Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 52 of 410
Found at i:13620624 original size:40 final size:39
Alignment explanation
Indices: 13620579--13620786 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
13620569 CGGAATACAA
*
13620579 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13620619 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
13620659 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
13620699 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * * *
13620739 CCAGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
13620779 CCGGATAT
1 CCGGATAT
13620787 CATTTAATTG
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 139 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13620726 original size:80 final size:81
Alignment explanation
Indices: 13620579--13620784 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
13620569 CGGAATACAA
* * * *
13620579 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
13620643 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
13620659 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
13620722 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * * ** * *
13620739 CCAGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
13620785 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 103 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:13622976 original size:27 final size:27
Alignment explanation
Indices: 13622946--13623235 Score: 305
Period size: 27 Copynumber: 10.7 Consensus size: 27
13622936 TTAGTTTACC
13622946 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
13622973 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
13623000 AAATCACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
13623027 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
13623054 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
13623081 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
13623108 AAATTACCAAAATACCCCTAGTTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
13623135 AATTTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
13623162 AAATTACTGAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*** **
13623189 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
13623216 AAATTACCAAAGTACCCCTG
1 AAATTACCAAAATACCCCTG
13623236 ATTTACAGAA
Statistics
Matches: 230, Mismatches: 31, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
26 3 0.01
27 223 0.97
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:13623285 original size:27 final size:27
Alignment explanation
Indices: 13622946--13623287 Score: 257
Period size: 27 Copynumber: 12.7 Consensus size: 27
13622936 TTAGTTTACC
*
13622946 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
13622973 AAATTACTAAAATACCCT-TAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
13623000 AAATCACCAAAATACCCT-TAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
13623027 AAATTACCAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
13623054 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
13623081 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
13623108 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
13623135 AATTTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** **
13623162 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
13623189 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* **
13623216 AAATTACCAAAGTACCC-CTGATTTACA
1 AAATTACCAAAATACCCTC-GATTTGTA
* **** **
13623243 GAATTACCGTTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
13623270 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
13623288 TGTAGGGTAG
Statistics
Matches: 263, Mismatches: 44, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.00
27 260 0.99
28 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:13623304 original size:27 final size:27
Alignment explanation
Indices: 13623271--13623735 Score: 626
Period size: 27 Copynumber: 17.3 Consensus size: 27
13623261 CGATTTACAA
*
13623271 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13623298 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13623325 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
13623352 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
13623379 AATTAACGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
13623406 AAATACTGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
13623433 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
13623460 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13623487 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13623514 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13623541 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13623568 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
13623595 AATTACCGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
13623622 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
13623649 AATTATCGAAATACCATTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
13623676 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
13623703 AATTAACGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
13623729 AATTACC
1 AATTACC
13623736 ATTTTGCCCC
Statistics
Matches: 387, Mismatches: 51, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
26 15 0.04
27 372 0.96
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:13624214 original size:22 final size:22
Alignment explanation
Indices: 13624162--13624226 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
13624152 TTAAAGCCTT
* *
13624162 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTATGTGCCAAC
* * *
13624184 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
13624206 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
13624227 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:13624611 original size:19 final size:19
Alignment explanation
Indices: 13624605--13624675 Score: 76
Period size: 19 Copynumber: 3.8 Consensus size: 19
13624595 TTACCTGATA
*
13624605 CTGATTCTGATTCTGTTAC
1 CTGATACTGATTCTGTTAC
* *
13624624 CTAATTCTGATTCTGGTT--
1 CTGATACTGATTCT-GTTAC
13624642 CTGATTA-TGATTCTGTTAC
1 CTGA-TACTGATTCTGTTAC
13624661 CTGATACTGATTCTG
1 CTGATACTGATTCTG
13624676 ATTCTGTTAC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 3 0.07
18 12 0.27
19 26 0.59
20 3 0.07
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.46
Consensus pattern (19 bp):
CTGATACTGATTCTGTTAC
Found at i:13624616 original size:6 final size:6
Alignment explanation
Indices: 13624581--13624763 Score: 126
Period size: 6 Copynumber: 29.7 Consensus size: 6
13624571 ATTCACATTT
* * *
13624581 TGATTC TAATTC TG-TTACC TGATAC TGATTC TGATTC TG-TTACC TAATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATT--C TGATTC
* * *
13624631 TGATTC TGGTTC TGATTA TGATTC TG-TTACC TGATAC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
* * *
13624680 TG-TTACC TAATTC TGATTC TGATTC TGATTT TGATTC TG-TCACC TGATTC
1 TGATT--C TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC
* *
13624730 TGATTC TGATTC TCATTT TGATTC T-AGTTC TGAT
1 TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
13624764 AATGTTTCTT
Statistics
Matches: 138, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
5 10 0.07
6 107 0.78
7 14 0.10
8 7 0.05
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:13624638 original size:25 final size:25
Alignment explanation
Indices: 13624581--13624763 Score: 134
Period size: 25 Copynumber: 7.4 Consensus size: 25
13624571 ATTCACATTT
* *
13624581 TGATTCTAATTCTG-TTACCTGATAC
1 TGATTCTGATTCTGATTA-CTGATTC
*
13624606 TGATTCTGATTCTG-TTACCTAATTC
1 TGATTCTGATTCTGATTA-CTGATTC
*
13624631 TGATTCTGGTTCTGATTA-TGATTC
1 TGATTCTGATTCTGATTACTGATTC
*
13624655 TG-TTACCTGATACTGATT-CTGATTC
1 TGATT--CTGATTCTGATTACTGATTC
*
13624680 TG-TTACCTAATTCTGATT-CTGATTC
1 TGATT--CTGATTCTGATTACTGATTC
* *
13624705 TGATTTTGATTCTG-TCACCTGATTC
1 TGATTCTGATTCTGATTA-CTGATTC
* *
13624730 TGATTCTGATTCTCATT-TTGATTC
1 TGATTCTGATTCTGATTACTGATTC
13624754 T-AGTTCTGAT
1 TGA-TTCTGAT
13624764 AATGTTTCTT
Statistics
Matches: 133, Mismatches: 16, Indels: 19
0.79 0.10 0.11
Matches are distributed among these distances:
23 4 0.03
24 28 0.21
25 95 0.71
26 6 0.05
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGATTACTGATTC
Found at i:13624653 original size:37 final size:37
Alignment explanation
Indices: 13624599--13624681 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
13624589 ATTCTGTTAC
* * *
13624599 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTATGATTCTGTTACCTAATACTGATT
* *
13624636 CTGGTTCTGATTATGATTCTGTTACCTGATACTGATT
1 CTGATTCTGATTATGATTCTGTTACCTAATACTGATT
13624673 CTGATTCTG
1 CTGATTCTG
13624682 TTACCTAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (37 bp):
CTGATTCTGATTATGATTCTGTTACCTAATACTGATT
Found at i:13624678 original size:62 final size:62
Alignment explanation
Indices: 13624589--13624742 Score: 272
Period size: 62 Copynumber: 2.5 Consensus size: 62
13624579 TTTGATTCTA
*
13624589 ATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGGTTCTGATTATG
1 ATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTATG
*
13624651 ATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTATG
* *
13624713 ATTCTGTCACCTGATTCTGATTCTGATTCT
1 ATTCTGTTACCTGATACTGATTCTGATTCT
13624743 CATTTTGATT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 88 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (62 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTATG
Found at i:13624702 original size:37 final size:37
Alignment explanation
Indices: 13624661--13624754 Score: 143
Period size: 37 Copynumber: 2.5 Consensus size: 37
13624651 ATTCTGTTAC
* * *
13624661 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTGATT
*
13624698 CTGATTCTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTGATT
*
13624735 CTGATTCTCATTTTGATTCT
1 CTGATTCTGATTTTGATTCT
13624755 AGTTCTGATA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.49
Consensus pattern (37 bp):
CTGATTCTGATTTTGATTCTGTCACCTAATTCTGATT
Found at i:13624727 original size:31 final size:31
Alignment explanation
Indices: 13624589--13624740 Score: 123
Period size: 31 Copynumber: 4.9 Consensus size: 31
13624579 TTTGATTCTA
* * *
13624589 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTAACCTGATTCTGATTCTGATTATG
* * *
13624620 -TTAC-CTAATTCTGATTCTGGTTCTGATTATG
1 ATT-CTGTAA-CCTGATTCTGATTCTGATTATG
