GCCGTTGCGACCTCAACCTTTCCCATCATATCTTTTAAGGTACT-GGGTTCGCCGTTACGACCTC
** *
33414132 AACCTTTTCCATCACGTCTTTT
128 AACC-TTTCCATCAAATC-TTC
* * * * * *
33414154 AAGGTATC-GAGTTCACCTGTTGAGACCTCAACCTTTCCCTTCAAATCTTCATGGTACCGGGTTG
1 AAGGTACCAG-GTTCGCC-GTTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACCGGGTTC
** * * * * * **
33414218 GCCGTTGCGACCTCAATATTTCCCTTCAAATC-TTCATGGT-TTCGGGTTTACCGTTACGACCTC
64 GCCGTTGCGACCTCAACCTTTCCCATCATATCTTTTAAGGTACT-GGGTTCGCCGTTACGACCTC
* *
33414281 AACCTTTCACATCATATATTC
128 AACCTTTC-CATCAAATCTTC
* ** * * * * **
33414302 TAAGGTACCGGGTTCGCCGTTGCGAACTCAACCTTTCCATTTAAATCTTTATGGTAACGAGTTTA
1 -AAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACCGGGTTCG
* * ** * * * * * *
33414367 CCGTTGCGGCCTCAA-CTATTTCTTTCATATC-TTTATGGTAATAGGTTCACCGTTGCGGCCTCA
65 CCGTTGCGACCTCAACCT-TTCCCATCATATCTTTTAAGGTACTGGGTTCGCCGTTACGACCTCA
* *
33414430 ACCTTGCCTATCACATCTTC
129 ACCTTTCC-ATCAAATCTTC
* * **
33414450 TAAGGTACCAGGTTCGCCGTTGCGGCCTCAACATTTCCCTTCAAATCTTCATGGTATAGGGTTCG
1 -AAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACCGGGTTCG
* * ** * * * * *
33414515 TCGTTGTGGTCTCAACCTTTCCCTTTAAAT-TTTCATGGTAAC-GGGTTCGCCGTTACGACCTCA
65 CCGTTGCGACCTCAACCTTTCCCATCATATCTTTTAAGGT-ACTGGGTTCGCCGTTACGACCTCA
33414578 ACCTTTCCCATCAAATCTTC
129 ACCTTT-CCATCAAATCTTC
33414598 A
1 A
33414599 TGTTTTCTTG
Statistics
Matches: 578, Mismatches: 127, Indels: 62
0.75 0.17 0.08
Matches are distributed among these distances:
140 1 0.00
141 56 0.10
142 15 0.03
143 34 0.06
144 4 0.01
145 1 0.00
146 1 0.00
147 12 0.02
148 365 0.63
149 72 0.12
150 17 0.03
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (147 bp):
AAGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTAAATCTTCATGGTACCGGGTTCGC
CGTTGCGACCTCAACCTTTCCCATCATATCTTTTAAGGTACTGGGTTCGCCGTTACGACCTCAAC
CTTTCCATCAAATCTTC
Found at i:33413976 original size:99 final size:99
Alignment explanation
Indices: 33413740--33414600 Score: 517
Period size: 99 Copynumber: 8.8 Consensus size: 99
33413730 CTTGTTGCAG
* ** * * * *
33413740 CCTCAACCTTTCCTTTCAAATCTTC-ATGGTACCGGGTCCGCCGTTGCAACCTCAACCTTTCCCA
1 CCTCAACTTTTCCCATCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCT
* * * ** *
33413804 TCAAGTCTTTTAAGGTA-CTGGGTTCGCCGTTATGG
66 TCAAATC-TTCATGGTATC-GGGTTCGCCGTTGCGA
* * * * * *
33413839 CCTCAACCCTTT-CCTTCATATCTTC-ATGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCC
1 CCTCAA-CTTTTCCCATCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCC
* * **
33413902 TTTAAATCTTCATGGTATCGGATTCATCGTTGCGA
65 TTCAAATCTTCATGGTATCGGGTTCGCCGTTGCGA
* * * *
33413937 CCTCAACTTTTCCCATCACATCTTCTAAGGTATTGGGTTCGCCGTTGCAACCTCAACCTTTCCCT
1 CCTCAACTTTTCCCATCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCT
* ** * * * *
33414002 TTAAATCTTCATAATAACGGGTTTGCCATTAC-A
66 TCAAATCTTCATGGTATCGGGTTCGCCGTTGCGA
* * * *
33414035 GCCTCAACATTTT-CC-TTAATATCTTC-ATGGTACCGGGTT-G-C---G-G-CCTTAACTTTTC
1 -CCTCAAC-TTTTCCCATCAA-ATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTC
** * * * * * *
33414090 CAATCATATCTTCTAAGGTATCAGGTTTGCCATTGCGG
63 CCTTCAAATCTTC-ATGGTATCGGGTTCGCCGTTGCGA
** * * * * *
33414128 CCTCAACCTTTT-CCATCACGTCTTTTAAGGTATCGAGTTCACCTGTTGAGACCTCAACCTTTCC
1 CCTCAA-CTTTTCCCATCAAATCTTCTATGGTATCGGGTTCGCC-GTTGCGACCTCAACCTTTCC
* *
33414192 CTTCAAATCTTCATGGTACCGGGTTGGCCGTTGCGA
64 CTTCAAATCTTCATGGTATCGGGTTCGCCGTTGCGA
* * ** * *
33414228 CCTCAA-TATTTCCCTTCAAATCTTC-ATGGTTTCGGGTTTACCGTTACGACCTCAACCTTTCAC
1 CCTCAACT-TTTCCCATCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCC
* * * * *
33414291 ATCATATATTCTAAGGTACCGGGTTCGCCGTTGCGA
65 TTCAAATCTTC-ATGGTATCGGGTTCGCCGTTGCGA
* * * * * ** * *
33414327 ACTCAACCTTT-CCATTTAAATCTT-TATGGTAACGAGTTTACCGTTGCGGCCTCAA-CTATTTC
1 CCTCAACTTTTCCCA-TCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCT-TTCC
* * * * * *
33414389 TTTCATATCTTTATGGTAAT-AGGTTCACCGTTGCGG
64 CTTCAAATCTTCATGGT-ATCGGGTTCGCCGTTGCGA
* * * * * * * * *
33414425 CCTCAACCTTGCCTATCACATCTTCTAAGGTACCAGGTTCGCCGTTGCGGCCTCAACATTTCCCT
1 CCTCAACTTTTCCCATCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCT
* * * *
33414490 TCAAATCTTCATGGTATAGGGTTCGTCGTTGTGG
66 TCAAATCTTCATGGTATCGGGTTCGCCGTTGCGA
* * * * * * * *
33414524 TCTCAACCTTTCCCTTTAAATTTTC-ATGGTAACGGGTTCGCCGTTACGACCTCAACCTTTCCCA
1 CCTCAACTTTTCCCATCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCT
33414588 TCAAATCTTCATG
66 TCAAATCTTCATG
33414601 TTTTCTTGAT
Statistics
Matches: 587, Mismatches: 143, Indels: 65
0.74 0.18 0.08
Matches are distributed among these distances:
91 19 0.03
92 32 0.05
93 14 0.02
95 1 0.00
96 1 0.00
97 5 0.01
98 158 0.27
99 293 0.50
100 44 0.07
101 20 0.03
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (99 bp):
CCTCAACTTTTCCCATCAAATCTTCTATGGTATCGGGTTCGCCGTTGCGACCTCAACCTTTCCCT
TCAAATCTTCATGGTATCGGGTTCGCCGTTGCGA
Found at i:33415573 original size:20 final size:19
Alignment explanation
Indices: 33415548--33415614 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 19
33415538 ACCTTTCCTT
33415548 TTCTTTTTCCTTTTTTTCTC
1 TTCTTTTT-CTTTTTTTCTC
33415568 TTCTTTTTCTTTTTCTTCTTC
1 TTCTTTTTCTTTTT-TTC-TC
*
33415589 TTCTTTATT-TATTTTTCT-
1 TTCTTT-TTCTTTTTTTCTC
33415607 TTCTTTTT
1 TTCTTTTT
33415615 TTTATTTATT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
