Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 321 of 333
Found at i:104488223 original size:27 final size:27
Alignment explanation
Indices: 104488193--104488281 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 27
104488183 AAAATTACCA
104488193 AAATACCCATGATTTACAAAATTATAG
1 AAATACCCATGATTTACAAAATTATAG
* *
104488220 AAATACCCTTGGCTTT-CTAAAAATTATAG
1 AAATACCCAT-GATTTAC--AAAATTATAG
* *
104488249 AAATA-CTATTGGTTTACAAAATTACT-G
1 AAATACCCA-TGATTTACAAAATTA-TAG
104488276 AAATAC
1 AAATAC
104488282 ACTTGGTTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
27 23 0.46
28 10 0.20
29 17 0.34
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCATGATTTACAAAATTATAG
Found at i:104488287 original size:27 final size:27
Alignment explanation
Indices: 104488205--104488290 Score: 97
Period size: 27 Copynumber: 3.1 Consensus size: 27
104488195 ATACCCATGA
*
104488205 TTTACAAAATTATAGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACACTTGG
104488232 CTTT-CTAAAAATTATAGAAATACTA-TTGG
1 -TTTAC--AAAATTATAGAAATAC-ACTTGG
104488261 TTTACAAAATTACT-GAAATACACTTGG
1 TTTACAAAATTA-TAGAAATACACTTGG
104488288 TTT
1 TTT
104488291 GTAGATTTAC
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
26 1 0.02
27 22 0.43
28 7 0.14
29 21 0.41
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACACTTGG
Found at i:104488367 original size:27 final size:27
Alignment explanation
Indices: 104488335--104488386 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
104488325 GACTAAAATA
104488335 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
104488362 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
104488387 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:104489300 original size:24 final size:24
Alignment explanation
Indices: 104489218--104489300 Score: 96
Period size: 25 Copynumber: 3.4 Consensus size: 24
104489208 AGGAAGTGCT
* * *
104489218 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
104489242 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTATC
*
104489267 AGAAAGGGCTTTGCCCCAG-TTATT
1 A-AAAGGGCTTTGCCCCAGTTTATC
104489291 AAAAGAGGCT
1 AAAAG-GGCT
104489301 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:104489494 original size:42 final size:42
Alignment explanation
Indices: 104489435--104489568 Score: 252
Period size: 42 Copynumber: 3.2 Consensus size: 42
104489425 TAGTCTCCCC
104489435 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
104489477 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
104489519 AAATGGGCTTGCATACA-TCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTC-ATTGACATTACATGTGATATTG
104489561 AAATGGGC
1 AAATGGGC
104489569 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
41 2 0.02
42 89 0.98
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:104489627 original size:31 final size:31
Alignment explanation
Indices: 104489592--104489737 Score: 224
Period size: 31 Copynumber: 4.7 Consensus size: 31
104489582 CGTTTACAGT
104489592 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
104489623 AAAGGCTTCGGCTCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
104489654 AAAGGCTTCGGCCCAGTGATATGATTTGTGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
104489685 AAAGGCTTCAGCCTAGTGATATGATTTATGGA
1 AAAGGCTTCGGCCCAGTGATATGATTTAT-GA
*
104489717 AAA-GCTTCGACCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
104489738 TCAAGACTAA
Statistics
Matches: 105, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
30 5 0.05
31 95 0.90
32 5 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:104491399 original size:84 final size:84
Alignment explanation
Indices: 104491258--104492034 Score: 1165
Period size: 84 Copynumber: 9.3 Consensus size: 84
104491248 CAAAATTCAG
104491258 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
104491323 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
104491342 CGCCTTAATCCCTTAAGCAGTAGGGTAACATGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* *
104491407 ATGGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* * *
104491426 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGATCTTATCTTCCTAAGTAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
104491491 GTGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
104491510 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
104491575 GTGGAGTAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
*
104491594 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
104491659 GCGGAGCAGATCGAAGACT
66 GTGGAGCAGATCGAAGACT
* *
104491678 CGCCTTAATCCTCTAAGCGGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
104491743 GTGGAGCAGATCAAAGACT
66 GTGGAGCAGATCGAAGACT
*
104491762 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
104491822 GCGGAGCAGATCGACGACGACT
66 GTGGAGCAGATCGA--A-GACT
* * *
104491844 CGCCTTAATCCCCTAGGTAGTAGGGTAACAGGTTAACTTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
* * *
104491909 GTGGAGGAGATCGAAAACC
66 GTGGAGCAGATCGAAGACT
* * *
104491928 CGTCTTAAT-CCCTAAGAAGTAGGGTAACAGGTTAAATTTACAGATCTTA--TCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
*
104491990 GCGGAGCAGATCGAAGACGAT
66 GTGGAGCAGATCGAAGAC--T
* * *
104492011 GCACCTTAACCCCCTGAGCAGTAG
1 -CGCCTTAATCCCCTAAGCAGTAG
104492035 AGTCCAAGAT
Statistics
Matches: 628, Mismatches: 53, Indels: 23
0.89 0.08 0.03
Matches are distributed among these distances:
79 39 0.06
81 29 0.05
82 34 0.05
83 36 0.06
84 439 0.70
85 12 0.02
87 39 0.06
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (84 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACT
Found at i:104492454 original size:13 final size:13
Alignment explanation
Indices: 104492428--104492461 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
104492418 ATAAGTTCAG
*
104492428 AAAA-AAAAGGAA
1 AAAAGAAAAGAAA
104492440 AAAAGAAAAGAAA
1 AAAAGAAAAGAAA
104492453 AAAAGAAAA
1 AAAAGAAAA
104492462 AAATAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:104493554 original size:84 final size:84
Alignment explanation
Indices: 104493413--104494183 Score: 1095
Period size: 84 Copynumber: 9.3 Consensus size: 84
104493403 AAATTCAGCC
*
104493413 CCTTAATCCCCTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104493478 GGAGCAGATCGAAGACTCA
66 GGAGCAGATCGAAGACTCG
*
104493497 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
104493562 GGAGCAGATCGAAGACTCG
66 GGAGCAGATCGAAGACTCG
* * * *
104493581 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTTCCTATGCACTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
104493646 GGAGCAGATCGAAGACTCG
66 GGAGCAGATCGAAGACTCG
*
104493665 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104493730 GGAGTAGATCGAAGACTCG
66 GGAGCAGATCGAAGACTCG
* *
104493749 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
104493814 GGAGCAGATCGAAGACTCG
66 GGAGCAGATCGAAGACTCG
* * * *
104493833 CCTTAATCCCCTAAGCGGTAGGGTAACAGGTTAAATTTGTAGATCTTATCTCCTTAAGTAGTAGT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104493898 GGAGCAGATCGAAGACTTG
66 GGAGCAGATCGAAGACTCG
* * * *
104493917 CCTTAATCCCCTAAGTAGTAGGGTAACAGG------TT-C-G--C--ATCTCCCTAAACGGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104493970 GGAGCAGATCGACGACGACTTG
66 GGAGCAGATCGA--A-GACTCG
* * * *
104493992 CCTTAATCCCTTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCTTAAGCAGTAAT
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
* *
104494057 GGAGCAGATCGAAAACCCG
66 GGAGCAGATCGAAGACTCG
* * * *
104494076 TCTTAATCCTCTAAGGAGTAGGGTAACAGGTTAAATTTGCAGATCTTA--TCCCTAAGCAGTAGC
1 CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104494139 GGAGCAGATCGAAGACGATGCA
66 GGAGCAGATCGAAGAC--T-CG
104494161 CCTTAA-CCCCTAAGCAGTAGGGT
1 CCTTAATCCCCTAAGCAGTAGGGT
104494184 CAAAGATGAT
Statistics
Matches: 616, Mismatches: 53, Indels: 36
0.87 0.08 0.05
Matches are distributed among these distances:
72 25 0.04
74 2 0.00
75 35 0.06
76 1 0.00
78 2 0.00
81 2 0.00
82 28 0.05
83 1 0.00
84 487 0.79
85 8 0.01
87 25 0.04
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
CCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACTCG
Found at i:104494137 original size:41 final size:42
Alignment explanation
Indices: 104493997--104494137 Score: 114
Period size: 41 Copynumber: 3.4 Consensus size: 42
104493987 ACTTGCCTTA
*
104493997 ATCCCTTAAGTAGTAGGGTAACAGGTTAAATTTGCAGATCTT
1 ATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
* * * * ** *
104494039 ATCTCCTTAAGCAGTAATGG-AGCAGATCGAAA--ACCCG-TCTT
1 ATC-CCTTAAGCAGT-AGGGTAACAGGT-TAAATTTGCAGATCTT
*
104494080 AAT-CCTCTAAGGAGTAGGGTAACAGGTTAAATTTGCAGATCTT
1 -ATCCCT-TAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
104494123 ATCCC-TAAGCAGTAG
1 ATCCCTTAAGCAGTAG
104494138 CGGAGCAGAT
Statistics
Matches: 72, Mismatches: 17, Indels: 21
0.65 0.15 0.19
Matches are distributed among these distances:
40 9 0.12
41 25 0.35
42 11 0.15
43 21 0.29
44 6 0.08
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (42 bp):
ATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTT
Found at i:104494572 original size:20 final size:19
Alignment explanation
Indices: 104494527--104494564 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
104494517 AAATAAGTTC
*
104494527 AAAAAAAAAAGGAAAAAAG
1 AAAAGAAAAAGGAAAAAAG
104494546 AAAAGAAAAAGAGAAAAAA
1 AAAAGAAAAAG-GAAAAAA
104494565 ATAGAGAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAAGGAAAAAAG
Found at i:104495569 original size:43 final size:43
Alignment explanation
Indices: 104495521--104495660 Score: 146
Period size: 43 Copynumber: 3.3 Consensus size: 43
104495511 CACCTTAATC
*
104495521 CCCTAACCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
* * * ** *
104495564 CCCTAAGCAGTAGTGG-AGCAGATCAAAGACT-C-G-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTTAAA-TTTGCAGATCTT-ATCT
*
104495605 CCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
104495648 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
104495661 TGGAGCAGAT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
40 3 0.04
41 24 0.32
42 8 0.11
43 36 0.49
44 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCT
Found at i:104495654 original size:84 final size:84
Alignment explanation
Indices: 104495513--104496038 Score: 720
Period size: 84 Copynumber: 6.4 Consensus size: 84
104495503 AAATTCAGCA
* *
104495513 CCTTAATCCCCTAACCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104495578 GGAGCAGATCAAAGACTCG
66 GGAGCAGATCGAAGACTCG
104495597 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
104495662 GGAGCAGATC---GA----
66 GGAGCAGATCGAAGACTCG
*
104495674 ----AATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTTCCTAAGCAGTAGT
1 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
104495735 GGAGCAGATCGAAGACTCG
66 GGAGCAGATCGAAGACTCG
* * * *
104495754 CCTTAATTCCCTT-AGTAGTAGGATAATAGGTTAAATTTGCAGATCTTATCTCCCTAAGTAGTAG
1 CCTTAA-TCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAG
*
104495818 TGGAGCAGATCGAAGACTCA
65 TGGAGCAGATCGAAGACTCG
* * *
104495838 CCTTAATCCCCTAAGCAGTAGGATAACAGGTTAAATTTGTAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104495903 GGAGCAGATCGAAGACCCG
66 GGAGCAGATCGAAGACTCG
* * * * * *
104495922 CCTTAATCCCCTAAGCGGTAGAGTAACAGGTTAAATTTACAGTTCTTA--TCCCTAAGCAGTAGC
1 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
*
104495985 GGAGCAGATCGAAGAAGATGCG
66 GGAGCAGATCGAAG-A-CT-CG
* *
104496007 CCTTAACCCCTTAAACAGTAGGGTAACAGGTT
1 CCTTAATCCCTTAAGCAGTAGGGTAACAGGTT
104496039 GAAGACATAG
Statistics
Matches: 396, Mismatches: 30, Indels: 31
0.87 0.07 0.07
Matches are distributed among these distances:
73 70 0.18
76 2 0.01
81 2 0.01
82 28 0.07
83 6 0.02
84 253 0.64
85 35 0.09
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (84 bp):
CCTTAATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAGACTCG
Found at i:104495803 original size:157 final size:157
Alignment explanation
Indices: 104495517--104495997 Score: 664
Period size: 157 Copynumber: 3.0 Consensus size: 157
104495507 TCAGCACCTT
* *
104495517 AATCCCCTAACCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 AATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
104495582 CAGATCAAAGACTCGCCTTAA-TCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTAT
66 CAGATCGAAGACTCGCCTTAATTCCCTT-AGCAGTAGGATAACAGGTTAAATTTGCAGATCTTAT
104495646 CTCCCTAAGCAGTAGTGGAGCAGATCGA
130 CTCCCTAAGCAGTAGTGGAGCAGATCGA
*
104495674 AATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTTCCTAAGCAGTAGTGGAG
1 AATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAG
* *
104495739 CAGATCGAAGACTCGCCTTAATTCCCTTAGTAGTAGGATAATAGGTTAAATTTGCAGATCTTATC
66 CAGATCGAAGACTCGCCTTAATTCCCTTAGCAGTAGGATAACAGGTTAAATTTGCAGATCTTATC
*
104495804 TCCCTAAGTAGTAGTGGAGCAGATCGA
131 TCCCTAAGCAGTAGTGGAGCAGATCGA
* *
104495831 AGACTCACCTTAATCCCCTAAGCAGTAGGATAACAGGTTAAATTTGTAGATCTTATCTCCCTAAG
1 A-A-TC-CC----T----TAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAG
* * * *
104495896 CAGTAGTGGAGCAGATCGAAGACCCGCCTTAATCCCCTAAGCGGTA-GAGTAACAGGTTAAATTT
55 CAGTAGTGGAGCAGATCGAAGACTCGCCTTAATTCCCTTAGCAGTAGGA-TAACAGGTTAAATTT
* * *
104495960 ACAGTTCTTA--TCCCTAAGCAGTAGCGGAGCAGATCGA
119 GCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGA
104495997 A
1 A
104495998 GAAGATGCGC
Statistics
Matches: 290, Mismatches: 21, Indels: 17
0.88 0.06 0.05
Matches are distributed among these distances:
157 143 0.49
158 7 0.02
159 2 0.01
160 2 0.01
164 1 0.00
166 26 0.09
167 2 0.01
168 107 0.37
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (157 bp):
AATCCCTTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTAGTGGAG
CAGATCGAAGACTCGCCTTAATTCCCTTAGCAGTAGGATAACAGGTTAAATTTGCAGATCTTATC
TCCCTAAGCAGTAGTGGAGCAGATCGA
Found at i:104495858 original size:41 final size:41
Alignment explanation
Indices: 104495805--104495942 Score: 100
Period size: 41 Copynumber: 3.3 Consensus size: 41
104495795 GATCTTATCT
*
104495805 CCCTAAGTAGTAGTGGAGCAGATCGAAGACTCACCTTAATC
1 CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCTTAATC
* * * ** *** * *
104495846 CCCTAAGCAGTAG-GATAACAGGTTAAATTTGTAGATCTT-ATC
1 CCCTAAGCAGTAGTG-GAGCAGATCGAA-GACT-CACCTTAATC
* *
104495888 TCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCGCCTTAATC
1 -CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCTTAATC
*
104495930 CCCTAAGCGGTAG
1 CCCTAAGCAGTAG
104495943 AGTAACAGGT
Statistics
Matches: 67, Mismatches: 24, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
40 1 0.01
41 34 0.51
42 7 0.10
43 24 0.36
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (41 bp):
CCCTAAGCAGTAGTGGAGCAGATCGAAGACTCACCTTAATC
Found at i:104496712 original size:19 final size:19
Alignment explanation
Indices: 104496688--104496783 Score: 137
Period size: 17 Copynumber: 5.2 Consensus size: 19
104496678 AATCTTTAAG
*
104496688 GATATGCAACCTTAGATAT
1 GATATGCAATCTTAGATAT
104496707 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
104496726 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
104496743 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
104496760 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
104496781 GAT
1 GAT
104496784 CTTGTAATCT
Statistics
Matches: 72, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 34 0.47
19 29 0.40
21 9 0.12
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:104498787 original size:11 final size:10
Alignment explanation
Indices: 104498704--104498787 Score: 59
Period size: 10 Copynumber: 8.2 Consensus size: 10
104498694 TAATATAGGG
104498704 AATAATATAT
1 AATAATATAT
104498714 AATAATATAT
1 AATAATATAT
* *
104498724 GAT-ATGTAAT
1 AATAATAT-AT
104498734 AA-AATATAT
1 AATAATATAT
104498743 AAATCAA-ATAT
1 -AAT-AATATAT
104498754 AATGAA-ATAT
1 AAT-AATATAT
104498764 AATAATATGAT
1 AATAATAT-AT
*
104498775 AACTATTATAT
1 AA-TAATATAT
104498786 AA
1 AA
104498788 ATAAGGATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
9 7 0.12
10 34 0.57
11 12 0.20
12 7 0.12
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (10 bp):
AATAATATAT
Found at i:104498939 original size:12 final size:12
Alignment explanation
Indices: 104498920--104498956 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
104498910 TAAAATATAT
104498920 AATGTATAATAA
1 AATGTATAATAA
*
104498932 AATTTATAAATAA
1 AATGTAT-AATAA
104498945 AATGTATAATAA
1 AATGTATAATAA
104498957 TAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (12 bp):
AATGTATAATAA
Found at i:104498945 original size:13 final size:13
Alignment explanation
Indices: 104498920--104498953 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
104498910 TAAAATATAT
104498920 AATGTAT-AATAA
1 AATGTATAAATAA
*
104498932 AATTTATAAATAA
1 AATGTATAAATAA
104498945 AATGTATAA
1 AATGTATAA
104498954 TAATAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AATGTATAAATAA
Found at i:104498965 original size:25 final size:24
Alignment explanation
Indices: 104498912--104498979 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
104498902 ATATATAGTA
*
104498912 AAAT-ATATAATGTATAATAAAAT
1 AAATAATAAAATGTATAATAAAAT
**
104498935 TTATAAATAAAATGTATAATAATAA-
1 AAAT-AATAAAATGTATAATAA-AAT
* *
104498960 AAATAATATAATGAATAATA
1 AAATAATAAAATGTATAATA
104498980 TATGAATAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.06
24 14 0.40
25 17 0.49
26 2 0.06
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATAATAAAATGTATAATAAAAT
Found at i:104498984 original size:11 final size:12
Alignment explanation
Indices: 104498916--104498988 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 12
104498906 ATAGTAAAAT
*
104498916 ATATAATGTATA
1 ATATAATGAATA
* **
104498928 ATAAAATTTATAA
1 ATATAATGAAT-A
* *
104498941 ATAAAATGTATA
1 ATATAATGAATA
*
104498953 ATAATAA-AAATA
1 AT-ATAATGAATA
104498965 ATATAATGAATA
1 ATATAATGAATA
104498977 ATAT-ATGAATA
1 ATATAATGAATA
104498988 A
1 A
104498989 AAAATAATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
11 12 0.24
12 25 0.49
13 14 0.27
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (12 bp):
ATATAATGAATA
Found at i:104508425 original size:18 final size:17
Alignment explanation
Indices: 104508402--104508437 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
104508392 GTCATTCATT
104508402 TATTCAGTAACAGTCAAA
1 TATTCAGTAACAGT-AAA
*
104508420 TATTCAGTAGCAGTAAA
1 TATTCAGTAACAGTAAA
104508437 T
1 T
104508438 TTTTCAATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (17 bp):
TATTCAGTAACAGTAAA
Found at i:104509962 original size:138 final size:134
Alignment explanation
Indices: 104509718--104509967 Score: 290
Period size: 137 Copynumber: 1.8 Consensus size: 134
104509708 CTTTTATGTT
* * * *
104509718 TTAATTATATTATAATATAATATTATTCTTCAATAATAAGTAAGTATACATGTATATTACAAATG
1 TTAATTATATTATAAAATAATAATATTCTTAAATAATAAGTAAATATACATG-ATATTACAAATG
* *
104509783 TATATATATCATTGGTACACATATAAATTATTATTACCACACACTTGTCTTTATTAAATTATTTA
65 TATAAATAT-ATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTAAATTATTTA
104509848 CTTTAA
129 CTTTAA
104509854 TTAATTA-ATTATAAAATAATAATATTTACTTAAATAATAAGTAAATACATACATG-TATTACAA
1 TTAATTATATTATAAAATAATAATA-TT-CTTAAATAATAAGTAAAT--ATACATGATATTACAA
* * ** * *
104509917 ATGTATGCACAATAT-TTATTACACATGTATTTTATTTTTATCACACACTTG
62 ATGTAT--A-AATATATTAGTACACATATAAATTATTATTACCACACACTTG
104509968 GCATTCACCT
Statistics
Matches: 95, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
135 15 0.16
136 9 0.09
137 30 0.32
138 29 0.31
139 8 0.08
140 4 0.04
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (134 bp):
TTAATTATATTATAAAATAATAATATTCTTAAATAATAAGTAAATATACATGATATTACAAATGT
ATAAATATATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTAAATTATTTACT
TTAA
Found at i:104514047 original size:23 final size:23
Alignment explanation
Indices: 104514016--104514059 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
104514006 ATTGAGTATT
* *
104514016 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
104514039 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
104514060 TATGGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:104514135 original size:13 final size:13
Alignment explanation
Indices: 104514113--104514177 Score: 78
Period size: 13 Copynumber: 5.0 Consensus size: 13
104514103 ATGTGATATT
*
104514113 AAAA-ATATATAC
1 AAAATATATATAA
*
104514125 ATAATATATATAA
1 AAAATATATATAA
*
104514138 AAAATATAATATTA
1 AAAATAT-ATATAA
104514152 AAAATATATATAA
1 AAAATATATATAA
*
104514165 ATAATATATATAA
1 AAAATATATATAA
104514178 TATATACATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
12 3 0.07
13 30 0.67
14 12 0.27
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATATATATAA
Found at i:104514155 original size:16 final size:18
Alignment explanation
Indices: 104514125--104514183 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 18
104514115 AAATATATAC
104514125 ATAATATATATAAAAAAT
1 ATAATATATATAAAAAAT
104514143 AT-A-ATAT-T-AAAAAT
1 ATAATATATATAAAAAAT
* * *
104514157 AT-ATATAAATAATATAT
1 ATAATATATATAAAAAAT
104514174 ATAATATATA
1 ATAATATATA
104514184 CATAATATGG
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 9 0.27
15 4 0.12
16 5 0.15
17 7 0.21
18 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATATATATAAAAAAT
Found at i:104514174 original size:11 final size:11
Alignment explanation
Indices: 104514108--104514191 Score: 60
Period size: 11 Copynumber: 8.4 Consensus size: 11
104514098 GAATAATGTG
104514108 ATAT-TAAA-A
1 ATATATAAATA
*
104514117 ATATATACATA
1 ATATATAAATA
104514128 ATATATATAA-A
1 ATATATA-AATA
*
104514139 AAATAT-AAT-
1 ATATATAAATA
*
104514148 AT-TAAAAAT-
1 ATATATAAATA
104514157 ATATATAAATA
1 ATATATAAATA
104514168 ATATAT--ATA
1 ATATATAAATA
*
104514177 ATATATACATA
1 ATATATAAATA
104514188 ATAT
1 ATAT
104514192 GGTATTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
8 2 0.03
9 21 0.35
10 9 0.15
11 27 0.45
12 1 0.02
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATATAAATA
Found at i:104514188 original size:24 final size:24
Alignment explanation
Indices: 104514115--104514212 Score: 69
Period size: 24 Copynumber: 4.1 Consensus size: 24
104514105 GTGATATTAA
*
104514115 AAAT-ATATACATAATATAT--AT
1 AAATAATATATATAATATATACAT
* * *
104514136 AAAAAATATAATATTAAAAATATATAT
1 AAATAATAT-ATA-T-AATATATACAT
104514163 AAATAATATATATAATATATACAT
1 AAATAATATATATAATATATACAT
** *
104514187 AATATGGTAT-TAAAATATATACAT
1 AA-ATAATATATATAATATATACAT
104514211 AA
1 AA
104514213 CATATACATA
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.05
22 4 0.07
23 2 0.03
24 27 0.44
25 12 0.20
26 3 0.05
27 10 0.16
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (24 bp):
AAATAATATATATAATATATACAT
Found at i:104514326 original size:23 final size:22
Alignment explanation
Indices: 104514272--104514354 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
104514262 AATACTACAT
104514272 AAATATGTACAT-ACATATTAA
1 AAATATGTACATAACATATTAA
**
104514293 AAATAAATACATAACAATATTAA
1 AAATATGTACATAAC-ATATTAA
* * *
104514316 TAGTATGTACATAATATAGTGTTAA
1 AAATATGTACATAACATA---TTAA
*
104514341 AAATATATACATAA
1 AAATATGTACATAA
104514355 TATAGTTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
21 10 0.21
22 5 0.11
23 17 0.36
25 15 0.32
ACGTcount: A:0.54, C:0.07, G:0.06, T:0.33
Consensus pattern (22 bp):
AAATATGTACATAACATATTAA
Found at i:104514377 original size:27 final size:25
Alignment explanation
Indices: 104514287--104514385 Score: 112
Period size: 25 Copynumber: 4.0 Consensus size: 25
104514277 TGTACATACA
* *
104514287 TATTAAAAATAAATACATAACA-A-
1 TATTAAAAATATATACATAATATAG
* * *
104514310 TATTAATAGTATGTACATAATATAG
1 TATTAAAAATATATACATAATATAG
*
104514335 TGTTAAAAATATATACATAATATAG
1 TATTAAAAATATATACATAATATAG
104514360 TTATTAAAAAATATATACATAATATA
1 -TATT-AAAAATATATACATAATATA
104514386 ATAAAATGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
23 17 0.27
24 1 0.02
25 21 0.34
26 3 0.05
27 20 0.32
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (25 bp):
TATTAAAAATATATACATAATATAG
Found at i:104514392 original size:48 final size:46
Alignment explanation
Indices: 104514340--104514446 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 46
104514330 TATAGTGTTA
104514340 AAAATATATACATAATAT-AGT-TATTAAAAAATATATACATAATATAAT
1 AAAATATATA-ATAATATGA-TATATTAAAAAA-ATATACATAATAT-AT
* * *
104514388 AAAATGTATGAATAATATGATATTTTAAAAAACTATACATAATATAT
1 AAAATATAT-AATAATATGATATATTAAAAAAATATACATAATATAT
104514435 AAAA-ATATAATA
1 AAAATATATAATA
104514447 TTTAAAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
45 4 0.08
46 3 0.06
47 6 0.12
48 28 0.54
49 11 0.21
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (46 bp):
AAAATATATAATAATATGATATATTAAAAAAATATACATAATATAT
Found at i:104514397 original size:75 final size:74
Alignment explanation
Indices: 104514287--104514433 Score: 167
Period size: 75 Copynumber: 2.0 Consensus size: 74
104514277 TGTACATACA
* * *
104514287 TATTAAAAATAAATACATAACAATATTAATAGTATGTACATAATAT-A-GTGTTAAAAATA-TAT
1 TATTAAAAATAAATACATAACAATAATAAAAGTATG-A-ATAATATGATATGTTAAAAA-ACTAT
104514349 ACATAATATAGT
63 ACATAATATAGT
* * *
