Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 267 of 332
Found at i:89236370 original size:9 final size:9
Alignment explanation
Indices: 89236358--89236426 Score: 59
Period size: 9 Copynumber: 7.2 Consensus size: 9
89236348 TAATTAAAAA
89236358 TTATAATTT
1 TTATAATTT
*
89236367 TTATACTTT
1 TTATAATTT
89236376 TTCAATAATTT
1 TT--ATAATTT
*
89236387 TAATAATTT
1 TTATAATTT
89236396 TTA-AATTT
1 TTATAATTT
*
89236404 TAAAAATAATTT
1 T---TATAATTT
89236416 TTATAATTT
1 TTATAATTT
89236425 TT
1 TT
89236427 TTATCACATG
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
8 6 0.12
9 28 0.58
11 8 0.17
12 6 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TTATAATTT
Found at i:89236385 original size:20 final size:20
Alignment explanation
Indices: 89236360--89236397 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89236350 ATTAAAAATT
* *
89236360 ATAATTTTTATACTTTTTCA
1 ATAATTTTAATAATTTTTCA
89236380 ATAATTTTAATAATTTTT
1 ATAATTTTAATAATTTTT
89236398 AAATTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
ATAATTTTAATAATTTTTCA
Found at i:89239458 original size:104 final size:104
Alignment explanation
Indices: 89239335--89239826 Score: 682
Period size: 104 Copynumber: 4.7 Consensus size: 104
89239325 CAGCGAACTA
* **
89239335 TTAGAAGTTGCGATCTTAAATCAATGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
*
89239400 CCTTAATAACATCATA-TGTGAACGTAGGTCAGT-GAGCTG
66 CCTTAATAACATCA-ACTGTGAACGTAGGTCA-TCAAGCTG
* * *
89239439 TTAGGAGTTGCGATATTAAATCAGCGAACTTAAATAATTGGAGGCTGCGATCTTAAATCAGCTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
* * * * * * *
89239504 CCTTAATAACATTAACTATGAATGGAGGTTAGCGAGCTG
66 CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
* **
89239543 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGGGATCTTAAATCAATTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
* *
89239608 CCTTAATAACATCAGCTGTGAACGTAGGTCATCAAGCAG
66 CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
* *
89239647 TTAGGAGTTGCGATATTAAATCAGCGAACTCAAATAATTAGAGGTTGCGATCTTAAATCAGCTAG
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
*
89239712 CCTTAATAATATCAACTGTGAACGTAGGTCATCAAGCTG
66 CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
* * * * * * * *
89239751 ATAAGAGTTGCGATCTTAAATCAGCGAACTAAAATAATTGAAGGTTGTGATATTAAATCAACTAA
1 TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
89239816 CCTTAATAACA
66 CCTTAATAACA
89239827 CCAGTTGCAA
Statistics
Matches: 340, Mismatches: 46, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
103 1 0.00
104 339 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (104 bp):
TTAGGAGTTGCGATCTTAAATCAGCGAACTCAAATAATTGGAGGTTGCGATCTTAAATCAGCTAG
CCTTAATAACATCAACTGTGAACGTAGGTCATCAAGCTG
Found at i:89254419 original size:43 final size:42
Alignment explanation
Indices: 89254370--89254965 Score: 345
Period size: 43 Copynumber: 13.8 Consensus size: 42
89254360 AGCCTTATCT
*
89254370 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC
* * *
89254412 CCTCTAAGCAGTAGGGAAACA-GATCGAA--GAC-GATGGGCCTTAAAC
1 CC-CTAAGCAGTAGGGTAACAGGCT-GAATTTACAGAT----CTT-AAC
* * * *
89254457 CGCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATATTATC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC
* * * *** ** **
89254499 TCCCTAAGCAGTAGGGAAATA-GATCGAAGGCGATGGCCCTTAAAC
1 -CCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATCTT-AAC
89254544 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAA-C
* * * *** **
89254587 CCCTAAGTAGTAGGGAAACA-GATCGAAGGCA-ATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA--GATCTT-AAC
* *
89254631 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC
* * * **
89254673 TCCCTAAGCAGTAGTG-AAGCA-GATCGAA--GACGAAGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGTAA-CAGGCT-GAATTTAC--A-GATCTT-AAC
* *
89254718 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGACCTTAAC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC
*
89254760 CCTCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATTTTAACC
1 CC-CTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAA-C
* * ** * * *
89254804 CCCTAAGCAGTAGGGTAGCAAGCCAAATCTATAGACCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTT-AAC
* *
89254847 CCCTAAGCAGTAGGGTAACAGGTTGAATTCACAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAA-C
* * * * *** *
89254890 CCCTTAGTAGTAGGGAAACA-GATCGAAGGCA-ATGAACCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA-G-ATCTT-AAC
89254934 CCCTAAGCAGTAGGGTAACAGGCTGAATTTAC
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTAC
89254966 CATCCTATCT
Statistics
Matches: 411, Mismatches: 99, Indels: 85
0.69 0.17 0.14
Matches are distributed among these distances:
40 3 0.01
41 4 0.01
42 29 0.07
43 216 0.53
44 127 0.31
45 25 0.06
46 4 0.01
47 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAAC
Found at i:89254465 original size:44 final size:44
Alignment explanation
Indices: 89254409--89254738 Score: 178
Period size: 44 Copynumber: 7.5 Consensus size: 44
89254399 TACAGATCTT
89254409 AACCCTCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTA
1 AACCC-CTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTA
* * * * ** ** ***
89254454 AACCGCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACAGATATT-
1 AACCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGATGGGCCTTA
* * * *
89254496 ATCTCCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGCCCTTA
1 AAC-CCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTA
* * *
89254541 AACCCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGAT----CTTA
1 AACCCCTAAGCAGTAGGGAAACAGATC-GAA--GAC-GATGGGCCTTA
* * * *
89254584 ACCCCCTAAGTAGTAGGGAAACAGATCGAAGGCAATGGGCCTTA
1 AACCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTA
* * * ** ** **
89254628 AACCCCTAAGCAGTAGGGTAACAG-GCTAA-ATTTACAGATCTT-
1 AACCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGATGGGCCTTA
* * * *
89254670 ATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGAAGGGCCTTA
1 AAC-CCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTA
*
89254715 AACCCCTAAGCAGTAGGGTAACAG
1 AACCCCTAAGCAGTAGGGAAACAG
89254739 GCTAAATTTA
Statistics
Matches: 200, Mismatches: 66, Indels: 39
0.66 0.22 0.13
Matches are distributed among these distances:
40 2 0.01
41 1 0.00
42 5 0.03
43 80 0.40
44 99 0.50
45 9 0.05
46 1 0.00
47 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (44 bp):
AACCCCTAAGCAGTAGGGAAACAGATCGAAGACGATGGGCCTTA
Found at i:89254471 original size:87 final size:86
Alignment explanation
Indices: 89254370--89254781 Score: 617
Period size: 87 Copynumber: 4.7 Consensus size: 86
89254360 AGCCTTATCT
* *
89254370 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCC-CTAAGCAGTAGGGAAACAGA
89254435 TCGAAGACGATGGGCCTTAAAC
65 TCGAAGACGATGGGCCTTAAAC
* * * *
89254457 CGCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATATTATCTCCCTAAGCAGTAGGGAAATAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAAC-CCCTAAGCAGTAGGGAAACAGA
* *
89254522 TCGAAGGCGATGGCCCTTAAAC
65 TCGAAGACGATGGGCCTTAAAC
* *
89254544 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAA-CCCCTAAGCAGTAGGGAAACAGA
* *
89254609 TCGAAGGCAATGGGCCTTAAAC
65 TCGAAGACGATGGGCCTTAAAC
* * *
89254631 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGA
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAAC-CCCTAAGCAGTAGGGAAACAGA
*
89254696 TCGAAGACGAAGGGCCTTAAAC
65 TCGAAGACGATGGGCCTTAAAC
* *
89254718 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGACCTTAACCCTCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCC-CTAAGCAGTAGGGAAACAG
89254782 GCTGAATTTA
Statistics
Matches: 292, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
86 3 0.01
87 286 0.98
88 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (86 bp):
CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAACAGAT
CGAAGACGATGGGCCTTAAAC
Found at i:89254660 original size:174 final size:174
Alignment explanation
Indices: 89254370--89254781 Score: 680
Period size: 174 Copynumber: 2.4 Consensus size: 174
89254360 AGCCTTATCT
*
89254370 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCTAAGCAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCTAAGCAGTAGGGAAACAGA
* *
89254435 TCGAAGACGATGGGCCTTAAACCGCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATATTATCT
66 TCGAAGACAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATATTATCT
* * *
89254500 CCCTAAGCAGTAGGGAAATAGATCGAAGGCGATGGCCCTTAAAC
131 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGCCCTTAAAC
* *
89254544 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCCCTAAGTAGTAGGGAAACAGA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCTAAGCAGTAGGGAAACAGA
* *
89254609 TCGAAGGCAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTATCT
66 TCGAAGACAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATATTATCT
* * *
89254674 CCCTAAGCAGTAGTGAAGCAGATCGAAGACGAAGGGCCTTAAAC
131 CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGCCCTTAAAC
* * *
89254718 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGACCTTAACCCTCTAAGCAGTAGGGTAACAG
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCTAAGCAGTAGGGAAACAG
89254782 GCTGAATTTA
Statistics
Matches: 220, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
174 220 1.00
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (174 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTAACCCTCTAAGCAGTAGGGAAACAGA
TCGAAGACAATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATATTATCT
CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGCCCTTAAAC
Found at i:89255093 original size:45 final size:44
Alignment explanation
Indices: 89255012--89255101 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 44
89255002 AAGTCACAAG
* **
89255012 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGTGAA
1 TCTTATCTCCCTGAAGTTGCAGAGGAACAGACTGAAGATA-TGAA
* * *
89255057 TCTTATTTCCCTGAAGTTGCAGAGGAACAGATTGAAGCTATGAA
1 TCTTATCTCCCTGAAGTTGCAGAGGAACAGACTGAAGATATGAA
89255101 T
1 T
89255102 AAATAGATCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 5 0.13
45 34 0.87
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGAGGAACAGACTGAAGATATGAA
Found at i:89256140 original size:17 final size:14
Alignment explanation
Indices: 89256107--89256135 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89256097 ATGATCACAC
89256107 TTACCACAATGTGA
1 TTACCACAATGTGA
89256121 TTACCACAATGTGA
1 TTACCACAATGTGA
89256135 T
1 T
89256136 GATTAAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (14 bp):
TTACCACAATGTGA
Found at i:89266581 original size:13 final size:13
Alignment explanation
Indices: 89266563--89266589 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
89266553 GCTCGGCAGG
89266563 GACACGCCCGTGT
1 GACACGCCCGTGT
89266576 GACACGCCCGTGT
1 GACACGCCCGTGT
89266589 G
1 G
89266590 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:89276880 original size:18 final size:17
Alignment explanation
Indices: 89276852--89276886 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89276842 ATTATTAAGA
*
89276852 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
89276869 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
89276887 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:89277035 original size:157 final size:157
Alignment explanation
Indices: 89276840--89277156 Score: 607
Period size: 157 Copynumber: 2.0 Consensus size: 157
89276830 ATAAGAATAT
89276840 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
89276905 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
89276970 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
89276997 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
