Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 208 of 228
Found at i:60825176 original size:17 final size:18
Alignment explanation
Indices: 60825150--60825192 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
60825140 TATTTTGTAA
*
60825150 TTGGGCTTGTAACGGG-GT
1 TTGGG-TTGTAACGGGTAT
*
60825168 TTGGGTTGTAATGGGTAT
1 TTGGGTTGTAACGGGTAT
60825186 TTGGGTT
1 TTGGGTT
60825193 TGGTGCGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.12, C:0.05, G:0.42, T:0.42
Consensus pattern (18 bp):
TTGGGTTGTAACGGGTAT
Found at i:60828734 original size:25 final size:25
Alignment explanation
Indices: 60828696--60828756 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
60828686 CCCACAACTT
* * *
60828696 GTGTGAGAAATTACAGTTACAGGTC
1 GTGTGAGCATTTACAGTTACAGCTC
*
60828721 GTGTGAGCATTTACAGTTACAGCTT
1 GTGTGAGCATTTACAGTTACAGCTC
60828746 GTGTGAGCATT
1 GTGTGAGCATT
60828757 CTTCTCTTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (25 bp):
GTGTGAGCATTTACAGTTACAGCTC
Found at i:60828830 original size:13 final size:13
Alignment explanation
Indices: 60828814--60829019 Score: 123
Period size: 13 Copynumber: 15.5 Consensus size: 13
60828804 AAATGAATAA
*
60828814 ATGAAATGGTTAT
1 ATGAAATAGTTAT
*
60828827 ATG-AATCAATTAT
1 ATGAAAT-AGTTAT
*
60828840 ATGGAAATAGATAT
1 AT-GAAATAGTTAT
60828854 ATGAAATAGTTAT
1 ATGAAATAGTTAT
*
60828867 ATG-AATCGATTAT
1 ATGAAATAG-TTAT
60828880 ATGGAAATAGTTAT
1 AT-GAAATAGTTAT
*
60828894 ATGAAATGGTTAT
1 ATGAAATAGTTAT
*
60828907 ATG-AATCAATTAT
1 ATGAAAT-AGTTAT
*
60828920 ATGAAAATAGATAT
1 ATG-AAATAGTTAT
* *
60828934 ATGGAATGGTTAT
1 ATGAAATAGTTAT
* **
60828947 ACAGAAATAAATAT
1 A-TGAAATAGTTAT
* * *
60828961 ACGGAATGGTTAT
1 ATGAAATAGTTAT
* *
60828974 ATG-AATCGATAAT
1 ATGAAATAG-TTAT
*
60828987 ACGGAAATAGTTAT
1 A-TGAAATAGTTAT
*
60829001 ATGAAATATTTAT
1 ATGAAATAGTTAT
*
60829014 ACGAAA
1 ATGAAA
60829020 CATTTTTATG
Statistics
Matches: 146, Mismatches: 34, Indels: 26
0.71 0.17 0.13
Matches are distributed among these distances:
12 14 0.10
13 84 0.58
14 34 0.23
15 14 0.10
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGAAATAGTTAT
Found at i:60828854 original size:27 final size:26
Alignment explanation
Indices: 60828814--60829008 Score: 110
Period size: 27 Copynumber: 7.3 Consensus size: 26
60828804 AAATGAATAA
* *
60828814 ATGAAATGGTTATATG-AATCAATTAT
1 ATGAAATAGATATATGAAAT-AATTAT
*
60828840 ATGGAAATAGATATATGAAATAGTTAT
1 AT-GAAATAGATATATGAAATAATTAT
* *
60828867 ATG-AATCGATTATATGGAAATAGTTAT
1 ATGAAATAGA-TATAT-GAAATAATTAT
* *
60828894 ATGAAATGGTTATATG-AATCAATTAT
1 ATGAAATAGATATATGAAAT-AATTAT
* **
60828920 ATGAAAATAGATATATGGAATGGTTAT
1 ATG-AAATAGATATATGAAATAATTAT
* * * * **
60828947 ACAGAAATAAATATACGGAATGGTTAT
1 A-TGAAATAGATATATGAAATAATTAT
* * *
60828974 ATG-AATCGATAATACGGAAATAGTTAT
1 ATGAAATAGAT-ATA-TGAAATAATTAT
60829001 ATGAAATA
1 ATGAAATA
60829009 TTTATACGAA
Statistics
Matches: 136, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
25 13 0.10
26 21 0.15
27 88 0.65
28 14 0.10
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (26 bp):
ATGAAATAGATATATGAAATAATTAT
Found at i:60828869 original size:40 final size:40
Alignment explanation
Indices: 60828814--60828947 Score: 223
Period size: 40 Copynumber: 3.4 Consensus size: 40
60828804 AAATGAATAA
60828814 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
1 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
* * *
60828854 ATGAAATAGTTATATGAATCGATTATATGGAAATAGTTAT
1 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
*
60828894 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATAT
1 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
*
60828934 ATGGAATGGTTATA
1 ATGAAATGGTTATA
60828948 CAGAAATAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (40 bp):
ATGAAATGGTTATATGAATCAATTATATGGAAATAGATAT
Found at i:60828928 original size:67 final size:65
Alignment explanation
Indices: 60828851--60829005 Score: 175
Period size: 67 Copynumber: 2.3 Consensus size: 65
60828841 TGGAAATAGA
** ** *
60828851 TATATGAAATAGTTATATGAATCGATTATATGGAAATAGTTATATGAAATGGTTATATGAATCAA
1 TATATGAAATAGTTATATGAAT-GATTATACAGAAATAAATATACGAAATGGTTATATGAATCAA
60828916 T
65 T
* * * *
60828917 TATATGAAAATAGATATATGGAATGGTTATACAGAAATAAATATACGGAATGGTTATATGAATCG
1 TATATG-AAATAGTTATAT-GAATGATTATACAGAAATAAATATACGAAATGGTTATATGAATCA
60828982 AT
64 AT
* *
60828984 AATACGGAAATAGTTATATGAA
1 TATA-TGAAATAGTTATATGAA
60829006 ATATTTATAC
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
66 9 0.12
67 60 0.81
68 5 0.07
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (65 bp):
TATATGAAATAGTTATATGAATGATTATACAGAAATAAATATACGAAATGGTTATATGAATCAAT
Found at i:60828973 original size:80 final size:80
Alignment explanation
Indices: 60828814--60828978 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 80
60828804 AAATGAATAA
* * * *
60828814 ATGAAATGGTTATATGAATCAATTATATGGAAATAGATATATGAAATAGTTATATGAATCGATTA
1 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGAAATAGTTATAAGAATCAAATA
*
60828879 TATGGAAATAGTTAT
66 TACGGAAATAGTTAT
* *
60828894 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGGAATGGTTATACAGAAAT-AAA
1 ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGAAATAGTTATA-AG-AATCAAA
*
60828958 TATACGG-AATGGTTAT
64 TATACGGAAATAGTTAT
60828974 ATGAA
1 ATGAA
60828979 TCGATAATAC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 64 0.85
81 8 0.11
82 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (80 bp):
ATGAAATGGTTATATGAATCAATTATATGAAAATAGATATATGAAATAGTTATAAGAATCAAATA
TACGGAAATAGTTAT
Found at i:60829069 original size:13 final size:13
Alignment explanation
Indices: 60829051--60829092 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
60829041 GTAAAAAGGG
*
60829051 ATATTTGATATGA
1 ATATTTGAAATGA
60829064 ATATTTGAAATGA
1 ATATTTGAAATGA
*
60829077 AAATGTT-AAATGA
1 ATAT-TTGAAATGA
60829090 ATA
1 ATA
60829093 GATGATGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 23 0.92
14 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (13 bp):
ATATTTGAAATGA
Found at i:60834378 original size:21 final size:21
Alignment explanation
Indices: 60834339--60834396 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
60834329 CTACACCCCT
*
60834339 ATGTGAAGGCCACACATACCC
1 ATGTGAAGGCCATACATACCC
* *
60834360 ATGTGAAGGCCATATATACTC
1 ATGTGAAGGCCATACATACCC
* *
60834381 GTGTAAAGGCCATACA
1 ATGTGAAGGCCATACA
60834397 CGTCTGTGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (21 bp):
ATGTGAAGGCCATACATACCC
Found at i:60834525 original size:18 final size:17
Alignment explanation
Indices: 60834502--60834536 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60834492 TGGAGATCTT
60834502 ACATGCTTGTGTAGGTAC
1 ACATGCTTGTGT-GGTAC
*
60834520 ACATGCTTTTGTGGTAC
1 ACATGCTTGTGTGGTAC
60834537 CAAAATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (17 bp):
ACATGCTTGTGTGGTAC
Found at i:60835064 original size:15 final size:16
Alignment explanation
Indices: 60835044--60835073 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60835034 CTTTTTTAAA
60835044 AAATAAA-ATAAAAAC
1 AAATAAATATAAAAAC
60835059 AAATAAATATAAAAA
1 AAATAAATATAAAAA
60835074 AAACTCACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (16 bp):
AAATAAATATAAAAAC
Found at i:60835701 original size:97 final size:97
Alignment explanation
Indices: 60835535--60835730 Score: 374
Period size: 97 Copynumber: 2.0 Consensus size: 97
60835525 ATCCGCACAC
*
60835535 CTACCTTGAACAATTTCTCTAGTTCTATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
1 CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
60835600 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
66 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
*
60835632 CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGGCTCGAAGACTTTCTCTAACACTTCTCT
1 CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
60835697 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
66 CACAACCCGAGTCAACGCCTCAGTGCTAACCT
60835729 CT
1 CT
60835731 GGGTCATCAC
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.27, C:0.32, G:0.11, T:0.30
Consensus pattern (97 bp):
CTACCTTGAACAATTTCTCTAGTTATATCTAAACTAGCCTCGAAGACTTTCTCTAACACTTCTCT
CACAACCCGAGTCAACGCCTCAGTGCTAACCT
Found at i:60837466 original size:21 final size:21
Alignment explanation
Indices: 60837442--60837524 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 21
60837432 CTACACGCTT
*
60837442 ATGTGAAGGCCACACATGCCC
1 ATGTGAAGGCCACACACGCCC
* *
60837463 ATGTGAAGGCCACATAGGCCC
1 ATGTGAAGGCCACACACGCCC
* *
60837484 TTATGAAGGCCACACACGCCC
1 ATGTGAAGGCCACACACGCCC
* * **
60837505 GTGTGGAGGGGACACACGCC
1 ATGTGAAGGCCACACACGCC
60837525 AGTGTGAGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.27, C:0.31, G:0.29, T:0.13
Consensus pattern (21 bp):
ATGTGAAGGCCACACACGCCC
Found at i:60838560 original size:19 final size:19
Alignment explanation
Indices: 60838519--60838562 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
60838509 TGTATCTGAC
*
60838519 TGTATATGAGATATGTTAT
1 TGTATATGAGATATCTTAT
*
60838538 TGTATATGAGATTTCTGTA-
1 TGTATATGAGATATCT-TAT
60838557 TGTATA
1 TGTATA
60838563 GCATGTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (19 bp):
TGTATATGAGATATCTTAT
Found at i:60843425 original size:16 final size:16
Alignment explanation
Indices: 60843404--60843472 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
60843394 TTTGGTTCGC
60843404 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60843420 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60843436 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