* * *
13624651 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTAACCTGATTCTGATTCTGATTATG
* * *
13624682 -TTAC-CTAATTCTGATTCTGATTCTGATTTTG
1 ATT-CTGTAA-CCTGATTCTGATTCTGATTATG
*
13624713 ATTCTGTCACCTGATTCTGATTCTGATT
1 ATTCTGTAACCTGATTCTGATTCTGATT
13624741 CTCATTTTGA
Statistics
Matches: 93, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
30 8 0.09
31 77 0.83
32 8 0.09
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGTAACCTGATTCTGATTCTGATTATG
Found at i:13633668 original size:27 final size:26
Alignment explanation
Indices: 13633638--13633688 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 26
13633628 ATAATACAAA
13633638 TAAAAACATGATATTTAATA-ATAATTT
1 TAAAAACA-G-TATTTAATATATAATTT
*
13633665 TAAAAATAGTATTTAATATATAAT
1 TAAAAACAGTATTTAATATATAAT
13633689 ATATAAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 6 0.27
27 7 0.32
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (26 bp):
TAAAAACAGTATTTAATATATAATTT
Found at i:13633973 original size:26 final size:25
Alignment explanation
Indices: 13633926--13634015 Score: 69
Period size: 26 Copynumber: 3.6 Consensus size: 25
13633916 ATATAGGAAA
* *
13633926 ATAATATATGATAAATA-AATTTTTT
1 ATAAAATAT-ATAAATAGTATTTTTT
**
13633951 ATATAAATATATAAATAGTATTTTCA
1 ATA-AAATATATAAATAGTATTTTTT
**
13633977 ATAATAATATATGTATAGT-TTTTTT
1 ATAA-AATATATAAATAGTATTTTTT
*
13634002 -TAAAATAAATAAAT
1 ATAAAATATATAAAT
13634016 GATATATATA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
23 8 0.16
24 3 0.06
25 15 0.29
26 25 0.49
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (25 bp):
ATAAAATATATAAATAGTATTTTTT
Found at i:13648656 original size:2 final size:2
Alignment explanation
Indices: 13648644--13648685 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
13648634 GTGGTTACCG
*
13648644 TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13648686 GGTGTTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:13649212 original size:24 final size:24
Alignment explanation
Indices: 13649124--13649210 Score: 122
Period size: 24 Copynumber: 3.6 Consensus size: 24
13649114 AATTGACTTC
*
13649124 GGCACTATGTGTGC-AAATTTGAAT
1 GGCACTATGTGTGCGAAA-TTGTAT
13649148 GGCACTATGTGTGCGAAATTGTAT
1 GGCACTATGTGTGCGAAATTGTAT
* *
13649172 GGCACTATGTGTGCGGACTTGTAT
1 GGCACTATGTGTGCGAAATTGTAT
*
13649196 AGCACTATGTGTGCG
1 GGCACTATGTGTGCG
13649211 GATTTAAATG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 55 0.95
25 3 0.05
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (24 bp):
GGCACTATGTGTGCGAAATTGTAT
Found at i:13650310 original size:2 final size:2
Alignment explanation
Indices: 13650261--13650295 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13650251 TGACTTCTAG
*
13650261 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13650296 TCTTTGCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13656703 original size:2 final size:2
Alignment explanation
Indices: 13656691--13656737 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
13656681 GTGGTTACCG
*
13656691 TA TA TA CA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13656732 TA TA TA
1 TA TA TA
13656738 GTAATGTGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13657226 original size:24 final size:24
Alignment explanation
Indices: 13657142--13657227 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
13657132 AATTGACTTC
* *
13657142 GGCACTATGTGTACA-AATTTGAAT
1 GGCACTATGTGTGCAGAA-TTGTAT
*
13657166 GGCACTATGTGTG-TGAAATTGTAT
1 GGCACTATGTGTGCAG-AATTGTAT
*
13657190 GGCACTATGTGTGCAGACTTGTAT
1 GGCACTATGTGTGCAGAATTGTAT
*
13657214 AGCACTATGTGTGC
1 GGCACTATGTGTGC
13657228 GGATTTAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
24 50 0.94
25 3 0.06
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (24 bp):
GGCACTATGTGTGCAGAATTGTAT
Found at i:13660927 original size:50 final size:50
Alignment explanation
Indices: 13660797--13660927 Score: 235
Period size: 50 Copynumber: 2.6 Consensus size: 50
13660787 TCAACCCGTG
* *
13660797 TTTATGCTATATCAATTCAAACACATATAACCATTTCCACAAACAAGCAA
1 TTTATGCTATATCAATTCAAACACATATAATCATTTCCACAAACAAGAAA
13660847 TTTATGCTATATCAATTCAAACACATATAATCATTTCCACAAACAAGAAA
1 TTTATGCTATATCAATTCAAACACATATAATCATTTCCACAAACAAGAAA
*
13660897 TTTATGCTATATCAATTTAAACACATATAAT
1 TTTATGCTATATCAATTCAAACACATATAAT
13660928 AACAATGTAG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (50 bp):
TTTATGCTATATCAATTCAAACACATATAATCATTTCCACAAACAAGAAA
Found at i:13668195 original size:47 final size:47
Alignment explanation
Indices: 13668123--13668391 Score: 180
Period size: 47 Copynumber: 5.7 Consensus size: 47
13668113 GGTATAATAC
13668123 CGATGCCATGTCCCAGACACT-GTCTTACACTGGCTCATC-CATCAGGA
1 CGATGCCATGTCCCAGACA-TGGTCTTACACTGGCTC-TCTCATCAGGA
* * * * * * *
13668170 TGATGCCATGTCCCAAACATGGTCTTACGCTAGCTCTCACGTATCCGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTC--ATCAG-GA
* * * * * *
13668220 CGATTCCATGTCCCAGACATGGTATTAAACTGGCACATCTCGT-A-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTCATCAGGA
* * **
13668266 CGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTC-TCAATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TCATCAGGA
* ** *
13668311 CTAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATTGTGGC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TCA-TCAGGA
*
13668360 CGATG-CTTGTCCCAGACAT-GTCTTACACTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC
13668392 ACACAAATAA
Statistics
Matches: 172, Mismatches: 36, Indels: 29
0.73 0.15 0.12
Matches are distributed among these distances:
43 3 0.02
44 14 0.08
45 14 0.08
46 25 0.15
47 57 0.33
48 20 0.12
49 7 0.04
50 29 0.17
51 3 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTCATCAGGA
Found at i:13668365 original size:94 final size:95
Alignment explanation
Indices: 13668114--13668388 Score: 258
Period size: 94 Copynumber: 2.9 Consensus size: 95
13668104 CAAACATTGG
* * ** **
13668114 GTAT-AATACCGATGCCATGTCCCAGACACT-GTCTTACACTGGCTCATC-CA-TCAGGATGATG
1 GTATCAATACCAATGCCATGTCCCAGACA-TGGTCTTACACTGGCTC-TCATATTGTGGCCGATG
*
13668175 CCATGTCCCAAACATGGTCTTACGCTAGCTCTCAC
64 -CATGTCCCAAACAT-GTCTTACACTAGCTCT-AC
** * * * * * * * * *
13668210 GTATCCGTGCCGATTCCATGTCCCAGACATGGTATTAAACTGG--CACATCTCGTAGCCGATGCA
1 GTATCAATACCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCCGATGCA
13668273 TGTCCCAAACATGTCTTACACTAGCTCT-C
66 TGTCCCAAACATGTCTTACACTAGCTCTAC
* * *
13668302 GTCTCAATACTAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCCGATGCT
1 GTATCAATACCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCCGATGCA
*
13668367 TGTCCCAGACATGTCTTACACT
66 TGTCCCAAACATGTCTTACACT
13668389 GGCACACAAA
Statistics
Matches: 142, Mismatches: 31, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
92 35 0.25
94 52 0.37
95 15 0.11
96 10 0.07
97 30 0.21
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (95 bp):
GTATCAATACCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATTGTGGCCGATGCA
TGTCCCAAACATGTCTTACACTAGCTCTAC
Found at i:13671017 original size:42 final size:42
Alignment explanation
Indices: 13670864--13671028 Score: 147
Period size: 42 Copynumber: 3.9 Consensus size: 42
13670854 AATCATACCA
* * * **
13670864 ATGCCATATCCCAAAAATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * ** * *
13670906 ATGCCAATAGCCCAGCTATGGTCTTTTAAG-ATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
13670948 ATGCCATGTCCTAGACATGGTCCTACACGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCG
13670990 ATGCCATATCCCAGATATGGTCTTACACGTAAA-CTCATA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAATCTCATA
13671029 ACCCTAATGT
Statistics
Matches: 96, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
41 16 0.17
42 58 0.60
43 22 0.23
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:13674435 original size:35 final size:35
Alignment explanation
Indices: 13674389--13674458 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
13674379 ACAATGTGCC
13674389 CCAAAAATCCAACTTTTCGAAGCCAAAACTCACTT
1 CCAAAAATCCAACTTTTCGAAGCCAAAACTCACTT
13674424 CCAAAAATCCAACTTTTCGAAGCCAAAACTCACTT
1 CCAAAAATCCAACTTTTCGAAGCCAAAACTCACTT
13674459 TTACTAAACT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.40, C:0.31, G:0.06, T:0.23
Consensus pattern (35 bp):
CCAAAAATCCAACTTTTCGAAGCCAAAACTCACTT
Found at i:13674460 original size:20 final size:20
Alignment explanation
Indices: 13674400--13674460 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
13674390 CAAAAATCCA
13674400 ACTTTTCGAAGCCAAAACTC
1 ACTTTTCGAAGCCAAAACTC
* *
13674420 AC--TTCCAA---AAATC-C
1 ACTTTTCGAAGCCAAAACTC
13674434 AACTTTTCGAAGCCAAAACTC
1 -ACTTTTCGAAGCCAAAACTC
13674455 ACTTTT
1 ACTTTT
13674461 ACTAAACTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
14 1 0.03
15 6 0.20
17 5 0.17
18 5 0.17
20 12 0.40
21 1 0.03
ACGTcount: A:0.36, C:0.30, G:0.07, T:0.28
Consensus pattern (20 bp):
ACTTTTCGAAGCCAAAACTC
Found at i:13676149 original size:36 final size:36
Alignment explanation
Indices: 13676102--13676174 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
13676092 TTTTTTAATT
13676102 AATTGCTTATTCAATTTTATCTATTTATTGTGATGA
1 AATTGCTTATTCAATTTTATCTATTTATTGTGATGA
13676138 AATTGCTTATTCAATTTTATCTATTTATTGTGATGA
1 AATTGCTTATTCAATTTTATCTATTTATTGTGATGA
13676174 A
1 A
13676175 CTGACATCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (36 bp):
AATTGCTTATTCAATTTTATCTATTTATTGTGATGA
Found at i:13676604 original size:20 final size:19
Alignment explanation
Indices: 13676581--13676663 Score: 87
Period size: 20 Copynumber: 4.2 Consensus size: 19
13676571 TTCAAGTTAG
13676581 AATGATTTTAACCAAGTCAA
1 AATGATTTTAA-CAAGTCAA
* *
13676601 AATGATTTCAACCAAGTTAA
1 AATGATTTTAA-CAAGTCAA
*
13676621 AATCATTTTAACACA-TCAA
1 AATGATTTTAACA-AGTCAA
13676640 AATGATTTTCGAACAAGTCAA
1 AATGATTTT--AACAAGTCAA
13676661 AAT
1 AAT
13676664 TGCTTTAGGC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
19 13 0.25
20 29 0.55
21 11 0.21
ACGTcount: A:0.46, C:0.16, G:0.08, T:0.30
Consensus pattern (19 bp):
AATGATTTTAACAAGTCAA
Found at i:13676657 original size:40 final size:40
Alignment explanation
Indices: 13676573--13676647 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
13676563 ATTTTAAATT
* *
13676573 CAAGTTAGAATGATTTTAACCAAGTCAAAATGATTTCAAC
1 CAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAC
13676613 CAAGTTAAAATCATTTTAA-CACA-TCAAAATGATTT
1 CAAGTTAAAATCATTTTAACCA-AGTCAAAATGATTT