104514361 TATTAAAAAATATATACATAA-TATAATAAAATGTATGAATAATATGATATTTTAAAAAACTATA
1 TATT-AAAAATAAATACATAACAATAATAAAA-GTATGAATAATATGATATGTTAAAAAACTATA
104514425 CATAATATA
64 CATAATATA
104514434 TAAAAATATA
Statistics
Matches: 62, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
73 7 0.11
74 14 0.23
75 41 0.66
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (74 bp):
TATTAAAAATAAATACATAACAATAATAAAAGTATGAATAATATGATATGTTAAAAAACTATACA
TAATATAGT
Found at i:104514446 original size:15 final size:15
Alignment explanation
Indices: 104514426--104514482 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
104514416 AAAACTATAC
104514426 ATAATATATAAAAAT
1 ATAATATATAAAAAT
* *
104514441 ATAATATTTAAAAAA
1 ATAATATATAAAAAT
*
104514456 AT-ATACATAATATAAT
1 ATAATATATAA-A-AAT
104514472 ATTAATATATA
1 A-TAATATATA
104514483 TGCGTAATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 6 0.19
15 16 0.50
16 3 0.09
17 1 0.03
18 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:104514479 original size:37 final size:37
Alignment explanation
Indices: 104514398--104514480 Score: 114
Period size: 36 Copynumber: 2.2 Consensus size: 37
104514388 AAAATGTATG
* *
104514398 AATAATATGATATTTTAAAAAACTATACATAATATAT
1 AATAATATAATATTTTAAAAAAATATACATAATATAT
*
104514435 AAAAATATAATA-TTTAAAAAAATATACATAATATAAT
1 AATAATATAATATTTTAAAAAAATATACATAATAT-AT
*
104514472 ATTAATATA
1 AATAATATA
104514481 TATGCGTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 21 0.52
37 19 0.47
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
AATAATATAATATTTTAAAAAAATATACATAATATAT
Found at i:104514659 original size:21 final size:21
Alignment explanation
Indices: 104514619--104514661 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
104514609 AAGTAAAAAT
* **
104514619 AATAATAATAAAATGCTAATA
1 AATAAAAATAAAATAATAATA
104514640 AATAAAAATAAAATAATAATA
1 AATAAAAATAAAATAATAATA
104514661 A
1 A
104514662 CAGTAATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AATAAAAATAAAATAATAATA
Found at i:104514669 original size:30 final size:29
Alignment explanation
Indices: 104514602--104514671 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
104514592 ATATGTATAT
* *
104514602 AAGTATTAAGTAAAAATAATAATAATAAA
1 AAGTAATAAATAAAAATAATAATAATAAA
*
104514631 ATGCTAATAAATAAAAATAA-AATAATAATA
1 AAG-TAATAAATAAAAATAATAATAATAA-A
104514661 ACAGTAATAAA
1 A-AGTAATAAA
104514672 ATATAATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 10 0.29
30 23 0.68
31 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.26
Consensus pattern (29 bp):
AAGTAATAAATAAAAATAATAATAATAAA
Found at i:104516338 original size:83 final size:85
Alignment explanation
Indices: 104516229--104516491 Score: 352
Period size: 83 Copynumber: 3.0 Consensus size: 85
104516219 TTTTTTTTTG
*
104516229 AAAAACAGAAACTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
104516294 GATTTTTG-AAACATAAA-A
66 GATTTTTGAAAACAGAAATA
* * *
104516312 AAAAACAGAAATTGAAAATACCTCAGCGTATCCTGAGGCTCAACTCACCTCTCGCAATATAAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
104516377 GA-TTTTGACAAACAGAAATTG
66 GATTTTTGA-AAACAGAAA-TA
** *
104516398 AAAAACAGAAATTGAAAATACCTCAGCATGTGAGCCGAGGCTCAACTCACCTTTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
*
104516463 TTGATTTTTTTGATAAACAGAAATT
64 TTGA--TTTTTGA-AAACAGAAATA
104516488 AAAA
1 AAAA
104516492 TTACCTCAGC
Statistics
Matches: 157, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
82 5 0.03
83 63 0.40
84 8 0.05
86 27 0.17
88 34 0.22
90 5 0.03
91 15 0.10
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (85 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAACAGAAATA
Found at i:104516403 original size:14 final size:14
Alignment explanation
Indices: 104516381--104516415 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
104516371 TAAGTTGATT
*
104516381 TTGACAAACAGAAA
1 TTGAAAAACAGAAA
104516395 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
104516409 TTGAAAA
1 TTGAAAA
104516416 TACCTCAGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.09, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:104516530 original size:75 final size:75
Alignment explanation
Indices: 104516395--104516847 Score: 698
Period size: 75 Copynumber: 6.0 Consensus size: 75
104516385 CAAACAGAAA
* * * *
104516395 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGC-CGAGGCTCAACTCACCTTTCGCAATA
1 TTGAAAGACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCGCAATA
104516459 TGAGTTGATTTTT
63 TGAGTTGATTTTT
104516472 TTGATAA-ACAGAAATT-AAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGA-AAGACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
*
104516535 AAGTTGATTTTT
64 GAGTTGATTTTT
* *
104516547 TTGAAAGACAGAAGTTGAAAATTACCTCAGTGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
104516612 AGTTGATTTTT
65 AGTTGATTTTT
* * *
104516623 TTGAAAGAGAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
104516688 GTTGATTTTT
66 GTTGATTTTT
*
104516698 TT-AAAGACAGAAATTGAAAATTACCTTAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAGACAGAAATTGAAAA-TACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
104516762 AGTTGATTTTT
65 AGTTGATTTTT
* *
104516773 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
104516838 GTTGATTTTT
66 GTTGATTTTT
104516848 GAAACAGAAA
Statistics
Matches: 350, Mismatches: 19, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
74 20 0.06
75 208 0.59
76 98 0.28
77 22 0.06
78 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:104523717 original size:25 final size:25
Alignment explanation
Indices: 104523688--104523769 Score: 61
Period size: 25 Copynumber: 3.5 Consensus size: 25
104523678 TTGAGTAGGC
104523688 ATGGTATTTGGTGGGAACATGGCAA
1 ATGGTATTTGGTGGGAACATGGCAA
* *
104523713 ATGGTTAGTTT--T--AAACA-AGC--
1 ATGG-TA-TTTGGTGGGAACATGGCAA
104523733 ATGGTATTTGGTGGGAACATGGCAA
1 ATGGTATTTGGTGGGAACATGGCAA
* *
104523758 ATAGTCTTTGGT
1 ATGGTATTTGGT
104523770 TATCTGTGGC
Statistics
Matches: 42, Mismatches: 6, Indels: 18
0.64 0.09 0.27
Matches are distributed among these distances:
18 3 0.07
19 2 0.05
20 5 0.12
22 6 0.14
23 6 0.14
25 15 0.36
26 2 0.05
27 3 0.07
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (25 bp):
ATGGTATTTGGTGGGAACATGGCAA
Found at i:104542497 original size:87 final size:87
Alignment explanation
Indices: 104542406--104543250 Score: 420
Period size: 87 Copynumber: 9.7 Consensus size: 87
104542396 GAGAGCAGAC
* * *
104542406 ACATAGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATTTGACTTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
104542471 GTTTACAGGGAACAAATCAAAG
66 GTTTACAAGGAACAAATCAAAG
* * * * ** * * *
104542493 ACATAGCAGGTTTGACTTTCGGATGTTCTCACACCAAAGCAGATCTAAGATAACAGATCTGACA-
1 ACATAGCAGATTTGACTTTCAGATATT-T-ATACTGAAGCAGATCCAAGAT----GATTTGGCAT
*** * * * * *
104542557 TC-TCCATTT-CGACGG---AGAGCAGAT
60 TCTTGTGTTTAC-AAGGAACAAATCAAAG
* * * * * *
104542581 ATATAGTAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
1 ACATAGCAGATTTGACTTTCAGAT-ATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
* * *
104542645 TGTTCACAAGGAGCAAATCGAAG
65 TGTTTACAAGGAACAAATCAAAG
* * *
104542668 ACACAGTAGATTTGGCTTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGCAGATTTGACTTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
104542733 GCTTACAAGGAACAAATCAAAG
66 GTTTACAAGGAACAAATCAAAG
* * * ** * *
104542755 ACATATCAGATTTGACTTTCAGATGTTCTTACACCAAAGCAAATCCAAGATAACAGATCTGGCA-
1 ACATAGCAGATTTGACTTTCAGAT-AT-TTATACTGAAGCAGATCCAAGAT----GATTTGGCAT
*** * * * * *
104542819 TC-TCCATTT-CGACGG---AGAGCAGAT
60 TCTTGTGTTTAC-AAGGAACAAATCAAAG
* * * *
104542843 ACATAGCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTG
1 ACATAGCAGATTTGACTTTCAGAT-ATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
* * * *
104542907 TCTTCACAAGGAGCAAATCGAAG
65 TGTTTACAAGGAACAAATCAAAG
* * * * * * *
104542930 ACACAGCAGATTTGGCTTTCAAATGTTTATACTAAAGCAGATCTAAGATGATTTGGCGTTCTTGT
1 ACATAGCAGATTTGACTTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
* *
104542995 GCTTACAAGGAACAAATCGAAG
66 GTTTACAAGGAACAAATCAAAG
* * * * ** * * *
104543017 ACATAGCAAATTTGACTTTCGGATGTTCTTACACCAAAGTAGATCCAAGATAATAGATCTAGCA-
1 ACATAGCAGATTTGACTTTCAGAT-AT-TTATACTGAAGCAGATCCAAG---AT-GATTTGGCAT
*** * * * * *
104543081 TC-TCCATTT-CGACGG---AGAGCAGAT
60 TCTTGTGTTTAC-AAGGAACAAATCAAAG
* * * * * * *
104543105 ACGTAGTAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGAGGATTTGGCATCCTTG
1 ACATAGCAGATTTGACTTTCAGAT-ATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTG
* * *
104543169 TGTTCACAAGGAGCAAATCGAAG
65 TGTTTACAAGGAACAAATCAAAG
* * * ** *
104543192 TCATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGATTTGGCAT
1 ACATAGCAGATTTGACTTTCA-GATATTTATACTGAAGCAGATCCAAGATGATTTGGCAT
104543251 CTCTGTATTG
Statistics
Matches: 542, Mismatches: 172, Indels: 88
0.68 0.21 0.11
Matches are distributed among these distances:
82 22 0.04
83 4 0.01
84 18 0.03
85 3 0.01
86 56 0.10
87 256 0.47
88 77 0.14
89 55 0.10
90 3 0.01
91 19 0.04
92 8 0.01
93 21 0.04
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (87 bp):
ACATAGCAGATTTGACTTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAACAAATCAAAG
Found at i:104542715 original size:262 final size:262
Alignment explanation
Indices: 104542423--104543250 Score: 1354
Period size: 262 Copynumber: 3.2 Consensus size: 262
104542413 AGATCTAACC
* *
104542423 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAGGGAACAAAT
1 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAAT
* * *
104542488 CAAAGACATAGCAGGTTTGACTTTCGGATGTTCTCACACCAAAGCAGATCTAAGATAACAGATCT
66 CAAAGACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCT
*
104542553 GACATCTCCATTTCGACGGAGAGCAGATATATAGTAGATCTAACCTTCAGATGATTTTACTGAAG
131 GACATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGATTTTACTGAAG
*
104542618 CAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGTAGATTTGG
196 CAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAGATTTGG
104542683 CT
261 CT
104542685 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAAT
1 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAAT
* * *
104542750 CAAAGACATATCAGATTTGACTTTCAGATGTTCTTACACCAAAGCAAATCCAAGATAACAGATCT
66 CAAAGACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCT
* *
104542815 GGCATCTCCATTTCGACGGAGAGCAGATACATAGCAGATCTAACCTTCAGATGATTTTACTGAAG
131 GACATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGATTTTACTGAAG
*
104542880 CAGATCCAAGATGATTTGGCATCCTTGTCTTCACAAGGAGCAAATCGAAGACACAGCAGATTTGG
196 CAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAGATTTGG
104542945 CT
261 CT
* * * * *
104542947 TTCAAATGTTTATACTAAAGCAGATCTAAGATGATTTGGCGTTCTTGTGCTTACAAGGAACAAAT
1 TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAAT
* * * *
104543012 CGAAGACATAGCAAATTTGACTTTCGGATGTTCTTACACCAAAGTAGATCCAAGATAATAGATCT
66 CAAAGACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCT
*
104543077 -AGCATCTCCATTTCGACGGAGAGCAGATACGTAGTAGATCTAACCTTCAGATGATTTTACTGAA
131 GA-CATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGATTTTACTGAA
* * *
104543141 GCAGATCCAAGAGGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGTCATAGCAGATTTG
195 GCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAGATTTG
104543206 GCT
260 GCT
* ** *
104543209 TTCACG-TGTTTACGCTGAAGCAGATCTAAGATGATTTGGCAT
1 TTCA-GATATTTATACTGAAGCAGATCCAAGATGATTTGGCAT
104543251 CTCTGTATTG
Statistics
Matches: 527, Mismatches: 37, Indels: 4
0.93 0.07 0.01
Matches are distributed among these distances:
262 527 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (262 bp):
TTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGCTTACAAGGAACAAAT
CAAAGACATAGCAGATTTGACTTTCGGATGTTCTTACACCAAAGCAGATCCAAGATAACAGATCT
GACATCTCCATTTCGACGGAGAGCAGATACATAGTAGATCTAACCTTCAGATGATTTTACTGAAG
CAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGAGCAAATCGAAGACACAGCAGATTTGG
CT
Found at i:104543188 original size:175 final size:172
Alignment explanation
Indices: 104542301--104543212 Score: 577
Period size: 175 Copynumber: 5.2 Consensus size: 172
104542291 ATCTTCGACG
* * * *
104542301 AGGAGCAAATCGAAGACATAGCAGATCTGACTTTTAGATGTTTTTCACATCAAAGCAGATCCAAA
1 AGGAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATG-TTTT-ACACCAAAGCAGATCCAAG
* * *
104542366 ATAACCGATCTGGAGTCTCCATATTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGAT-
64 ATAA-TGATCTGCA-TCTCCAT-TTCGACGGAGAGCAGACACATAGTAGATCTAACCTTCAGATG
* *
104542430 ATTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