60843453 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60843469 TGTA
1 TGTA
60843473 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:60843450 original size:33 final size:32
Alignment explanation
Indices: 60843404--60843472 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
60843394 TTTGGTTCGC
60843404 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
60843436 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
60843469 TGTA
1 TGTA
60843473 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:60843537 original size:44 final size:45
Alignment explanation
Indices: 60843463--60843550 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 45
60843453 TGTATTGGAT
* *
60843463 TAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAATGTAATAGAA
1 TAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAATAGAA
***
60843508 TAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAATGGAATAGA
1 TAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAATAGA
60843551 GGTGTAATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 25 0.66
45 13 0.34
ACGTcount: A:0.32, C:0.07, G:0.27, T:0.34
Consensus pattern (45 bp):
TAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAATGGAATAGAA
Found at i:60843559 original size:39 final size:40
Alignment explanation
Indices: 60843458--60843566 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 40
60843448 AGAGGTGTAT
*
60843458 TGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
* ***
60843498 TGTAATAGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TG-----GAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
60843542 TGGAATAGAGGTGTAATAGCATAAT
1 TGGAATAGAGGTGTAATAGC-TAAT
60843567 GGAAAAAACT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
39 16 0.29
40 2 0.04
41 4 0.07
44 19 0.34
45 15 0.27
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (40 bp):
TGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:60843795 original size:157 final size:156
Alignment explanation
Indices: 60843595--60843910 Score: 544
Period size: 157 Copynumber: 2.0 Consensus size: 156
60843585 TAGAATACCC
*
60843595 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * * *
60843660 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAATA
66 ATATCAATAATAAATA-ATTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA-A
60843725 ATATATAATTTAATAAAATTCTT-ATAA
129 ATATATAATTTAATAAAATTCTTAATAA
* *
60843752 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
60843817 ATATCAATAATAAATAATTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 ATATCAATAATAAATAATTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
60843882 ATATAATTTAATAAAATTCTTAATAA
131 ATATAATTTAATAAAATTCTTAATAA
60843908 TTA
1 TTA
60843911 ATATTCTTAT
Statistics
Matches: 151, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
155 24 0.16
156 51 0.34
157 76 0.50
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:60843881 original size:16 final size:16
Alignment explanation
Indices: 60843844--60843885 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60843834 TTAATCATAT
*
60843844 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
60843860 TT-AAATATATTATAA
1 TTAAAATATATTATAA
60843875 TTAAAATATAT
1 TTAAAATATAT
60843886 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:60843892 original size:14 final size:15
Alignment explanation
Indices: 60843853--60843894 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60843843 TTTAAACATA
*
60843853 ATTATTATTAAATAT
1 ATTATAATTAAATAT
60843868 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
60843882 A-TATAATTTAATA
1 ATTATAATTAAATA
60843895 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:60843981 original size:120 final size:121
Alignment explanation
Indices: 60843847--60844139 Score: 502
Period size: 120 Copynumber: 2.4 Consensus size: 121
60843837 ATCATATTTA
60843847 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
60843912 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-GT-
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATGTG
60843967 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
60844032 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATTTG
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
* * *
60844088 AA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
60844140 TAAAATAATT
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 3 0.02
120 160 0.97
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAAATGTG
Found at i:60844012 original size:14 final size:15
Alignment explanation
Indices: 60843973--60844014 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60843963 AAGTAACATA
*
60843973 ATTATTATTAAATAT
1 ATTATAATTAAATAT
60843988 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
60844002 A-TATAATTTAATA
1 ATTATAATTAAATA
60844015 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:60848005 original size:16 final size:16
Alignment explanation
Indices: 60847936--60848003 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
60847926 TTTGGTTCGC
60847936 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60847952 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
60847968 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
60847984 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
60848000 TGTA
1 TGTA
60848004 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:60848035 original size:45 final size:44
Alignment explanation
Indices: 60847984--60848078 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
60847974 GGATTAGAGG
* * *
60847984 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
60848029 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
60848073 TGTAAT
1 TGTAAT
60848079 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.35, C:0.05, G:0.26, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:60848261 original size:18 final size:17
Alignment explanation
Indices: 60848240--60848274 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60848230 TTATTATTTA
*
60848240 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60848258 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60848275 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60848268 original size:28 final size:27
Alignment explanation
Indices: 60848198--60848270 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
60848188 TTTATTATCA
*
60848198 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
60848226 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
60848253 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
60848271 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:60848408 original size:18 final size:17
Alignment explanation
Indices: 60848387--60848421 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
60848377 TTATTATTAA
*
60848387 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
60848405 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
60848422 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:60848433 original size:147 final size:149
Alignment explanation
Indices: 60848159--60848433 Score: 500
Period size: 147 Copynumber: 1.9 Consensus size: 149
60848149 ATGATTATTG
*
60848159 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
*
60848224 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
60848289 AGAAATTTGTTTTGGTAAA
131 AGAAATTTGTTTTGGTAAA
* *
60848308 TTATT-TTATTTAAATTTTAATAAGATTA-TTAATATCAATAATAAATAATTTACTCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
60848371 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
60848434 ATATTCTTAT
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
147 94 0.77
148 23 0.19
149 5 0.04
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (149 bp):
TTATTGTTATTTAAATTTTAATAAGATTATTTAATATCAAAAATAAATAATTTAATCATATTTAA
ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
AGAAATTTGTTTTGGTAAA
Found at i:60848529 original size:18 final size:17
Alignment explanation
Indices: 60848489--60848541 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
60848479 AAATATAAAT
60848489 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
60848503 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
60848518 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
60848536 TAAAAT
1 TAAAAT
60848542 TCTAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:60848599 original size:60 final size:59
Alignment explanation
Indices: 60848415--60848601 Score: 157
Period size: 60 Copynumber: 3.1 Consensus size: 59
60848405 ATATAATTTA
*
60848415 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTC-TAATAA-TAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
* * ** * * * ** * * * *
60848476 GTAAAATAT-AAATTAA-AATAATAATTAT-TAAATATATTTTAATTAAAATATATAAT-TT
1 ATAAAAT-TCTAA-TAATAAT-ATTCTTATATGAATTTACTAAAATCATAATATATGATACT
60848534 AATAAAATTCTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 -ATAAAATTCTAATAAT-AATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
60848595 ATAAAAT
1 ATAAAAT
60848602 ATAATTTGAA
Statistics
Matches: 91, Mismatches: 26, Indels: 19
0.67 0.19 0.14
Matches are distributed among these distances:
58 5 0.05
59 37 0.41
60 38 0.42
61 10 0.11
62 1 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (59 bp):
ATAAAATTCTAATAATAATATTCTTATATGAATTTACTAAAATCATAATATATGATACT
Found at i:60848600 original size:119 final size:120
Alignment explanation
Indices: 60848367--60848661 Score: 495
Period size: 119 Copynumber: 2.5 Consensus size: 120