17 2 0.05
18 6 0.14
19 7 0.16
20 14 0.33
21 12 0.28
22 2 0.05
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (19 bp):
TTCTTTTTCTTTTTTTCTC
Found at i:33415575 original size:21 final size:20
Alignment explanation
Indices: 33415548--33415615 Score: 70
Period size: 19 Copynumber: 3.5 Consensus size: 20
33415538 ACCTTTCCTT
*
33415548 TTCTTTTTCCTTTTTTTCTC
1 TTCTTTTTTCTTTTTTTCTC
33415568 TTC-TTTTTCTTTTTCTTCTTC
1 TTCTTTTTTCTTTTT-TTC-TC
* *
33415589 TTCTTTATT-TATTTTTCT-
1 TTCTTTTTTCTTTTTTTCTC
33415607 TTCTTTTTT
1 TTCTTTTTT
33415616 TTATTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.20
19 11 0.27
20 9 0.22
21 9 0.22
22 4 0.10
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTTTTCTTTTTTTCTC
Found at i:33415577 original size:6 final size:6
Alignment explanation
Indices: 33415541--33415631 Score: 58
Period size: 6 Copynumber: 14.2 Consensus size: 6
33415531 CACCTCGACC
* *
33415541 TTTCCT TTTCTT TTTCCTT TTT-TT CTCTTCTT TTTCTT TTTCTT CTTCTT
1 TTTCTT TTTCTT TTT-CTT TTTCTT -T-TTCTT TTTCTT TTTCTT TTTCTT
* * * *
33415591 CTTTATT TATTTTT CTTTCTT TTTTTT ATTTATT TTTCTT T
1 -TTTCTT T-TTCTT -TTTCTT TTTCTT -TTTCTT TTTCTT T
33415632 ATCGAATTCG
Statistics
Matches: 68, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
5 2 0.03
6 37 0.54
7 26 0.38
8 3 0.04
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTCTT
Found at i:33415584 original size:15 final size:15
Alignment explanation
Indices: 33415546--33415608 Score: 55
Period size: 15 Copynumber: 4.5 Consensus size: 15
33415536 CGACCTTTCC
33415546 TTTTCTTTTTC--C-
1 TTTTCTTTTTCTTCT
*
33415558 TTTT-TTTCTCTTCT
1 TTTTCTTTTTCTTCT
33415572 TTTTCTTTTTCTTCT
1 TTTTCTTTTTCTTCT
* * *
33415587 TCTTCTTTAT-TTAT
1 TTTTCTTTTTCTTCT
33415601 TTTTCTTT
1 TTTTCTTT
33415609 CTTTTTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
11 5 0.12
12 4 0.10
13 1 0.02
14 14 0.34
15 17 0.41
ACGTcount: A:0.03, C:0.19, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTCTTTTTCTTCT
Found at i:33415603 original size:23 final size:21
Alignment explanation
Indices: 33415577--33415630 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 21
33415567 CTTCTTTTTC
33415577 TTTTTCTTCTTCTTCTTTATTTA
1 TTTTTCTTCTT-TT-TTTATTTA
33415600 TTTTTCTTTCTTTTTTTTATTTA
1 TTTTTC-TTC-TTTTTTTATTTA
33415623 TTTTTCTT
1 TTTTTCTT
33415631 TATCGAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 2 0.07
23 20 0.69
24 5 0.17
25 2 0.07
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTTTCTTCTTTTTTTATTTA
Found at i:33416278 original size:30 final size:30
Alignment explanation
Indices: 33416242--33416309 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
33416232 TCATCGTCGG
*
33416242 ATATGATCTTTTTTGGCATTCCATATCGAC
1 ATATGATCCTTTTTGGCATTCCATATCGAC
33416272 ATATGATCCTTTTTGGCATTCCATATCGAC
1 ATATGATCCTTTTTGGCATTCCATATCGAC
33416302 ATATGATC
1 ATATGATC
33416310 ATGAAGACAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (30 bp):
ATATGATCCTTTTTGGCATTCCATATCGAC
Found at i:33420469 original size:30 final size:29
Alignment explanation
Indices: 33420432--33420587 Score: 143
Period size: 30 Copynumber: 5.2 Consensus size: 29
33420422 TTTCAGAGAA
33420432 TTTAGGGTTAAAATATAATTTTAGAAAAG
1 TTTAGGGTTAAAATATAATTTTAGAAAAG
*
33420461 TTTGAGGGTAAAAATATAATTTTA-AGAAAG
1 TTT-AGGGTTAAAATATAATTTTAGA-AAAG
* * * *
33420491 TTTAGGGGTTAAAATGTGATTTTGGAAAAA
1 TTTA-GGGTTAAAATATAATTTTAGAAAAG
* * *
33420521 ATTAGGGGTTAAAATGTAATTTTAGGAAAG
1 TTTA-GGGTTAAAATATAATTTTAGAAAAG
* * * *
33420551 TTTGGGGGTCAAAATATGATTTTAGGAAAG
1 TTT-AGGGTTAAAATATAATTTTAGAAAAG
*
33420581 ATTAGGG
1 TTTAGGG
33420588 CTCTTTTATA
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
29 8 0.08
30 95 0.91
31 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.35
Consensus pattern (29 bp):
TTTAGGGTTAAAATATAATTTTAGAAAAG
Found at i:33420502 original size:60 final size:60
Alignment explanation
Indices: 33420432--33420587 Score: 190
Period size: 60 Copynumber: 2.6 Consensus size: 60
33420422 TTTCAGAGAA
* *
33420432 TTTA-GGGTTAAAATATAATTTTAGAAAAG-TTTGAGGGTAAAAATATAATTTTAAGAAAG
1 TTTAGGGGTTAAAATATGATTTTAGAAAAGATTAG-GGGTAAAAATATAATTTTAAGAAAG
* * * * * *
33420491 TTTAGGGGTTAAAATGTGATTTTGGAAAAAATTAGGGGTTAAAATGTAATTTTAGGAAAG
1 TTTAGGGGTTAAAATATGATTTTAGAAAAGATTAGGGGTAAAAATATAATTTTAAGAAAG
* * *
33420551 TTTGGGGGTCAAAATATGATTTTAGGAAAGATTAGGG
1 TTTAGGGGTTAAAATATGATTTTAGAAAAGATTAGGG
33420588 CTCTTTTATA
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
59 4 0.05
60 74 0.91
61 3 0.04
ACGTcount: A:0.40, C:0.01, G:0.25, T:0.35
Consensus pattern (60 bp):
TTTAGGGGTTAAAATATGATTTTAGAAAAGATTAGGGGTAAAAATATAATTTTAAGAAAG
Found at i:33421588 original size:30 final size:30
Alignment explanation
Indices: 33421552--33421609 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
33421542 ATAGAAAATA
*
33421552 AATAAATAATTAATA-AGTATATTAATATAT
1 AATAAATAATAAATAGA-TATATTAATATAT
*
33421582 AATAAATAATAAATTGATATATTAATAT
1 AATAAATAATAAATAGATATATTAATAT
33421610 CTAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (30 bp):
AATAAATAATAAATAGATATATTAATATAT
Found at i:33421680 original size:35 final size:37
Alignment explanation
Indices: 33421641--33421715 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