89277062 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
89277127 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
89277154 TAA
1 TAA
89277157 GGGTATTCTA
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:89277037 original size:18 final size:17
Alignment explanation
Indices: 89277009--89277043 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
89276999 ATTATTAAGA
*
89277009 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
89277026 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
89277044 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:89277077 original size:75 final size:75
Alignment explanation
Indices: 89276841--89277079 Score: 200
Period size: 75 Copynumber: 3.1 Consensus size: 75
89276831 TAAGAATATT
89276841 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
89276906 AATATGATTA
66 AATATGATTA
* ** * * * * *
89276916 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
89276978 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
89276998 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
89277063 AATATGATTA
66 AATATGATTA
89277073 AATTATT
1 AATTATT
89277080 TATTATTGAT
Statistics
Matches: 117, Mismatches: 30, Indels: 34
0.65 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 16 0.14
82 15 0.13
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.46
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:89277289 original size:45 final size:44
Alignment explanation
Indices: 89277189--89277298 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
89277179 TTTTCCATTA
89277189 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
89277228 TACTATTACGCCTCTATTCCATTACATTCAACCAAACATTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
*
89277273 TGCTATTACACCTCTATTCTATTACA
1 TGCTATTACACCTCTATTCCATTACA
89277299 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 24 0.42
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:89277296 original size:16 final size:16
Alignment explanation
Indices: 89277277--89277346 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
89277267 TTGATTTGCT
* *
89277277 ATTACACCTCTATTCT
1 ATTACACCTCTAATCC
89277293 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
89277309 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
89277325 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
89277341 AATACA
1 ATTACA
89277347 GCGAACCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:89280869 original size:18 final size:18
Alignment explanation
Indices: 89280842--89280876 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
89280832 CTTTTGTCTC
*
89280842 ATAAATAAAATATAATTT
1 ATAAAGAAAATATAATTT
89280860 ATAAAGAAAATATAATT
1 ATAAAGAAAATATAATT
89280877 AAAGATAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
ATAAAGAAAATATAATTT
Found at i:89280888 original size:16 final size:15
Alignment explanation
Indices: 89280861--89280890 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
89280851 ATATAATTTA
89280861 TAAAGAAAATATAAT
1 TAAAGAAAATATAAT
89280876 TAAAGATAAATATAA
1 TAAAGA-AAATATAA
89280891 AGTGTTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TAAAGAAAATATAAT
Found at i:89281169 original size:17 final size:17
Alignment explanation
Indices: 89281149--89281181 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
89281139 AAATAGATTT
89281149 TTAATTAAAAATTTTAG
1 TTAATTAAAAATTTTAG
*
89281166 TTAATTAAAATTTTTA
1 TTAATTAAAAATTTTA
89281182 AACCTAAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TTAATTAAAAATTTTAG
Found at i:89282779 original size:23 final size:23
Alignment explanation
Indices: 89282718--89282806 Score: 83
Period size: 22 Copynumber: 3.9 Consensus size: 23
89282708 AATTTGATCC
* *
89282718 TAATTCTAAAAAAAATAT-ATAA
1 TAATTTTAAAAAATATATAATAA
* * *
89282740 TTATTTTCAAAGA-ATATAATAA
1 TAATTTTAAAAAATATATAATAA
* *
89282762 TAATTTTTAAAAATATATAAAAA