60848357 TTACTCATAT
*
60848367 TTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTAAA-ATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
60848432 TAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA
65 CAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
60848488 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAATC
1 TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
*
60848552 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAT
66 AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
* *
60848607 TTGAAATAATTAA-TATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTAAAATAA-TAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
60848662 TAAAATAATT
Statistics
Matches: 166, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
119 108 0.65
120 53 0.32
121 5 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATC
AATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAAA
Found at i:60853917 original size:11 final size:10
Alignment explanation
Indices: 60853897--60853940 Score: 52
Period size: 11 Copynumber: 4.1 Consensus size: 10
60853887 TAATAATATA
*
60853897 AAATATATTT
1 AAATAAATTT
60853907 AAATCAAATTT
1 AAAT-AAATTT
60853918 AAAATAAATTT
1 -AAATAAATTT
60853929 AAATAAGATTT
1 AAATAA-ATTT
60853940 A
1 A
60853941 CATATGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 10 0.33
11 16 0.53
12 4 0.13
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (10 bp):
AAATAAATTT
Found at i:60853921 original size:22 final size:22
Alignment explanation
Indices: 60853895--60853940 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
60853885 AATAATAATA
*
60853895 TAAAATATATTTAAATCAA-ATT
1 TAAAATAAATTTAAAT-AAGATT
60853917 TAAAATAAATTTAAATAAGATT
1 TAAAATAAATTTAAATAAGATT
60853939 TA
1 TA
60853941 CATATGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (22 bp):
TAAAATAAATTTAAATAAGATT
Found at i:60856155 original size:21 final size:21
Alignment explanation
Indices: 60856125--60856170 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
60856115 CATTGTGTTA
60856125 AAACTAAAATTTAAAA-TAAATT
1 AAACTAAAA-TTAAAAGTAAA-T
60856147 AAACT-AAATTAAAAGTAAAT
1 AAACTAAAATTAAAAGTAAAT
60856167 AAAC
1 AAAC
60856171 ATTTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 11 0.48
21 7 0.30
22 5 0.22
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (21 bp):
AAACTAAAATTAAAAGTAAAT
Found at i:60859217 original size:31 final size:31
Alignment explanation
Indices: 60859182--60859246 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
60859172 GTTACAAAAT
60859182 AGTCAATGAACCATTCAAAAGTTTCCATTTA
1 AGTCAATGAACCATTCAAAAGTTTCCATTTA
* ** **
60859213 AGTCATTGAACCATTTGAAAGTTTTTATTTA
1 AGTCAATGAACCATTCAAAAGTTTCCATTTA
60859244 AGT
1 AGT
60859247 TATTGGGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (31 bp):
AGTCAATGAACCATTCAAAAGTTTCCATTTA
Found at i:60861361 original size:6 final size:6
Alignment explanation
Indices: 60861350--60861376 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
60861340 CACTTTTTAA
60861350 GAAAAT GAAAAT GAAAAT GAAAAT GAA
1 GAAAAT GAAAAT GAAAAT GAAAAT GAA
60861377 TTATGTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.19, T:0.15
Consensus pattern (6 bp):
GAAAAT
Found at i:60872337 original size:27 final size:27
Alignment explanation
Indices: 60872299--60872352 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
60872289 GGATCGGATG
60872299 AATCGGTAAAAGAATCGGTTTTCTACA
1 AATCGGTAAAAGAATCGGTTTTCTACA
* *
60872326 AATCGGTGAAAGAATCGGTTTTTTACA
1 AATCGGTAAAAGAATCGGTTTTCTACA
60872353 TTTTGGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (27 bp):
AATCGGTAAAAGAATCGGTTTTCTACA
Found at i:60876124 original size:42 final size:42
Alignment explanation
Indices: 60876043--60876161 Score: 132
Period size: 42 Copynumber: 2.8 Consensus size: 42
60876033 TTTCGTTTAC
* * * * * *
60876043 CTCTCACGAACTTCTGTTTAACTCATATGAGTTTCCGTTCAG
1 CTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAA
* *
60876085 CTC-TATTGAGCTTCTGTTTAACCCTTATGGGTTTTCGTTCAA
1 CTCTTA-CGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAA
* *
60876127 CTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
1 CTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTC
60876162 TGTTTATCTC
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 1 0.02
42 60 0.95
43 2 0.03
ACGTcount: A:0.18, C:0.26, G:0.16, T:0.40
Consensus pattern (42 bp):
CTCTTACGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAA
Found at i:60876180 original size:42 final size:42
Alignment explanation
Indices: 60876032--60876182 Score: 117
Period size: 42 Copynumber: 3.6 Consensus size: 42
60876022 TTGTGTTTAC
* * * * * * * * *
60876032 TTTTCGTTTACCTCTCACGAACTTCTGTTTAACTCATATGAG
1 TTTTCGTTCAACTCTCATGAGCTTCCGTTCAACCCTTATGGG
* * * *
60876074 TTTCCGTTCAGCTCT-ATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTTCGTTCAACTCTCA-TGAGCTTCCGTTCAACCCTTATGGG
* *
60876116 TTTTCGTTCAACTCTTACGAGCTTCCGTTCAACCCTTATGGG
1 TTTTCGTTCAACTCTCATGAGCTTCCGTTCAACCCTTATGGG
* *
60876158 -TTTCTGTTTATCTCTCATGAGCTTC
1 TTTTC-GTTCAACTCTCATGAGCTTC
60876183 TATTCAGCCT
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
41 5 0.06
42 83 0.93
43 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (42 bp):
TTTTCGTTCAACTCTCATGAGCTTCCGTTCAACCCTTATGGG
Found at i:60878433 original size:51 final size:52
Alignment explanation
Indices: 60878356--60878483 Score: 179
Period size: 52 Copynumber: 2.5 Consensus size: 52
60878346 TGGATACCCG
* * *
60878356 GTGGCCTGCACATAGTACTACCCTTGTAGA-CAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GATCAAAGCTATCCTTCTTCACAAA
*
60878407 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCCTTCTTCACAAA
**
60878459 GTGGAATTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
60878484 AAGTCATTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.03
51 32 0.46
52 35 0.51
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCCTTCTTCACAAA
Found at i:60886724 original size:49 final size:49
Alignment explanation
Indices: 60886614--60886711 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
60886604 ATGAAGGGTG
*
60886614 ACATCGAAAGGAAAATTGGCACCGATATCCCCTGTAATACAGAAAATAA
1 ACATCGAAAGGAAAATTGGCACCGATATCCCCTATAATACAGAAAATAA
60886663 ACATCGAAAGGAAAATTGGCACCGATATCCCCTATAATACAGAAAATAA
1 ACATCGAAAGGAAAATTGGCACCGATATCCCCTATAATACAGAAAATAA
60886712 TCCTTGGAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.18
Consensus pattern (49 bp):
ACATCGAAAGGAAAATTGGCACCGATATCCCCTATAATACAGAAAATAA
Found at i:60893367 original size:23 final size:25
Alignment explanation
Indices: 60893354--60893405 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
60893344 AAGTTCAAGT
60893354 GAGCC-ATATCAGGAAGCTCACAAA
1 GAGCCTATATCAGGAAGCTCACAAA
* *
60893378 GAGCCTATATCAGGACGCTCATAAA
1 GAGCCTATATCAGGAAGCTCACAAA
60893403 GAG
1 GAG
60893406 TTGCGGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (25 bp):
GAGCCTATATCAGGAAGCTCACAAA
Found at i:60894876 original size:22 final size:23
Alignment explanation
Indices: 60894845--60894890 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
60894835 TTTATAACAT
*
60894845 AAAATAAATTATTTCAAA-TTATC
1 AAAATAAATTAATT-AAATTTATC
60894868 AAAA-AAATTAATTAAATTTATC
1 AAAATAAATTAATTAAATTTATC
60894890 A
1 A
60894891 TAATTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 14 0.67
23 4 0.19
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATAAATTAATTAAATTTATC
Found at i:60901853 original size:31 final size:31
Alignment explanation
Indices: 60901817--60901878 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
60901807 AGATAATTTT
*
60901817 AAAGAGTTTTATTATGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
60901848 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
60901879 TAATTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:60902184 original size:3 final size:3
Alignment explanation
Indices: 60902176--60902210 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
60902166 ATCTATCCTT
60902176 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
60902211 GTTGTTGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:60902215 original size:3 final size:3
Alignment explanation
Indices: 60902209--60902240 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
60902199 ATTATTATTA
60902209 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
60902241 ATTATTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:60906084 original size:28 final size:28
Alignment explanation
Indices: 60906039--60906100 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
60906029 CTATTCAGTA
* *
60906039 ACAGT-ACAGTGTGAGCCTTAGCCCATT
1 ACAGTAACAATGTGAGCCTTAGCCCAAT
*
60906066 ACAGTAACAATGTGGGCCTTAGCCCAAT
1 ACAGTAACAATGTGAGCCTTAGCCCAAT
*
60906094 ATAGTAA
1 ACAGTAA
60906101 TGGTACAGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (28 bp):
ACAGTAACAATGTGAGCCTTAGCCCAAT
Found at i:60906497 original size:27 final size:26
Alignment explanation
Indices: 60906467--60906660 Score: 208
Period size: 27 Copynumber: 7.2 Consensus size: 26
60906457 CATAAAAGTA
* *
60906467 ATTTTACCCTATAGGGGTATTTCGATT
1 ATTTTACCCTAT-GGGGTAATTCGATC
*
60906494 ATTTTACCCTATGAGGGTAATTCGGTC
1 ATTTTACCCTATG-GGGTAATTCGATC
*
60906521 ATTTTACCCTATGAGGGTGATTCGATC
1 ATTTTACCCTATG-GGGTAATTCGATC
* *
60906548 ATTTTACCCTGTAGGGGTGATTCGATC
1 ATTTTACCCTAT-GGGGTAATTCGATC
*
60906575 ATTTTACCCTGTGGGGGTAATTCGATC
1 ATTTTACCCTAT-GGGGTAATTCGATC
*
60906602 ATTTTACCCTGTGGGAGGTAATTCGATC
1 ATTTTACCCTAT-GG-GGTAATTCGATC
* ** *