33421631 TCAAAGGAAA
*
33421641 ATAATAAATACA-AAAT-A-AAATAAATGTATTAATAT
1 ATAATAAATA-ATAAATAATAAATAAATATATTAATAT
33421676 ATAATAAATAATAAATAATAAATAAATATATTAATAT
1 ATAATAAATAATAAATAATAAATAAATATATTAATAT
33421713 ATA
1 ATA
33421716 TGTATATATA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
34 1 0.03
35 14 0.39
36 1 0.03
37 20 0.56
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (37 bp):
ATAATAAATAATAAATAATAAATAAATATATTAATAT
Found at i:33421686 original size:7 final size:7
Alignment explanation
Indices: 33421670--33421700 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
33421660 ATAAATGTAT
*
33421670 TAATATA
1 TAATAAA
33421677 TAATAAA
1 TAATAAA
33421684 TAATAAA
1 TAATAAA
33421691 TAATAAA
1 TAATAAA
33421698 TAA
1 TAA
33421701 ATATATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
TAATAAA
Found at i:33424883 original size:3 final size:3
Alignment explanation
Indices: 33424875--33424899 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33424865 TGAAAAATTG
33424875 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
33424900 GGTTTGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33428056 original size:15 final size:15
Alignment explanation
Indices: 33428036--33428066 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
33428026 TTTTTTAAAA
*
33428036 TAACAATACATTAAC
1 TAACAAGACATTAAC
33428051 TAACAAGACATTAAC
1 TAACAAGACATTAAC
33428066 T
1 T
33428067 GATCCACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.19, G:0.03, T:0.26
Consensus pattern (15 bp):
TAACAAGACATTAAC
Found at i:33430075 original size:21 final size:21
Alignment explanation
Indices: 33430049--33430088 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33430039 ATCGGACATC
33430049 TTAAAATTATCTTTAAAAAAT
1 TTAAAATTATCTTTAAAAAAT
* *
33430070 TTAAAATTTTTTTTAAAAA
1 TTAAAATTATCTTTAAAAA
33430089 GATAAGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAAAATTATCTTTAAAAAAT
Found at i:33430668 original size:6 final size:6
Alignment explanation
Indices: 33430650--33430732 Score: 75
Period size: 6 Copynumber: 14.0 Consensus size: 6
33430640 TTAAATTGAT
* *
33430650 TTTAAA TTT--A TTTGAA TTTAAA TTT-AT TTTAAA TTTAATTA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA
* *
33430697 TTT-AC CTTAAA TTTAAA TTTAAA TTTAAA TTATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA
33430733 ACAAATTTAA
Statistics
Matches: 63, Mismatches: 7, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
4 4 0.06
5 7 0.11
6 42 0.67
7 4 0.06
8 6 0.10
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:33430680 original size:11 final size:11
Alignment explanation
Indices: 33430666--33430723 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
33430656 TTTATTTGAA
33430666 TTTAAATTTAT
1 TTTAAATTTAT
33430677 TTTAAATTTAATT
1 TTTAAATTT-A-T
*
33430690 ATTTAAATTTAC
1 -TTTAAATTTAT
* *
33430702 CTTAAATTTAAA
1 TTTAAATTT-AT
33430714 TTTAAATTTA
1 TTTAAATTTA
33430724 AATTATAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 18 0.46
12 10 0.26
13 2 0.05
14 9 0.23
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:33430693 original size:15 final size:14
Alignment explanation
Indices: 33430650--33430727 Score: 58
Period size: 14 Copynumber: 5.6 Consensus size: 14
33430640 TTAAATTGAT
*
33430650 TTTAAATTTATTTGAA
1 TTTAAATTTAATT--A
33430666 TTTAAATTT-A-T-
1 TTTAAATTTAATTA
33430677 TTTAAATTTAATTA
1 TTTAAATTTAATTA
*
33430691 TTTAAATTTACCTTAAA
1 TTTAAATTTA-ATT--A
33430708 TTTAAATTTAA--A
1 TTTAAATTTAATTA
33430720 TTTAAATT
1 TTTAAATT
33430728 ATAAAACAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
11 9 0.17
12 10 0.19
13 1 0.02
14 11 0.21
15 2 0.04
16 9 0.17
17 11 0.21
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (14 bp):
TTTAAATTTAATTA
Found at i:33430699 original size:31 final size:31
Alignment explanation
Indices: 33430657--33430743 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 31
33430647 GATTTTAAAT
* * *
33430657 TTATTTGAATTTAAATTTATTTTAAATTTAA
1 TTATTTAAATTTAAATTAAATTTAAATTTAA
**
33430688 TTATTTAAATTTACCTTAAATTTAAATTTAA
1 TTATTTAAATTTAAATTAAATTTAAATTTAA
**
33430719 --ATTTAAATTATAAAACAAATTTAAA
1 TTATTTAAATT-TAAATTAAATTTAAA
33430744 ACTTTATTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 9 0.20
30 11 0.24
31 26 0.57
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
TTATTTAAATTTAAATTAAATTTAAATTTAA
Found at i:33430732 original size:25 final size:23
Alignment explanation
Indices: 33430659--33430724 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 23
33430649 TTTTAAATTT
* *
33430659 ATTTGAATTTAAATTTATTTTAA
1 ATTTAAATTTAAATTTAATTTAA
**
33430682 ATTTAATTATTTAAATTTACCTTAA
1 ATTTAA--ATTTAAATTTAATTTAA
33430707 ATTTAAATTTAAATTTAA
1 ATTTAAATTTAAATTTAA
33430725 ATTATAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.43
25 21 0.57
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTAAATTTAAATTTAATTTAA
Found at i:33431479 original size:3 final size:3
Alignment explanation
Indices: 33431471--33431511 Score: 55
Period size: 3 Copynumber: 13.0 Consensus size: 3
33431461 TTATAAGTTT
*
33431471 TAA TAA TAA TAA CCAA TAA TAA CTAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA TAA TAA TAA