1 TAATTTTAAAAAATATATAATAA
89282785 TAAATGTTTAAAAAATATATAA
1 T-AAT-TTTAAAAAATATATAA
89282807 CAAATTAAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
21 4 0.07
22 23 0.43
23 9 0.17
24 3 0.06
25 15 0.28
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TAATTTTAAAAAATATATAATAA
Found at i:89282821 original size:27 final size:24
Alignment explanation
Indices: 89282753--89282821 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 24
89282743 TTTTCAAAGA
* *
89282753 ATATAATAAT-AATTTTTAAAAAT
1 ATATAAAAATAAATTTTAAAAAAT
89282776 ATATAAAAATAAATGTTTAAAAAAT
1 ATATAAAAATAAAT-TTTAAAAAAT
89282801 ATATAACAAATTAAAATTTTA
1 ATATAA-AAA-T-AAATTTTA
89282822 TATTAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
23 9 0.23
24 3 0.08
25 15 0.38
26 3 0.08
27 5 0.13
28 4 0.10
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (24 bp):
ATATAAAAATAAATTTTAAAAAAT
Found at i:89282852 original size:25 final size:24
Alignment explanation
Indices: 89282819--89282867 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
89282809 AATTAAAATT
*
89282819 TTATATTAATATTAAATAAATATAA
1 TTATATTAATATGAAATAAA-ATAA
89282844 TTATATTAATATGAAATAAAATAA
1 TTATATTAATATGAAATAAAATAA
89282868 AATCTGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATATTAATATGAAATAAAATAA
Found at i:89283462 original size:18 final size:17
Alignment explanation
Indices: 89283437--89283472 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
89283427 TTTAATGTTG
*
89283437 ATTATAATTTTAAAAAT
1 ATTATAATTCTAAAAAT
89283454 ATTATTAATTCTAAAAAT
1 ATTA-TAATTCTAAAAAT
89283472 A
1 A
89283473 CTTTTCAAAA
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:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATAATTCTAAAAAT
Found at i:89284008 original size:5 final size:5
Alignment explanation
Indices: 89283998--89284029 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
89283988 TTGTGTGTTC
89283998 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
89284030 TTCACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:89284012 original size:9 final size:9
Alignment explanation
Indices: 89283998--89284028 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
89283988 TTGTGTGTTC
89283998 TTTATTTTA
1 TTTATTTTA
89284007 TTTATTTTA
1 TTTATTTTA
89284016 TTTTATTTTA
1 -TTTATTTTA
89284026 TTT
1 TTT
89284029 TTTCACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:89292746 original size:66 final size:66
Alignment explanation
Indices: 89292676--89292801 Score: 171
Period size: 66 Copynumber: 1.9 Consensus size: 66
89292666 TCGTATGGCC
* * * * *
89292676 GAAGAGAACCAATGACCTAGATACAAATAGGCAAAAAATAATTTATCTCTCAAAGGTCAGATGCC
1 GAAGAGAACCAACGACCCAGATACAAACAAGCAAAAAATAATTCATCTCTCAAAGGTCAGATGCC
89292741 T
66 T
* * * *
89292742 GAAGAGAACCAACGACCCAGATGCAAGCAAGCAAAAAATGATTCATCTCTCAACGGTCAG
1 GAAGAGAACCAACGACCCAGATACAAACAAGCAAAAAATAATTCATCTCTCAAAGGTCAG
89292802 TACGCACCCA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 51 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.17
Consensus pattern (66 bp):
GAAGAGAACCAACGACCCAGATACAAACAAGCAAAAAATAATTCATCTCTCAAAGGTCAGATGCC
T
Found at i:89297309 original size:25 final size:25
Alignment explanation
Indices: 89297275--89297325 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
89297265 ACCAACATGC
89297275 TAGTTTACTTGGCGATTATCTTTGA
1 TAGTTTACTTGGCGATTATCTTTGA
*
89297300 TAGTTTACTTGGTGATTATCTTTGA
1 TAGTTTACTTGGCGATTATCTTTGA
89297325 T
1 T
89297326 CCACGATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.51
Consensus pattern (25 bp):
TAGTTTACTTGGCGATTATCTTTGA
Found at i:89300763 original size:26 final size:25
Alignment explanation
Indices: 89300704--89300760 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
89300694 TAATAACATT
* * *
89300704 ATAAAAATAAAAATATCAAATTATG
1 ATAAAAATTAAAATATAAAATTATA
89300729 ATAAAAATTAAAATATAAAGATTA-A