60906630 ATTTTATCCGGTGGGGGTAATTTGATC
1 ATTTTACCCTAT-GGGGTAATTCGATC
60906657 ATTT
1 ATTT
60906661 ATTGATCTCT
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.01
27 126 0.82
28 26 0.17
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTAATTCGATC
Found at i:60906572 original size:81 final size:82
Alignment explanation
Indices: 60906467--60906635 Score: 243
Period size: 81 Copynumber: 2.1 Consensus size: 82
60906457 CATAAAAGTA
* *
60906467 ATTTTACCCTATAGGGGTATTTCGATTATTTTACCCTATGAGGGTAATTCGGTCATTTTACCCTA
1 ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCTA
*
60906532 TGAG-GGTGATTCGATC
66 TGAGAGGTAATTCGATC
* * *
60906548 ATTTTACCCTGTAGGGGTGA-TTCGATCATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCT
1 ATTTTACCCTATAGGGGT-ATTTCGATCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCT
* *
60906612 GTGGGAGGTAATTCGATC
65 ATGAGAGGTAATTCGATC
60906630 ATTTTA
1 ATTTTA
60906636 TCCGGTGGGG
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
81 60 0.77
82 18 0.23
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.39
Consensus pattern (82 bp):
ATTTTACCCTATAGGGGTATTTCGATCATTTTACCCTATGAGGGTAATTCGATCATTTTACCCTA
TGAGAGGTAATTCGATC
Found at i:60906645 original size:55 final size:54
Alignment explanation
Indices: 60906467--60906660 Score: 244
Period size: 54 Copynumber: 3.6 Consensus size: 54
60906457 CATAAAAGTA
* * * * * * *
60906467 ATTTTACCCTATAGGGGTATTTCGATTATTTTACCCTATGAGGGTAATTCGGTC
1 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGATC
* * * * *
60906521 ATTTTACCCTATGAGGGTGATTCGATCATTTTACCCTGTAGGGGTGATTCGATC
1 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGATC
60906575 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGAGGTAATTCGATC
1 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGG-GGTAATTCGATC
* * *
60906630 ATTTTATCCGGTGGGGGTAATTTGATCATTT
1 ATTTTACCCTGTGGGGGTAATTCGATCATTT
60906661 ATTGATCTCT
Statistics
Matches: 121, Mismatches: 18, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 82 0.68
55 39 0.32
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (54 bp):
ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGATC
Found at i:60919197 original size:11 final size:11
Alignment explanation
Indices: 60919181--60919279 Score: 56
Period size: 11 Copynumber: 9.7 Consensus size: 11
60919171 ATTTTTTTAA
60919181 TTTTAAAATAT
1 TTTTAAAATAT
60919192 TTTTAAAATACT
1 TTTTAAAATA-T
** *
60919204 TTTTTTATTAT
1 TTTTAAAATAT
60919215 TTTT---A-A-
1 TTTTAAAATAT
*
60919221 TTTTAAAACAT
1 TTTTAAAATAT
60919232 TTTTAAAATACT
1 TTTTAAAATA-T
60919244 TTTT-AAAT-T
1 TTTTAAAATAT
* *
60919253 TTTT---TTAA
1 TTTTAAAATAT
60919261 TTTTAAAATAT
1 TTTTAAAATAT
60919272 TTTTAAAA
1 TTTTAAAA
60919280 CACTTTTTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
6 4 0.06
7 2 0.03
8 4 0.06
9 6 0.09
10 1 0.01
11 38 0.56
12 13 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:60919221 original size:40 final size:40
Alignment explanation
Indices: 60919168--60919297 Score: 194
Period size: 40 Copynumber: 3.3 Consensus size: 40
60919158 AATAAATATA
60919168 TTTATT-TTTTTAATTTTAAAATATTTTTAAAATACTTTT
1 TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
*
60919207 TTTATTATTTTTAATTTTAAAACATTTTTAAAATACTTTT
1 TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
** * *
60919247 TAAATTTTTTTTAATTTTAAAATATTTTTAAAACACTTTT
1 TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
60919287 TTTA--ATTTTTA
1 TTTATTATTTTTA
60919298 GAATAAATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
38 6 0.07
39 6 0.07
40 69 0.85
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (40 bp):
TTTATTATTTTTAATTTTAAAATATTTTTAAAATACTTTT
Found at i:60919266 original size:17 final size:17
Alignment explanation
Indices: 60919244--60919277 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60919234 TTAAAATACT
* *
60919244 TTTTAAATTTTTTTTAA
1 TTTTAAAATATTTTTAA
60919261 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
60919278 AACACTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:60919286 original size:29 final size:29
Alignment explanation
Indices: 60919232--60919287 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
60919222 TTTAAAACAT
***
60919232 TTTTAAAATACTTTTTAAATTTTTTTTAA
1 TTTTAAAATACTTTTTAAACACTTTTTAA
60919261 TTTTAAAATA-TTTTTAAAACACTTTTT
1 TTTTAAAATACTTTTT-AAACACTTTTT
60919288 TTAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTAAAATACTTTTTAAACACTTTTTAA
Found at i:60919455 original size:16 final size:16
Alignment explanation
Indices: 60919430--60919472 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
60919420 ATTTTTTATG
* *
60919430 GGCCCAACCCGAACCC
1 GGCCCGACCCAAACCC
60919446 GGCCCGACCCAAACCC
1 GGCCCGACCCAAACCC
*
60919462 GGCCCGGCCCA
1 GGCCCGACCCA
60919473 TGAGCACCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.56, G:0.23, T:0.00
Consensus pattern (16 bp):
GGCCCGACCCAAACCC
Found at i:60921708 original size:32 final size:33
Alignment explanation
Indices: 60921640--60921711 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
60921630 CCGACGGCCC
* * *
60921640 GCCCGAAATATGGGAGGGTTGGGTAAAAATATAG
1 GCCCGAAATAT-GGAGGCTTGGGCAAAAAAATAG
60921674 GCCCGAAATAT-G-GGCTTGGGCAAAAAAATGAG
1 GCCCGAAATATGGAGGCTTGGGCAAAAAAAT-AG
60921706 GCCCGA
1 GCCCGA
60921712 TTAAAAAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.41
32 9 0.26
34 11 0.32
ACGTcount: A:0.35, C:0.15, G:0.33, T:0.17
Consensus pattern (33 bp):
GCCCGAAATATGGAGGCTTGGGCAAAAAAATAG
Found at i:60921870 original size:30 final size:30
Alignment explanation
Indices: 60921806--60921877 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 30
60921796 ATTTTTTTAT
60921806 TTTTTTAATTTTAAAATACTTTTTTAAAT-
1 TTTTTTAATTTTAAAATACTTTTTTAAATC
60921835 TTTTTTAAATTTTAAAA-A-TTTTTTAAAATAC
1 TTTTTT-AATTTTAAAATACTTTTTT-AAAT-C
60921866 TTTTTTAATTTT
1 TTTTTTAATTTT
60921878 TTTTAATTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
28 6 0.15
29 11 0.28
30 16 0.41
31 6 0.15
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATACTTTTTTAAATC
Found at i:60921886 original size:40 final size:40
Alignment explanation
Indices: 60921814--60921936 Score: 174
Period size: 40 Copynumber: 3.0 Consensus size: 40
60921804 ATTTTTTTAA
*
60921814 TTTTAAAATACTTTTTTAAATTTTTTTAAATTTTAAAAATT
1 TTTTAAAATACTTTTTT-AATTTTTTTTAATTTTAAAAATT
**
60921855 TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAATTTT
1 TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAAATT
*
60921895 TTTTAAAATACTTTTTTTAATTTTTGTTTTAATTTTTAAAAT
1 TTTTAAAATAC-TTTTTTAA-TTTT-TTTTAATTTTAAAAAT
60921937 AATTTTTTGG
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
40 31 0.42
41 25 0.34
42 4 0.05
43 13 0.18
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (40 bp):
TTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAAATT
Found at i:60921897 original size:10 final size:10
Alignment explanation
Indices: 60921825--60921887 Score: 58
Period size: 10 Copynumber: 6.3 Consensus size: 10
60921815 TTTAAAATAC
60921825 TTTTTTAAAT
1 TTTTTTAAAT
60921835 TTTTTTAAA-
1 TTTTTTAAAT
**
60921844 TTTTAAAAAT
1 TTTTTTAAAT
*
60921854 TTTTTAAAAT
1 TTTTTTAAAT
60921864 ACTTTTTT-AAT
1 --TTTTTTAAAT
*
60921875 TTTTTTTAAT
1 TTTTTTAAAT
60921885 TTT
1 TTT
60921888 AAATTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 13 0.29
10 24 0.53
11 3 0.07
12 5 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:60921898 original size:17 final size:17
Alignment explanation
Indices: 60921867--60921900 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60921857 TTAAAATACT
*
60921867 TTTTTAATTTTTTTTAA
1 TTTTAAATTTTTTTTAA
60921884 TTTTAAATTTTTTTTAA
1 TTTTAAATTTTTTTTAA
60921901 AATACTTTTT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTAAATTTTTTTTAA
Found at i:60922783 original size:3 final size:3
Alignment explanation
Indices: 60922775--60922805 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
60922765 TAATATCCCT
60922775 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
60922806 GATGTTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:60923068 original size:26 final size:25
Alignment explanation
Indices: 60923016--60923070 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
60923006 TATTTTAAAA
* * *
60923016 TATTTTTAAAATACTTTTTATTTTT
1 TATTTTTAAAATAATTTTTAGTGTT
*
60923041 TATTTTTAAAATAAATTTTTGGTGTT
1 TATTTTTAAAAT-AATTTTTAGTGTT
60923067 TATT
1 TATT
60923071 AAAAATGGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (25 bp):
TATTTTTAAAATAATTTTTAGTGTT
Found at i:60923388 original size:33 final size:33
Alignment explanation
Indices: 60923344--60923448 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
60923334 AATTAGACAG
60923344 ATAATTACAGCTTATATACATTGTTTTCGTATT
1 ATAATTACAGCTTATATACATTGTTTTCGTATT
* *
60923377 ATAATTGCAGCTTACATACATTGTTTTCGTATT
1 ATAATTACAGCTTATATACATTGTTTTCGTATT
* *
60923410 ATAATTACAGCATATATACATTGTTTTCATATT
1 ATAATTACAGCTTATATACATTGTTTTCGTATT
60923443 ATAATT
1 ATAATT
60923449 TTTTTTTTAA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (33 bp):
ATAATTACAGCTTATATACATTGTTTTCGTATT
Found at i:60923858 original size:93 final size:94
Alignment explanation
Indices: 60923731--60923900 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 94
60923721 GCATCCACCA
* * * * * * * *
60923731 AACAGGTAAATATCGACAAAATAATCGAGTATCCAAT-AAACTAGAGACG-ACAACAACAAAATT
1 AACAGATAAAAATCGACAAAAGAATCAAGCATCC-ATCAAACTAGA-AAGAACAAAAACAAAACT
60923794 ATCT-TAAAATCACCTCGGATAGTCCAAAAC
64 ATCTCTAAAATCACCTCGGATAGTCCAAAAC
*