126 ATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACA
* * * * * * *
104542478 GGGAACAAATCAAAGACATAGCAGGTTTGACTTTCGGATGTTCTCACACCAAAGCAGATCTAAGA
1 AGGAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT-TTACACCAAAGCAGATCCAAGA
* * *
104542543 TAACAGATCTGACATCTCCATTTCGACGGAGAGCAGATATATAGTAGATCTAACCTTCAGATGAT
65 TAA-TGATCTG-CATCTCCATTTCGACGGAGAGCAGACACATAGTAGATCTAACCTTCAGATGAT
104542608 TTTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACA
128 TTTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACA
* * * * * **
104542653 AGGAGCAAATCGAAGACACAGTAGATTTGGCTTTCAGAT-ATTTATACTGAAGCAGATCCAAG--
1 AGGAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTTTACACCAAAGCAGATCCAAGAT
* * * * * * * * *
104542715 -ATGATTTGGCAT-T-C-TTGTGCTTACAAGGAACAAATCAAAGACATA-TCAGATTTGACTTTC
66 AATGATCT-GCATCTCCATT-T-C-GAC--GG---AGAGCAGACACATAGT-AGATCTAACCTTC
** * * **
104542775 AGATG-TTCTTACACCAAAGCAAATCCAAGATAACAGATCTGGCAT-CTCCAT-TTCGAC-
121 AGATGATT-TT--ACTGAAGCAGATCCAAGAT----GATTTGGCATCCT-TGTGTTC-ACA
* * * * * **
104542832 -GGAG---AGC-AGATACATAGCAGATCTAACCTTCAGATGATTTT--ACTGAAGCAGATCCAAG
1 AGGAGCAAATCGA-AGACATAGCAGATTTGACTTTCAGATG-TTTTACACCAAAGCAGATCCAAG
* ** * * * ** *
104542890 ---ATGATTTGGCATC-CTTGTCTTC-ACAAGGAGCAAATCGAAGACAC--AGCAGATTTGGCTT
64 ATAATGATCT-GCATCTC-CAT-TTCGAC--GGAG---A--GCAGACACATAGTAGATCTAACCT
* * * * *
104542948 TCAAATG-TTTATACTAAAGCAGATCTAAGATGATTTGGCGTTCTTGTGCTT-ACA
119 TCAGATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTG-TTCACA
* * * *
104543002 AGGAACAAATCGAAGACATAGCAAATTTGACTTTCGGATGTTCTTACACCAAAGTAGATCCAAGA
1 AGGAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTT-TTACACCAAAGCAGATCCAAGA
* *
104543067 TAATAGATCTAGCATCTCCATTTCGACGGAGAGCAGATACGTAGTAGATCTAACCTTCAGATGAT
65 TAAT-GATCT-GCATCTCCATTTCGACGGAGAGCAGACACATAGTAGATCTAACCTTCAGATGAT
*
104543132 TTTACTGAAGCAGATCCAAGAGGATTTGGCATCCTTGTGTTCACA
128 TTTACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACA
* *
104543177 AGGAGCAAATCGAAGTCATAGCAGATTTGGCTTTCA
1 AGGAGCAAATCGAAGACATAGCAGATTTGACTTTCA
104543213 CGTGTTTACG
Statistics
Matches: 569, Mismatches: 107, Indels: 120
0.71 0.13 0.15
Matches are distributed among these distances:
166 2 0.00
167 2 0.00
168 2 0.00
169 20 0.04
170 4 0.01
171 7 0.01
172 1 0.00
173 43 0.08
174 56 0.10
175 270 0.47
176 73 0.13
177 43 0.08
178 10 0.02
179 11 0.02
180 24 0.04
181 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (172 bp):
AGGAGCAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTTTACACCAAAGCAGATCCAAGAT
AATGATCTGCATCTCCATTTCGACGGAGAGCAGACACATAGTAGATCTAACCTTCAGATGATTTT
ACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACA
Found at i:104546596 original size:10 final size:10
Alignment explanation
Indices: 104546578--104546644 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
104546568 TTTACATACA
104546578 TATTATATAT
1 TATTATATAT
*
104546588 TATTCTATAT
1 TATTATATAT
*
104546598 TATTATGTCAT
1 TATTATAT-AT
* *
104546609 T-TTGTATAC
1 TATTATATAT
104546618 TATTATATAT
1 TATTATATAT
* *
104546628 TTTTATCTAT
1 TATTATATAT
104546638 ATATTAT
1 -TATTAT
104546645 CATTATTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
9 2 0.05
10 33 0.77
11 8 0.19
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (10 bp):
TATTATATAT
Found at i:104546603 original size:20 final size:19
Alignment explanation
Indices: 104546573--104546641 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
104546563 TTATCTTTAC
104546573 ATACATATTATATATTATTCT
1 ATAC-TATTATATATT-TTCT
* * *
104546594 ATATTATTATGTCATTTTGT
1 ATACTATTATAT-ATTTTCT
104546614 ATACTATTATATATTTT-T
1 ATACTATTATATATTTTCT
104546632 AT-CTA-TATAT
1 ATACTATTATAT
104546642 TATCATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 3 0.07
19 5 0.12
20 20 0.48
21 6 0.14
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (19 bp):
ATACTATTATATATTTTCT
Found at i:104557853 original size:42 final size:42
Alignment explanation
Indices: 104557806--104557897 Score: 139
Period size: 42 Copynumber: 2.2 Consensus size: 42
104557796 TGGCCCATAG
* ** *
104557806 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
*
104557848 GCCCATTTCAATATCATATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
104557890 GCCCATTT
1 GCCCATTT
104557898 GGGGAGACTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:104558071 original size:25 final size:26
Alignment explanation
Indices: 104558043--104558190 Score: 212
Period size: 26 Copynumber: 5.8 Consensus size: 26
104558033 CTCTTTTAAT
104558043 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
104558068 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
* * **
104558093 AACTAGGGTA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
104558118 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
104558144 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
104558170 AACTGGGGCATAACCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
104558191 GCACTTCCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 54 0.49
26 57 0.51
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:104558173 original size:52 final size:51
Alignment explanation
Indices: 104558043--104558190 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
104558033 CTCTTTTAAT
**
104558043 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
* *
104558093 AACTAGGGTAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
104558144 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAACCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
104558191 GCACTTCCTC
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 31 0.35
51 23 0.26
52 35 0.39
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:104559055 original size:27 final size:27
Alignment explanation
Indices: 104558993--104559070 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
104558983 GGGCATATTC
104558993 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
104559020 GTCACTTTACCCTACAGGGG-ATTTACG
1 GTCATTTTACCATACAGGGGTA-TTACG
* *
104559047 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
104559071 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:104559141 original size:27 final size:27
Alignment explanation
Indices: 104559111--104559264 Score: 114
Period size: 27 Copynumber: 5.4 Consensus size: 27
104559101 GTAAATCTAC
*
104559111 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
* *
104559138 AAACTAATGGTATTTCTA-TAATTTTTAATTT
1 AAACCAAGGGTATTT-TAGTAA-TTTT-A--T
* *
104559169 CACAAACC-AGTGGTATTTTGGTAATTTTAC
1 ---AAACCAAG-GGTATTTTAGTAATTTTAT
* * * *
104559199 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTTAGTAATTTTAT
*
104559226 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTAGTAATTTTAT
*
104559253 AAATCAAGGGTA
1 AAACCAAGGGTA
104559265 AAACAGTAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
27 72 0.71
28 7 0.07
31 1 0.01
32 1 0.01
33 6 0.06
34 14 0.14
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTTAGTAATTTTAT
Found at i:104559221 original size:61 final size:61
Alignment explanation
Indices: 104559109--104559250 Score: 149
Period size: 61 Copynumber: 2.4 Consensus size: 61
104559099 TGGTAAATCT
** *
104559109 ACAAACCAAGGGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAATTTC
1 ACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCTATAATTTTTAATTTC
* * *
104559170 ACAAACC-AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTT-TGGTAA----T--TTT-
1 ACAAACCAAG-GGTATTTTAGTAATTTTACAAACTAAGGGTATTTCT-ATAATTTTTAATTTC
104559224 ACAAACCAAGGGTATTTTAGTAATTTT
1 ACAAACCAAGGGTATTTTAGTAATTTT
104559251 GTAAATCAAG
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
54 23 0.32
55 5 0.07
57 1 0.01
60 3 0.04
61 39 0.55
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (61 bp):
ACAAACCAAGGGTATTTTAGTAATTTTACAAACTAAGGGTATTTCTATAATTTTTAATTTC
Found at i:104559272 original size:27 final size:27
Alignment explanation
Indices: 104559243--104559452 Score: 237
Period size: 27 Copynumber: 7.8 Consensus size: 27
104559233 GGGTATTTTA
* * *
104559243 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAACG
* *
104559270 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * * *
104559297 GTTATTTTATAAATCGAGGGT-AAATG
1 GTAATTATGTAAATCGAGGGTAAAACG
* *
104559323 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
104559350 GTAATTATGTAAATCGTGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
104559377 GTAATTATGTAAATCG-GGAGTAAAATG
1 GTAATTATGTAAATCGAGG-GTAAAACG
*
104559404 GTAATTATGTAAATC-AGGGGTAAAACA
1 GTAATTATGTAAATCGA-GGGTAAAACG
* *
104559431 GTAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCGAGGGTA
104559453 CTTTGGTAAT
Statistics
Matches: 158, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
26 23 0.15
27 133 0.84
28 2 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (27 bp):
GTAATTATGTAAATCGAGGGTAAAACG
Found at i:104559291 original size:81 final size:81
Alignment explanation
Indices: 104559215--104559452 Score: 237
Period size: 81 Copynumber: 3.0 Consensus size: 81
104559205 GGGGTATTTT
** *
104559215 GGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTAT
1 GGTAATTTTACAAACCAAGGGTATAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGT
104559280 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * * * * * * *
104559296 GGTTATTTTATAAATCGAGGGTA-AATGGTAATTCTGTAAGTCGAGGGTAAAACGGTAATTATGT
1 GGTAATTTTACAAACCAAGGGTATAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGT
*
104559360 AAATCGTGGGTAAAAC
66 AAATCGAGGGTAAAAC
* ** * * * * * *
104559376 GGTAATTATGTAAATC-GGGAGTAAAATGGTAATTATGTAAATCAGGGGTAAAACAGTAATTCTG
1 GGTAATTTTACAAACCAAGG-GTATAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTG
*
104559440 TAAATCGGGGGTA
65 TAAATCGAGGGTA
104559453 CTTTGGTAAT
Statistics
Matches: 130, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
79 2 0.02
80 63 0.48
81 65 0.50
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (81 bp):
GGTAATTTTACAAACCAAGGGTATAATAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTGT
AAATCGAGGGTAAAAC
Found at i:104559354 original size:80 final size:80
Alignment explanation
Indices: 104559243--104559452 Score: 271
Period size: 80 Copynumber: 2.6 Consensus size: 80
104559233 GGGTATTTTA
* * * *
104559243 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTTATTTTATA
1 GTAATTATGTAAATC-AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTATATA
104559308 AATCGAGG-GT-AAATG
65 AATCG-GGAGTAAAATG
* * * * * *
104559323 GTAATTCTGTAAGTCGAGGGTAAAACGGTAATTATGTAAATCGTGGGTAAAACGGTAATTATGTA
1 GTAATTATGTAAATC-AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTATATA
104559388 AATCGGGAGTAAAATG
65 AATCGGGAGTAAAATG
*
104559404 GTAATTATGTAAATCAGGGGTAAAACAGTAATTCTGTAAATCGGGGGTA
1 GTAATTATGTAAATCA-GGGTAAAACAGTAATTCTGTAAATCGAGGGTA
104559453 CTTTGGTAAT
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 63 0.56
81 47 0.42
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (80 bp):
GTAATTATGTAAATCAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTATATAA
ATCGGGAGTAAAATG
Found at i:104559479 original size:27 final size:27
Alignment explanation
Indices: 104559458--104559547 Score: 119
Period size: 27 Copynumber: 3.3 Consensus size: 27
104559448 GGGTACTTTG
*
104559458 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
104559485 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
104559512 GTATTTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
104559539 GTAATTTTA
1 GTAATTTTA
104559548 GTAAACTAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 2 0.04
27 53 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:104559490 original size:81 final size:79
Alignment explanation
Indices: 104559241--104559479 Score: 223
Period size: 80 Copynumber: 3.0 Consensus size: 79
104559231 AAGGGTATTT
* * * * *
104559241 TAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACGGTTATTTTA
1 TAGTAATTATGTAAATCAGGGGTAAAACAGTAATTCTGTAAATCGGGGGTAAAACGGTAATTTTA
* *
104559306 TAAATCGAGGGTAAA
66 -CAATCGAAGGTAAA
* * * * * *
104559321 TGGTAATTCTGTAAGTC-GAGGGTAAAACGGTAATTATGTAAATCGTGGGTAAAACGGTAATTAT
1 TAGTAATTATGTAAATCAG-GGGTAAAACAGTAATTCTGTAAATCGGGGGTAAAACGGTAATT-T
*
104559385 GTA-AATCG-GGAGTAAAA
64 -TACAATCGAAG-GT-AAA
* ****
104559402 TGGTAATTATGTAAATCAGGGGTAAAACAGTAATTCTGTAAATCGGGGGTACTTTGGTAATTTTA
1 TAGTAATTATGTAAATCAGGGGTAAAACAGTAATTCTGTAAATCGGGGGTAAAACGGTAATTTTA
104559467 CAAGTCGAAGGTA
66 CAA-TCGAAGGTA
104559480 TTTCAGTAAT
Statistics