1 ATAAAAATTAAAATATAAA-ATTATA
89300754 ATAAAAA
1 ATAAAAA
89300761 ATTTAAACAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (25 bp):
ATAAAAATTAAAATATAAAATTATA
Found at i:89311091 original size:40 final size:40
Alignment explanation
Indices: 89311015--89311091 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
89311005 ATTGCATGTT
* ***
89311015 AAACACGCCCTACATGATATTATCCGATTTGTATGTTAAA
1 AAACACGCCCTACATGATATTATCCAATTCACATGTTAAA
* *
89311055 AAACATGCCCTACATGATATTATGCAATTCACATGTT
1 AAACACGCCCTACATGATATTATCCAATTCACATGTT
89311092 CAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (40 bp):
AAACACGCCCTACATGATATTATCCAATTCACATGTTAAA
Found at i:89311228 original size:24 final size:24
Alignment explanation
Indices: 89311200--89311256 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
89311190 GAGAAAGAAT
* *
89311200 TGGTGGTTTCATTCACAACCTACA
1 TGGTGGCTTCATCCACAACCTACA
* * *
89311224 TGGTGGCTTCGTCCACAACGTATA
1 TGGTGGCTTCATCCACAACCTACA
89311248 TGGTGGCTT
1 TGGTGGCTT
89311257 GTTTGCAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (24 bp):
TGGTGGCTTCATCCACAACCTACA
Found at i:89311901 original size:35 final size:35
Alignment explanation
Indices: 89311855--89311927 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
89311845 AACCATTAAA
89311855 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
1 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
89311890 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
1 AATATTACAAAACCTTTGCTCAAATGATTTAATAC
89311925 AAT
1 AAT
89311928 CTCAAATATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.34
Consensus pattern (35 bp):
AATATTACAAAACCTTTGCTCAAATGATTTAATAC
Found at i:89317571 original size:18 final size:19
Alignment explanation
Indices: 89317548--89317591 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
89317538 TTCAAACAAA
89317548 AATTGAGAAGTTTA-AGAG
1 AATTGAGAAGTTTAGAGAG
89317566 AATTGAG-AGTTTAGAGAG
1 AATTGAGAAGTTTAGAGAG
*
89317584 AATAGAGA
1 AATTGAGA
89317592 GTTGGATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (19 bp):
AATTGAGAAGTTTAGAGAG
Found at i:89318113 original size:14 final size:15
Alignment explanation
Indices: 89318086--89318114 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
89318076 ACTTATATTC
89318086 AATACTTAAATTTTT
1 AATACTTAAATTTTT
89318101 AATACTT-AATTTTT
1 AATACTTAAATTTTT
89318115 GAGTTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (15 bp):
AATACTTAAATTTTT
Found at i:89319122 original size:22 final size:20
Alignment explanation
Indices: 89319096--89319135 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
89319086 AGAATTATTT
89319096 TAATTAATATTAATATATTTCA
1 TAATTAAT-TTAA-ATATTTCA
89319118 TAATTAATTTAAATATTT
1 TAATTAATTTAAATATTT
89319136 AATTTGAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TAATTAATTTAAATATTTCA
Found at i:89320477 original size:28 final size:28
Alignment explanation
Indices: 89320437--89320492 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
89320427 AGGATAATAC
89320437 AATTCCCCTTGAGTACCAATGGTTGTGG
1 AATTCCCCTTGAGTACCAATGGTTGTGG
89320465 AATTCCCCTTGAGTACCAATGGTTGTGG
1 AATTCCCCTTGAGTACCAATGGTTGTGG
89320493 TACCAGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.32
Consensus pattern (28 bp):
AATTCCCCTTGAGTACCAATGGTTGTGG
Found at i:89321302 original size:23 final size:23
Alignment explanation
Indices: 89321251--89321302 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
89321241 AAGGAGAGTT
* * *
89321251 AGCAATAAACTAGCAACAAAAAT
1 AGCAACAAACTAGCAAAAAAAAA
* *
89321274 ATCAACAAAGTAGCAAAAAAAAA
1 AGCAACAAACTAGCAAAAAAAAA
89321297 AGCAAC
1 AGCAAC
89321303 TAAAAAAGCA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.63, C:0.17, G:0.10, T:0.10
Consensus pattern (23 bp):
AGCAACAAACTAGCAAAAAAAAA
Found at i:89324284 original size:27 final size:27
Alignment explanation