60923824 AACAGATAAAAATCGATAAAAGAATCAAGCATCCATCAAACTAGAAAGAACAAAAACAAAACTAT
1 AACAGATAAAAATCGACAAAAGAATCAAGCATCCATCAAACTAGAAAGAACAAAAACAAAACTAT
60923889 CTCTAAAATCAC
66 CTCTAAAATCAC
60923901 TTACTACACC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
92 4 0.06
93 52 0.80
94 9 0.14
ACGTcount: A:0.52, C:0.20, G:0.10, T:0.18
Consensus pattern (94 bp):
AACAGATAAAAATCGACAAAAGAATCAAGCATCCATCAAACTAGAAAGAACAAAAACAAAACTAT
CTCTAAAATCACCTCGGATAGTCCAAAAC
Found at i:60926631 original size:5 final size:5
Alignment explanation
Indices: 60926621--60926650 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
60926611 TAGTCTTTTC
60926621 TATTT TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT TATTT
60926651 CTTTTTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:60926656 original size:15 final size:16
Alignment explanation
Indices: 60926617--60926658 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
60926607 CTTCTAGTCT
60926617 TTTCTATTTTATTTTA
1 TTTCTATTTTATTTTA
60926633 TTT-TATTTTATTTTA
1 TTTCTATTTTATTTTA
60926648 TTTCT-TTTTAT
1 TTTCTATTTTAT
60926659 AACAGGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTCTATTTTATTTTA
Found at i:60936420 original size:42 final size:40
Alignment explanation
Indices: 60936352--60936440 Score: 106
Period size: 42 Copynumber: 2.2 Consensus size: 40
60936342 TTGAAATCGA
* * * *
60936352 TTTTTATTTAAAAAAGAATAATAGGAGTCATCACCGATCC
1 TTTTTATTTAAAAAAAAAGAATAGGAGTCACCACCAATCC
* *
60936392 TTTTTATTTAAAAAAAAAAAGAATAGGAGTCGCCACCAATCT
1 TTTTTATTT--AAAAAAAAAGAATAGGAGTCACCACCAATCC
60936434 TTTTTAT
1 TTTTTAT
60936441 GATGTGAGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 9 0.22
42 32 0.78
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (40 bp):
TTTTTATTTAAAAAAAAAGAATAGGAGTCACCACCAATCC
Found at i:60939202 original size:3 final size:3
Alignment explanation
Indices: 60939196--60939236 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
60939186 TTATCATTAA
* * *
60939196 AAT AAT AAT AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
60939237 ATTTTTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:60941002 original size:20 final size:21
Alignment explanation
Indices: 60940977--60941016 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
60940967 TTTTATATAA
*
60940977 TTATTTTAT-TAATATTATTG
1 TTATTTTATAAAATATTATTG
60940997 TTATTTTATAAAATATTATT
1 TTATTTTATAAAATATTATT
60941017 TTTCGCATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TTATTTTATAAAATATTATTG
Found at i:60941047 original size:8 final size:8
Alignment explanation
Indices: 60941031--60941110 Score: 55
Period size: 8 Copynumber: 10.1 Consensus size: 8
60941021 GCATTCTTAT
60941031 TTATA-TA
1 TTATATTA
60941038 TTATATTA
1 TTATATTA
60941046 TTATATTA
1 TTATATTA
60941054 TT-TATTTA
1 TTATA-TTA
60941062 TATATACTTA
1 T-TATA-TTA
60941072 -TATACTT-
1 TTATA-TTA
*
60941079 TCATATTA
1 TTATATTA
60941087 -TATATTA
1 TTATATTA
*
60941094 TAATTATT-
1 TTA-TATTA
60941102 TTATATTA
1 TTATATTA
60941110 T
1 T
60941111 GTCATTTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
7 19 0.32
8 30 0.51
9 5 0.08
10 5 0.08
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATATTA
Found at i:60941087 original size:25 final size:23
Alignment explanation
Indices: 60941034--60941125 Score: 79
Period size: 23 Copynumber: 4.0 Consensus size: 23
60941024 TTCTTATTTA
60941034 TATATTATAT-TATTATATTATT
1 TATATTATATATATTATATTATT
60941056 TAT-TTATATATACTTATA-TACTT
1 TATATTATATATA-TTATATTA-TT
60941079 TCATA-T-TATATATTATAATTATTT
1 T-ATATTATATATATTAT-ATTA-TT
*
60941103 TATATTATGTCAT-TTATATTATT
1 TATATTATAT-ATATTATATTATT
60941126 ACGTTTTTAT
Statistics
Matches: 58, Mismatches: 2, Indels: 19
0.73 0.03 0.24
Matches are distributed among these distances:
21 6 0.10
22 11 0.19
23 20 0.34
24 13 0.22
25 6 0.10
26 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (23 bp):
TATATTATATATATTATATTATT
Found at i:60941499 original size:20 final size:19
Alignment explanation
Indices: 60941460--60941501 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
60941450 ATATATTGCA
* *
60941460 TATTAAATACTATTTTTAT
1 TATTAAATACCATGTTTAT
60941479 TATTAAATACCATAGTTTAT
1 TATTAAATACCAT-GTTTAT
60941499 TAT
1 TAT
60941502 ACGAATATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTAAATACCATGTTTAT
Found at i:60943004 original size:3 final size:3
Alignment explanation
Indices: 60942987--60943058 Score: 63
Period size: 3 Copynumber: 24.0 Consensus size: 3
60942977 CAAAACACAA
* * * * * *
60942987 AAT AAT AAC ATT AAT AAT AAT AAT AAT AAT AAT AAT GAT GAT GAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
60943035 GAT AAG AAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
60943059 GTGGTCACAA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:60947865 original size:20 final size:20
Alignment explanation
Indices: 60947840--60947889 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
60947830 AGTCCTCAAG
*
60947840 GTATCGGTAGCACTTTGGTT
1 GTATCGGTAGCACTTTAGTT
*
60947860 GTATCGGTAACACTTTAGTT
1 GTATCGGTAGCACTTTAGTT
60947880 GTATCGGTAG
1 GTATCGGTAG
60947890 ATCGAACCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (20 bp):
GTATCGGTAGCACTTTAGTT
Found at i:60948873 original size:10 final size:10
Alignment explanation
Indices: 60948856--60948885 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
60948846 AAAACTGTTG
60948856 TATATTGTAT
1 TATATTGTAT
*
60948866 TGTATTGTAT
1 TATATTGTAT
60948876 TATATTGTAT
1 TATATTGTAT
60948886 GCATCTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (10 bp):
TATATTGTAT
Found at i:60950959 original size:25 final size:24
Alignment explanation
Indices: 60950912--60951133 Score: 199
Period size: 23 Copynumber: 9.2 Consensus size: 24
60950902 TATTATTATC
*
60950912 ATTTCTAATATATA-TATCGTATAT
1 ATTTTTAATATATATTAT-GTATAT
*
60950936 GTTTTT-ATATATATTATGTATAT
1 ATTTTTAATATATATTATGTATAT
60950959 ATTTTTAATAT-TATTA-GTTATAT
1 ATTTTTAATATATATTATG-TATAT
* *
60950982 ATTTTTTAT-TCTATTTCATGTATAT
1 ATTTTTAATATATA-TT-ATGTATAT
*
60951007 ATTTTT-ATATTATCTTATGTATAT
1 ATTTTTAATA-TATATTATGTATAT
*
60951031 ATTTTTTTAATAACTATATTATGTATTT
1 A--TTTTTAAT-A-TATATTATGTATAT
* *
60951059 ATTTTTAACACTATATTATGTACAT
1 ATTTTTAATA-TATATTATGTATAT
* *
60951084 ACTTTTAATAT-TATTATGTATTT
1 ATTTTTAATATATATTATGTATAT
*
60951107 ATGTTTAATATATA-TATGTATAT
1 ATTTTTAATATATATTATGTATAT
60951130 ATTT
1 ATTT
60951134 ATGTAGTATT
Statistics
Matches: 164, Mismatches: 20, Indels: 29
0.77 0.09 0.14
Matches are distributed among these distances:
22 2 0.01
23 68 0.41
24 27 0.16
25 36 0.22
26 15 0.09
27 2 0.01
28 14 0.09
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
ATTTTTAATATATATTATGTATAT
Found at i:60951012 original size:26 final size:24
Alignment explanation
Indices: 60950931--60951039 Score: 93
Period size: 24 Copynumber: 4.5 Consensus size: 24
60950921 ATATATATCG
* *
60950931 TATATGTTTTTATATATATTATGTA
1 TATATTTTTTTAT-TATCTTATGTA
*
60950956 TATATTTTTAATATTA--TTA-GT-
1 TATATTTTT-TTATTATCTTATGTA
60950977 TATATATTTTTTATTCTAT-TTCATGTA
1 TATAT-TTTTTTA-T-TATCTT-ATGTA
*
60951004 TATATTTTTATATTATCTTATGTA
1 TATATTTTTTTATTATCTTATGTA
60951028 TATATTTTTTTA
1 TATATTTTTTTA
60951040 ATAACTATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 19
0.74 0.05 0.20
Matches are distributed among these distances:
21 7 0.10
22 7 0.10
23 5 0.07
24 21 0.30
25 14 0.20
26 11 0.16
27 5 0.07
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (24 bp):
TATATTTTTTTATTATCTTATGTA
Found at i:60951261 original size:32 final size:31
Alignment explanation
Indices: 60951208--60951271 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 31
60951198 CTGTATTATT
* * *
60951208 TATATATTTTTTCTTACATATTATCTTATGTA
1 TATATATATTTTCTAACATATTAT-GTATGTA
60951240 TATATATATTTT-TAACTATATTATGTATGTA
1 TATATATATTTTCTAAC-ATATTATGTATGTA
60951271 T
1 T
60951272 TTTTAACGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.36
32 18 0.64
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (31 bp):
TATATATATTTTCTAACATATTATGTATGTA
Found at i:60951276 original size:23 final size:24
Alignment explanation
Indices: 60951246--60951291 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
60951236 TGTATATATA
60951246 TATTTTTAA-CTATATTATGTATG
1 TATTTTTAACCTATATTATGTATG
60951269 TATTTTTAACGCTATATTATGTA
1 TATTTTTAAC-CTATATTATGTA
60951292 CACTTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (24 bp):
TATTTTTAACCTATATTATGTATG
Found at i:60951308 original size:25 final size:26
Alignment explanation
Indices: 60951254--60951308 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
60951244 TATATTTTTA
**
60951254 ACTATATTATGTATGTATTTTTAACG
1 ACTATATTATGTAACTATTTTTAACG
60951280 -CTATATTATGTACACT-TTTTTAA-G
1 ACTATATTATGTA-ACTATTTTTAACG
60951304 ACTAT
1 ACTAT
60951309 GTATATACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 1 0.04
25 23 0.92
26 1 0.04
ACGTcount: A:0.31, C:0.11, G:0.09, T:0.49
Consensus pattern (26 bp):
ACTATATTATGTAACTATTTTTAACG
Found at i:60980265 original size:33 final size:33
Alignment explanation
Indices: 60980228--60980291 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
60980218 ACAAAAAAAA
* * *
60980228 TTATTGTTTTCTTGCTT-TTTTTTTACTATTTGG
1 TTATTATTTTCTTG-TTATTTTCTCACTATTTGG
60980261 TTATTATTTTCTTGTTATTTTCTCACTATTT
1 TTATTATTTTCTTGTTATTTTCTCACTATTT
60980292 TACTACTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.12, C:0.11, G:0.08, T:0.69
Consensus pattern (33 bp):
TTATTATTTTCTTGTTATTTTCTCACTATTTGG
Found at i:60980311 original size:15 final size:14
Alignment explanation