Matches: 131, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
79 4 0.03
80 63 0.48
81 60 0.46
82 4 0.03
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (79 bp):
TAGTAATTATGTAAATCAGGGGTAAAACAGTAATTCTGTAAATCGGGGGTAAAACGGTAATTTTA
CAATCGAAGGTAAA
Found at i:104559499 original size:54 final size:54
Alignment explanation
Indices: 104559441--104559547 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
104559431 GTAATTCTGT
* * *
104559441 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* * *
104559495 AAATCGAGGGTATTTCAGTATTTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
104559548 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:104559561 original size:27 final size:27
Alignment explanation
Indices: 104559458--104559562 Score: 90
Period size: 27 Copynumber: 3.9 Consensus size: 27
104559448 GGGTACTTTG
* *
104559458 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
104559485 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* * *
104559512 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
104559539 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
104559563 CTAAACAGGG
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.03
27 55 0.85
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:104562407 original size:44 final size:45
Alignment explanation
Indices: 104562257--104562416 Score: 118
Period size: 44 Copynumber: 3.6 Consensus size: 45
104562247 ATGTAGATCA
* *
104562257 AAGA-AGCAAGATTTGGCATCCCTGTGTTTATAGGGAAC-AGATTG
1 AAGATAGC-AGATTCGGCATCCCTGTATTTATAGGGAACAAGATTG
* * * ** * * *
104562301 AAGATAGCA-AATCTGACATTCCTGTGCTTACA-GCAAAACAGATTG
1 AAGATAGCAGATTC-GGCATCCCTGTATTTATAGGGAACA-AGATTG
**
104562346 AAGATTTCAGCA-T-GGCATCCCTGTATTTATAGGGAACAAG-TTG
1 AAGATAGCAG-ATTCGGCATCCCTGTATTTATAGGGAACAAGATTG
*
104562389 AAGATAGCAGATTCGGCATCTCTGTATT
1 AAGATAGCAGATTCGGCATCCCTGTATT
104562417 GTCAGAAAGC
Statistics
Matches: 87, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
42 1 0.01
43 17 0.20
44 47 0.54
45 20 0.23
46 1 0.01
47 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (45 bp):
AAGATAGCAGATTCGGCATCCCTGTATTTATAGGGAACAAGATTG
Found at i:104562437 original size:44 final size:44
Alignment explanation
Indices: 104562388--104562480 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
104562378 GGAACAAGTT
* *
104562388 GAAGATAGCAGATTCGGCATCTCTGTATTGTCAGAAAGCAGATC
1 GAAGATACCAGATTCGGCATCTCTGTATTGGCAGAAAGCAGATC
* * * * *
104562432 TAAGATACCAGATTTGGCATCTTTGTATTGGCGGAGAGCAGATC
1 GAAGATACCAGATTCGGCATCTCTGTATTGGCAGAAAGCAGATC
104562476 GAAGA
1 GAAGA
104562481 CATAGCTGAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (44 bp):
GAAGATACCAGATTCGGCATCTCTGTATTGGCAGAAAGCAGATC
Found at i:104562450 original size:88 final size:89
Alignment explanation
Indices: 104562265--104562452 Score: 194
Period size: 88 Copynumber: 2.1 Consensus size: 89
104562255 CAAAGAAGCA
* *
104562265 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATTGAAGATAGCAAATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTATTTATAGGGAACAGATTGAAGATAGCAAATCTGACATTCCTGTGATT
**
104562330 ACAGCAAAACAGATTGAAGATTTC
66 ACAGCAAAACAGATTGAAGATACC
* *
104562354 AGCA--TGGCATCCCTGTATTTATAGGGAACA-AGTTGAAGATAGCAGAT-TCGGCA-TCTCTGT
1 AG-ATTTGGCATCCCTGTATTTATAGGGAACAGA-TTGAAGATAGCAAATCT-GACATTC-CTGT
* *
104562414 -ATTGTCAG-AAAGCAGATCT-AAGATACC
62 GATT-ACAGCAAAACAGAT-TGAAGATACC
104562441 AGATTTGGCATC
1 AGATTTGGCATC
104562453 TTTGTATTGG
Statistics
Matches: 83, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
86 1 0.01
87 22 0.27
88 57 0.69
89 2 0.02
90 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (89 bp):
AGATTTGGCATCCCTGTATTTATAGGGAACAGATTGAAGATAGCAAATCTGACATTCCTGTGATT
ACAGCAAAACAGATTGAAGATACC
Found at i:104562825 original size:205 final size:205
Alignment explanation
Indices: 104562473--104562976 Score: 794
Period size: 205 Copynumber: 2.5 Consensus size: 205
104562463 CGGAGAGCAG
*
104562473 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTATGATGAAGCAAATCTAAGATGATTTGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
*
104562538 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATA
* * *
104562603 GCAGATCTAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGTATCCTTGTGGTTA
131 GCAGATCTAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTA
104562668 CAAGGAACAA
196 CAAGGAACAA
* * *
104562678 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACAATGAAGCAAATCTAAAATGATTTGGCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* * * *
104562743 TCTCTGTATTGGCAGAGAGCAAATCGAAGTCTGGCGTCTCCACTTCAATGGAGAGCAGACATATA
66 TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATA
* *
104562808 GCAGAT-TCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCTT
131 GCAGATCT-AAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTT
* *
104562872 ACAAGGAGCGA
195 ACAAGGAACAA
* * **
104562883 ATCGAAGACATAGCCGATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATGAGTCA
1 ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
* *
104562948 TCTCTGTATTGTCAGAGAACGAATTGAAG
66 TCTCTGTATTGTCAGAGAACAAATCGAAG
104562977 AAGCAGATTT
Statistics
Matches: 271, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
204 1 0.00
205 270 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
ATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGTCA
TCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGACACATA
GCAGATCTAAACTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTA
CAAGGAACAA
Found at i:104564845 original size:10 final size:10
Alignment explanation
Indices: 104564827--104564893 Score: 55
Period size: 10 Copynumber: 6.6 Consensus size: 10
104564817 TTTACATACA
104564827 TATTATATAT
1 TATTATATAT
*
104564837 TATTCTATAT
1 TATTATATAT
*
104564847 TATTATCTCAT
1 TATTATAT-AT
* *
104564858 T-TTGTATAC
1 TATTATATAT
104564867 TATTATATAT
1 TATTATATAT
* *
104564877 TTTTATCTAT
1 TATTATATAT
104564887 ATATTAT
1 -TATTAT
104564894 CATTATTAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
9 2 0.05
10 33 0.77
11 8 0.19
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (10 bp):
TATTATATAT
Found at i:104564852 original size:20 final size:19
Alignment explanation
Indices: 104564822--104564890 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
104564812 TTATTTTTAC
104564822 ATACATATTATATATTATTCT
1 ATAC-TATTATATATT-TTCT
* * *
104564843 ATATTATTATCTCATTTTGT
1 ATACTATTATAT-ATTTTCT
104564863 ATACTATTATATATTTT-T
1 ATACTATTATATATTTTCT
104564881 AT-CTA-TATAT
1 ATACTATTATAT
104564891 TATCATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 5 0.12
17 3 0.07
18 3 0.07
19 5 0.12
20 20 0.48
21 6 0.14
ACGTcount: A:0.33, C:0.09, G:0.01, T:0.57
Consensus pattern (19 bp):
ATACTATTATATATTTTCT
Found at i:104567759 original size:23 final size:23
Alignment explanation
Indices: 104567728--104567771 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
104567718 ATTGAGTATT
* *
104567728 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
104567751 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
104567772 TATGGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:104567847 original size:13 final size:13
Alignment explanation
Indices: 104567829--104567932 Score: 80
Period size: 13 Copynumber: 8.4 Consensus size: 13
104567819 GATATTAAAA
104567829 ATATATACATAAT
1 ATATATACATAAT
* *
104567842 ATATATAAAAAAT
1 ATATATACATAAT
*
104567855 ATAATATTA-AAAAT
1 AT-ATA-TACATAAT
104567869 ATATATACATAAT
1 ATATATACATAAT
104567882 ATATAT--A-AA-
1 ATATATACATAAT
104567891 ATATATACATAAT
1 ATATATACATAAT
*
104567904 ATAGTAT---TAAA
1 ATA-TATACATAAT
*
104567915 ATATATACATAAC
1 ATATATACATAAT
104567928 ATATA
1 ATATA
104567933 CATATCAGAA
Statistics
Matches: 75, Mismatches: 5, Indels: 22
0.74 0.05 0.22
Matches are distributed among these distances:
9 6 0.08
10 5 0.07
11 8 0.11
12 4 0.05
13 37 0.49
14 13 0.17
15 2 0.03
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.36
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:104567859 original size:62 final size:64
Alignment explanation
Indices: 104567793--104567921 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 64
104567783 TTTACATGGG
* *
104567793 ATAATA-TAAAAATGCAT-GA-ATAATGTGATATTAAAAATATATACATAATATA-TA-TAAAAA
1 ATAATATTAAAAATACATAGACATAATAT-ATA-T-AAAATATATACATAATATAGTATTAAAAA
104567853 AT
63 AT
* * *
104567855 ATAATATTAAAAATATATATACATAATATATATAAAATATATACATAATATAGTATTAAAATAT
1 ATAATATTAAAAATACATAGACATAATATATATAAAATATATACATAATATAGTATTAAAAAAT
104567919 ATA
1 ATA
104567922 CATAACATAT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
62 25 0.44
63 12 0.21
64 14 0.25
65 6 0.11
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (64 bp):
ATAATATTAAAAATACATAGACATAATATATATAAAATATATACATAATATAGTATTAAAAAAT
Found at i:104567862 original size:38 final size:40
Alignment explanation
Indices: 104567820--104567897 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
104567810 GAATAATGTG
104567820 ATATT-AAAA-ATATATACATAATATATATAAAAAATATA
1 ATATTAAAAATATATATACATAATATATATAAAAAATATA
*
104567858 ATATTAAAAATATATATACATAATATATATAAAATATATA
1 ATATTAAAAATATATATACATAATATATATAAAAAATATA
104567898 CATAATATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
38 5 0.14
39 4 0.11
40 28 0.76
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (40 bp):
ATATTAAAAATATATATACATAATATATATAAAAAATATA
Found at i:104567867 original size:16 final size:18
Alignment explanation
Indices: 104567837--104567895 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
104567827 AAATATATAC
104567837 ATAATATATATAAAAAAT
1 ATAATATATATAAAAAAT
104567855 ATAATAT-TA-AAAATATAT
1 ATAATATATATAAAA-A-AT
*
104567873 ATACATAATATATATAAAAT
1 ATA-AT-ATATATAAAAAAT
104567893 ATA
1 ATA
104567896 TACATAATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 4 0.12
17 3 0.09
18 12 0.35
19 2 0.06
20 7 0.21
21 3 0.09
22 3 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATATATATAAAAAAT
Found at i:104567933 original size:11 final size:11
Alignment explanation
Indices: 104567828--104567936 Score: 82
Period size: 11 Copynumber: 10.1 Consensus size: 11
104567818 TGATATTAAA
104567828 AATATATACAT
1 AATATATACAT
* *
104567839 AATATATATAA
1 AATATATACAT
*
104567850 AAAATATA-AT
1 AATATATACAT
* *
104567860 -AT-TAAAAAT
1 AATATATACAT
104567869 -ATATATACAT
1 AATATATACAT
* *
104567879 AATATATATAA
1 AATATATACAT
104567890 AATATATACAT
1 AATATATACAT
* *
104567901 AATATAGTATTAA
1 AATATA-TA-CAT
104567914 AATATATACAT
1 AATATATACAT
*
104567925 AACATATACAT
1 AATATATACAT
104567936 A
1 A
104567937 TCAGAAATAA
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
8 3 0.04
9 5 0.07
10 6 0.08
11 51 0.67
12 4 0.05
13 7 0.09
ACGTcount: A:0.59, C:0.06, G:0.01, T:0.35
Consensus pattern (11 bp):
AATATATACAT
Found at i:104568040 original size:23 final size:22
Alignment explanation
Indices: 104567984--104568053 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 22
104567974 ATAATACTAC
104567984 AAAAATATGTACAT-ACATATT
1 AAAAATATGTACATAACATATT
**
104568005 AAAAATAAATACATAACAATATT
1 AAAAATATGTACATAAC-ATATT
* * * *
104568028 AATAGTATGTACATAATATAAT
1 AAAAATATGTACATAACATATT
104568050 AAAA
1 AAAA
104568054 TGTATGAATA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
21 12 0.32
22 9 0.24
23 17 0.45
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (22 bp):
AAAAATATGTACATAACATATT
Found at i:104568108 original size:15 final size:15
Alignment explanation
Indices: 104568088--104568144 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
104568078 AAAACTATAC
104568088 ATAATATATAAAAAT
1 ATAATATATAAAAAT
* *
104568103 ATAATATTTAAAAAA
1 ATAATATATAAAAAT
*
104568118 AT-ATACATAATATAAT
1 ATAATATATAA-A-AAT
104568134 ATTAATATATA
1 A-TAATATATA
104568145 TGCGTAACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 6 0.19
15 16 0.50
16 3 0.09
17 1 0.03
18 6 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAATATATAAAAAT
Found at i:104568141 original size:37 final size:37
Alignment explanation
Indices: 104568060--104568142 Score: 114
Period size: 36 Copynumber: 2.2 Consensus size: 37
104568050 AAAATGTATG
* *
104568060 AATAATATGATATTTTAAAAAACTATACATAATATAT
1 AATAATATAATATTTTAAAAAAATATACATAATATAT
*
104568097 AAAAATATAATA-TTTAAAAAAATATACATAATATAAT
1 AATAATATAATATTTTAAAAAAATATACATAATAT-AT
*
104568134 ATTAATATA
1 AATAATATA
104568143 TATGCGTAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 21 0.52
37 19 0.47
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (37 bp):