Indices: 89324244--89324321 Score: 111
Period size: 27 Copynumber: 2.9 Consensus size: 27
89324234 TGGCATTTTG
*
89324244 ATAAACTTTGTGGTGAAATCTGAAAGA
1 ATAAACTTTGTGGTGAACTCTGAAAGA
* * *
89324271 ATAAGCTTTATGGTGAACTCTAAAAGA
1 ATAAACTTTGTGGTGAACTCTGAAAGA
*
89324298 ATAACCTTTGTGGTGAACTCTGAA
1 ATAAACTTTGTGGTGAACTCTGAA
89324322 TAGATTGTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (27 bp):
ATAAACTTTGTGGTGAACTCTGAAAGA
Found at i:89330631 original size:21 final size:23
Alignment explanation
Indices: 89330573--89330631 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
89330563 AATTTATATT
*
89330573 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
89330594 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
89330617 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
89330632 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:89330892 original size:11 final size:12
Alignment explanation
Indices: 89330862--89330902 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
89330852 ATATGTAAAA
*
89330862 ATAATATATAAT
1 ATAATAAATAAT
89330874 ATATATAAATAAT
1 ATA-ATAAATAAT
89330887 -TAATAAAT-AT
1 ATAATAAATAAT
89330897 ATAATA
1 ATAATA
89330903 CAAGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 2 0.08
11 11 0.42
12 5 0.19
13 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:89330910 original size:28 final size:28
Alignment explanation
Indices: 89330864--89330952 Score: 76
Period size: 28 Copynumber: 3.0 Consensus size: 28
89330854 ATGTAAAAAT
*
89330864 AATATATAATATATA-TAAATAATTAATA
1 AATATATAATACA-AGTAAATAATTAATA
89330892 AATATATAATACAAGTAAA-AATATAATA
1 AATATATAATACAAGTAAATAAT-TAATA
89330920 ATGATATATGAATAACAATGTAAAATAA-TAATA
1 A--ATATAT-AAT-ACAA-GT-AAATAATTAATA
89330953 TTTTGTGAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
27 4 0.08
28 22 0.43
30 6 0.12
31 3 0.06
32 4 0.08
33 7 0.14
34 3 0.06
35 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (28 bp):
AATATATAATACAAGTAAATAATTAATA
Found at i:89330945 original size:32 final size:31
Alignment explanation
Indices: 89330880--89330952 Score: 82
Period size: 30 Copynumber: 2.4 Consensus size: 31
89330870 TAATATATAT
89330880 AAATAATTAATAA--ATATATAATACAAGTAA
1 AAATAA-TAATAATGATATATAATACAAGTAA
89330910 AAAT-ATAATAATGATATATGAATAACAATGT-A
1 AAATAATAATAATGATATAT-AAT-ACAA-GTAA
89330942 AAATAATAATA
1 AAATAATAATA
89330953 TTTTGTGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 6 0.16
29 1 0.03
30 10 0.27
31 3 0.08
32 9 0.24
33 8 0.22
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (31 bp):
AAATAATAATAATGATATATAATACAAGTAA
Found at i:89330991 original size:12 final size:12
Alignment explanation
Indices: 89330974--89331092 Score: 75
Period size: 12 Copynumber: 9.7 Consensus size: 12
89330964 GTAATATATA
89330974 ATAAATAATAAT
1 ATAAATAATAAT
89330986 ATAAATAAT-AT
1 ATAAATAATAAT
*
89330997 ATAATAAAATAATT
1 ATAA-ATAATAA-T
89331011 ATATAATATATAAT
1 ATA-AATA-ATAAT
89331025 ATAAA-AATAAGGT
1 ATAAATAATAA--T
* *
89331038 -TAAAAAATAAA
1 ATAAATAATAAT
*
89331049 ACAAATAATAAT
1 ATAAATAATAAT
* *
89331061 A-AAAAAATTTAT
1 ATAAATAA-TAAT
*
89331073 ATATATAATAAT
1 ATAAATAATAAT
*
89331085 AGAAATAA
1 ATAAATAA
89331093 ATATATAGGG
Statistics
Matches: 83, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
11 15 0.18
12 40 0.48
13 13 0.16
14 10 0.12
15 5 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.31
Consensus pattern (12 bp):
ATAAATAATAAT
Found at i:89330997 original size:26 final size:26
Alignment explanation
Indices: 89330965--89331099 Score: 106
Period size: 26 Copynumber: 5.3 Consensus size: 26
89330955 TTGTGAAAAG
89330965 TAATATATAATAAATAATAATATAAA
1 TAATATATAATAAATAATAATATAAA
*
89330991 TAATATATAAT-AA-AATAAT-TATA
1 TAATATATAATAAATAATAATATAAA
*
89331014 TAATATATAATATAAAAATAAGGT-TAAA
1 TAATATATAATA-AATAATAA--TATAAA
* *
89331042 -AA-ATAAAACAAATAATAATA-AAA