13676648 TCGAACAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
39 14 0.44
40 18 0.56
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (40 bp):
CAAGTTAAAATCATTTTAACCAAGTCAAAATGATTTCAAC
Found at i:13677937 original size:3 final size:3
Alignment explanation
Indices: 13677931--13677962 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
13677921 AAGGTATAAT
13677931 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13677963 TAATAGTAAT
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:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:13677967 original size:3 final size:3
Alignment explanation
Indices: 13677961--13678048 Score: 151
Period size: 3 Copynumber: 29.3 Consensus size: 3
13677951 CAACAACAAC
*
13677961 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13678009 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGA- AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A
13678049 GGCTTATCTC
Statistics
Matches: 81, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 1 0.01
3 79 0.98
4 1 0.01
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13684435 original size:26 final size:24
Alignment explanation
Indices: 13684405--13684454 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
13684395 AAATAAAAAA
*
13684405 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
13684431 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
13684455 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:13684474 original size:21 final size:21
Alignment explanation
Indices: 13684425--13684483 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
13684415 ATAATAAATC
*
13684425 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
13684445 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
13684467 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
13684484 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:13684560 original size:15 final size:16
Alignment explanation
Indices: 13684530--13684562 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13684520 AAATGTTTAT
13684530 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
13684547 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
13684562 A
1 A
13684563 AAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:13687027 original size:15 final size:15
Alignment explanation
Indices: 13687007--13687037 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13686997 CACCTTTTTC
13687007 CAATTACTAAAGCCA
1 CAATTACTAAAGCCA
13687022 CAATTACTAAAGCCA
1 CAATTACTAAAGCCA
13687037 C
1 C
13687038 TATGAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.29, G:0.06, T:0.19
Consensus pattern (15 bp):
CAATTACTAAAGCCA
Found at i:13687540 original size:20 final size:18
Alignment explanation
Indices: 13687515--13687557 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 18
13687505 ATCTTAAAAG
13687515 ATAAAAAAAAATTAATAACT
1 ATAAAAAAAAATT-A-AACT
*
13687535 ATAAAATAAAATTAAACT
1 ATAAAAAAAAATTAAACT
13687553 ATAAA
1 ATAAA
13687558 CTTTAAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.41
19 1 0.05
20 12 0.55
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (18 bp):
ATAAAAAAAAATTAAACT
Found at i:13687799 original size:2 final size:2
Alignment explanation
Indices: 13687788--13687828 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
13687778 GAAAGTTGTA
13687788 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13687829 TTAAAGTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:13691275 original size:47 final size:44
Alignment explanation
Indices: 13691217--13691342 Score: 137
Period size: 47 Copynumber: 2.7 Consensus size: 44
13691207 ATCATGTAAC
*
13691217 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATAT-
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTC--AT-AATATG
* * *
13691263 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCATAATAT-G
*
13691310 CCGATGCATGTCCTCGACATGTCTTACACTAGC
1 -CGATGCATGTCCTAGACATGTCTTACACTAGC
13691343 ACACAAATAT
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 4 0.06
46 18 0.26
47 25 0.37
48 21 0.31
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAATATG
Found at i:13691281 original size:92 final size:94
Alignment explanation
Indices: 13691173--13691342 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 94
13691163 ATCCGTGCCC
* *
13691173 ATGCCATATCCCAGACATGGTTTTACACT-G-ACACATCATGTAACCGATGCATGTCCTAGACAT
1 ATGCCATATCCCAGACATGGTCTTACACTGGCACACATAATGTAACCGATGCATGTCCTAGACAT
13691236 GTCTTACACTAGCTCTCGTCTCAATATCG
66 GTCTTACACTAGCTCTCGTCTCAATATCG
* * * ** *
13691265 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCTCGACAT
1 ATGCCATATCCCAGACATGGTCTTACACTGGCACACATAATGTAACCGATGCATGTCCTAGACAT
13691330 GTCTTACACTAGC
66 GTCTTACACTAGC
13691343 ACACAAATAT
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 27 0.40
93 1 0.01
94 40 0.59
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (94 bp):
ATGCCATATCCCAGACATGGTCTTACACTGGCACACATAATGTAACCGATGCATGTCCTAGACAT
GTCTTACACTAGCTCTCGTCTCAATATCG
Found at i:13691714 original size:30 final size:30
Alignment explanation
Indices: 13691678--13691759 Score: 155
Period size: 30 Copynumber: 2.7 Consensus size: 30
13691668 AAAATTGGGA
13691678 AAAATGACCATTTTGCCCCTAGACTTTTGC
1 AAAATGACCATTTTGCCCCTAGACTTTTGC
13691708 AAAATGACCATTTTGCCCCTAGACTTTTGC
1 AAAATGACCATTTTGCCCCTAGACTTTTGC
*
13691738 AAAATGACCATTTTACCCCTAG
1 AAAATGACCATTTTGCCCCTAG
13691760 GTTCGAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (30 bp):
AAAATGACCATTTTGCCCCTAGACTTTTGC
Found at i:13695150 original size:25 final size:26
Alignment explanation
Indices: 13695119--13695176 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
13695109 CCGATACAGG
13695119 GCCTGATAGATAAC-ATCGGCACAAA
1 GCCTGATAGATAACTATCGGCACAAA
* *
13695144 GCTTGATAGATAACTATTGGCACAAA
1 GCCTGATAGATAACTATCGGCACAAA
13695170 GCCTGAT
1 GCCTGAT
13695177 TTTCAGTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (26 bp):
GCCTGATAGATAACTATCGGCACAAA
Found at i:13700632 original size:9 final size:9
Alignment explanation
Indices: 13700618--13700647 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
13700608 ACTTGAAAAT
13700618 AAATCTAAA
1 AAATCTAAA
13700627 AAATCTAAA
1 AAATCTAAA
13700636 AAATCTAAA
1 AAATCTAAA
13700645 AAA
1 AAA
13700648 AGAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATCTAAA
Found at i:13703438 original size:29 final size:29
Alignment explanation
Indices: 13703391--13703603 Score: 203
Period size: 29 Copynumber: 7.3 Consensus size: 29
13703381 CGACGTATCG
* * *
13703391 ACGAGCATCGAATATGAAAAGAGATGGTA
1 ACGACCATCAAATATGAAAAGGGATGGTA
* *
13703420 ATGACCATCAAATATGAAAAGGGATGGTT
1 ACGACCATCAAATATGAAAAGGGATGGTA
* **
13703449 TCGACCATCAAATATGAAAAATGATGGTA
1 ACGACCATCAAATATGAAAAGGGATGGTA
* *
13703478 GCGACCATCAAATATGAAAAGGGATGGTG
1 ACGACCATCAAATATGAAAAGGGATGGTA
*
13703507 ACGACCATCGAATATGAAAAGGGATGGCT-
1 ACGACCATCAAATATGAAAAGGGATGG-TA
* * * * *
13703536 TCGACCATCGACTATTAAAAGGGATGGTT
1 ACGACCATCAAATATGAAAAGGGATGGTA
* * * * *
13703565 TCGACCATCAATTAAAGAAAATGGATGGTT
1 ACGACCATCAAAT-ATGAAAAGGGATGGTA
*
13703595 TCGACCATC
1 ACGACCATC
13703604 GTTTAGAACA
Statistics
Matches: 157, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
28 1 0.01
29 133 0.85
30 23 0.15
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (29 bp):
ACGACCATCAAATATGAAAAGGGATGGTA
Found at i:13703562 original size:87 final size:87
Alignment explanation
Indices: 13703396--13703604 Score: 247
Period size: 87 Copynumber: 2.4 Consensus size: 87
13703386 TATCGACGAG
* * * * *
13703396 CATCGAATATGAAAAGAGATGGTAATGACCATCAAATATGAAAAGGGATGGTTTCGACCATCAAA
1 CATCAAATATGAAAAGGGATGGTAACGACCATCGAATATGAAAAGGGATGGCTTCGACCATCAAA
*
13703461 TATGAAAAATGATGGTAGCGAC
66 TATGAAAAAGGATGGTAGCGAC
* * *
13703483 CATCAAATATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGCTTCGACCATCGAC
1 CATCAAATATGAAAAGGGATGGTAACGACCATCGAATATGAAAAGGGATGGCTTCGACCATCAAA
* * **
13703548 TATTAAAAGGGATGGTTTCGAC
66 TATGAAAAAGGATGGTAGCGAC
* * * **
13703570 CATCAATTAAAGAAAATGGATGGTTTCGACCATCG
1 CATCAAAT-ATGAAAAGGGATGGTAACGACCATCG
13703605 TTTAGAACAC
Statistics
Matches: 103, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 81 0.79
88 22 0.21
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (87 bp):
CATCAAATATGAAAAGGGATGGTAACGACCATCGAATATGAAAAGGGATGGCTTCGACCATCAAA
TATGAAAAAGGATGGTAGCGAC
Found at i:13705716 original size:68 final size:68
Alignment explanation
Indices: 13705500--13705829 Score: 337
Period size: 68 Copynumber: 4.9 Consensus size: 68
13705490 TTTATCTGAC
* * * * *
13705500 GCCATAGCCTAGCTATGGTTTTACA-GA-GTACACCCCATGTTTATTTTCCTTG-AGGACTTCAT
1 GCCATAGCCGAGCTATGGTCTTACACAATGTA-ACCCCATGTTTATTGTCCTAGCA-GACTTCAT
13705562 ATGTT
64 ATGTT
* * * *
13705567 TCCATAGTCGAGCTATGGTCTTACACAATGTAA-CCCATGTTTATTGTCCTAACAGACTTCATAA
1 GCCATAGCCGAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTAGCAGACTTCATAT
*
13705631 ATT
66 GTT
* * * *
13705634 TCCATAGTCGAGCTATGATCTTACACAATGTAACCCCATGTTTATTGTCCTAGCAGAGTTCATAT
1 GCCATAGCCGAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTAGCAGACTTCATAT
13705699 GTT
66 GTT
* * * * * ** * *
13705702 GCCATTA-CCAAGCTATGGTCTTATATAATGTAACCCCATGTTTACTGTCCTGGGGGATTTTATA
1 GCCA-TAGCCGAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTAGCAGACTTCATA
13705766 TGTT
65 TGTT
* ** * * *
13705770 GCCATAGCTGAGCTATGGTCTTACACAATGTAACAACATCTTTATTATCCTGGCAGACTT
1 GCCATAGCCGAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTAGCAGACTT
13705830 TTAATTCTAA
Statistics
Matches: 218, Mismatches: 39, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
67 82 0.38
68 131 0.60
69 5 0.02
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (68 bp):
GCCATAGCCGAGCTATGGTCTTACACAATGTAACCCCATGTTTATTGTCCTAGCAGACTTCATAT
GTT
Found at i:13709365 original size:41 final size:41
Alignment explanation
Indices: 13709184--13709472 Score: 187
Period size: 41 Copynumber: 7.1 Consensus size: 41
13709174 CAAAAATTGT
* * * * *
13709184 AAAACGCAAAGCAATAGCAGCGTTTTACAAAAAACACCGCTA
1 AAAAC-CAGAGCATTAGCGGCGTTTTACGAAAAACGCCGCTA
* * ** * *
13709226 AAAA-CAGAGCAATAGCGGTGTTTTTTGTTAAAACGACGCTA
1 AAAACCAGAGCATTAGCGGCGTTTTACG-AAAAACGCCGCTA
* * *
13709267 AAAATACAGA--AATAGCGGCGTTTTAC-AGAAAACGCCGCCA
1 AAAA-CCAGAGCATTAGCGGCGTTTTACGA-AAAACGCCGCTA
* * * *
13709307 AAAAACATG-GCAATAGTGGCGTTTTACCAAAAACGCCGCTA
1 AAAACCA-GAGCATTAGCGGCGTTTTACGAAAAACGCCGCTA