Indices: 60980291--60980322 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
60980281 TCTCACTATT
60980291 TTACTACTATTTCTG
1 TTACTACTATTT-TG
60980306 TTACTACTATTTTG
1 TTACTACTATTTTG
60980320 TTA
1 TTA
60980323 TTATCGTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.56
Consensus pattern (14 bp):
TTACTACTATTTTG
Found at i:60981004 original size:27 final size:27
Alignment explanation
Indices: 60980968--60981028 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 27
60980958 TTATACAGGA
60980968 TAAAATATTTCATAAATTTATAT-ACTA-T
1 TAAAA-ATTTCA-AAATTTA-ATCACTATT
*
60980996 TAAAAATTTTAAAATTTAATCACTATT
1 TAAAAATTTCAAAATTTAATCACTATT
60981023 TAAAAA
1 TAAAAA
60981029 ATAATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 2 0.07
26 11 0.37
27 12 0.40
28 5 0.17
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAAAATTTCAAAATTTAATCACTATT
Found at i:60982747 original size:60 final size:61
Alignment explanation
Indices: 60982671--60982795 Score: 162
Period size: 60 Copynumber: 2.1 Consensus size: 61
60982661 AATTTCAAAG
* * * * **
60982671 TTAGGACTAAATTGAAAGATTTTGTAAATGTTGAGGGCTAAATTTATTGAAATT-TTATAA
1 TTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTGAAATTCTTATAA
* * *
60982731 TTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTGTTGAATTTCTTATAT
1 TTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTGAAATTCTTATAA
60982792 TTAG
1 TTAG
60982796 GATCAAATTG
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
60 46 0.84
61 9 0.16
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (61 bp):
TTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTGAAATTCTTATAA
Found at i:60989059 original size:46 final size:46
Alignment explanation
Indices: 60988987--60989076 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
60988977 CCTTAGTTTT
* * * **
60988987 GAATAAGTTGTGCTTTAGGAACAACTTATTCGTATGAATAAGTTCC
1 GAATAAGTTGTGCTTAACGAACAACTTACTCGTACAAATAAGTTCC
*
60989033 GAATAAGTTGATGCTTAACG-AGAACTTACTCGTACAAATAAGTT
1 GAATAAGTTG-TGCTTAACGAACAACTTACTCGTACAAATAAGTT
60989077 TCCATGATAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 30 0.81
47 7 0.19
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (46 bp):
GAATAAGTTGTGCTTAACGAACAACTTACTCGTACAAATAAGTTCC
Found at i:61001266 original size:21 final size:19
Alignment explanation
Indices: 61001221--61001267 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
61001211 TCAAGTGATT
61001221 TAAAAATTTATAAAAAAGA
1 TAAAAATTTATAAAAAAGA
*
61001240 TTAAAATATATATAAAAATAGA
1 -TAAAA-ATTTATAAAAA-AGA
61001262 -AAAAAT
1 TAAAAAT
61001268 CAATTTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 9 0.38
21 10 0.42
22 3 0.12
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (19 bp):
TAAAAATTTATAAAAAAGA
Found at i:61002827 original size:32 final size:33
Alignment explanation
Indices: 61002782--61002845 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
61002772 GAATTATAAA
* *
61002782 TTTTACAAGGGTCAAATAGCAGTTTTACCAATC
1 TTTTACAAAGGTCAAATAGCAATTTTACCAATC
*
61002815 TTTTA-AAAGGTCATATAGCAATTTTACCAAT
1 TTTTACAAAGGTCAAATAGCAATTTTACCAAT
61002846 AATGGAATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (33 bp):
TTTTACAAAGGTCAAATAGCAATTTTACCAATC
Found at i:61007167 original size:29 final size:29
Alignment explanation
Indices: 61007125--61007180 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
61007115 GTATTGGGAC
61007125 TGATGCATTTGATTATGATTTGCGTTTAT
1 TGATGCATTTGATTATGATTTGCGTTTAT
61007154 TGATGCATTTGATTATGATTTGCGTTT
1 TGATGCATTTGATTATGATTTGCGTTT
61007181 GTTCTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.20, C:0.07, G:0.21, T:0.52
Consensus pattern (29 bp):
TGATGCATTTGATTATGATTTGCGTTTAT
Found at i:61009869 original size:15 final size:15
Alignment explanation
Indices: 61009845--61009878 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
61009835 AACAATTACG
* *
61009845 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
61009860 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
61009875 ATAA
1 ATAA
61009879 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:61011002 original size:6 final size:6
Alignment explanation
Indices: 61010975--61011005 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
61010965 AAAGATAAAA
61010975 AAAAT- AAAATG AAAATG AAAATG AAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AA
61011006 TAGAGACCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:61011786 original size:40 final size:42
Alignment explanation
Indices: 61011739--61011850 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 42
61011729 TGTGTTTTTA
*
61011739 GTCTGCTCCACTACTTCTTAGGGAGATAAGA-CT-TGATGT-
1 GTCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGATGTC
* *
61011778 GATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTC
1 G-TCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGATGTC
* *
61011821 GTCTGCTCCGCTACTGCTTAGGGAGATAAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAG
61011851 CCTGTAATCT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 29 0.45
41 2 0.03
42 31 0.48
43 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
GTCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGATGTC
Found at i:61012015 original size:46 final size:46
Alignment explanation
Indices: 61011962--61012155 Score: 141
Period size: 46 Copynumber: 4.3 Consensus size: 46
61011952 ATCTGCTTCT
61011962 CTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCA
* * *** * **
61012008 CTGCCAAATACAGGGA-G-ATAGAGT-TATCGGCTTCAATGTGCTCCA
1 CTGCCAAATACAGGAAGGCA-AGA-TCTGTAATCTTCAATCTATTCCA
* * * * * ** * * *
61012053 CTG--TAGT-CAGGGAGGTAAAATCTGCCATCATCAATCTGCTT-CT
1 CTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCT-ATTCCA
*
61012096 CTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAGTCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCA
61012142 CTGCCAAATACAGG
1 CTGCCAAATACAGG
61012156 GAGATAGAGT
Statistics
Matches: 107, Mismatches: 31, Indels: 20
0.68 0.20 0.13
Matches are distributed among these distances:
42 7 0.07
43 18 0.17
44 3 0.03
45 25 0.23
46 54 0.50
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCA
Found at i:61012092 original size:134 final size:135
Alignment explanation
Indices: 61011900--61012223 Score: 555
Period size: 134 Copynumber: 2.4 Consensus size: 135
61011890 TAAGATTACT
* * *
61011900 GGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGGCAT-ATTCGATCTGCTTCTCT
1 GGCTTCAATGTACTCCACTGT-A-GTCAGGGAGGTAAAATCTGCCATCATTCAATCTGCTTCTCT
61011964 GCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
64 GCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAG
61012029 AGTTATC
129 AGTTATC
*
61012036 GGCTTCAATGTGCTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCA-TCAATCTGCTTCTCTGC
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATTCAATCTGCTTCTCTGC
*
61012100 CAAATACAGGAAGGCAAGATCTGTAATCTTCAGTCTATTCCACTGCCAAATACAGGGAGATAGAG
66 CAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAG
61012165 TTATC
131 TTATC
*
61012170 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATC-TTCGATCT
1 GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATTCAATCT
61012224 TCAATCTATT
Statistics
Matches: 179, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
134 157 0.88
135 2 0.01
136 20 0.11
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (135 bp):
GGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATTCAATCTGCTTCTCTGC
CAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAG
TTATC
Found at i:61012357 original size:97 final size:95
Alignment explanation
Indices: 61012125--61012415 Score: 519
Period size: 95 Copynumber: 3.0 Consensus size: 95
61012115 AAGATCTGTA
*
61012125 ATCTTCAGTCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
61012190 TAGTCAGGGAGGTAAAATCTGCCATCTTCG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
*
61012220 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTA
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
61012285 TAGTCACATGGAGGTAAAATCTGCCATCTTTG
66 TAGT--CAGGGAGGTAAAATCTGCCATCTTTG
*
61012317 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
61012382 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
61012412 ATCT
1 ATCT
61012416 GCTTCGCTGC
Statistics
Matches: 187, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
95 96 0.51
97 91 0.49
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:61012531 original size:86 final size:87
Alignment explanation
Indices: 61012406--61012582 Score: 284
Period size: 86 Copynumber: 2.0 Consensus size: 87
61012396 AAATCTGCCA
* *
61012406 TCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATATTCAACCTGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATATTCAACCAGCTCTGCTA
61012471 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
* * * * *
61012493 TCTTCGATCTGCTTCGCTGTC-AATGCAGGAAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATATTCAACCAGCTCTGCTA
61012557 CAAACGAGAGAGGCAAGGTTTG
66 CAAACGAGAGAGGCAAGGTTTG
61012579 TCTT
1 TCTT
61012583 TGATTTTTAC
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 64 0.77
87 19 0.23
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (87 bp):
TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATATTCAACCAGCTCTGCTA
CAAACGAGAGAGGCAAGGTTTG
Found at i:61012573 original size:44 final size:43
Alignment explanation
Indices: 61012437--61012578 Score: 114
Period size: 44 Copynumber: 3.3 Consensus size: 43
61012427 AAATACAGGA
* *
61012437 AGGCAAGATCTGCAATATTCAACCTGCTCTGCTACAAACGAGAG