33431512 ATGTTTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 29 0.85
4 5 0.15
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:33431488 original size:10 final size:10
Alignment explanation
Indices: 33431474--33431511 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
33431464 TAAGTTTTAA
33431474 TAATAATAAC
1 TAATAATAAC
*
33431484 CAATAATAAC
1 TAATAATAAC
33431494 TAATAATAA-
1 TAATAATAAC
33431503 TAATAATAA
1 TAATAATAA
33431512 ATGTTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (10 bp):
TAATAATAAC
Found at i:33432617 original size:30 final size:30
Alignment explanation
Indices: 33432582--33432914 Score: 436
Period size: 30 Copynumber: 11.1 Consensus size: 30
33432572 AAATTGTCCA
33432582 AAAATTACATTTT-ACCCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCC-AAAACTTTTCC
* * **
33432612 TAAATTACATTTTGACCCTAAAACTTTTTG
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* *
33432642 GAAATTACATTTCGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
33432672 TAAATTACATTTCGACCTCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* ** * *
33432702 TAAATTACATTTCAACCTCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCC
33432732 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
33432762 AAAATTACATTTTGACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * *
33432792 AAAATTATATTTCGACCCCAAAACATTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
33432822 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
*
33432852 AAAATTACATTTTGACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCCAAAACTTTTCC
* * * *
33432882 AAAATCATATTTTAACCCCAAAA-TTTTCA
1 AAAATTACATTTTGACCCCAAAACTTTTCC
33432911 AAAA
1 AAAA
33432915 AATTGCATTT
Statistics
Matches: 270, Mismatches: 32, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
29 9 0.03
30 257 0.95
31 4 0.01
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCC
Found at i:33433994 original size:29 final size:29
Alignment explanation
Indices: 33433952--33434008 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
33433942 TTTAAAACTA
* *
33433952 AAATTTAATCAAAATTTATATACAATTAC
1 AAATTAAATCAAAATTCATATACAATTAC
*
33433981 AAATTAAATCAAAATTCATATATAATTA
1 AAATTAAATCAAAATTCATATACAATTA
33434009 TAATTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (29 bp):
AAATTAAATCAAAATTCATATACAATTAC
Found at i:33439524 original size:19 final size:20
Alignment explanation
Indices: 33439488--33439532 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
33439478 TAATTATCAA
*
33439488 AATATTTAATATATTTTAAT
1 AATATTGAATATATTTTAAT
*
33439508 TATATTGAATA-ATTTTAAT
1 AATATTGAATATATTTTAAT
33439527 AATATT
1 AATATT
33439533 ATTTTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
AATATTGAATATATTTTAAT
Found at i:33442788 original size:22 final size:22
Alignment explanation
Indices: 33442760--33442802 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33442750 TCAGCACTGG
*
33442760 TCACGTCAGCGCCATGTCAGCA
1 TCACGTCAGCGCCACGTCAGCA
*
33442782 TCACGTCATCGCCACGTCAGC
1 TCACGTCAGCGCCACGTCAGC
33442803 CACGTGACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.40, G:0.21, T:0.19
Consensus pattern (22 bp):
TCACGTCAGCGCCACGTCAGCA
Found at i:33442859 original size:24 final size:24
Alignment explanation
Indices: 33442827--33442877 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
33442817 TCTGCTGACA
33442827 GTTGACTCCTCGACTCCCAAGACT
1 GTTGACTCCTCGACTCCCAAGACT
*
33442851 GTTGACTCCTCGGCTCCCAAGACT
1 GTTGACTCCTCGACTCCCAAGACT
33442875 GTT
1 GTT
33442878 CCTCTGCTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.18, C:0.35, G:0.20, T:0.27
Consensus pattern (24 bp):
GTTGACTCCTCGACTCCCAAGACT
Found at i:33442893 original size:18 final size:18
Alignment explanation
Indices: 33442870--33442904 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33442860 TCGGCTCCCA
33442870 AGACTG-TTCCTCTGCTCG
1 AGACTGCTT-CTCTGCTCG
33442888 AGACTGCTTCTCTGCTC
1 AGACTGCTTCTCTGCTC
33442905 AAAGTCTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.11, C:0.34, G:0.20, T:0.34
Consensus pattern (18 bp):
AGACTGCTTCTCTGCTCG
Found at i:33449002 original size:24 final size:24
Alignment explanation
Indices: 33448956--33449002 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
33448946 AGAAAGATTG
* *
33448956 GAACAGTTGCAAAAAGAGATGCAA
1 GAACAGATGCAAAAACAGATGCAA
* *
33448980 GAACAGATGCAAACACAGTTGCA
1 GAACAGATGCAAAAACAGATGCA
33449003 TCATGAAAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (24 bp):
GAACAGATGCAAAAACAGATGCAA
Found at i:33456860 original size:98 final size:98
Alignment explanation
Indices: 33456686--33456878 Score: 323
Period size: 98 Copynumber: 2.0 Consensus size: 98
33456676 TATAGGTTTA
* * *
33456686 GAGGGAAAGGTTGAAGTCGCAATGGCAAACCTTGTAGCTCAGAAACATGCTGGGAAAGATTGAAG
1 GAGGAAAAGGTTGAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGCTGGGAAAGATTGAAG
* *
33456751 CCGTAAAGGCAAATCTGGTACCATGAAGATATG
66 CCGCAAAGGCAAATCTGGTACCACGAAGATATG
*
33456784 GAGGAAAAGGTTGAAGTCGCAACGGCAGACCTTGTACCTCAGAAACATGCTGGGAAAGATTGAAG
1 GAGGAAAAGGTTGAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGCTGGGAAAGATTGAAG
*
33456849 CCGCAACGGCAAATCTGGTACCACGAAGAT
66 CCGCAAAGGCAAATCTGGTACCACGAAGAT
33456879 TAGATGTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.18