* * * * * *
13709348 AAAGCCAGAGCATTAGTGGCACTTTT-GGTAAAACGCCACTA
1 AAAACCAGAGCATTAGCGGC-GTTTTACGAAAAACGCCGCTA
* * * * *
13709389 AAAACCAAAGAATTAGCGGCGCTTTATGTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGTTTTACGAAAAACGCCGCTA
* **
13709430 AAAACCAGAGCATTAGCGGCGCTTT-CGGTAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGTTTTACGAAAAACGCCGCTA
13709470 AAA
1 AAA
13709473 GTCATATAAC
Statistics
Matches: 198, Mismatches: 38, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
39 3 0.02
40 51 0.26
41 131 0.66
42 9 0.05
43 4 0.02
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGTTTTACGAAAAACGCCGCTA
Found at i:13709381 original size:82 final size:82
Alignment explanation
Indices: 13709295--13709472 Score: 207
Period size: 82 Copynumber: 2.2 Consensus size: 82
13709285 CGTTTTACAG
* ** * * *
13709295 AAAACGCCGCCAAAAAACATGGCAA-TAGTGGCGTTTTACCAAAAACGCCGCTAAAAGCCAGAGC
1 AAAACGCCGCTAAAAAACAAAG-AATTAGCGGCGCTTTACCAAAAACGCCGCTAAAAACCAGAGC
* *
13709359 ATTAGTGGCACTTTTGGT
65 ATTAGCGGCACTTTCGGT
* * ***
13709377 AAAACGCCACTAAAAACCAAAGAATTAGCGGCGCTTTATGTAAAACGCCGCTAAAAACCAGAGCA
1 AAAACGCCGCTAAAAAACAAAGAATTAGCGGCGCTTTACCAAAAACGCCGCTAAAAACCAGAGCA
*
13709442 TTAGCGGCGCTTTCGGT
66 TTAGCGGCACTTTCGGT
13709459 -AAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
13709473 GTCATATAAC
Statistics
Matches: 80, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 15 0.19
82 65 0.81
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (82 bp):
AAAACGCCGCTAAAAAACAAAGAATTAGCGGCGCTTTACCAAAAACGCCGCTAAAAACCAGAGCA
TTAGCGGCACTTTCGGT
Found at i:13709434 original size:122 final size:122
Alignment explanation
Indices: 13709194--13709433 Score: 268
Period size: 122 Copynumber: 2.0 Consensus size: 122
13709184 AAAACGCAAA
*** *
13709194 GCAATAGCAGCGTTTTACAAAAAACACCGCTAAAAACAGAGCAATAGCGGTGTTTTTTGTTAAAA
1 GCAATAGCAGCGTTTTACAAAAAACACCGCTAAAAACAGAGCAATAGCGGTCACTTTTGGTAAAA
* * * *
13709259 CGACGCTAAAAATACAGAAATAGCGGCGTTTTACAGAAAACGCCGCCAAAAAACATG
66 CGACACTAAAAACAAAGAAATAGCGGCGCTTTACAGAAAACGCCGCCAAAAAACATG
** * * * * *
13709316 GCAATAGTGGCGTTTTACCAAAAACGCCGCTAAAAGCCAGAGCATTAGTGG-CACTTTTGGTAAA
1 GCAATAGCAGCGTTTTACAAAAAACACCGCTAAAA-ACAGAGCAATAGCGGTCACTTTTGGTAAA
* * * *
13709380 ACGCCACTAAAAACCAAAGAATTAGCGGCGCTTTA-TGTAAAACGCCGCTAAAAA
65 ACGACACTAAAAA-CAAAGAAATAGCGGCGCTTTACAG-AAAACGCCGCCAAAAA
13709434 CCAGAGCATT
Statistics
Matches: 96, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
122 52 0.54
123 44 0.46
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.20
Consensus pattern (122 bp):
GCAATAGCAGCGTTTTACAAAAAACACCGCTAAAAACAGAGCAATAGCGGTCACTTTTGGTAAAA
CGACACTAAAAACAAAGAAATAGCGGCGCTTTACAGAAAACGCCGCCAAAAAACATG
Found at i:13709559 original size:45 final size:45
Alignment explanation
Indices: 13709477--13709572 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 45
13709467 CTAAAAGTCA
* *
13709477 TATAACCCCTAAAACCCTAAACCCCAAAAAACATAAACACTAATC
1 TATAACCCCTAAAACACTAAACCCCAAAAAACATAAACACTAAAC
**** * *
13709522 TATAACCCCTAAAACACTAAACCTTTTAAATCCTAAACACTAAAC
1 TATAACCCCTAAAACACTAAACCCCAAAAAACATAAACACTAAAC
13709567 TATAAC
1 TATAAC
13709573 TTTTAAAACC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (45 bp):
TATAACCCCTAAAACACTAAACCCCAAAAAACATAAACACTAAAC
Found at i:13710876 original size:231 final size:228
Alignment explanation
Indices: 13710439--13710955 Score: 560
Period size: 231 Copynumber: 2.3 Consensus size: 228
13710429 GTTTTCTTTG
* * * *
13710439 GATTTTTAGTGGCGTTTTAGGTTAAAACGCCACAATAGGGTTGA--TTTAGCGGCGCAAGGTTAT
1 GATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATA--GTTTACCTTTAGCGGCGCTAGGATAT
* * * * * * *
13710502 AAACGCCACTAAGGGTTATTTTGTTTAGATCACAACGATGTAGTTTTTATGGATTTTTAGTGGCG
64 AAACGCCACTAAAGGTTATTCTGTTCAGATAAAAACGACGTAGTTTTTATGGATTTTTAGTGGCA
* * * * * *
13710567 TTTTTGGTTTAAACGCCACAATAGGTTTGATTTAGCGGCGCTAAGGTATAAACGCCACTAATGGT
129 TTTTAGGGTGAAACACCACAATAGATTTGATTTAGCGGCGCTAAGGGATAAACGCCACTAATGGT
*
13710632 TATTTTGTTTATATCAAAACGATGTAGTTTTATTC
194 TATTCTGTTTATATCAAAACGATGTAGTTTTATTC
* *
13710667 GATTCTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGTTTCACCTTTAGCGGCGCTTGGATATA
1 GATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGTTT-ACCTTTAGCGGCGCTAGGATAT-
* * * *
13710732 AAACGCCACTAAATGTTATTCTGTTCATATAAAAACGACGTTGTTTTTTTTGGATTTTTAGTGGC
64 AAACGCCACTAAAGGTTATTCTGTTCAGATAAAAACGACGTAG-TTTTTATGGATTTTTAGTGGC
* * * * *
13710797 ATTTTAGGGTGAAACACCGCAATTGATTTGCCTTTAGCGGCGCTATGGGA-AAATGCCACTAAAT
128 ATTTTAGGGTGAAACACCACAATAGATTTG-ATTTAGCGGCGCTAAGGGATAAACGCCACT-AAT
* * * * *
13710861 -TTTATTCTGTTTATATCAAAACGGTGTCGTTTTGTTT
191 GGTTATTCTGTTTATATCAAAACGATGTAGTTTTATTC
* * * * * *
13710898 GTTTTTTAGTGGCG-TTTA-TGTTAAATGCCACAATTGGTTTGCCTTTAGCGGCGCTAGG
1 GATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAA-TAGTTTACCTTTAGCGGCGCTAGG
13710956 GGAAAACGCC
Statistics
Matches: 239, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
226 3 0.01
227 1 0.00
228 35 0.15
229 44 0.18
230 43 0.18
231 94 0.39
232 19 0.08
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (228 bp):
GATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGTTTACCTTTAGCGGCGCTAGGATATAA
ACGCCACTAAAGGTTATTCTGTTCAGATAAAAACGACGTAGTTTTTATGGATTTTTAGTGGCATT
TTAGGGTGAAACACCACAATAGATTTGATTTAGCGGCGCTAAGGGATAAACGCCACTAATGGTTA
TTCTGTTTATATCAAAACGATGTAGTTTTATTC
Found at i:13710893 original size:115 final size:115
Alignment explanation
Indices: 13710429--13710975 Score: 533
Period size: 114 Copynumber: 4.8 Consensus size: 115
13710419 AGACGACACC
* * * *
13710429 GTTTTCTTTGGATTTTTAGTGGCGTTTTAGGTTAAAACGCCACAATAGGGTTG-ATTTAGCGGCG
1 GTTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGGTTTGCCTTTAGCGGCG
** * * *
13710493 C-AAGGTTATAAACGCCACTAAGGGTTATTTTGTTTAGATCACAACGATGTA
66 CTAAGG-TA-AAACGCCACTAAATGTTATTCTGTTTATATCAAAACGATGTA
* * * * *
13710544 G-TTTTTATGGATTTTTAGTGGCGTTTTTGGTTTAAACGCCACAATAGGTTTG-ATTTAGCGGCG
1 GTTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGGTTTGCCTTTAGCGGCG
*
13710607 CTAAGGTATAAACGCCACT-AATGGTTATTTTGTTTATATCAAAACGATGTA
66 CTAAGGTA-AAACGCCACTAAAT-GTTATTCTGTTTATATCAAAACGATGTA
* * * *
13710658 G-TTTTATTCGATTCTTAGTGGCGTTTTAGGGTAAAACGCCACAATA-GTTTCACCTTTAGCGGC
1 GTTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGGTTT-GCCTTTAGCGGC
* * * * *
13710721 GCT-TGGATATAAAACGCCACTAAATGTTATTCTGTTCATATAAAAACGACGTT
65 GCTAAGG---TAAAACGCCACTAAATGTTATTCTGTTTATATCAAAACGATGTA
* * * * * *
13710774 GTTTTTTTTGGATTTTTAGTGGCATTTTAGGGTGAAACACCGCAATTGATTTGCCTTTAGCGGCG
1 GTTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGGTTTGCCTTTAGCGGCG
* * * * * *
13710839 CTATGGGAAAATGCCACTAAATTTTATTCTGTTTATATCAAAACGGTGTC
66 CTAAGGTAAAACGCCACTAAATGTTATTCTGTTTATATCAAAACGATGTA
* * * * * *
13710889 GTTTTGTTT-GTTTTTTAGTGGCG-TTTA-TGTTAAATGCCACAATTGGTTTGCCTTTAGCGGCG
1 GTTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGGTTTGCCTTTAGCGGCG
* * *
13710951 CTAGGGGAAAACGCCGC-AAATGTTA
66 CTAAGGTAAAACGCCACTAAATGTTA
13710976 ATTTATTTTG
Statistics
Matches: 366, Mismatches: 55, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
111 7 0.02
112 43 0.12
113 9 0.02
114 150 0.41
115 61 0.17
116 34 0.09
117 56 0.15
118 6 0.02
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.37
Consensus pattern (115 bp):
GTTTTTTTTGGATTTTTAGTGGCGTTTTAGGGTAAAACGCCACAATAGGTTTGCCTTTAGCGGCG
CTAAGGTAAAACGCCACTAAATGTTATTCTGTTTATATCAAAACGATGTA
Found at i:13711167 original size:59 final size:59
Alignment explanation
Indices: 13711043--13711165 Score: 185
Period size: 60 Copynumber: 2.1 Consensus size: 59
13711033 TATTCATTTT
* **
13711043 CCCCCTTCTCCCTGGTTTATTTCCCCCATTTTCCCTTCTTCAAATCCCTAAAATAATCA
1 CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTAATTCAAATCCCTAAAATAATCA
*
13711102 CCCCCTTCTCCCTAGTTTATTTCCCCCCATTTTCCCTAATTCGAAA-CCCTAAAATAATTA
1 CCCCCTTCTCCCTAGTTTATTT-CCCCCATTTTCCCTAATTC-AAATCCCTAAAATAATCA
13711162 CCCC
1 CCCC
13711166 TTTTTCCCCA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
59 21 0.36
60 34 0.59
61 3 0.05
ACGTcount: A:0.22, C:0.40, G:0.03, T:0.35
Consensus pattern (59 bp):
CCCCCTTCTCCCTAGTTTATTTCCCCCATTTTCCCTAATTCAAATCCCTAAAATAATCA
Found at i:13712777 original size:2 final size:2
Alignment explanation
Indices: 13712770--13712799 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13712760 CTTTACATAC
13712770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13712800 TGTCTGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13714554 original size:9 final size:9
Alignment explanation
Indices: 13714542--13714572 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13714532 ATATCATATA
13714542 ATAACTTAC
1 ATAACTTAC
13714551 ATAACTTAC
1 ATAACTTAC
*
13714560 AAAACTTAC
1 ATAACTTAC
13714569 ATAA
1 ATAA
13714573 TACATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (9 bp):
ATAACTTAC
Found at i:13714593 original size:13 final size:13
Alignment explanation
Indices: 13714575--13714604 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
13714565 TTACATAATA
13714575 CATAAATATATAT
1 CATAAATATATAT
13714588 CATAAATATATAT
1 CATAAATATATAT
13714601 CATA
1 CATA
13714605 TCATAACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:13714611 original size:56 final size:56
Alignment explanation
Indices: 13714550--13714760 Score: 343
Period size: 56 Copynumber: 3.8 Consensus size: 56
13714540 TAATAACTTA
*
13714550 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
* * *
13714606 CATAACTTACACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
1 CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
*
13714662 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTAT
1 CATAACTTACACAACTTACATAATACAT--AAATATATATCATAAATATATATCATAT
*
13714719 CATAACTTACACAATTTACATAATACATAAATATATATCATA
1 CATAACTTACACAACTTACATAATACATAAATATATATCATA
13714761 TCATAACTTA
Statistics
Matches: 143, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
55 1 0.01
56 91 0.64
57 50 0.35
58 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (56 bp):
CATAACTTACACAACTTACATAATACATAAATATATATCATAAATATATATCATAT
Found at i:13714722 original size:113 final size:112
Alignment explanation
Indices: 13714550--13714760 Score: 352
Period size: 113 Copynumber: 1.9 Consensus size: 112
13714540 TAATAACTTA
13714550 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
1 CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
*
13714615 CACAACTAACATAATACATAAATATATTTCATAAATATGTATCATAT