AATAATATAATATTTTAAAAAAATATACATAATATAT
Found at i:104568218 original size:3 final size:3
Alignment explanation
Indices: 104568210--104568315 Score: 54
Period size: 3 Copynumber: 33.7 Consensus size: 3
104568200 TATTAACAAA
* * * *
104568210 AAT AAT AAT ATT AAA AACT ATT AAT AAT ACT ATAT AAT ATAT ATAT AAGT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT A-AT AAT A-AT A-AT AA-T
* * ** *
104568260 ATT AAGT AAA AAT AAT AAT AAT AA- AAT GCT AAT AAAT AAA AAT AA-
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
104568305 AAT AAT AAT AA
1 AAT AAT AAT AA
104568316 CAGTAATGAA
Statistics
Matches: 77, Mismatches: 18, Indels: 16
0.69 0.16 0.14
Matches are distributed among these distances:
2 4 0.05
3 55 0.71
4 18 0.23
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:104570375 original size:27 final size:26
Alignment explanation
Indices: 104570342--104570438 Score: 72
Period size: 27 Copynumber: 3.7 Consensus size: 26
104570332 GATTACAAAT
104570342 TAAGATAATTAAGAATTTAAATTAAA
1 TAAGATAATTAAGAATTTAAATTAAA
* * * * *
104570368 TCAGGATATTTAA-AGTTTTAATTTATA
1 T-AAGATAATTAAGA-ATTTAAATTAAA
* *
104570395 TAAGATAATTAGGAGTTTAAATTAAA
1 TAAGATAATTAAGAATTTAAATTAAA
* *
104570421 TTAATAGAATTAA-AATTT
1 -TAAGATAATTAAGAATTT
104570439 TAATCTAATT
Statistics
Matches: 52, Mismatches: 15, Indels: 8
0.69 0.20 0.11
Matches are distributed among these distances:
26 23 0.44
27 29 0.56
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.40
Consensus pattern (26 bp):
TAAGATAATTAAGAATTTAAATTAAA
Found at i:104570434 original size:53 final size:53
Alignment explanation
Indices: 104570342--104570442 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 53
104570332 GATTACAAAT
* * * *
104570342 TAAGATAATTAAGAATTTAAATTAAATCAGGATATTTAAAGTTTTAATTTATA
1 TAAGATAATTAAGAATTTAAATTAAATCAAGAGAATTAAAATTTTAATTTATA
* * * *
104570395 TAAGATAATTAGGAGTTTAAATTAAATTAATAGAATTAAAATTTTAAT
1 TAAGATAATTAAGAATTTAAATTAAATCAAGAGAATTAAAATTTTAAT
104570443 CTAATTAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
53 40 1.00
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.41
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATCAAGAGAATTAAAATTTTAATTTATA
Found at i:104571553 original size:168 final size:167
Alignment explanation
Indices: 104571264--104571771 Score: 766
Period size: 168 Copynumber: 3.0 Consensus size: 167
104571254 CTTTGGGAAC
* * * * *
104571264 TCATGTTTATCTTCCTTATCCTCATCTTGTTTTTCCTTGCACTCGGGTATTTTTGGATATTCGGC
1 TCATCTTTATGTTCCTTATCCTCATCTTG-TTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
** ** *
104571329 TTTATGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGAAGAAATTGGGTTTTTCTTTCTCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* * * *
104571394 CTTCGTGATCTTTCGATTCGTGTGACTCGTGGCACTCT
130 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
*
104571432 TCATCTTTATGTTCCTTA-CTCTTATCTTGCTTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
1 TCATCTTTATGTTCCTTATC-CTCATCTTG-TTTTCCTTGTACTCGGGTATTTTCGGATATTCGA
* *
104571496 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAACTCGGGTTTTTCTTTCTCGTAT
64 CTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTAC
* *
104571561 TCTTCGTGCTCCTTCGATTCGCGTGATTCATGGTACTCT
129 TCTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
* *
104571600 TCATTTTTATGTTCCTTATCCTCATCTTGTTTGTCCTTGTACTCGGGTATTTTCGGATATTCAAC
1 TCATCTTTATGTTCCTTATCCTCATCTTGTTT-TCCTTGTACTCGGGTATTTTCGGATATTCGAC
* *
104571665 TTCGTGTTTCTTGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTATCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
104571730 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
130 CTTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
104571768 TCAT
1 TCAT
104571772 GATGTTTGCA
Statistics
Matches: 308, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
167 4 0.01
168 303 0.98
169 1 0.00
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (167 bp):
TCATCTTTATGTTCCTTATCCTCATCTTGTTTTCCTTGTACTCGGGTATTTTCGGATATTCGACT
TCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACTC
TTCGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCT
Found at i:104575912 original size:14 final size:14
Alignment explanation
Indices: 104575893--104575924 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
104575883 TTCTAGCATA
104575893 AACCCTTTCCAATT
1 AACCCTTTCCAATT
104575907 AACCCTTTCCAATT
1 AACCCTTTCCAATT
104575921 AACC
1 AACC
104575925 ACTAGCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (14 bp):
AACCCTTTCCAATT
Found at i:104580970 original size:18 final size:19
Alignment explanation
Indices: 104580926--104580973 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
104580916 TCAGTCATTC
104580926 ATTTATTCAGTAACAGTCAA
1 ATTT-TTCAGTAACAGTCAA
* *
104580946 A-TATTCAGTAGCAGT-AA
1 ATTTTTCAGTAACAGTCAA
104580963 ATTTTTCAGTA
1 ATTTTTCAGTA
104580974 CCTTTATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 3 0.12
18 19 0.79
19 1 0.04
20 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (19 bp):
ATTTTTCAGTAACAGTCAA
Found at i:104583730 original size:23 final size:23
Alignment explanation
Indices: 104583704--104583747 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
104583694 ATGCACATCA
104583704 GTTTACAGTTTCGATAATTATAT
1 GTTTACAGTTTCGATAATTATAT
*
104583727 GTTTATAGTTTCGATAATTAT
1 GTTTACAGTTTCGATAATTAT
104583748 TAACAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.50
Consensus pattern (23 bp):
GTTTACAGTTTCGATAATTATAT
Found at i:104586056 original size:16 final size:17
Alignment explanation
Indices: 104586034--104586074 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
104586024 TAGCAACACA
104586034 AATAATAAAATAAC-AC
1 AATAATAAAATAACAAC
*
104586050 TATAATAAAATAACAAC
1 AATAATAAAATAACAAC
104586067 AATAATAA
1 AATAATAA
104586075 TAGGAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAATAAAATAACAAC
Found at i:104586544 original size:27 final size:27
Alignment explanation
Indices: 104586502--104586597 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
104586492 AGGAGGTTAC
*
104586502 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATTAAGAGTTTAAATT
* * *
104586529 AAATTAGGATATTTAA-AGTTTTAATT
1 AAATTAAGATAATTAAGAGTTTAAATT
* *
104586555 -TATATAAGATAATTAGGAGTTTAAATT
1 AAAT-TAAGATAATTAAGAGTTTAAATT
*
104586582 AAATTAATATAATTAA
1 AAATTAAGATAATTAA
104586598 AATTTTAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.04
26 17 0.31
27 33 0.61
28 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (27 bp):
AAATTAAGATAATTAAGAGTTTAAATT
Found at i:104586586 original size:53 final size:53
Alignment explanation
Indices: 104586506--104586610 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
104586496 GGTTACAAAT
* * *
104586506 TAAGATAATTAAGAATTTAAATTAAATTAGGATATTTAAAGTTTTAATTTATA
1 TAAGATAATTAAGAATTTAAATTAAATTAAGATAATTAAAATTTTAATTTATA
* * *
104586559 TAAGATAATTAGGAGTTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
1 TAAGATAATTAAGAATTTAAATTAAATTAAGATAATTAAAATTTTAATTTAT
104586611 TTAAAAAGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.44
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATTAAGATAATTAAAATTTTAATTTATA
Found at i:104587735 original size:168 final size:168
Alignment explanation
Indices: 104587456--104587895 Score: 668
Period size: 168 Copynumber: 2.6 Consensus size: 168
104587446 ATCCTCATCT
* * *
104587456 TGTTTCTCATGCTCTTTTAGGCTTTTTCCATTTGGAGAAATTGGGTTTTTCTTTCTCGTACTCTT
1 TGTTTCTCGTGCTC-TTTAGGCTTTTCCCATTTGGGGAAATTGGGTTTTTCTTTCTCGTACTCTT
* * * * *
104587521 CGTGATCTTTCGATTCGTGTGACTCGTGGCACTCTTCATCTTTATGTTCCTTA-CTCTTATCTTG
65 CGTGCTCCTTCGATTCGCGTGACTCGTGGTACTCTTCATCTTTATGTTCCTTATC-CTCATCTTG
104587585 CTTT-TCCTTGTACCCAAGTATTTCTGGATATTCGACTTCG
129 -TTTGTCCTTGTACCCAAGTATTTCTGGATATTCGACTTCG
* * *
104587625 TGTTTCTCGTGCTCTTTAGGCTTTTCCCGTTTGGGGAACTTGGGTTTTTCTTTCTCGTATTCTTC
1 TGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATTGGGTTTTTCTTTCTCGTACTCTTC
* * *
104587690 GTGCTCCTTCGATTCGCGTGATTCGTGATACTCTTCATTTTTATGTTCCTTATCCTCATCTTGTT
66 GTGCTCCTTCGATTCGCGTGACTCGTGGTACTCTTCATCTTTATGTTCCTTATCCTCATCTTGTT
* * *
104587755 TGTCCTTGTACTCAGGTATTTTTGGATATTCGACTTCG
131 TGTCCTTGTACCCAAGTATTTCTGGATATTCGACTTCG
* *
104587793 TGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTATCGTACTCTTC
1 TGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATTGGGTTTTTCTTTCTCGTACTCTTC
104587858 GTGCTCCTTCGATTCGCGTGACTCGTGGTACTCTTCAT
66 GTGCTCCTTCGATTCGCGTGACTCGTGGTACTCTTCAT
104587896 GATGTTTGCA
Statistics
Matches: 245, Mismatches: 24, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
167 3 0.01
168 228 0.93
169 14 0.06
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.47
Consensus pattern (168 bp):
TGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATTGGGTTTTTCTTTCTCGTACTCTTC
GTGCTCCTTCGATTCGCGTGACTCGTGGTACTCTTCATCTTTATGTTCCTTATCCTCATCTTGTT
TGTCCTTGTACCCAAGTATTTCTGGATATTCGACTTCG
Found at i:104595243 original size:26 final size:26
Alignment explanation
Indices: 104595206--104595263 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
104595196 TGATACAAAT
104595206 TGATAATAGGTTAGATAAATGTTCCA
1 TGATAATAGGTTAGATAAATGTTCCA
* * *
104595232 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGATAAATGTTCCA
104595258 TGATAA
1 TGATAA
104595264 GAATTTCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGATAAATGTTCCA
Found at i:104597283 original size:137 final size:137
Alignment explanation
Indices: 104597037--104597323 Score: 565
Period size: 137 Copynumber: 2.1 Consensus size: 137
104597027 GAGTAGTCTC
104597037 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
104597102 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
104597167 ACTGTTA
131 ACTGTTA
104597174 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
104597239 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
104597304 ACTGTTA
131 ACTGTTA
104597311 CCCAAATGGGCTT
1 CCCAAATGGGCTT
104597324 AGGCCCAATG
Statistics
Matches: 149, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 149 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:104601507 original size:19 final size:16
Alignment explanation
Indices: 104601469--104601500 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
104601459 TGGACTAAGC
*
104601469 CACTTAGATAATAATA
1 CACTCAGATAATAATA
104601485 CACTCAGATAATAATA
1 CACTCAGATAATAATA
104601501 ACGCACTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.16, G:0.06, T:0.28
Consensus pattern (16 bp):
CACTCAGATAATAATA
Found at i:104603032 original size:17 final size:17
Alignment explanation
Indices: 104603010--104603048 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
104603000 CCCAAAGGTG
*
104603010 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
104603027 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
104603044 ATTTT
1 ATTTT
104603049 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:104603113 original size:11 final size:11
Alignment explanation
Indices: 104603099--104603138 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
104603089 TATATACATC
104603099 ATAATAAAAAT
1 ATAATAAAAAT
104603110 ATAATAAAAAT
1 ATAATAAAAAT
104603121 ATATATACAAAAT
1 ATA-ATA-AAAAT
104603134 A-AATA
1 ATAATA
104603139 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 17 0.63
12 4 0.15
13 6 0.22
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:104603813 original size:11 final size:11
Alignment explanation
Indices: 104603789--104603832 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
104603779 TTCTAATACG
*
104603789 TATATATATAT
1 TATATATATTT
*
104603800 TATATGTATTT
1 TATATATATTT
104603811 TATATATATTAT
1 TATATATATT-T
104603823 GTATATATAT
1 -TATATATAT
104603833 ATTTTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 18 0.64
12 1 0.04
13 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (11 bp):
TATATATATTT
Found at i:104616146 original size:74 final size:73
Alignment explanation
Indices: 104616054--104616507 Score: 481
Period size: 74 Copynumber: 6.1 Consensus size: 73
104616044 TGATGTTTTA
* * *
104616054 TTTCAAAATTTAATTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAAGTATTGTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTGTCAA
104616118 TTTTCGTATG
66 -TTTCGT-TG
* *
104616128 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTGTCAA
104616193 TTTC--TG
66 TTTCGTTG
* * * *
104616199 TTGTCAAAAAATCAACCCGTATTGGGAGAGGTGAGTTGAGCCTCGGGACACGCT-AAGGTATTGT
1 TT-TC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAA-GTATTGT