1 AGGCAAGATTTGC-ATCTTCAACCTGCTCTGCTACAAACGAGAG
* * * * *
61012481 AGGCAAGGTTTG--TCTTCGATCTGCT-TCGCTGTC-AATGCAG-G
1 AGGCAAGATTTGCATCTTCAACCTGCTCT-GCT-ACAAACG-AGAG
*
61012522 AAGGCAAGATTTGCTATCTTCAACCAGCTCTGCTACAAACGAGAG
1 -AGGCAAGATTTGC-ATCTTCAACCTGCTCTGCTACAAACGAGAG
*
61012567 AGGCAAGGTTTG
1 AGGCAAGATTTG
61012579 TCTTTGATTT
Statistics
Matches: 74, Mismatches: 14, Indels: 20
0.69 0.13 0.19
Matches are distributed among these distances:
40 1 0.01
41 17 0.23
42 14 0.19
44 24 0.32
45 17 0.23
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (43 bp):
AGGCAAGATTTGCATCTTCAACCTGCTCTGCTACAAACGAGAG
Found at i:61018668 original size:15 final size:15
Alignment explanation
Indices: 61018644--61018677 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
61018634 AACAATTACG
* *
61018644 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
61018659 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
61018674 ATAA
1 ATAA
61018678 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:61021733 original size:18 final size:19
Alignment explanation
Indices: 61021710--61021748 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
61021700 TAATACTAAT
61021710 TAAATAATAATAA-GAAAA
1 TAAATAATAATAATGAAAA
61021728 TAAATAATAATAATGAAAA
1 TAAATAATAATAATGAAAA
61021747 TA
1 TA
61021749 TTAAGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (19 bp):
TAAATAATAATAATGAAAA
Found at i:61023020 original size:21 final size:21
Alignment explanation
Indices: 61022996--61023035 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61022986 GCCATGTACT
*
61022996 TCAGTCACACAGACGTGTCTC
1 TCAGCCACACAGACGTGTCTC
* *
61023017 TCAGCCACACGGCCGTGTC
1 TCAGCCACACAGACGTGTC
61023036 CCTTTGCCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.38, G:0.23, T:0.20
Consensus pattern (21 bp):
TCAGCCACACAGACGTGTCTC
Found at i:61026334 original size:24 final size:23
Alignment explanation
Indices: 61026307--61026351 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
61026297 TTTTAATACA
*
61026307 ATCAAATTTGTATTATTAATTTAT
1 ATCAAATTTGTA-TATAAATTTAT
61026331 ATCAAATTTGTATATAAATTT
1 ATCAAATTTGTATATAAATTT
61026352 TGATTTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
ATCAAATTTGTATATAAATTTAT
Found at i:61028490 original size:444 final size:444
Alignment explanation
Indices: 61027661--61028553 Score: 1786
Period size: 444 Copynumber: 2.0 Consensus size: 444
61027651 ATTATTTTTT
61027661 AAATTCCTTTTTCCTTTTATACTAATATATTAAAGGGATATGTTCATTTATGATGGAATATTAGT
1 AAATTCCTTTTTCCTTTTATACTAATATATTAAAGGGATATGTTCATTTATGATGGAATATTAGT
61027726 AATACTCCAATATTTAATATCAAGGGGTGGACCTTATGAGTAAAGATGTAGGAACCGCTAAATGT
66 AATACTCCAATATTTAATATCAAGGGGTGGACCTTATGAGTAAAGATGTAGGAACCGCTAAATGT
61027791 ACATAAATTTAAGCATAAACAATTGCATGACATCAACTTATGATGTGAAATAAATAATAGAAACT
131 ACATAAATTTAAGCATAAACAATTGCATGACATCAACTTATGATGTGAAATAAATAATAGAAACT
61027856 TTAATATGGACATAGTTGGTAACTCCTACTGCCCCTATCATTCAATTACCTTTCATTACCCTAGA
196 TTAATATGGACATAGTTGGTAACTCCTACTGCCCCTATCATTCAATTACCTTTCATTACCCTAGA
61027921 AGTAGTATTAAAAGTAGGCAATTTTTTTACTTAGTCCTCCATTTTTTTCCCCGCTTTTTATAACT
261 AGTAGTATTAAAAGTAGGCAATTTTTTTACTTAGTCCTCCATTTTTTTCCCCGCTTTTTATAACT
61027986 CTTAAATTTATATTGCTTTTTAAATCAAAATTAATACTTGTTACCATTACTGACATGACATACAT
326 CTTAAATTTATATTGCTTTTTAAATCAAAATTAATACTTGTTACCATTACTGACATGACATACAT
61028051 AAGAATTGCCATGTGGATGTCATGCCAGCAGCCAATTAATTTTTTAAATTTTCA
391 AAGAATTGCCATGTGGATGTCATGCCAGCAGCCAATTAATTTTTTAAATTTTCA
61028105 AAATTCCTTTTTCCTTTTATACTAATATATTAAAGGGATATGTTCATTTATGATGGAATATTAGT
1 AAATTCCTTTTTCCTTTTATACTAATATATTAAAGGGATATGTTCATTTATGATGGAATATTAGT
61028170 AATACTCCAATATTTAATATCAAGGGGTGGACCTTATGAGTAAAGATGTAGGAACCGCTAAATGT
66 AATACTCCAATATTTAATATCAAGGGGTGGACCTTATGAGTAAAGATGTAGGAACCGCTAAATGT
61028235 ACATAAATTTAAGCATAAACAATTGCATGACATCAACTTATGATGTGAAATAAATAATAGAAACT
131 ACATAAATTTAAGCATAAACAATTGCATGACATCAACTTATGATGTGAAATAAATAATAGAAACT
61028300 TTAATATGGACATAGTTGGTAACTCCTACTGCCCCTATCATTCAATTACCTTTCATTACCCTAGA
196 TTAATATGGACATAGTTGGTAACTCCTACTGCCCCTATCATTCAATTACCTTTCATTACCCTAGA
61028365 AGTAGTATTAAAAGTAGGCAATTTTTTTACTTAGTCCTCCATTTTTTTCCCCGCTTTTTATAACT
261 AGTAGTATTAAAAGTAGGCAATTTTTTTACTTAGTCCTCCATTTTTTTCCCCGCTTTTTATAACT
61028430 CTTAAATTTATATTGCTTTTTAAATCAAAATTAATACTTGTTACCATTACTGACATGACATACAT
326 CTTAAATTTATATTGCTTTTTAAATCAAAATTAATACTTGTTACCATTACTGACATGACATACAT
61028495 AAGAATTGCCATGTGGATGTCATGCCAGCAGCCAATTAATTTTTTAAATTTTCA
391 AAGAATTGCCATGTGGATGTCATGCCAGCAGCCAATTAATTTTTTAAATTTTCA
61028549 AAATT
1 AAATT
61028554 TATTAAAAAT
Statistics
Matches: 449, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
444 449 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (444 bp):
AAATTCCTTTTTCCTTTTATACTAATATATTAAAGGGATATGTTCATTTATGATGGAATATTAGT
AATACTCCAATATTTAATATCAAGGGGTGGACCTTATGAGTAAAGATGTAGGAACCGCTAAATGT
ACATAAATTTAAGCATAAACAATTGCATGACATCAACTTATGATGTGAAATAAATAATAGAAACT
TTAATATGGACATAGTTGGTAACTCCTACTGCCCCTATCATTCAATTACCTTTCATTACCCTAGA
AGTAGTATTAAAAGTAGGCAATTTTTTTACTTAGTCCTCCATTTTTTTCCCCGCTTTTTATAACT
CTTAAATTTATATTGCTTTTTAAATCAAAATTAATACTTGTTACCATTACTGACATGACATACAT
AAGAATTGCCATGTGGATGTCATGCCAGCAGCCAATTAATTTTTTAAATTTTCA
Found at i:61031158 original size:21 final size:20
Alignment explanation
Indices: 61031132--61031177 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
61031122 AAATGGATAA
* *
61031132 TTAATTAATTATTTATTTTAT
1 TTAATTAAATAGTTA-TTTAT
61031153 TTAATTAAATAGTTATTTAT
1 TTAATTAAATAGTTATTTAT
61031173 TTAAT
1 TTAAT
61031178 GGATGACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TTAATTAAATAGTTATTTAT
Found at i:61032491 original size:15 final size:15
Alignment explanation
Indices: 61032471--61032520 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
61032461 TTTATATATT
61032471 TTAATATTTTAAATA
1 TTAATATTTTAAATA
61032486 TTAATA--TT-AATA
1 TTAATATTTTAAATA
*
61032498 TTAATATTTGAAATA
1 TTAATATTTTAAATA
*
61032513 ATAATATT
1 TTAATATT
61032521 CTTTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 10 0.33
13 2 0.07
14 1 0.03
15 17 0.57
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (15 bp):
TTAATATTTTAAATA
Found at i:61033045 original size:27 final size:27
Alignment explanation
Indices: 61033007--61033060 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
61032997 AACTAAAATG
*
61033007 ACCGATTGAATCTTAATTTGATTGGCA
1 ACCGATTGAATCTTAATTTGACTGGCA
*
61033034 ACCGGTTGAATCTTAATTTGACTGGCA
1 ACCGATTGAATCTTAATTTGACTGGCA
61033061 TTGATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (27 bp):
ACCGATTGAATCTTAATTTGACTGGCA
Found at i:61033700 original size:18 final size:18
Alignment explanation
Indices: 61033673--61033707 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61033663 ATTATAAACG
*
61033673 TAAATTACAAATTGTATA
1 TAAATAACAAATTGTATA
*
61033691 TAAATAACAATTTGTAT
1 TAAATAACAAATTGTAT
61033708 CAATTGTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.40
Consensus pattern (18 bp):
TAAATAACAAATTGTATA
Found at i:61034326 original size:56 final size:54
Alignment explanation
Indices: 61034252--61034355 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
61034242 TTCATAAAAT
* * *
61034252 AATTAATATGAAAAATAATTTTGAATATGATTTACTTTTTACATAAATATTATTAA
1 AATTAATATGAAAAATAATTTT-AA-ATAATTTACGTTTGACATAAATATTATTAA
*
61034308 AATTAATAAT-AATAATAATTTTAAATAATTTACGTTTGACATAAATAT
1 AATTAAT-ATGAAAAATAATTTTAAATAATTTACGTTTGACATAAATAT
61034356 GATTTAATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
54 21 0.49
55 2 0.05
56 18 0.42
57 2 0.05
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (54 bp):
AATTAATATGAAAAATAATTTTAAATAATTTACGTTTGACATAAATATTATTAA
Found at i:61040239 original size:36 final size:36
Alignment explanation
Indices: 61040199--61040267 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
61040189 ATATGTAGAT
*
61040199 ATATATAGATGTATATGT-AAGTTGTAAAATATAGGA
1 ATATATAGATGTATATGTGAA-TTATAAAATATAGGA
*
61040235 ATATATATATGTATATGTGAATTATAAAATATA
1 ATATATAGATGTATATGTGAATTATAAAATATA
61040268 AAAGATATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 28 0.93
37 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.14, T:0.39
Consensus pattern (36 bp):
ATATATAGATGTATATGTGAATTATAAAATATAGGA
Found at i:61040375 original size:20 final size:20
Alignment explanation
Indices: 61040350--61040388 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
61040340 TGAAAACAAA
61040350 ATATGTATATAGATATATAG
1 ATATGTATATAGATATATAG
*
61040370 ATATGTATATATATATATA
1 ATATGTATATAGATATATA
61040389 ATTAGATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
ATATGTATATAGATATATAG
Found at i:61049863 original size:37 final size:37
Alignment explanation
Indices: 61049815--61049892 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
61049805 CTGAATGCAC
* *
61049815 ATATTCACTTATACCCACCTATGCCGAATGCATACAT
1 ATATGCACTTATACCCACCTATGCCGAATGCATACAA
* * *
61049852 ATATGCACTTATATCTATCTATGCCGAATGCATACAA
1 ATATGCACTTATACCCACCTATGCCGAATGCATACAA
61049889 ATAT
1 ATAT
61049893 ATATTCACCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.32
Consensus pattern (37 bp):
ATATGCACTTATACCCACCTATGCCGAATGCATACAA
Found at i:61049896 original size:31 final size:35
Alignment explanation
Indices: 61049813--61049913 Score: 97
Period size: 37 Copynumber: 2.9 Consensus size: 35
61049803 GGCTGAATGC
**
61049813 ACATAT-TCACTTATACCCACCTATGCCGAATGCAT
1 ACATATATCAC-TATATTCACCTATGCCGAATGCAT
*
61049848 ACATATATGCACT-TATATCTATCTATGCCGAATGCAT
1 ACATATAT-CACTATAT-TC-ACCTATGCCGAATGCAT
61049885 ACA-A-AT-A-TATATTCACCTATGCCGAATGC
1 ACATATATCACTATATTCACCTATGCCGAATGC
61049914 CTAAATATGC