66 CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
* *
13714662 CATAACTTACACAACTTACATAATAC-TCCAAATATATATCATAAATATATATCTTATCATAACT
1 CATAACTTACAAAACTTACATAATACAT--AAATATATATCATAAATATATATCATATCATAACT
* *
13714726 TACACAATTTACATAATACATAAATATATATCATA
64 TACACAACTAACATAATACATAAATATATATCATA
13714761 TCATAACTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 66 0.72
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (112 bp):
CATAACTTACAAAACTTACATAATACATAAATATATATCATAAATATATATCATATCATAACTTA
CACAACTAACATAATACATAAATATATATCATAAATATGTATCATAT
Found at i:13714797 original size:113 final size:107
Alignment explanation
Indices: 13714529--13714773 Score: 339
Period size: 113 Copynumber: 2.2 Consensus size: 107
13714519 TAATGTTTAT
13714529 TATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
1 TATATATCATAT-ATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAA
13714594 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
65 TATATATCATATCATAACTTACACAACTAACATAATACATAAA
* * * *
13714637 TATATTTCATAAATATGTATCATATCATAACTTACACAACTTACATAATAC-TCCAAATATATAT
1 TATATATCAT--ATA--TAACTTA-CATAACTTACAAAACTTACATAATACAT--AAATATATAT
* * *
13714701 CATAAATATATATCTTATCATAACTTACACAATTTACATAATACATAAA
59 CATAAATATATATCATATCATAACTTACACAACTAACATAATACATAAA
13714750 TATATATCATATCATAACTTACAT
1 TATATATCATAT-ATAACTTACAT
13714774 GCCTTACATA
Statistics
Matches: 119, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
108 9 0.08
109 4 0.03
110 7 0.06
111 8 0.07
112 26 0.22
113 65 0.55
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (107 bp):
TATATATCATATATAACTTACATAACTTACAAAACTTACATAATACATAAATATATATCATAAAT
ATATATCATATCATAACTTACACAACTAACATAATACATAAA
Found at i:13714800 original size:18 final size:17
Alignment explanation
Indices: 13714743--13714809 Score: 53
Period size: 18 Copynumber: 3.8 Consensus size: 17
13714733 TTTACATAAT
13714743 ACATAAATATATATCATA
1 ACATAAAT-TATATCATA
* * * * *
13714761 TCATAACTTACATGCCTT
1 ACATAAATTATAT-CATA
13714779 ACATAAATGTATATCATA
1 ACATAAAT-TATATCATA
*
13714797 ACATAACTTATAT
1 ACATAAATTATAT
13714810 AACTTACAAA
Statistics
Matches: 36, Mismatches: 11, Indels: 5
0.69 0.21 0.10
Matches are distributed among these distances:
17 9 0.25
18 23 0.64
19 4 0.11
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.36
Consensus pattern (17 bp):
ACATAAATTATATCATA
Found at i:13714810 original size:113 final size:107
Alignment explanation
Indices: 13714529--13714810 Score: 309
Period size: 113 Copynumber: 2.5 Consensus size: 107
13714519 TAATGTTTAT
13714529 TATATATCATATAATAACTTACATAACTTACAAAACTTACATAATACATAA-ATATATATCATAA
1 TATATATCATAT-ATAACTTACATAACTTACAAAA-TTACATAATACATAACATATATATCATAA
13714593 ATATATATCATATCATAACTTACACAACTAACATAATACATAAA
64 ATATATATCATATCATAACTTACACAACTAACATAATACATAAA
* * * *
13714637 TATATTTCATAAATATGTATCATATCATAACTTACACAACTTACATAATAC-TCCAA-ATATATA
1 TATATATCAT--ATA--TAACTTA-CATAACTTACA-AAATTACATAATACAT--AACATATATA
* * *
13714700 TCATAAATATATATCTTATCATAACTTACACAATTTACATAATACATAAA
58 TCATAAATATATATCATATCATAACTTACACAACTAACATAATACATAAA
** * * *
13714750 TATATATCATATCATAACTTACATGCCTTACATAAATGTATATCATAACATAACTTATATA
1 TATATATCATAT-ATAACTTACATAACTTACA-AAAT-TACATAAT-ACATAACATATATA
13714811 ACTTACAAAG
Statistics
Matches: 144, Mismatches: 17, Indels: 23
0.78 0.09 0.12
Matches are distributed among these distances:
108 9 0.06
109 13 0.09
110 15 0.10
111 16 0.11
112 24 0.17
113 67 0.47
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.35
Consensus pattern (107 bp):
TATATATCATATATAACTTACATAACTTACAAAATTACATAATACATAACATATATATCATAAAT
ATATATCATATCATAACTTACACAACTAACATAATACATAAA
Found at i:13714816 original size:36 final size:36
Alignment explanation
Indices: 13714734--13714817 Score: 109
Period size: 36 Copynumber: 2.4 Consensus size: 36
13714724 CTTACACAAT
*
13714734 TTACATAA--TACATAAATATATATCATATCATAAC
1 TTACATAACTTACATAAATATATATCATAACATAAC
** *
13714768 TTACATGCCTTACATAAATGTATATCATAACATAAC
1 TTACATAACTTACATAAATATATATCATAACATAAC
*
13714804 TTATATAACTTACA
1 TTACATAACTTACA
13714818 AAGCTTACTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
34 6 0.15
36 35 0.85
ACGTcount: A:0.45, C:0.17, G:0.02, T:0.36
Consensus pattern (36 bp):
TTACATAACTTACATAAATATATATCATAACATAAC
Found at i:13716636 original size:12 final size:12
Alignment explanation
Indices: 13716619--13716653 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
13716609 AAGATCGAAG
13716619 GATGAATCTGAT
1 GATGAATCTGAT
13716631 GATGAATCTGAT
1 GATGAATCTGAT
13716643 GATGAATCTGA
1 GATGAATCTGA
13716654 CGAAGAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:13720434 original size:15 final size:16
Alignment explanation
Indices: 13720409--13720439 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13720399 GCAACAACTT
13720409 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
13720425 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
13720440 CAGCAGCGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:13720501 original size:21 final size:21
Alignment explanation
Indices: 13720415--13720490 Score: 109
Period size: 21 Copynumber: 3.6 Consensus size: 21
13720405 ACTTAGAGCG
*
13720415 GAGGCAGCAGAGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
*
13720436 GCA-GCAGCAGCGAGAGAGGCA
1 G-AGGCAGCAGCGAGGGAGGCA
*
13720457 GCGGCAGCAGCGAGGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
13720478 GAGGCAGCAGCGA
1 GAGGCAGCAGCGA
13720491 TGGTAGCAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 47 0.98
22 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.49, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:13721648 original size:17 final size:17
Alignment explanation
Indices: 13721616--13721668 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
13721606 TCCCACTTTC
*
13721616 TTCTTTTTTAATTTCTAT
1 TTCTTATTT-ATTTCTAT
13721634 TTCTTATTTATTTCTTAT
1 TTCTTATTTATTTC-TAT
*
13721652 TT-TTATTTATTTTTAT
1 TTCTTATTTATTTCTAT
13721668 T
1 T
13721669 CTCAATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
18 13 0.41
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (17 bp):
TTCTTATTTATTTCTAT
Found at i:13723346 original size:17 final size:19
Alignment explanation
Indices: 13723299--13723350 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
13723289 AGTTTTAAGG
*
13723299 GTTTTTAGGGTTAGGGTTT
1 GTTTTTAGGTTTAGGGTTT
13723318 GGTTTTTAGGTTTAGGGTTT
1 -GTTTTTAGGTTTAGGGTTT
13723338 -TTTTT-GGTTTAGG
1 GTTTTTAGGTTTAGG
13723351 TATGTTAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 8 0.26
18 5 0.16
20 18 0.58
ACGTcount: A:0.10, C:0.00, G:0.35, T:0.56
Consensus pattern (19 bp):
GTTTTTAGGTTTAGGGTTT
Found at i:13727020 original size:21 final size:21
Alignment explanation
Indices: 13726943--13727012 Score: 131
Period size: 21 Copynumber: 3.3 Consensus size: 21
13726933 CTCTCTTCCA
*
13726943 TTCCCTTTGTTATTTTCCCAT
1 TTCCCTTTCTTATTTTCCCAT
13726964 TTCCCTTTCTTATTTTCCCAT
1 TTCCCTTTCTTATTTTCCCAT
13726985 TTCCCTTTCTTATTTTCCCAT
1 TTCCCTTTCTTATTTTCCCAT
13727006 TTCCCTT
1 TTCCCTT
13727013 GCTGATTTCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.09, C:0.33, G:0.01, T:0.57
Consensus pattern (21 bp):
TTCCCTTTCTTATTTTCCCAT
Found at i:13732805 original size:47 final size:48
Alignment explanation
Indices: 13732728--13732948 Score: 170
Period size: 47 Copynumber: 4.7 Consensus size: 48
13732718 AGGGTAAGGT
* * * *
13732728 GTCGATGCCATGTCCTAGACACGGTGTTACACTGGCTCAT-ATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCAA
* * * * *
13732775 GTCGATGTCATGTCCCAGACATGGTCTTACACTGACT-ATCCTTTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTC-AA
* * * *
13732823 GCCGAT-ACATGTCCCAGACAT-ATCTTACACTGGCTTA-CGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCAA
* * * * *
13732868 GGCTGAAG-CATGTACCAGACAT-GTCTTACACTAGCAC-TCGTCTCAA
1 GTC-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCAA
* * *
13732914 TGTCAATGCCATGTCCTAGATATGGTCTTACACTG
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTG
13732949 ACTCTCAAAA
Statistics
Matches: 136, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
45 3 0.02
46 54 0.40
47 63 0.46
48 16 0.12
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCGTCTCAA
Found at i:13732945 original size:48 final size:46
Alignment explanation
Indices: 13732875--13732996 Score: 133
Period size: 47 Copynumber: 2.6 Consensus size: 46
13732865 CAAGGCTGAA
* **
13732875 GCATGTACCAGACATGTCTTACACTAGCACTCGTCTCAATGT-CAAT
1 GCATGTCCCAGACATGTCTTACACTAGCACTC-TCAAAATGTGCAAT
* *
13732921 GCCATGTCCTAGATATGGTCTTACACT-G-ACTCTCAAAATGTGGCCAAT
1 G-CATGTCCCAGACAT-GTCTTACACTAGCACTCTCAAAATGT-G-CAAT
13732969 GCATGTCCCAGACATGTCTTACACTAGC
1 GCATGTCCCAGACATGTCTTACACTAGC
13732997 TCACACAAGT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
45 7 0.11
46 15 0.24
47 25 0.40
48 15 0.24
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTAGCACTCTCAAAATGTGCAAT
Found at i:13734912 original size:20 final size:20
Alignment explanation
Indices: 13734881--13734933 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
13734871 GATGATATTT
*
13734881 TATA-ATTA-TTTAATTAGA
1 TATATATTATTTTAATGAGA
13734899 TATATATTATTTTAATGAGA
1 TATATATTATTTTAATGAGA
*
13734919 TATTTTATTATTTTA
1 TA-TATATTATTTTA
13734934 TTATTAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 4 0.13
19 4 0.13
20 11 0.37
21 11 0.37
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TATATATTATTTTAATGAGA
Found at i:13737130 original size:46 final size:46
Alignment explanation
Indices: 13737078--13737397 Score: 462
Period size: 46 Copynumber: 7.0 Consensus size: 46
13737068 AGTGTGCTCT
* *
13737078 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13737124 CTGATATGAAATGCGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
13737170 CTGATATGAAATGCGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13737216 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
13737262 CTGATATAAAATGAAAAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
13737308 GTGATATGAAATGAAAAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
13737354 ATGATA-GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
13737398 TCATGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13737504 original size:13 final size:13
Alignment explanation
Indices: 13737486--13737515 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13737476 TCAGATGACG