Consensus pattern (98 bp):
GAGGAAAAGGTTGAAGTCGCAACGGCAAACCTTGTACCTCAGAAACATGCTGGGAAAGATTGAAG
CCGCAAAGGCAAATCTGGTACCACGAAGATATG
Found at i:33456870 original size:49 final size:49
Alignment explanation
Indices: 33456688--33456870 Score: 181
Period size: 49 Copynumber: 3.7 Consensus size: 49
33456678 TAGGTTTAGA
* * * * *
33456688 GGGAAAGGTTGAAGTCGCAATGGCAAACCTTGTAGCTCAGAAACATGCT
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTGGTACCTCAGAAACATGCT
* * * * **
33456737 GGGAAAGATTGAAGCCGTAAAGGCAAATCTGGTA-C-CATGAAGATATGGA
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTGGTACCTCA-GAA-ACATGCT
* * * * *
33456786 GGAAAAGGTTGAAGTCGCAACGGCAGACCTTGTACCTCAGAAACATGCT
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTGGTACCTCAGAAACATGCT
*
33456835 GGGAAAGATTGAAGCCGCAACGGCAAATCTGGTACC
1 GGGAAAGATTGAAGCCGCAACGGCAAACCTGGTACC
33456871 ACGAAGATTA
Statistics
Matches: 104, Mismatches: 26, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
47 2 0.02
48 4 0.04
49 92 0.88
50 4 0.04
51 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (49 bp):
GGGAAAGATTGAAGCCGCAACGGCAAACCTGGTACCTCAGAAACATGCT
Found at i:33457096 original size:50 final size:50
Alignment explanation
Indices: 33456882--33457289 Score: 251
Period size: 49 Copynumber: 8.2 Consensus size: 50
33456872 CGAAGATTAG
* * * * *
33456882 ATGTTATGGGAAAGGTTACGGCCGTAACGGCGAACTCGGTA-CTATA-AAG
1 ATGTGATGGGAAAGGTTACAGCCGCAACGGCGAACCCGGTACCT-TAGAAA
* ** * * * *
33456931 ATTTGAAAGGAAAGGTTACAACCGCAACGGCGAACCCGATATCAT-GAAA
1 ATGTGATGGGAAAGGTTACAGCCGCAACGGCGAACCCGGTACCTTAGAAA
* * * *** * * *
33456980 ATTTGAAGAGAAAGGTTAC-GACCGCAACGATAAACCCGGAATCAT-GAAA
1 ATGTGATGGGAAAGGTTACAG-CCGCAACGGCGAACCCGGTACCTTAGAAA
* * * * *
33457029 ATTTAAAGAGAAAGGTTACAGTCGCAACGGCGAACCCGGTACCTTAGAAA
1 ATGTGATGGGAAAGGTTACAGCCGCAACGGCGAACCCGGTACCTTAGAAA
* * * * *
33457079 ATGTGATGGGAAAGGTTAC-GACCGCAACGGTGAACCTGATACTTTAGAAG
1 ATGTGATGGGAAAGGTTACAG-CCGCAACGGCGAACCCGGTACCTTAGAAA
* * * * ** *
33457129 ATGTGGTGGGAAATGCTACAACTACAACGGCGAACCCGGTACCTTAGAAG
1 ATGTGATGGGAAAGGTTACAGCCGCAACGGCGAACCCGGTACCTTAGAAA
* * * * * *
33457179 ATGTGATGGGAAAGGATGA-GGCCGCAATGGCGAACCTGGTACCAT-GAAG
1 ATGTGATGGGAAAGG-TTACAGCCGCAACGGCGAACCCGGTACCTTAGAAA
* * * *
33457228 ATATGAAGGGAAAGGTTGA-TGCCACAACGGCGAACCCGGTACCTTA-AAA
1 ATGTGATGGGAAAGGTT-ACAGCCGCAACGGCGAACCCGGTACCTTAGAAA
*
33457277 GATGTGATAGGAA
1 -ATGTGATGGGAA
33457290 GGATTGAGAC
Statistics
Matches: 278, Mismatches: 70, Indels: 21
0.75 0.19 0.06
Matches are distributed among these distances:
48 1 0.00
49 152 0.55
50 124 0.45
51 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (50 bp):
ATGTGATGGGAAAGGTTACAGCCGCAACGGCGAACCCGGTACCTTAGAAA
Found at i:33457183 original size:100 final size:99
Alignment explanation
Indices: 33457053--33457342 Score: 300
Period size: 100 Copynumber: 2.9 Consensus size: 99
33457043 GTTACAGTCG
* *
33457053 CAACGGCGAACCCGGTACCTTAGAAAATGTGATGGGAAAGG-TTACGACCGCAACGGTGAACCTG
1 CAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGGATTA-GACCGCAACGGCGAACCTG
** * ** * *
33457117 ATACTTTAGAAGATGTGGTGGGAAATGCT-ACAACTA
65 ATACCAT-GAAGATATGAAGGGAAAGGCTGA-AACCA
* * * *
33457153 CAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGGATGAGGCCGCAATGGCGAACCTGG
1 CAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGGATTAGACCGCAACGGCGAACCTGA
* **
33457218 TACCATGAAGATATGAAGGGAAAGGTTGATGCCA
66 TACCATGAAGATATGAAGGGAAAGGCTGAAACCA
* * *
33457252 CAACGGCGAACCCGGTACCTTAAAAGATGTGATAGG-AAGGATTGAGACCGCAACGGCAAATCC-
1 CAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGGATT-AGACCGCAACGGCGAA-CCT
* * *
33457315 AATACCAATGAAGACATTAAGGGAAAGG
64 GATACC-ATGAAGATATGAAGGGAAAGG
33457343 TTGAGGCCGC
Statistics
Matches: 159, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
98 6 0.04
99 69 0.43
100 82 0.52
101 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.29, T:0.17
Consensus pattern (99 bp):
CAACGGCGAACCCGGTACCTTAGAAGATGTGATGGGAAAGGATTAGACCGCAACGGCGAACCTGA
TACCATGAAGATATGAAGGGAAAGGCTGAAACCA
Found at i:33457805 original size:12 final size:12
Alignment explanation
Indices: 33457788--33457819 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
33457778 TAAAACCTAA
33457788 TAAATTAAATTT
1 TAAATTAAATTT
33457800 TAAATTAAATTT
1 TAAATTAAATTT
*
33457812 TAATTTAA
1 TAAATTAA
33457820 TCCAAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATTAAATTT
Found at i:33461612 original size:58 final size:59
Alignment explanation
Indices: 33461557--33461774 Score: 300
Period size: 59 Copynumber: 3.7 Consensus size: 59
33461547 ACCCGGGGGC
* *
33461557 AAAATGGTAATTTT-GGTAAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
* * *
33461615 AAAATGGTAATTTTTGGTGAAATC-GAGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCAG-GGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
* *
33461674 AAAATGGTAATTTTCGGTGAAAGCGGGGTTAAAAA-GGAATTTTAAAAGATTCGAGGGT
1 AAAATGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
* ** *
33461732 AAAACGGTAATTTTCAATGAAATCAGGGTT-AAAATGTAATTTT
1 AAAATGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTT
33461775 GGAAAAGTTT
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
57 4 0.03
58 68 0.48
59 69 0.49
60 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (59 bp):
AAAATGGTAATTTTCGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGT
Found at i:33461670 original size:29 final size:29
Alignment explanation
Indices: 33461557--33461745 Score: 111
Period size: 29 Copynumber: 6.5 Consensus size: 29
33461547 ACCCGGGGGC
* *
33461557 AAAATGGTAATTTTGGTAA-AATC-AGGGTT
1 AAAATGGTAATTTTAG-AAGATTCGAGGG-T
* *
33461586 AAAAATGG-AATTTTAAAAGATTCGGGGGT
1 -AAAATGGTAATTTTAGAAGATTCGAGGGT
* ** * *
33461615 AAAATGGTAATTTTTGGTGAAATCGAGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGAGGGT
*
33461645 AAAAATGG-AATTTTAGAAGCTTCGAGGGT
1 -AAAATGGTAATTTTAGAAGATTCGAGGGT
* ** **
33461674 AAAATGGTAATTTTCGGTGAAAGCG-GGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGAGGG-T
* *
33461704 AAAAAGG-AATTTTAAAAGATTCGAGGGT
1 AAAATGGTAATTTTAGAAGATTCGAGGGT
*
33461732 AAAACGGTAATTTT
1 AAAATGGTAATTTT
33461746 CAATGAAATC
Statistics
Matches: 118, Mismatches: 31, Indels: 21
0.69 0.18 0.12
Matches are distributed among these distances:
28 26 0.22
29 51 0.43
30 34 0.29
31 7 0.06
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAGATTCGAGGGT
Found at i:33461759 original size:29 final size:29
Alignment explanation
Indices: 33461669--33461774 Score: 76
Period size: 29 Copynumber: 3.7 Consensus size: 29
33461659 AGAAGCTTCG
** *
33461669 AGGG-TAAAATGGTAATTTTCGGTGAAAGC
1 AGGGTTAAAA-GGTAATTTTCAATGAAATC
* * * *
33461698 GGGGTTAAAAAGG-AATTTTAAAAG-ATTC
1 AGGGTT-AAAAGGTAATTTTCAATGAAATC
33461726 GAGGG-TAAAACGGTAATTTTCAATGAAATC
1 -AGGGTTAAAA-GGTAATTTTCAATGAAATC
*
33461756 AGGGTTAAAATGTAATTTT
1 AGGGTTAAAAGGTAATTTT
33461775 GGAAAAGTTT
Statistics
Matches: 58, Mismatches: 12, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
27 4 0.07
28 5 0.09
29 34 0.59
30 11 0.19
31 4 0.07
ACGTcount: A:0.39, C:0.06, G:0.25, T:0.30
Consensus pattern (29 bp):
AGGGTTAAAAGGTAATTTTCAATGAAATC
Found at i:33461790 original size:30 final size:30
Alignment explanation
Indices: 33461756--33461958 Score: 298
Period size: 30 Copynumber: 6.7 Consensus size: 30
33461746 CAATGAAATC
*
33461756 AGGGTTAAAATGTAATTTTGGAAAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
33461786 AGGGTCAAAATATAATTTTGGAAAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
33461816 GGGGTCAAAATGTAATTTTGGAAAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
* *
33461846 AGGGTTAAAATGTAATTTTGGTAAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
* *
33461876 GGGGTCAAAATGTAATTTTGGGAAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
* * *
33461906 TGGGTCAAAATATAATTTTGGGAAAGTTTT
1 AGGGTCAAAATGTAATTTTGGAAAAGTTTT
*
33461936 GGGGTCAAAATGTAATTTCTGGA
1 AGGGTCAAAATGTAATTT-TGGA
33461959 CAATTTAGGG
Statistics
Matches: 157, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
30 154 0.98
31 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (30 bp):
AGGGTCAAAATGTAATTTTGGAAAAGTTTT
Found at i:33461790 original size:117 final size:118
Alignment explanation
Indices: 33461556--33461811 Score: 310
Period size: 117 Copynumber: 2.2 Consensus size: 118
33461546 TACCCGGGGG
* * *
33461556 CAAAATGGTAATTTTGGTAAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAATG
1 CAAAATGGTAATTTTGGTAAAAGCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGTAAAACG
*** *
33461621 GTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTAGAAGCTTCGAGGGT
66 GTAATTTTCAATGAAATCGAGGTTAAAAATGGAATTTTAAAAGCTTCGAGGGT
* *
33461674 -AAAATGGTAATTTTCGGTGAAAGCGGGGTTAAAAA-GGAATTTTAAAAGATTCGAGGGTAAAAC
1 CAAAATGGTAATTTT-GGTAAAAGCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGTAAAAC
* **
33461737 GGTAATTTTCAATGAAATC-AGGGTT-AAAATGTAATTTTGGAAAAG-TTTTAGGGT
65 GGTAATTTTCAATGAAATCGA-GGTTAAAAATGGAATTTT--AAAAGCTTCGAGGGT
*
33461791 CAAAAT-ATAATTTTGG-AAAAG
1 CAAAATGGTAATTTTGGTAAAAG
33461812 TTTTGGGGTC
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
115 4 0.03
116 15 0.13
117 74 0.62
118 26 0.22
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (118 bp):
CAAAATGGTAATTTTGGTAAAAGCAGGGTTAAAAATGGAATTTTAAAAGATTCGAGGGTAAAACG
GTAATTTTCAATGAAATCGAGGTTAAAAATGGAATTTTAAAAGCTTCGAGGGT
Found at i:33461828 original size:60 final size:60
Alignment explanation
Indices: 33461757--33461958 Score: 332
Period size: 60 Copynumber: 3.4 Consensus size: 60
33461747 AATGAAATCA
*
33461757 GGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
* * *
33461817 GGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTTAAAATGTAATTTTGGTAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
* * *
33461877 GGGTCAAAATGTAATTTTGGGAAAGTTTTTGGGTCAAAATATAATTTTGGGAAAGTTTTG
1 GGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
33461937 GGGTCAAAATGTAATTTCTGGA
1 GGGTCAAAATGTAATTT-TGGA
33461959 CAATTTAGGG
Statistics
Matches: 131, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 128 0.98
61 3 0.02
ACGTcount: A:0.34, C:0.03, G:0.25, T:0.38
Consensus pattern (60 bp):
GGGTCAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTTTTG
Found at i:33462222 original size:160 final size:162
Alignment explanation
Indices: 33462029--33462371 Score: 498
Period size: 161 Copynumber: 2.1 Consensus size: 162
33462019 GTATCCAGAG
* * * *
33462029 GTCAAGGGACCAATTTGAAAATCTTGAAAAAATT-TTGGACCAATTTTGTAATT-AAATAAAAGT