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
31 14 0.25
32 3 0.05
33 4 0.07
35 10 0.18
36 4 0.07
37 22 0.39
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.31
Consensus pattern (35 bp):
ACATATATCACTATATTCACCTATGCCGAATGCAT
Found at i:61050273 original size:41 final size:41
Alignment explanation
Indices: 61050110--61050279 Score: 277
Period size: 41 Copynumber: 4.1 Consensus size: 41
61050100 TCATATTCGG
* *
61050110 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
* *
61050151 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAT
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
*
61050192 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
*
61050233 ATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAA
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
*
61050274 TTCACC
1 ATCACC
61050280 AATTCCAGAC
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 120 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (41 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAA
Found at i:61050279 original size:82 final size:82
Alignment explanation
Indices: 61050110--61050272 Score: 317
Period size: 82 Copynumber: 2.0 Consensus size: 82
61050100 TCATATTCGG
*
61050110 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
61050175 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
61050192 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
61050257 TTTATAACCTGATTCA
66 TTTATAACCTGATTCA
61050273 ATTCACCAAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 80 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAAATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:61059515 original size:106 final size:106
Alignment explanation
Indices: 61059355--61059554 Score: 276
Period size: 106 Copynumber: 1.9 Consensus size: 106
61059345 CCCATATTTT
* * *
61059355 AAATTCGAGACGTCATGCCCTAACTTACGGGGAATGGTTTGCTTCCCGATTAACTCGAAATACAA
1 AAATTCGAGACATCATGCCCTAACTTACGGAGAATGATTTGCTTCCCGATTAACTCGAAATACAA
*
61059420 AGACATTCTACATAAAATTTGATTTAATTTCTTATTTTTGG
66 AGACATTCTACATAAAATTTAATTTAATTTCTTATTTTTGG
** * *
61059461 AAATTCGAGACATTGTGCCCTAACTTAC-GAGACATGATTTTCTTCCCGATTAACTTGAAATACA
1 AAATTCGAGACATCATGCCCTAACTTACGGAGA-ATGATTTGCTTCCCGATTAACTCGAAATACA
** * *
61059525 AAGGTATTTTTCATAAAATTTAATTTAATT
65 AAGACATTCTACATAAAATTTAATTTAATT
61059555 AGTGATATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 3 0.04
106 78 0.96
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (106 bp):
AAATTCGAGACATCATGCCCTAACTTACGGAGAATGATTTGCTTCCCGATTAACTCGAAATACAA
AGACATTCTACATAAAATTTAATTTAATTTCTTATTTTTGG
Found at i:61070283 original size:44 final size:45
Alignment explanation
Indices: 61070186--61070630 Score: 174
Period size: 44 Copynumber: 9.8 Consensus size: 45
61070176 TGAATCTTAT
* * * ** *
61070186 CTCCCTGAAGTTGCAGTAGAGCAAATTAAATATACGAAT-CT-TA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACTATA
*
61070229 TCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACTATA
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACTATA
** * * * *
61070275 C-CCCTGAAGTTGCAACGG-GTCGGATTAAATCCACCATAGCGA-ACCT-TA
1 CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCTA-CA-A---ATA-CTATA
* *
61070323 TCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACGAACAT-C-AT-
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AA-ATACTATA
* * *
61070368 CTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAAATCCTATA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACTATA
* ** * *
61070413 C-CCCTAAAGTTGCAGTGG-GTTGGATT-AATTCCACCACAGCGA-ACGT-TA
1 CTCCCTGAAGTTGCAGTGGAG-CAGATTGAA-GCTA-CA-A---ATAC-TATA
* * * ** * *
61070461 TCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTATGAA-CCTCCT-
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACT-ATA
* *
61070506 CTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT-CT-TA
1 CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACTATA
* ** * * *
61070549 TCTCCCTGAAGTTGCAATAAAACAGATTGAAGCTACAATTCCTATA
1 -CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACTATA
* * *
61070595 C-CCCTAAAGTTGCAGTAG-GCTAGAATGAAGCTACAA
1 CTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGCTACAA
61070631 CAACAAATCT
Statistics
Matches: 301, Mismatches: 62, Indels: 76
0.69 0.14 0.17
Matches are distributed among these distances:
42 3 0.01
43 8 0.03
44 204 0.68
45 13 0.04
46 9 0.03
47 1 0.00
48 7 0.02
49 9 0.03
50 43 0.14
51 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (45 bp):
CTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATACTATA
Found at i:61070380 original size:138 final size:137
Alignment explanation
Indices: 61070127--61070566 Score: 587
Period size: 138 Copynumber: 3.2 Consensus size: 137
61070117 GTGAAACCAT
* * * *
61070127 AAATCCTATACCCCTGAAGTTGCAGTGGGTCGAATTAAAGT-CACCATAGTGAATCTTATCTCCC
1 AAATCCTATACCCCTGAAGTTGCAATGGGTCGGATTAAA-TCCACCATAGCGAACCTTATCTCCC
** * *
61070191 TGAAGTTGCAGTAGAGCAAATTAAATATACGAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGAT
65 TGAAGTTGCAGTAGAGCAAATTAAAGCTACGAA-CTCATCTCCCTGAAGTTGCAGTGGAGCAGAT
61070256 TGAAGCTAC
129 TGAAGCTAC
* * *
61070265 AAATACTATACCCCTGAAGTTGCAACGGGTCGGATTAAATCCACCATAGCGAACCTTATCTTCCT
1 AAATCCTATACCCCTGAAGTTGCAATGGGTCGGATTAAATCCACCATAGCGAACCTTATCTCCCT
* * *
61070330 GAAGTTGCAGTAGAGCAGATTGAAGCTACGAACATCATCTCCCTGAAGTTGCAGTGGAGTAGATT
66 GAAGTTGCAGTAGAGCAAATTAAAGCTACGAAC-TCATCTCCCTGAAGTTGCAGTGGAGCAGATT
*
61070395 GAAGTTAC
130 GAAGCTAC
* * * * * *
61070403 AAATCCTATACCCCTAAAGTTGCAGTGGGTTGGATTAATTCCACCACAGCGAACGTTATCTCCCT
1 AAATCCTATACCCCTGAAGTTGCAATGGGTCGGATTAAATCCACCATAGCGAACCTTATCTCCCT
* * * *
61070468 GAAGTTGCAGTAGAGCAAATTAAAGCTATGAACCTCCTCTTCCTAAAGTTGCAGTGGAGCAGATT
66 GAAGTTGCAGTAGAGCAAATTAAAGCTACGAA-CTCATCTCCCTGAAGTTGCAGTGGAGCAGATT
61070533 GAAGCTAC
130 GAAGCTAC
*
61070541 AAATCTTAT-CTCCCTGAAGTTGCAAT
1 AAATCCTATAC-CCCTGAAGTTGCAAT
61070567 AAAACAGATT
Statistics
Matches: 263, Mismatches: 35, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
137 3 0.01
138 259 0.98
139 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (137 bp):
AAATCCTATACCCCTGAAGTTGCAATGGGTCGGATTAAATCCACCATAGCGAACCTTATCTCCCT
GAAGTTGCAGTAGAGCAAATTAAAGCTACGAACTCATCTCCCTGAAGTTGCAGTGGAGCAGATTG
AAGCTAC
Found at i:61070646 original size:182 final size:182
Alignment explanation
Indices: 61070323--61070664 Score: 440
Period size: 182 Copynumber: 1.9 Consensus size: 182
61070313 GCGAACCTTA
* * **
61070323 TCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACGAACATCATCTCCCTGAAGTTGCAGTGGA
1 TCTTCCTAAAGTTGCAGTAGAGCAGATTGAAGCTACGAACATCATCTCCCTGAAGTTGCAATAAA
** * * * * * * * *
61070388 GTAGATTGAAGTTACAAATCCTATACCCCTAAAGTTGCAGTGGGTTGGATTAATTCCACCACAGC
66 ACAGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGCTAGAATGAATGCCACAACAAC
* *
61070453 GAACGTTATCTCCCTGAAGTTGCAGTAGAGCAAATTAAAGCTATGAACCTCC
131 AAACGTTATCTCCCTGAAGTTGCAATAGAGCAAATTAAAGCTATGAACCTCC
*
61070505 TCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAC-AA-ATCTTATCTCCCTGAAGTTGCAATA
1 TCTTCCTAAAGTTGCAGTAGAGCAGATTGAAGCTACGAACATC--ATCTCCCTGAAGTTGCAATA
* *
61070568 AAACAGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGTAGGCTAGAATGAA-GCTACAAC
64 AAACAGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT-GGCTAGAATGAATGCCACAAC
*
61070632 AACAAATC-TTATCTCCTTGAAGTTGCAATAGAG
128 AACAAA-CGTTATCTCCCTGAAGTTGCAATAGAG
61070665 TAAGATGAAG
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
180 3 0.02
181 2 0.01
182 122 0.90
183 9 0.07
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (182 bp):
TCTTCCTAAAGTTGCAGTAGAGCAGATTGAAGCTACGAACATCATCTCCCTGAAGTTGCAATAAA
ACAGATTGAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGGCTAGAATGAATGCCACAACAAC
AAACGTTATCTCCCTGAAGTTGCAATAGAGCAAATTAAAGCTATGAACCTCC
Found at i:61072660 original size:106 final size:106
Alignment explanation
Indices: 61072475--61072687 Score: 327
Period size: 106 Copynumber: 2.0 Consensus size: 106
61072465 AAAATGAGCA
* * *
61072475 TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTATGAGGCATGATTTTCTTCCCTATTA
1 TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTA
* * *
61072540 ACTCGAAATACAAAGACATTCTGCATAAAATTTGATTTAAT
66 ACTCAAAACACAAAGACATTCTGCATAAAATTCGATTTAAT
* *
61072581 TTCTTATTTTTGGGAATTCGAGACATCGTGCCCTAACTTACGAGACATGATTTTCTTCTCGATTA
1 TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTA
* * *
61072646 ACTCAAAACACAAAGGCATTTTTCATAAAATTCGATTTAAT
66 ACTCAAAACACAAAGACATTCTGCATAAAATTCGATTTAAT
61072687 T
1 T
61072688 AGCGATATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 96 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (106 bp):
TTCTTATTTTTGGGAATTCGAGACATCATGCCCTAACTTACGAGACATGATTTTCTTCCCGATTA
ACTCAAAACACAAAGACATTCTGCATAAAATTCGATTTAAT
Found at i:61076569 original size:20 final size:20
Alignment explanation
Indices: 61076544--61076593 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
61076534 TGTTTGTATC
61076544 TAAAATTTTAGTAAATA-AAT
1 TAAAATTTTA-TAAATATAAT
**
61076564 TAAAATCGTATAAATATAAT
1 TAAAATTTTATAAATATAAT
*
61076584 TTAAATTTTA
1 TAAAATTTTA
61076594 AATAATATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
TAAAATTTTATAAATATAAT
Found at i:61083887 original size:20 final size:20
Alignment explanation
Indices: 61083851--61083889 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
61083841 TAGTTAATTA
*
61083851 ATTTAATTATATTTTATTTT
1 ATTTAATTATATATTATTTT
61083871 ATTTAATTAT-TAATTATTT
1 ATTTAATTATAT-ATTATTT
61083890 AAACTTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTAATTATATATTATTTT
Done.