13737486 AATGGTTATATGA
1 AATGGTTATATGA
*
13737499 AATGGTTGTATGA
1 AATGGTTATATGA
13737512 AATG
1 AATG
13737516 TTTACAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.27, T:0.37
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:13739855 original size:68 final size:64
Alignment explanation
Indices: 13739739--13739996 Score: 235
Period size: 68 Copynumber: 3.9 Consensus size: 64
13739729 TGGATGATAC
** * * *
13739739 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGAGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGCTAC
13739803 AAG
64 --G
* *
13739806 ACATTATGATGTAGCTAGGTCACATGGGTGATACT-ATGTGTACACCATGTAGACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCACATGGGTGGTACTGA-GTGTACACCATGTAGACAAGAGAGCTA
13739870 CG
63 CG
* *
13739872 -GATATATGTAGCTAGGTCACATGCGTGGTTCCAGGTGAAG-G-ACACCATGTAGACAAGAGAGC
1 AGATATATGTAGCTAGGTCACATGGGTGG-T--A-CTG-AGTGTACACCATGTAGACAAGAGAGC
13739934 TACG
61 TACG
* *
13739938 AGATAAACTG--GCTAGGTCACATGGGTGGTACTGAGTGTTCACCATGT-GTACAAGAGAGC
1 AGATATA-TGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAG-ACAAGAGAGC
13739997 CGAACTATAT
Statistics
Matches: 161, Mismatches: 15, Indels: 34
0.77 0.07 0.16
Matches are distributed among these distances:
61 2 0.01
62 4 0.02
63 40 0.25
64 4 0.02
65 2 0.01
66 44 0.27
67 11 0.07
68 52 0.32
69 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.24
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCACATGGGTGGTACTGAGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:13745675 original size:37 final size:37
Alignment explanation
Indices: 13745616--13745761 Score: 222
Period size: 37 Copynumber: 3.9 Consensus size: 37
13745606 AGCTCAGATG
* * *
13745616 AAATCTCCACACGAAGTTATCGGGTCCTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
13745653 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
13745689 TATATTTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
13745727 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
13745762 ATATATTTCC
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
36 1 0.01
37 97 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:13745742 original size:74 final size:74
Alignment explanation
Indices: 13745621--13745772 Score: 268
Period size: 74 Copynumber: 2.1 Consensus size: 74
13745611 AGATGAAATC
*
13745621 TCCACACGAAGTTATCGGGTCCTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCCTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13745686 GAATATATT
66 GAATATATT
* * *
13745695 TCCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTCATCGGGTCCTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13745760 GAATATATT
66 GAATATATT
13745769 TCCA
1 TCCA
13745773 AGTTTCATGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (74 bp):
TCCACACGAAGTCATCGGGTCCTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
GAATATATT
Found at i:13745968 original size:48 final size:48
Alignment explanation
Indices: 13745908--13746195 Score: 486
Period size: 48 Copynumber: 6.0 Consensus size: 48
13745898 CCACACCTCC
* * * *
13745908 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
13745956 CAAATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
*
13746006 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
13746054 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
13746102 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
13746150 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
13746196 TTATCTTGTG
Statistics
Matches: 229, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
48 184 0.80
50 45 0.20
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:13746072 original size:146 final size:144
Alignment explanation
Indices: 13745908--13746195 Score: 486
Period size: 146 Copynumber: 2.0 Consensus size: 144
13745898 CCACACCTCC
* *
13745908 TACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCACAAATATTTCACACTAG
1 TACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCACAAATATTTCACACTAG
*
13745973 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACC
66 CCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACC
13746038 ACATATACATATCTCA
129 ACATATACATATCTCA
* * * * *
13746054 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCACAAATATTTCACACTAG
13746119 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
66 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
13746184 ATATACATATCT
131 ATATACATATCT
13746196 TTATCTTGTG
Statistics
Matches: 134, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
144 46 0.34
146 88 0.66
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (144 bp):
TACATACTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCACAAATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
ATATACATATCTCA
Found at i:13750468 original size:31 final size:31
Alignment explanation
Indices: 13750433--13750496 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13750423 CCTTTTCATG
13750433 TTTCATATTCCATAACACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
13750464 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
13750495 TT
1 TT
13750497 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:13750739 original size:24 final size:24
Alignment explanation
Indices: 13750702--13750830 Score: 188
Period size: 24 Copynumber: 5.4 Consensus size: 24
13750692 CTAGAGGCCT
*
13750702 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
13750727 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
13750751 AGCCCTTTT-ATAACTAGGCCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
13750774 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
13750798 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
13750822 AGCCCTTTT
1 AGCCCTTTT
13750831 TCACTTCCTC
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
23 21 0.22
24 71 0.74
25 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:13750765 original size:47 final size:48
Alignment explanation
Indices: 13750702--13750829 Score: 186
Period size: 47 Copynumber: 2.7 Consensus size: 48
13750692 CTAGAGGCCT
*
13750702 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
* * **
13750751 AGCCCTTTT-ATAACTAGGCCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
*
13750798 AGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTT
13750830 TTCACTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
47 42 0.59
48 25 0.35
49 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
Found at i:13750902 original size:9 final size:9
Alignment explanation
Indices: 13750888--13750945 Score: 53
Period size: 9 Copynumber: 6.0 Consensus size: 9
13750878 ACCTCATGTG
13750888 CATATCATA
1 CATATCATA
*
13750897 CATATCATGTG
1 CATATCA--TA
13750908 CATATCATA
1 CATATCATA
*
13750917 CATTTCATGTA
1 CATATCA--TA
13750928 CATATCATA
1 CATATCATA
*
13750937 CATACCATA
1 CATATCATA
13750946 TTTATCAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:13750906 original size:20 final size:20
Alignment explanation
Indices: 13750881--13750940 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
13750871 TATGATTACC
13750881 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
13750901 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
*
13750921 TCATGTACATATCATACATA
1 TCATGTGCATATCATACATA
13750941 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:13750929 original size:11 final size:11
Alignment explanation
Indices: 13750881--13750935 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
13750871 TATGATTACC
*
13750881 TCATGTGCATA
1 TCATGTACATA
13750892 TCA--TACATA
1 TCATGTACATA
*
13750901 TCATGTGCATA
1 TCATGTACATA
*
13750912 TCA--TACATT
1 TCATGTACATA
13750921 TCATGTACATA
1 TCATGTACATA
13750932 TCAT
1 TCAT
13750936 ACATACCATA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (11 bp):
TCATGTACATA
Found at i:13751015 original size:25 final size:25
Alignment explanation
Indices: 13750983--13751030 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13750973 ATACATAAAC
* * *
13750983 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
13751008 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
13751031 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:13753455 original size:40 final size:40
Alignment explanation
Indices: 13753411--13753724 Score: 493
Period size: 40 Copynumber: 7.8 Consensus size: 40
13753401 GAATACACAT
* * *
13753411 CACCAGTATGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
13753451 CACCAGCTCGAATGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
13753491 CACCAGCTCGAATGCTCTTTGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
13753531 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
13753571 CACTAGCACGAATGCTCTTCGAGATTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
13753611 CACCAGCTCGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
13753651 CACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
13753691 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG
13753725 GTATCTAACT
Statistics
Matches: 251, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 251 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:13755064 original size:37 final size:37
Alignment explanation
Indices: 13755005--13755150 Score: 213
Period size: 37 Copynumber: 3.9 Consensus size: 37
13754995 AGCTCAGATG
* * *
13755005 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
13755042 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* * *
13755078 TATATTTCCACACGTAGTTATCGGGTCTTACCCGGACA
1 -AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
13755116 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
13755151 ATATATTTCC
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
36 1 0.01
37 95 0.98
38 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:13755100 original size:74 final size:74
Alignment explanation
Indices: 13755010--13755161 Score: 277
Period size: 74 Copynumber: 2.1 Consensus size: 74
13755000 AGATGAAATC
13755010 TCCACACGAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13755075 GAATATATT
66 GAATATATT
* * *
13755084 TCCACACGTAGTTATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 TCCACACGAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
13755149 GAATATATT
66 GAATATATT
13755158 TCCA
1 TCCA
13755162 AGTTTCATGT
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (74 bp):
TCCACACGAAGTTATCGGGTCTTACCCAGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