104616263 CAAATTTTCGTATG
63 C-AA-TTTCGT-TG
*
104616277 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTTTC
1 TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTGTC
104616342 AATTTCTGTTG
64 AATTTC-GTTG
*** * *
104616353 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT-TCA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGT-ATTGTCA
104616417 ATTTCTGTTG
65 ATTTC-GTTG
*** * * * ** * *
104616427 TCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAAACTCAGGTCACACGCCG-AGCTATTTT
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAAG-TATTGT
104616491 CAATTTCCGTT-
63 CAATTT-CGTTG
104616502 TTTCAA
1 TTTCAA
104616508 TTTCTGCCTT
Statistics
Matches: 330, Mismatches: 32, Indels: 35
0.83 0.08 0.09
Matches are distributed among these distances:
71 4 0.01
72 3 0.01
73 51 0.15
74 148 0.45
75 34 0.10
76 25 0.08
77 7 0.02
78 56 0.17
79 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (73 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAAGTATTGTCAA
TTTCGTTG
Found at i:104616537 original size:166 final size:167
Alignment explanation
Indices: 104616337--104617321 Score: 1274
Period size: 166 Copynumber: 5.9 Consensus size: 167
104616327 CGCTGAAGTA
* * *
104616337 TTTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG-
1 TTTTCAATTTCTGCCTT-TCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGC
* * * * *
104616398 ACACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTT
64 ACACGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTT
** *
104616462 GAAACTCAGGTCACACGCCGAGCTATTTTCAATTTCCGT
129 GAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGT
* *
104616501 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCA
* * * * *
104616565 CACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTG
65 CACGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTG
*
104616629 AGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCGT
130 AGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGT
* *
104616667 TTTTCAATTTCTGCCTTTCAAAAAAAATTGACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG--C
* * *
104616732 ACGCGCTGAGCTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
64 ACACGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTT
**
104616797 GAGCCTCAAATCACACGCCGAGG-----T--A-------
129 GAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGT
*
104616822 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCAC
* * *
104616887 ATGCGTTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTT
66 A--CGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTT
* * *
104616952 GAGCCTTAGGTCACACGTCGAGGTATTTTCAATTTTCGT
129 GAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGT
*
104616991 TTTTCAATTTTTGCCTTTCAAAACAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGCCTTTCAAAA-AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG--
* *
104617056 CACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
63 CACACGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGT
* *
104617121 TGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTCTGT
128 TGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGT
*
104617161 TTTTCAATTTTTGCCTTTCAAAAAGAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTCAATTTCTGCCTTTC-AAAA-AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG-
* * *
104617226 TCACGCGCTGACCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
63 -CACACGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAG
* ** * *
104617291 TTGAGCTTCAAATCACACACTGAGGTATTTT
127 TTGAGCCTCAGGTCACACGCCGAGGTATTTT
104617322 TTTCTTCAAT
Statistics
Matches: 745, Mismatches: 49, Indels: 47
0.89 0.06 0.06
Matches are distributed among these distances:
153 2 0.00
155 136 0.18
160 1 0.00
162 2 0.00
164 14 0.02
165 4 0.01
166 199 0.27
168 24 0.03
169 76 0.10
170 150 0.20
171 135 0.18
172 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (167 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCAC
ACGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGA
GCCTCAGGTCACACGCCGAGGTATTTTCAATTTCCGT
Found at i:104616587 original size:90 final size:89
Alignment explanation
Indices: 104616412--104616587 Score: 230
Period size: 92 Copynumber: 2.0 Consensus size: 89
104616402 GCTGAGGTAA
* *
104616412 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAAACTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAAACTCAGG-CACA
*
104616477 CGCCGAGCTATTTTCAATTTCCGTT
65 CGCCGAGCTAATTTCAATTTCCGTT
* **
104616502 TTTCAATTTCTGCCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAAACTCAGGCA
* *
104616565 CACGCTGAGGTAATTTCAATTTC
63 CACGCCGAGCTAATTTCAATTTC
104616588 TGTTGTCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
90 33 0.44
91 2 0.03
92 40 0.53
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (89 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAAACTCAGGCACAC
GCCGAGCTAATTTCAATTTCCGTT
Found at i:104616627 original size:74 final size:76
Alignment explanation
Indices: 104616502--104616663 Score: 222
Period size: 74 Copynumber: 2.1 Consensus size: 76
104616492 AATTTCCGTT
*
104616502 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
104616566 ACGCTGAGGTAA
65 ACGCCGAGGTAA
* *
104616578 TTTCAATTTCTG-TTGTC-AAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
104616641 CACGCCGAGGTAT
64 CACGCCGAGGTAA
*
104616654 TTTAAATTTC
1 TTTCAATTTC
104616664 CGTTTTTCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
74 42 0.55
75 2 0.03
76 33 0.43
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (76 bp):
TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
CGCCGAGGTAA
Found at i:104616747 original size:92 final size:90
Alignment explanation
Indices: 104616578--104616765 Score: 218
Period size: 92 Copynumber: 2.1 Consensus size: 90
104616568 GCTGAGGTAA
* * *
104616578 TTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACA
*
104616643 CGCCGAGGTATTTTAAATTTCCGTT
66 CGCCGAGCTATTTTAAATTTCCGTT
** * *
104616668 TTTCAATTTCTGCCTT-TCAAAAAAAATTGACTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCT
1 TTTCAATTTCTG--TTGTC-AAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGG-T
* * * *
104616731 CACGCGCTGAGCTATTTTCAATTTCTGTT
62 CACACGCCGAGCTATTTTAAATTTCCGTT
104616760 TTTCAA
1 TTTCAA
104616766 AAAAATCAAC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
90 12 0.15
91 4 0.05
92 66 0.80
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (90 bp):
TTTCAATTTCTGTTGTCAAAAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACA
CGCCGAGCTATTTTAAATTTCCGTT
Found at i:104616997 original size:77 final size:77
Alignment explanation
Indices: 104616667--104616986 Score: 401
Period size: 77 Copynumber: 4.1 Consensus size: 77
104616657 AAATTTCCGT
* ** *
104616667 TTTTCAATTTCTGCCTTTCAAAAAAAATTGACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
*
104616732 ACGCG-CTGAGCTA
65 ACACGTC-GAGCTA
* ****
104616745 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
* *
104616810 CACGCCGAGGTA
66 CACGTCGAGCTA
* *
104616822 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
** *
104616887 ATGCGTTGAGCTA
65 ACACGTCGAGCTA
* * *
104616900 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGG-TC
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTC
*
104616964 ACACGTCGAGGTA
65 ACACGTCGAGCTA
104616977 TTTTCAATTT
1 TTTTCAATTT
104616987 TCGTTTTTCA
Statistics
Matches: 207, Mismatches: 32, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
77 121 0.58
78 86 0.42
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
CACGTCGAGCTA
Found at i:104617072 original size:93 final size:91
Alignment explanation
Indices: 104616900--104617079 Score: 238
Period size: 93 Copynumber: 2.0 Consensus size: 91
104616890 CGTTGAGCTA
* * *
104616900 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTGAGCCTTAGGTCA
1 TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGGTCA
*
104616965 CACGTCGAGGTATTTTCAATTTTCGT
66 CACGTCGAGCTATTTTCAATTTTCGT
* * *
104616991 TTTTCAATTTTTGCCTTTCAAAACAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGC
1 TTTTCAATTTCTGCCTTTC-AAA-AAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGG-
*
104617055 TCACGCG-CTGAGCTATTTTCAATTT
63 TCACACGTC-GAGCTATTTTCAATTT
104617080 CTGTCTTTCA
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
91 17 0.22
92 6 0.08
93 54 0.70
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.36
Consensus pattern (91 bp):
TTTTCAATTTCTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTTAGGTCA
CACGTCGAGCTATTTTCAATTTTCGT
Found at i:104617109 original size:325 final size:323
Alignment explanation
Indices: 104616501--104617321 Score: 1216
Period size: 325 Copynumber: 2.5 Consensus size: 323
104616491 CAATTTCCGT
* * *
104616501 TTTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT
* * *
104616565 CA-CGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTT
65 CAGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTT
104616628 GAGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAA
130 GAGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAA
*
104616693 ATTGACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTG
195 ATCGACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTG
*
104616758 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACGCCGAGGTA
260 TCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACGCCGAGGTA
104616822 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
*
104616887 ATGCGTTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTT
66 A-GCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTT
* * * * *
104616952 GAGCCTTAGGTCACACGTCGAGGTATTTTCAATTTTCGTTTTTCAATTTTTGCCTTTCAAAACAA
130 GAGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA-AA
*
104617017 AATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCT
194 AATCGACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCT
*
104617082 GTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCCGAGGTA
259 GTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACGCCGAGGTA
104617147 TTTTCAATTTCTGTTTTTCAATTTTTGCCTTTCAAAAAGAAAATCGACTCATATTGCGAGAGGTG
1 TTTTCAA--------TTTC------TGCCTTTC-AAAA-AAAATCGACTCATATTGCGAGAGGTG
* *
104617212 AGTTGAGCCTTGGCTCACGCGCTGACCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATA
50 AGTTGAGCCTTGGCTCA-GCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTA
* * * ** * *
104617277 TTGCGAGAGGTGAGTTGAGCTTCAAATCACACACTGAGGTATTTT
114 TTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTT
104617322 TTTCTTCAAT
Statistics
Matches: 450, Mismatches: 29, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
320 2 0.00
321 60 0.13
323 21 0.05
324 93 0.21
325 135 0.30
333 4 0.01
339 8 0.02
340 4 0.01
341 123 0.27
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (323 bp):
TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
AGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTTG
AGCCTCAGGTCACACGCCGAGGTATTTTAAATTTCCGTTTTTCAATTTCTGCCTTTCAAAAAAAA
TCGACTCATATTGCAAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAATTTCTGT
CTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACACGCCGAGGTA
Found at i:104617120 original size:77 final size:77
Alignment explanation
Indices: 104616991--104617497 Score: 258
Period size: 77 Copynumber: 6.2 Consensus size: 77
104616981 CAATTTTCGT
* * *
104616991 TTTTCAATTTTTGCCTTTCAAAACAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTCTTTC-AAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
104617056 CACGCGCTGAGCTA
64 CACGCGCTGAGCTA
** *
104617070 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
* * *
104617135 CACGCCGAGGTA
66 CGCGCTGAGCTA
* ** * * * * *
104617147 TTTTCAATTTCTGTTTTTCAATTTTTGCCTTTCAAAAAGAAAATC-GACT-C-ATATTGCGAGAG
1 TTTTCAATTTCTGTCTTTCAA------------AAAAATCAACTCATATTGCGAGA--G-GTGAG
* *
104617209 GTGAGTTGAGCCTTGGCTCACGCGCTGACCTA
51 TTGAG-----CCTTGGCTCACGCGCTGAGCTA
***
104617241 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAAATC
1 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTC
* * *
104617305 ACACACTGAGGTA
65 ACGCGCTGAGCTA
* * *
104617318 TTTTTTTCTTCAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
1 -----TT-TTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
*** *
104617381 GAG-TCAC-ATATCGAGGTA
60 G-GCTCACGCGCT-GAGCTA
* *
104617399 TTTTCAAAATTTTCTTTTCAAGTT-AAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTC--AA-TTTC-TGTC--TTTCAA-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