1 GTCAAAGGACTAATTTGAAAACCTTGAAAAAATTATTGGACCAATTTCGTAATTAAAAT-AAAGT
*
33462092 CGATTTAAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAA
65 CGATTT-AGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAA
* *
33462157 A-TGACACGTGGCAACCTCTGGTGCAGTCAAACA
129 AGTGACACGTGGCAACCTATGGTACAGTCAAACA
*
33462190 GTCAAAGGACTAATTT-ATAAACCTTG-AAAAATTATTGGGCCAATTTCGTAATTAAAATAAAGT
1 GTCAAAGGACTAATTTGA-AAACCTTGAAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGT
* * * *
33462253 TGATTTGGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCATAAATAATCTAAAAA
65 CGATTTAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAA
*
33462318 GTGACACGTGGCAGCCTATGGTACAGTCAAACA
130 GTGACACGTGGCAACCTATGGTACAGTCAAACA
*
33462351 GTCAAAGGACTAAATTGAAAA
1 GTCAAAGGACTAATTTGAAAA
33462372 GCAATTAAAA
Statistics
Matches: 163, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
160 63 0.39
161 95 0.58
162 5 0.03
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (162 bp):
GTCAAAGGACTAATTTGAAAACCTTGAAAAAATTATTGGACCAATTTCGTAATTAAAATAAAGTC
GATTTAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAG
TGACACGTGGCAACCTATGGTACAGTCAAACA
Found at i:33462441 original size:161 final size:159
Alignment explanation
Indices: 33462098--33462444 Score: 389
Period size: 161 Copynumber: 2.2 Consensus size: 159
33462088 AAGTCGATTT
*
33462098 AAGGATTAAATTAAAACAAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAATGACA
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAATGACA
* * * * **
33462163 CGTGGCAACCTCTGGTGCAGTCAAACAGTCAAAGGACTAATTTATAAACCTTGAAAAATTATTGG
66 CGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAATTGATAAACATT-AAAAATTACAGG
* * * ** *
33462228 GCCAATTTCGTAATTAAAATAAAGTTGATT
130 GCAAATTGCATAATTAAAATAAAGCAGATA
** * *
33462258 TGGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCATAAATAATCTAAAAAGTGAC
1 AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAA-TGAC
*
33462323 ACGTGGCAGCCTATGGTACAGTCAAACAGTCAAAGGACTAAATTGA-AAAGCAATT-AAAATTAC
65 ACGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACT-AATTGATAAA-C-ATTAAAAATTAC
*
33462386 AGGGCAAAATTGCAAATAATT-AAA-AATGCAGA-A
127 AGGGC-AAATTGC--ATAATTAAAATAAAGCAGATA
* * *
33462419 AAGGACTAAATTGAAGCAAATAAAAA
1 AAGGATTAAATTAAAACAAATAAAAA
33462445 TGCGGAAGGA
Statistics
Matches: 156, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
160 55 0.35
161 75 0.48
162 16 0.10
163 5 0.03
164 5 0.03
ACGTcount: A:0.50, C:0.12, G:0.16, T:0.22
Consensus pattern (159 bp):
AAGGATTAAATTAAAACAAATAAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAATGACA
CGTGGCAACCTATGGTACAGTCAAACAGTCAAAGGACTAATTGATAAACATTAAAAATTACAGGG
CAAATTGCATAATTAAAATAAAGCAGATA
Found at i:33463341 original size:16 final size:16
Alignment explanation
Indices: 33463320--33463368 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
33463310 ATTACCCATA
33463320 TTTATTAATGTTATTT
1 TTTATTAATGTTATTT
*
33463336 TTTATTAAAAGTTA-TT
1 TTTATT-AATGTTATTT
* *
33463352 ATTATTAATATTATTT
1 TTTATTAATGTTATTT
33463368 T
1 T
33463369 ACATTAGCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 6 0.23
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (16 bp):
TTTATTAATGTTATTT
Found at i:33463905 original size:18 final size:15
Alignment explanation
Indices: 33463878--33463923 Score: 92
Period size: 15 Copynumber: 3.1 Consensus size: 15
33463868 ATGGTGGATG
33463878 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
33463893 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
33463908 GAGCTGGTGGTGGCA
1 GAGCTGGTGGTGGCA
33463923 G
1 G
33463924 CAGCATAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.13, C:0.13, G:0.54, T:0.20
Consensus pattern (15 bp):
GAGCTGGTGGTGGCA
Found at i:33464087 original size:6 final size:6
Alignment explanation
Indices: 33464078--33464166 Score: 76
Period size: 6 Copynumber: 14.8 Consensus size: 6
33464068 ACTTTTAATG
* ** *
33464078 TTAAAT TTAATAT TTTAAT TTTTAT TTAAAT TTAAAT TCAAAT TTAAATAT
1 TTAAAT TTAA-AT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AA-AT
* *
33464129 TTAAAT TTAAA- ATAAAT CTAAAT TTAAA- -TAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
33464167 ATCAATTTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
4 4 0.06
5 4 0.06
6 47 0.69
7 9 0.13
8 4 0.06
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
TTAAAT
Found at i:33464099 original size:26 final size:24
Alignment explanation
Indices: 33464070--33464157 Score: 70
Period size: 26 Copynumber: 3.5 Consensus size: 24
33464060 GACATTGGAC
**
33464070 TTTTAATGTTAAATTTAATATTTTAA
1 TTTTAAT-TTAAATTTAA-ATTCAAA
*
33464096 TTTTTATTTAAATTTAAATTCAAA
1 TTTTAATTTAAATTTAAATTCAAA
* *
33464120 TTTAAATATTTAAATTTAAAAT-AAA
1 TTT-TA-ATTTAAATTTAAATTCAAA
* *
33464145 TCTAAATTTAAAT
1 TTTTAATTTAAAT
33464158 AAATTTAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
23 8 0.15
24 10 0.19
25 15 0.28
26 20 0.38
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (24 bp):
TTTTAATTTAAATTTAAATTCAAA
Found at i:33464168 original size:17 final size:16
Alignment explanation
Indices: 33464110--33464166 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
33464100 TATTTAAATT
*
33464110 TAAATTCAAATTTAAA
1 TAAATTTAAATTTAAA
33464126 T--ATTTAAATTTAAAA
1 TAAATTTAAATTT-AAA
*