GAATATATT
Found at i:13755350 original size:48 final size:48
Alignment explanation
Indices: 13755297--13755583 Score: 459
Period size: 48 Copynumber: 6.0 Consensus size: 48
13755287 CCACACCTCC
* * * * *
13755297 TACATACTACACACTAGCCCTTCGGCTTTACCACATATACGTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
13755345 TACATATTTCACACTAGCGATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
13755395 TATATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
13755443 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATC-CA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
13755490 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
13755538 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
13755584 TTATCTTGTG
Statistics
Matches: 225, Mismatches: 11, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 47 0.21
48 134 0.60
50 44 0.20
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:13755534 original size:95 final size:97
Alignment explanation
Indices: 13755297--13755583 Score: 461
Period size: 95 Copynumber: 3.0 Consensus size: 97
13755287 CCACACCTCC
* * * * *
13755297 TACATACTACACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
13755362 CGATTCGGCTTTACCACATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTCA-A
* * *
13755395 TATATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCCCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
13755460 CCATTCGGCTTTACCACATATACATATC-C-A
66 CCATTCGGCTTTACCACATATACATATCTCAA
*
13755490 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
13755555 CCATTCGGCTTTACCACATATACATATCT
66 CCATTCGGCTTTACCACATATACATATCT
13755584 TTATCTTGTG
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
95 91 0.52
97 1 0.01
98 84 0.48
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCAA
Found at i:13761594 original size:47 final size:48
Alignment explanation
Indices: 13761525--13761792 Score: 184
Period size: 47 Copynumber: 5.7 Consensus size: 48
13761515 TAAGGTAACG
* * *
13761525 ATGCCATGTCCTAGACATGGTCTTACACTAGCTCATATCTC-AAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCGAAGCCA
* * * * *
13761572 ATGCCATGTCCCGGACATGGTCTTATACT-GACT-ATCCTCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCAT-GTCTCGAAGCCA
* * * *
13761620 ATG-CATGTCCCAGACAT-GTCTTACATTAGCTTACGTCTCGAGGCCGA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCGAAGCC-A
* * * *
13761667 A-G-CATGTCCCAGACAT-GTCTTACACTAGCACTTGTCTC-AATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCGAA-GCCA
* * *** **
13761712 ATGCGATGTCCCAGACATGGTCTTACACT-GTCTCTTAAAAT-GTGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCAT-GTCTCGAAGCCA
13761760 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCA
13761793 CACAAATGAC
Statistics
Matches: 173, Mismatches: 34, Indels: 29
0.73 0.14 0.12
Matches are distributed among these distances:
45 2 0.01
46 69 0.40
47 76 0.44
48 25 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCGAAGCCA
Found at i:13761781 original size:140 final size:140
Alignment explanation
Indices: 13761529--13761790 Score: 339
Period size: 140 Copynumber: 1.9 Consensus size: 140
13761519 GTAACGATGC
* * *
13761529 CATGTCCTAGACATGGTCTTACACTAGCTCATATCTCAAGTCAATGCCATGTCCCGGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCAATGCCATGTCCCAGACATGGTC
* **** * *
13761594 TTATACTGACTATCCTCTCGTAGCCGATGCATGTCCCAGACATGTCTTACATTAGCTTACGTCTC
66 TTACACTGACTATAAAATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTC
13761659 GAGGCCGAAG
131 GAGGCCGAAG
* * * *
13761669 CATGTCCCAGACAT-GTCTTACACTAGCACTTGTCTCAATGTCGATGCGATGTCCCAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCACATATCTCAA-GTCAATGCCATGTCCCAGACATGGT
* * *
13761733 CTTACACTGTCTCTTAAAAT-GTGGCCAATGCATGTCCCAGACATGTCTTACACTAGCT
65 CTTACACTGACT-ATAAAATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTAGCT
13761791 CACACAAATG
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
139 21 0.20
140 80 0.78
141 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGTCAATGCCATGTCCCAGACATGGTC
TTACACTGACTATAAAATCGTAGCCAATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTC
GAGGCCGAAG
Found at i:13777580 original size:11 final size:11
Alignment explanation
Indices: 13777564--13777598 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
13777554 AAGAAAGAAC
13777564 TTTTTATTTAA
1 TTTTTATTTAA
13777575 TTTTTATTTAA
1 TTTTTATTTAA
13777586 TTTTTATTTAA
1 TTTTTATTTAA
13777597 TT
1 TT
13777599 GTGTATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTTATTTAA
Found at i:13777919 original size:20 final size:19
Alignment explanation
Indices: 13777870--13777923 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
13777860 TAAATCGAAC
* *
13777870 AAATCAAATTAATTTGGTG
1 AAATCAATTTAATTTAGTG
* *
13777889 AAATCAGTTTAATTTAGTT
1 AAATCAATTTAATTTAGTG
13777908 AATATCAATTTAATTT
1 AA-ATCAATTTAATTT
13777924 TAAATATAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (19 bp):
AAATCAATTTAATTTAGTG
Found at i:13778457 original size:15 final size:15
Alignment explanation
Indices: 13778437--13778470 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13778427 CCTCCAAACG
*
13778437 CCACAAGCATCGCCA
1 CCACAAACATCGCCA
*
13778452 CCACAAACATCGTCA
1 CCACAAACATCGCCA
13778467 CCAC
1 CCAC
13778471 CGCCACCGCA
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:0.35, C:0.47, G:0.09, T:0.09
Consensus pattern (15 bp):
CCACAAACATCGCCA
Found at i:13780002 original size:54 final size:55
Alignment explanation
Indices: 13779944--13780080 Score: 190
Period size: 54 Copynumber: 2.5 Consensus size: 55
13779934 GGGAGATTTA
* * * *
13779944 TGGTGAGAGGAGAAGGGAGAGGGAGCGAGCA-AGGAGTAGAGATAGAGACAT-GAG
1 TGGTGAAAGGAGAAGGGAGAAGGAGCGAG-AGAGGAGTAGAGAGAGAGAAATGGAG
*
13779998 TGGTGAAAGGAGAAGGGAGAAGGAGCGAGAGAGGAGTAGGGAGAGAGAAATGGAG
1 TGGTGAAAGGAGAAGGGAGAAGGAGCGAGAGAGGAGTAGAGAGAGAGAAATGGAG
*
13780053 AGG-GAAAGGAGAAGGGAGAAGGAGCGAG
1 TGGTGAAAGGAGAAGGGAGAAGGAGCGAG
13780081 GGAAGAGCCG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
53 1 0.01
54 69 0.92
55 5 0.07
ACGTcount: A:0.39, C:0.04, G:0.50, T:0.07
Consensus pattern (55 bp):
TGGTGAAAGGAGAAGGGAGAAGGAGCGAGAGAGGAGTAGAGAGAGAGAAATGGAG
Found at i:13780114 original size:54 final size:56
Alignment explanation
Indices: 13779943--13780128 Score: 179
Period size: 54 Copynumber: 3.4 Consensus size: 56
13779933 AGGGAGATTT
* * * * * * *
13779943 ATGGTGAGAGGAGAAGGGAGAGGGAGCGAGCA-AGGAGTAGAGATAGAGACAT-GAG
1 ATGGTGAAAGGAGAAGGGAGAAGGAGCGAG-AGAAGAGCAGGGACAGAGAAATCGAG
* * * *
13779998 -TGGTGAAAGGAGAAGGGAGAAGGAGCGAGAGAGGAGTAGGGAGAGAGAAATGGAG
1 ATGGTGAAAGGAGAAGGGAGAAGGAGCGAGAGAAGAGCAGGGACAGAGAAATCGAG
* * * *
13780053 A-GG-GAAAGGAGAAGGGAGAAGGAGCGAGGGAAGAGCCGGGACAG-G-GATCTAG
1 ATGGTGAAAGGAGAAGGGAGAAGGAGCGAGAGAAGAGCAGGGACAGAGAAATCGAG
13780105 ATGGTGAAAGGAGAAGGGAGAAGG
1 ATGGTGAAAGGAGAAGGGAGAAGG
13780129 TGCATGATAG
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
52 5 0.04
53 4 0.04
54 99 0.88
55 5 0.04
ACGTcount: A:0.39, C:0.05, G:0.49, T:0.07
Consensus pattern (56 bp):
ATGGTGAAAGGAGAAGGGAGAAGGAGCGAGAGAAGAGCAGGGACAGAGAAATCGAG
Found at i:13794897 original size:21 final size:21
Alignment explanation
Indices: 13794868--13794929 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
13794858 TTCAATCCTC
*
13794868 AATTCTTAATTCTC-AATTTT
1 AATTTTTAATTCTCAAATTTT
13794888 ATATTTTTAA-TCTTCAAATTTT
1 A-ATTTTTAATTC-TCAAATTTT
*
13794910 AATTTTCAATT-TCAAATTTT
1 AATTTTTAATTCTCAAATTTT
13794930 TAAACCTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 12 0.33
21 16 0.44
22 8 0.22
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.56
Consensus pattern (21 bp):
AATTTTTAATTCTCAAATTTT
Found at i:13794915 original size:6 final size:7
Alignment explanation
Indices: 13794840--13794921 Score: 62
Period size: 7 Copynumber: 11.7 Consensus size: 7
13794830 TTCTATTCTA
13794840 AATTTTC
1 AATTTTC
13794847 AATTTTC
1 AATTTTC
*
13794854 AATCTTC
1 AATTTTC
**
13794861 AATCCTC
1 AATTTTC
13794868 AATTCTT-
1 AATT-TTC
*
13794875 AATTCTC
1 AATTTTC
13794882 AATTTT-
1 AATTTTC
*
13794888 ATATTTTT
1 A-ATTTTC
*
13794896 AATCTTC
1 AATTTTC
13794903 AAATTTT-
1 -AATTTTC
13794910 AATTTTC
1 AATTTTC
13794917 AATTT
1 AATTT
13794922 CAAATTTTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
6 8 0.13
7 45 0.75
8 7 0.12
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTTC
Found at i:13794929 original size:35 final size:35
Alignment explanation
Indices: 13794834--13794948 Score: 110
Period size: 35 Copynumber: 3.3 Consensus size: 35
13794824 TCATTCTTCT
* * *
13794834 ATTCTAAATTTTCAATTTTC-AATCTTCAATCCTCA
1 ATTCTTAATTTTCAA-TTTCAAATTTTTAATCCTCA
* * * *
13794869 ATTCTTAATTCTCAATTTTATATTTTTAATCTTCAA
1 ATTCTTAATTTTCAATTTCAAATTTTTAATCCTC-A
*
13794905 ATT-TTAATTTTCAATTTCAAATTTTTAAACCTCA
1 ATTCTTAATTTTCAATTTCAAATTTTTAATCCTCA
13794939 A-TCTTCAATT
1 ATTCTT-AATT
13794949 ATTTTTTTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
33 1 0.02
34 7 0.11
35 52 0.81
36 4 0.06
ACGTcount: A:0.32, C:0.17, G:0.00, T:0.50
Consensus pattern (35 bp):
ATTCTTAATTTTCAATTTCAAATTTTTAATCCTCA
Found at i:13794948 original size:21 final size:21
Alignment explanation
Indices: 13794896--13794948 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
13794886 TTATATTTTT
* ***
13794896 AATCTTCAAATTTTAATTTTC
1 AATCTTCAATTTTTAAACCTC
13794917 AAT-TTCAAATTTTTAAACCTC
1 AATCTTC-AATTTTTAAACCTC
13794938 AATCTTCAATT
1 AATCTTCAATT
13794949 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (21 bp):
AATCTTCAATTTTTAAACCTC
Found at i:13794963 original size:13 final size:13
Alignment explanation
Indices: 13794945--13794974 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
13794935 CTCAATCTTC
13794945 AATTATTTTTTTA
1 AATTATTTTTTTA
*
13794958 AATTATTTTTTTG
1 AATTATTTTTTTA
13794971 AATT
1 AATT
13794975 TTATTTGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (13 bp):
AATTATTTTTTTA
Found at i:13797230 original size:26 final size:26
Alignment explanation
Indices: 13797194--13797253 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
13797184 GAAACTCTAG
*
13797194 AGAGCCATTAATCAGGAAGTTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
13797220 AGAGCCTTTAATCGGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
*
13797246 AAAGCCAT
1 AGAGCCAT
13797254 ATATCGCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:13801763 original size:47 final size:47