104617463 GCCTTGGCTCACGCGCTAAGCTA
55 GCCTTGGCTCACGCGCTGAGCTA
104617486 TTTTCAATTTCT
1 TTTTCAATTTCT
104617498 ATTTTTAGAG
Statistics
Matches: 322, Mismatches: 58, Indels: 92
0.68 0.12 0.19
Matches are distributed among these distances:
75 3 0.01
76 5 0.02
77 81 0.25
78 6 0.02
79 19 0.06
80 1 0.00
81 46 0.14
82 22 0.07
83 18 0.06
84 5 0.02
85 4 0.01
86 3 0.01
87 53 0.16
88 4 0.01
89 17 0.05
94 35 0.11
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCA
CGCGCTGAGCTA
Found at i:104617272 original size:171 final size:169
Alignment explanation
Indices: 104616822--104617321 Score: 831
Period size: 170 Copynumber: 2.9 Consensus size: 169
104616812 CGCCGAGGTA
*
104616822 TTTTCAATTTCTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
1 TTTTCAATTTTTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
* * * * *
104616887 ATGCGTTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCGTATTGCGAGCGGCGAGTT
66 ACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
104616952 GAGCCTTAGGTCACACGTCGAGGTATTTTCAATTTTCGT
131 GAGCCTCAGATCACACGCCGAGGTATTTTCAATTTTCGT
104616991 TTTTCAATTTTTGCCTTTCAAAACAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTTTGCCTTTCAAAA-AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
104617056 CACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
65 CACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
104617121 TGAGCCTCAGATCACACGCCGAGGTATTTTCAA-TTTCTGT
130 TGAGCCTCAGATCACACGCCGAGGTATTTTCAATTTTC-GT
104617161 TTTTCAATTTTTGCCTTTCAAAAAGAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
1 TTTTCAATTTTTGCCTTTC-AAAA-AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
*
104617226 TCACGCGCTGACCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
64 TCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
* * * *
104617291 TTGAGCTTCAAATCACACACTGAGGTATTTT
129 TTGAGCCTCAGATCACACGCCGAGGTATTTT
104617322 TTTCTTCAAT
Statistics
Matches: 313, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
169 26 0.08
170 152 0.49
171 135 0.43
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (169 bp):
TTTTCAATTTTTGCCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
ACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
GAGCCTCAGATCACACGCCGAGGTATTTTCAATTTTCGT
Found at i:104617388 original size:81 final size:81
Alignment explanation
Indices: 104617186--104617468 Score: 255
Period size: 87 Copynumber: 3.5 Consensus size: 81
104617176 TTTCAAAAAG
* * * **
104617186 AAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTG-GCTCACGCGCTGACCTA-----TT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-TCACACACTGAGGTATTTTTTTCT
* *
104617244 TCAATTTCTGTCTTTCAAA
65 TCAATTTATATCTTTC--A
* *
104617263 AAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAAATCACACACTGAGGTATTTTTTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GAGTCACACACTGAGGTATTTTTTTCT
*
104617327 TCAATTTATATTTTTCA
65 TCAATTTATATCTTTCA
*
104617344 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACATA-TCGAGGTATTTTCAAAA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACACACT-GAGGTA-TTT-----
* *
104617408 TTTTCTTTTCAAGTTA-A-GTTTCA
59 TTTTC--TTCAATTTATATCTTTCA
104617431 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
104617469 GCTCACGCGC
Statistics
Matches: 173, Mismatches: 15, Indels: 26
0.81 0.07 0.12
Matches are distributed among these distances:
76 3 0.02
77 43 0.25
80 1 0.01
81 47 0.27
82 8 0.05
83 14 0.08
87 48 0.28
88 1 0.01
89 8 0.05
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.34
Consensus pattern (81 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACACACTGAGGTATTTTTTTCTT
CAATTTATATCTTTCA
Found at i:104618511 original size:17 final size:17
Alignment explanation
Indices: 104618489--104618527 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
104618479 CCCAAAGGTG
*
104618489 ATTTTA-TCTTCTTTATT
1 ATTTTACTCTTATTT-TT
104618506 ATTTTACTCTTATTTTT
1 ATTTTACTCTTATTTTT
104618523 ATTTT
1 ATTTT
104618528 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTACTCTTATTTTT
Found at i:104618611 original size:13 final size:11
Alignment explanation
Indices: 104618578--104618602 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
104618568 TATATACATC
104618578 ATAATAAAAAT
1 ATAATAAAAAT
104618589 ATAATAAAAAT
1 ATAATAAAAAT
104618600 ATA
1 ATA
104618603 TATACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:104619227 original size:2 final size:2
Alignment explanation
Indices: 104619220--104619256 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
104619210 TTCTAATACG
*
104619220 TA TA TA TA TA TA TA T- TA TA TA TA T- TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
104619257 TTTTTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:104619240 original size:13 final size:13
Alignment explanation
Indices: 104619222--104619257 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
104619212 CTAATACGTA
104619222 TATATATATATAT-
1 TATATATAT-TATG
104619235 TATATATATTATG
1 TATATATATTATG
104619248 TATATATATT
1 TATATATATT
104619258 TTTTAAATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (13 bp):
TATATATATTATG
Found at i:104626637 original size:23 final size:23
Alignment explanation
Indices: 104626588--104626631 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
104626578 ACATAACTCG
*
104626588 GACCTGGACGGATACACGGATCC
1 GACCTCGACGGATACACGGATCC
104626611 GACCTCGACGGATACACGGAT
1 GACCTCGACGGATACACGGAT
104626632 TTGACCCACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.14
Consensus pattern (23 bp):
GACCTCGACGGATACACGGATCC
Found at i:104626714 original size:12 final size:12
Alignment explanation
Indices: 104626697--104626721 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104626687 ACCGTAAGGG
104626697 AACAGTAATAGT
1 AACAGTAATAGT
104626709 AACAGTAATAGT
1 AACAGTAATAGT
104626721 A
1 A
104626722 GCGGTACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
AACAGTAATAGT
Found at i:104626852 original size:20 final size:20
Alignment explanation
Indices: 104626827--104626895 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
104626817 AGTCATAGTA
104626827 GTCGACACATATAATGTCTC
1 GTCGACACATATAATGTCTC
*
104626847 GTCGACACATATAGTGTCTC
1 GTCGACACATATAATGTCTC
104626867 GTCGACACATATAATGTCTC
1 GTCGACACATATAATGTCTC
*
104626887 ATCGACACA
1 GTCGACACA
104626896 CAGTCAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (20 bp):
GTCGACACATATAATGTCTC
Found at i:104627191 original size:18 final size:18
Alignment explanation
Indices: 104627168--104627207 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
104627158 TAATAATTAA
104627168 CAATTAAATTTCACTTTT
1 CAATTAAATTTCACTTTT
104627186 CAATTAAATTTCACTTTT
1 CAATTAAATTTCACTTTT
104627204 CAAT
1 CAAT
104627208 GCATCAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.17, G:0.00, T:0.47
Consensus pattern (18 bp):
CAATTAAATTTCACTTTT
Found at i:104627837 original size:15 final size:15
Alignment explanation
Indices: 104627796--104627837 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
104627786 TTTCCTAATC
104627796 ACTCTTAATTAAATTAA
1 ACTC-TAATT-AATTAA
*
104627813 ACT-TACTTAATTAA
1 ACTCTAATTAATTAA
104627827 ACTCTAATTAA
1 ACTCTAATTAA
104627838 CCACTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 9 0.41
15 10 0.45
17 3 0.14
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.40
Consensus pattern (15 bp):
ACTCTAATTAATTAA
Found at i:104629888 original size:46 final size:46
Alignment explanation
Indices: 104629836--104630010 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
104629826 ATTTGGGCAT
*
104629836 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
104629882 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
* *
104629927 ATCCGAGCTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
104629975 CTGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
104630011 CCAGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 4 0.04
46 60 0.56
47 27 0.25
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:104629941 original size:93 final size:93
Alignment explanation
Indices: 104629831--104630002 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
104629821 AGGATATTTG
* *
104629831 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
104629896 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
104629924 GGCATCCGAGCTCGTTGAGTTGAGTCCGGGTTCACTTATGGATGCGAATGCCTGAGCTCATTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
104629989 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
104630003 ACTTATGGCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:104631658 original size:23 final size:23
Alignment explanation
Indices: 104631632--104631679 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
104631622 TTTTATGCAC
*
104631632 ATCAGTTTACAGTTTCAATAATT
1 ATCAATTTACAGTTTCAATAATT
**
104631655 ATCAATTTACAGTTTTGATAATT
1 ATCAATTTACAGTTTCAATAATT
104631678 AT
1 AT
104631680 TAGCAGATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (23 bp):
ATCAATTTACAGTTTCAATAATT
Found at i:104632122 original size:27 final size:29
Alignment explanation
Indices: 104632092--104632154 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 29
104632082 TTAGCTTTGG
*
104632092 TCTTTCTCCTTATCT-TTCC-TTT-TTCTT
1 TCTTTCTCCCT-TCTGTTCCGTTTGTTCTT
*
104632119 TCTTTTTCCCTTCTGTTCCGTTTGTTCTT
1 TCTTTCTCCCTTCTGTTCCGTTTGTTCTT
104632148 TCTTTCT
1 TCTTTCT
104632155 TTTCTATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 3 0.10
27 13 0.43
28 3 0.10
29 11 0.37
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.65
Consensus pattern (29 bp):
TCTTTCTCCCTTCTGTTCCGTTTGTTCTT
Found at i:104632420 original size:23 final size:23
Alignment explanation
Indices: 104632394--104632439 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
104632384 AACTCGGATT
*
104632394 TGGACGGATACACGGATCCGACC
1 TGGACGGATACACAGATCCGACC
104632417 TGGACGGATACACAGATCCGACC
1 TGGACGGATACACAGATCCGACC
104632440 CACACACCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.13
Consensus pattern (23 bp):
TGGACGGATACACAGATCCGACC
Found at i:104632513 original size:12 final size:12
Alignment explanation
Indices: 104632498--104632524 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
104632488 CACCGTAAGG
104632498 GTAACAGTAATA
1 GTAACAGTAATA
104632510 GTAACAGTAATA
1 GTAACAGTAATA
104632522 GTA
1 GTA
104632525 GCGGTACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (12 bp):
GTAACAGTAATA
Found at i:104632655 original size:20 final size:19
Alignment explanation
Indices: 104632630--104632674 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
104632620 AGTCATAGTA
*
104632630 GTCGACATATATAGTGTCTC
1 GTCGACA-ACATAGTGTCTC
104632650 GTCGAC-ACATAGTGTCTC
1 GTCGACAACATAGTGTCTC
*
104632668 ATCGACA
1 GTCGACA
104632675 CACAGTCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 16 0.73
20 6 0.27
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (19 bp):
GTCGACAACATAGTGTCTC
Found at i:104632663 original size:18 final size:18
Alignment explanation
Indices: 104632640--104632676 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
104632630 GTCGACATAT
*
104632640 ATAGTGTCTCGTCGACAC
1 ATAGTGTCTCATCGACAC
104632658 ATAGTGTCTCATCGACAC
1 ATAGTGTCTCATCGACAC
104632676 A
1 A
104632677 CAGTCGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (18 bp):
ATAGTGTCTCATCGACAC
Found at i:104635051 original size:23 final size:23
Alignment explanation
Indices: 104635020--104635067 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
104635010 TTTTATGCAC
*
104635020 ATCAGTTTACAGTTTC-AGTAATT
1 ATCAATTTACAGTTTCGA-TAATT
104635043 ATCAATTTACAGTTTCGATAATT
1 ATCAATTTACAGTTTCGATAATT
104635066 AT
1 AT
104635068 TAGCAGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (23 bp):
ATCAATTTACAGTTTCGATAATT
Found at i:104635506 original size:11 final size:10
Alignment explanation
Indices: 104635490--104635562 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 10
104635480 GTCTTTCTCC
104635490 TTTTCTTTCCT
1 TTTTCTTT-CT
104635501 TTTTCTTTCT
1 TTTTCTTTCT
*
104635511 TTTTCCCTTCT
1 TTTT-CTTTCT
* *
104635522 GTTTCGTTTGT
1 TTTTC-TTTCT
104635533 TCTTTCTTTCT
1 T-TTTCTTTCT
*
104635544 TTTCTATTTCT
1 TTT-TCTTTCT
*
104635555 ATTTCTTT
1 TTTTCTTT
104635563 TATTTTATTA
Statistics
Matches: 49, Mismatches: 9, Indels: 9
0.73 0.13 0.13
Matches are distributed among these distances:
10 13 0.27
11 32 0.65
12 4 0.08
ACGTcount: A:0.03, C:0.22, G:0.04, T:0.71
Consensus pattern (10 bp):
TTTTCTTTCT
Done.