33464141 TAAATCTAAATTTAAA
1 TAAATTTAAATTTAAA
33464157 TAAATTTAAA
1 TAAATTTAAA
33464167 ATCAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 9 0.26
15 4 0.11
16 13 0.37
17 9 0.26
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:33469355 original size:24 final size:23
Alignment explanation
Indices: 33469296--33469358 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
33469286 AGAAATAATC
*
33469296 GTTTAGTTAAACTCTGTTTATTT
1 GTTTAGTTAAACTCTATTTATTT
*
33469319 GTTTCAATTAAACTCTATTTATTT
1 GTTT-AGTTAAACTCTATTTATTT
*
33469343 GTTTGAGTCAAACTCT
1 GTTT-AGTTAAACTCT
33469359 TGTTAGTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (23 bp):
GTTTAGTTAAACTCTATTTATTT
Found at i:33476649 original size:212 final size:212
Alignment explanation
Indices: 33476278--33476705 Score: 811
Period size: 212 Copynumber: 2.0 Consensus size: 212
33476268 TTTAAGATAA
*
33476278 AAAATTCATCATTTTCTTCATCTTCTTTACTTATTCAGCCAAGAGAGGAGAAAGTTAGGGTTTTG
1 AAAATTCATCATTTTCTTCATCTTCTTTACCTATTCAGCCAAGAGAGGAGAAAGTTAGGGTTTTG
33476343 CCTTCCAACCTTTGAGCTTTGATTTGGGTAAGCAAATATTGATCGTTTTTAGTAATTTTTGTGTT
66 CCTTCCAACCTTTGAGCTTTGATTTGGGTAAGCAAATATTGATCGTTTTTAGTAATTTTTGTGTT
*
33476408 TTTGAGTCCGTATTAGCTTAATTTAGCTAAACTAAGGACTAATGTGTAAATCTGTCAAAGGTTGT
131 TTTGAGTCCGTATTAGCTTAATCTAGCTAAACTAAGGACTAATGTGTAAATCTGTCAAAGGTTGT
*
33476473 AAATCTTACTATTGTTG
196 AAATCTTACTATTATTG
*
33476490 AAAATTCATCATTTTCTTCATTTTCTTTACCTATTCAGCCAAGAGAGGAGAAAGTTAGGGTTTTG
1 AAAATTCATCATTTTCTTCATCTTCTTTACCTATTCAGCCAAGAGAGGAGAAAGTTAGGGTTTTG
33476555 CCTTCCAACCTTTGAGCTTTGATTTGGGTAAGCAAATATTGATCGTTTTTAGTAATTTTTGTGTT
66 CCTTCCAACCTTTGAGCTTTGATTTGGGTAAGCAAATATTGATCGTTTTTAGTAATTTTTGTGTT
*
33476620 TTTGAGTCCGTATTAGCTTAATCTAGCTAAACTAAGGACTAATTTGTAAATCTGTCAAAGGTTGT
131 TTTGAGTCCGTATTAGCTTAATCTAGCTAAACTAAGGACTAATGTGTAAATCTGTCAAAGGTTGT
33476685 AAATCTTACTATTATTG
196 AAATCTTACTATTATTG
33476702 AAAA
1 AAAA
33476706 AGCTTTCTCT
Statistics
Matches: 211, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
212 211 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (212 bp):
AAAATTCATCATTTTCTTCATCTTCTTTACCTATTCAGCCAAGAGAGGAGAAAGTTAGGGTTTTG
CCTTCCAACCTTTGAGCTTTGATTTGGGTAAGCAAATATTGATCGTTTTTAGTAATTTTTGTGTT
TTTGAGTCCGTATTAGCTTAATCTAGCTAAACTAAGGACTAATGTGTAAATCTGTCAAAGGTTGT
AAATCTTACTATTATTG
Found at i:33478262 original size:21 final size:22
Alignment explanation
Indices: 33478224--33478274 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
33478214 GCTTTTAGTA
*
33478224 TCGGTAGAAGCATGACTTGT-T
1 TCGGTAGAAGCATCACTTGTAT
**
33478245 TCGGTAGAAGTTTCACTTGTAT
1 TCGGTAGAAGCATCACTTGTAT
33478267 T-GGTAGAA
1 TCGGTAGAA
33478275 CAATCACAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCGGTAGAAGCATCACTTGTAT
Found at i:33479145 original size:37 final size:38
Alignment explanation
Indices: 33479100--33479198 Score: 112
Period size: 38 Copynumber: 2.6 Consensus size: 38
33479090 AAAATACTTG
* *
33479100 TTATAATTATTGTAATTATAATTTAT-GATCGAATATTA
1 TTATAATTATTGTAATTATAATTT-TCGATCAAACATTA
* *
33479138 TTA-AATTATTGTAATTGTAAATTTTCGGTCAAACATTA
1 TTATAATTATTGTAATTAT-AATTTTCGATCAAACATTA
* *
33479176 TTATAATTATGGTAACTATAATT
1 TTATAATTATTGTAATTATAATT
33479199 ATTATATTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
37 15 0.29
38 24 0.47
39 12 0.24
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.47
Consensus pattern (38 bp):
TTATAATTATTGTAATTATAATTTTCGATCAAACATTA
Found at i:33481937 original size:30 final size:29
Alignment explanation
Indices: 33481898--33482062 Score: 94
Period size: 29 Copynumber: 5.6 Consensus size: 29
33481888 TTGACTTTTG
*
33481898 GGGTAAAAATGTAATTTTTGGTGAAATCA
1 GGGTTAAAATGTAATTTTTGGTGAAATCA
* *
33481927 GGGTTAAAAATG-AAATTTT-G-AAAAGTTCGA
1 GGGTT-AAAATGTAATTTTTGGTGAAA--TC-A
* **
33481957 GGG-TAAAATGGTAATTTTTGGTAAAATTG
1 GGGTTAAAAT-GTAATTTTTGGTGAAATCA
**
33481986 GGGTTAAAAATGGGA-TTTT-G-GAAAGTTCGA
1 GGGTT-AAAATGTAATTTTTGGTGAAA--TC-A
*
33482016 GGG-TAAAATGGTAATTTTTGGTGAAATCG
1 GGGTTAAAAT-GTAATTTTTGGTGAAATCA
*
33482045 GGGTTAAAATGGAATTTT
1 GGGTTAAAATGTAATTTT
33482063 AGAAAGTTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 36
0.67 0.10 0.23
Matches are distributed among these distances:
27 6 0.06
28 12 0.12
29 35 0.34
30 35 0.34
31 7 0.07
32 8 0.08
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTTGGTGAAATCA
Found at i:33481974 original size:59 final size:59
Alignment explanation
Indices: 33481898--33482092 Score: 279
Period size: 59 Copynumber: 3.3 Consensus size: 59
33481888 TTGACTTTTG
* *
33481898 GGGTAAAAAT-GTAATTTTTGGTGAAATCAGGGTTAAAAATGAAATTTTGAAAAGTTCGA
1 GGGT-AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTCGA
* * * *
33481957 GGGTAAAATGGTAATTTTTGGTAAAATTGGGGTTAAAAATGGGATTTTGGAAAGTTCGA
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTCGA
* *
33482016 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGGAATTTT-AGAAAGTTTGG
1 GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGA-AAAGTTCGA
33482074 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGGTAATTTTT
33482093 CAAAAGTTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
58 43 0.35
59 79 0.65
ACGTcount: A:0.35, C:0.02, G:0.28, T:0.34
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGAAAAGTTCGA
Done.