Alignment explanation
Indices: 13801690--13801892 Score: 277
Period size: 47 Copynumber: 4.3 Consensus size: 47
13801680 AGCTTAAGAT
*
13801690 CGAATGGCCAACGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
*
13801737 CGAATGGCCAATGTGATGAATATGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** *
13801784 CGAATGGCCAATGTGATGAATGTGAAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
13801831 CGAATGGTTAATGTGAT-ATATGTGCAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
13801876 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
13801893 AAAGTGTGCA
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
45 22 0.16
46 6 0.04
47 110 0.80
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:13802016 original size:39 final size:40
Alignment explanation
Indices: 13801962--13802046 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
13801952 TAAATGATTG
* * * *
13801962 TGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTCA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
*
13802001 TGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTAA
1 TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
13802041 TGCTGG
1 TGCTGG
13802047 TGAATTAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 18 0.45
40 22 0.55
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (40 bp):
TGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTAA
Found at i:13809484 original size:28 final size:28
Alignment explanation
Indices: 13809444--13809501 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
13809434 GGGGACCTGA
*
13809444 TTGTCATACAACCTCCCGATCAATGTGG
1 TTGTCATACAACCTCCCAATCAATGTGG
*
13809472 TTGTCATGCAACCTCCCAATCAATGTGG
1 TTGTCATACAACCTCCCAATCAATGTGG
13809500 TT
1 TT
13809502 CGTTTGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (28 bp):
TTGTCATACAACCTCCCAATCAATGTGG
Found at i:13809646 original size:63 final size:63
Alignment explanation
Indices: 13809588--13809706 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 63
13809578 CTTTAGTTTC
* *
13809588 AGTTTATTTTACACAACCACCAC-ATCATGCACAATCATTTCCTGCATCAACACATTTAGCACT
1 AGTTTATTTTACACAACCACCACAAT-AGGCACAATCATTCCCTGCATCAACACATTTAGCACT
* * *
13809651 AGTTTATTTTACACAAGCACCACAATAGGCCCCATCATTCCCTGCATCAACACATT
1 AGTTTATTTTACACAACCACCACAATAGGCACAATCATTCCCTGCATCAACACATT
13809707 CTCTAGGGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
63 48 0.96
64 2 0.04
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.29
Consensus pattern (63 bp):
AGTTTATTTTACACAACCACCACAATAGGCACAATCATTCCCTGCATCAACACATTTAGCACT
Found at i:13810502 original size:5 final size:5
Alignment explanation
Indices: 13810492--13810519 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
13810482 CGTGCTGTGA
13810492 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
13810520 CACACAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:13814810 original size:5 final size:5
Alignment explanation
Indices: 13814800--13814832 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
13814790 CAATTTGTGA
13814800 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
13814833 CATACAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:13816076 original size:127 final size:129
Alignment explanation
Indices: 13815916--13816213 Score: 388
Period size: 130 Copynumber: 2.3 Consensus size: 129
13815906 GATAAATCAA
* * * * * *
13815916 AACCTAGCACG-TAGGGCACAATTTCTCGAAATTTCCAAACACGAAATATTGCCTT-GTTTTTAA
1 AACCCAGCACGATAGGGCACGATTCCTCG-AATTTCCAAACACG-AACATTGCCTTCATTTTAAA
* * * *
13815979 -AATTTAGAAAACATGAGTAAAATTCTAAAGGAATATTTGATTA-TTTGAACAAACGGGAAATTG
64 GAATTTAGAAAACATGAGTAAAATTCCAAAGGAATATTCGATCATTTTGAACAAACGAGAAATTG
13816042 C
129 C
* * *
13816043 AACCCAGCACGATAGGGCACGATTCCCCGAATTTTCAAACTTCGAACATTGCCTTCATTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAAC-ACGAACATTGCCTTCATTTTAAAG
** *
13816108 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATCATTTTGAACAAACGAGAAATTGC
65 AATTTAGAAAACATGAGTAAAATTCCAAAGGAATATTCGATCATTTTGAACAAACGAGAAATTGC
*
13816173 AACCCAGCACGATAGGGCACGATTCCTCGAATTTCTAAACA
1 AACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACA
13816214 TCAAACATCG
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
127 30 0.21
128 22 0.15
129 37 0.25
130 57 0.39
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.28
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACACGAACATTGCCTTCATTTTAAAGA
ATTTAGAAAACATGAGTAAAATTCCAAAGGAATATTCGATCATTTTGAACAAACGAGAAATTGC
Found at i:13824997 original size:64 final size:65
Alignment explanation
Indices: 13824868--13825036 Score: 225
Period size: 64 Copynumber: 2.6 Consensus size: 65
13824858 AGGTATGAGC
* * ** * *
13824868 ATAGAGTAATTCCTTGATGAGGAAGTATCATAGACCGTAAGGGTTTTTTATGCTGGTAATGTATT
1 ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAAGGGTTTTTTACGCTGATAATGTATT
* * *
13824933 ATAGAGTAATTCCTCAATAAGGAAG-ATCGTAGAAATTAA-GGTTTTTTAACGCTGATAATGTAT
1 ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAAGGGTTTTTT-ACGCTGATAATGTAT
13824996 T
65 T
*
13824997 ATAGAGTAATTCCTCGATAAAGAAGTATCATAGAAAGTAA
1 ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAA
13825037 TTTTTTTTTT
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 8 0.09
64 47 0.53
65 34 0.38
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (65 bp):
ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAAGGGTTTTTTACGCTGATAATGTATT
Found at i:13843797 original size:11 final size:11
Alignment explanation
Indices: 13843783--13843827 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
13843773 AGATAAATAT
13843783 TATTTTATTAA
1 TATTTTATTAA
*
13843794 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
13843807 TATTTTATTAT
1 TATTTTATTAA
13843818 TATTTTATTA
1 TATTTTATTA
13843828 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:13845731 original size:46 final size:46
Alignment explanation
Indices: 13845679--13845983 Score: 414
Period size: 46 Copynumber: 6.6 Consensus size: 46
13845669 GCTTTCTGAA
** * * *
13845679 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGACAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
13845725 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
13845771 ATGAAAAAAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
13845817 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
13845863 GGGAAATGAATAAGACCATGGTTGAAAGATGCCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
13845909 ATGAAATGAACAAGACCATGGTTGAAAGATACCATTGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
13845955 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
13845984 CACTATGACA
Statistics
Matches: 234, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 233 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:13848849 original size:37 final size:37
Alignment explanation
Indices: 13848799--13848874 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
13848789 TGGCTTAGGA
*
13848799 TTCGACTCCTCCCCGTCAACTACATCTCCTACCCTTT
1 TTCGAATCCTCCCCGTCAACTACATCTCCTACCCTTT
* *
13848836 TTCGAATCCTCCCCGTCAATTGCATCTCCTACCCTTT
1 TTCGAATCCTCCCCGTCAACTACATCTCCTACCCTTT
13848873 TT
1 TT
13848875 TCCTCACTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.16, C:0.42, G:0.07, T:0.36
Consensus pattern (37 bp):
TTCGAATCCTCCCCGTCAACTACATCTCCTACCCTTT
Found at i:13851806 original size:23 final size:23
Alignment explanation
Indices: 13851769--13851815 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13851759 TTGTTTAGCC
*
13851769 ACAAAAAATGGAAAA-AAAGAAAA
1 ACAAAAAATCGAAAACAAA-AAAA
*
13851792 ACAAAAAATCTAAAACAAAAAAA
1 ACAAAAAATCGAAAACAAAAAAA
13851815 A
1 A
13851816 GTGGTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (23 bp):
ACAAAAAATCGAAAACAAAAAAA
Found at i:13859820 original size:18 final size:19
Alignment explanation
Indices: 13859797--13859833 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13859787 GGCTTTCATG
*
13859797 TCTTTTT-TTTTTCTTTTT
1 TCTTTTTATTTTTATTTTT
13859815 TCTTTTTATTTTTATTTTT
1 TCTTTTTATTTTTATTTTT
13859834 CATATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.05, C:0.08, G:0.00, T:0.86
Consensus pattern (19 bp):
TCTTTTTATTTTTATTTTT
Found at i:13859834 original size:18 final size:18
Alignment explanation
Indices: 13859797--13859834 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13859787 GGCTTTCATG
*
13859797 TCTTTTTTTTTTCTTTTT
1 TCTTTTTTTTTTCATTTT
13859815 TCTTTTTATTTTT-ATTTT
1 TCTTTTT-TTTTTCATTTT
13859833 TC
1 TC
13859835 ATATTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.05, C:0.11, G:0.00, T:0.84
Consensus pattern (18 bp):
TCTTTTTTTTTTCATTTT
Found at i:13868049 original size:40 final size:40
Alignment explanation
Indices: 13868005--13868187 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
13867995 GCTACTCGTT
* * *
13868005 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
13868045 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
13868085 CAAATGCCTT-TGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
13868125 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
13868166 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
13868188 CAGACATCAT
Statistics
Matches: 127, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.02
40 111 0.87
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:13868913 original size:2 final size:2
Alignment explanation
Indices: 13868906--13868931 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13868896 ATGTGCAAAC
13868906 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13868932 GTGCAAGGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13871100 original size:30 final size:30
Alignment explanation
Indices: 13871064--13871120 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
13871054 ATGGCCATGA
13871064 CACACGGGCGTGTGGACTACCCATGTGCCT
1 CACACGGGCGTGTGGACTACCCATGTGCCT
* * *
13871094 CACACGGGCGTTTGGATTACCCGTGTG
1 CACACGGGCGTGTGGACTACCCATGTG
13871121 GAAGTGCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.30, G:0.32, T:0.23
Consensus pattern (30 bp):
CACACGGGCGTGTGGACTACCCATGTGCCT
Found at i:13872915 original size:7 final size:6
Alignment explanation
Indices: 13872885--13872914 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
13872875 AGGTTTCTCA
13872885 AAATGG AAATGG AAATGG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATG-G AAATG
13872915 ATACATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Done.