1 TAATATATAATAAATAATAATATAAA
* * * *
89331065 AAATTTAT-ATATATAATAATAGAAA
1 TAATATATAATAAATAATAATATAAA
89331090 TAAATATATA
1 T-AATATATA
89331100 GGGTTAGATT
Statistics
Matches: 87, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
23 18 0.21
24 19 0.22
25 16 0.18
26 28 0.32
27 2 0.02
28 4 0.05
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (26 bp):
TAATATATAATAAATAATAATATAAA
Found at i:89331000 original size:23 final size:26
Alignment explanation
Indices: 89330773--89331099 Score: 74
Period size: 24 Copynumber: 12.8 Consensus size: 26
89330763 TTTAATGATG
89330773 ATAATATATAGAT-AA-AATATATATA
1 ATAATATATA-ATAAATAATATATATA
* *
89330798 ATAGTATAAAAATAACATAATATA-A-A
1 ATAATAT-ATAATAA-ATAATATATATA
* *
89330824 ATAAT-TATAATATACAATATGA-A-A
1 ATAATATATAATAAATAATAT-ATATA
* *
89330848 GT-ATATAT-GTAAA-AATAATATATA
1 ATAATATATAATAAATAAT-ATATATA
* *
89330872 AT-ATATATAAATAATTAATAAATAT-
1 ATAATATAT-AATAAATAATATATATA
* *
89330897 ATAATACA-AGTAAA-AATATA-ATA
1 ATAATATATAATAAATAATATATATA
* * * *
89330920 ATGATATATGAAT-AACAATGTAAAATA
1 ATAATATAT-AATAAATAATAT-ATATA
* **
89330947 ATAATATTTTGTGAAAAGTAATATATAATAA
1 ATAATATATAAT--AAA-TAATATAT-AT-A
89330978 ATAATA-AT-ATAAATAATATATAATAAA
1 ATAATATATAATAAATAATATAT-AT--A
* *
89331005 ATAATTATATAATATATAATATA-AAA
1 ATAA-TATATAATAAATAATATATATA
** * * * *
89331031 ATAAGGT-TAAAAAATAAAACAAATA
1 ATAATATATAATAAATAATATATATA
*
89331056 ATAATA-A-AA-AAATTTATATATATA
1 ATAATATATAATAAA-TAATATATATA
*
89331080 ATAATAGA-AATAAAT-ATATA
1 ATAATATATAATAAATAATATA
89331100 GGGTTAGATT
Statistics
Matches: 223, Mismatches: 45, Indels: 69
0.66 0.13 0.20
Matches are distributed among these distances:
22 6 0.03
23 28 0.13
24 56 0.25
25 28 0.13
26 41 0.18
27 24 0.11
28 9 0.04
29 6 0.03
30 18 0.08
31 7 0.03
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (26 bp):
ATAATATATAATAAATAATATATATA
Found at i:89331026 original size:7 final size:7
Alignment explanation
Indices: 89330965--89331027 Score: 67
Period size: 7 Copynumber: 9.0 Consensus size: 7
89330955 TTGTGAAAAG
89330965 TAATATA
1 TAATATA
*
89330972 TAATAAA
1 TAATATA
89330979 TAATA-A
1 TAATATA
*
89330985 T-ATAAA
1 TAATATA
89330991 TAATATA
1 TAATATA
*
89330998 TAATAAAA
1 TAAT-ATA
89331006 TAATTATA
1 TAA-TATA
89331014 TAATATA
1 TAATATA
89331021 TAATATA
1 TAATATA
89331028 AAAATAAGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
5 3 0.06
6 4 0.08
7 30 0.62
8 10 0.21
9 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
TAATATA
Found at i:89334856 original size:41 final size:39
Alignment explanation
Indices: 89334811--89334918 Score: 123
Period size: 41 Copynumber: 2.7 Consensus size: 39
89334801 CAACCCATGT
*
89334811 TTATCTTCTCCTCTTTTTAAATTATTTTTCAATAACC-AATA
1 TTATCTT-TCCT-TTTTTAAATTATTTTTCAACAACCGAA-A
*
89334852 TTATCTTTTCCTTTTCTAAATTATTTTTTCAACAACCTGAAA
1 TTATC-TTTCCTTTTTTAAATTA-TTTTTCAACAACC-GAAA
89334894 TTATCTTT--TTTTTTAAATTATTTTT
1 TTATCTTTCCTTTTTTAAATTATTTTT
89334919 TTCTAGGATA
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
38 5 0.08
39 11 0.18
40 10 0.17
41 24 0.40
42 8 0.13
43 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.01, T:0.56
Consensus pattern (39 bp):
TTATCTTTCCTTTTTTAAATTATTTTTCAACAACCGAAA
Found at i:89334918 original size:39 final size:39
Alignment explanation
Indices: 89334822--89334919 Score: 130
Period size: 39 Copynumber: 2.5 Consensus size: 39
89334812 TATCTTCTCC
*
89334822 TCTTTTTAAATTA-TTTTTCAATAACCAATATTATCTTT
1 TCTTTTTAAATTATTTTTTCAACAACCAATATTATCTTT
89334860 TCCTTTTCTAAATTATTTTTTCAACAACCTGAA-ATTATCTTT
1 T-CTTTT-TAAATTATTTTTTCAACAACC--AATATTATCTTT
89334902 T-TTTTTAAATTATTTTTT
1 TCTTTTTAAATTATTTTTT
89334920 TCTAGGATAA
Statistics
Matches: 54, Mismatches: 1, Indels: 9
0.84 0.02 0.14
Matches are distributed among these distances:
38 1 0.02
39 18 0.33
40 11 0.20
41 12 0.22
42 10 0.19
43 2 0.04
ACGTcount: A:0.29, C:0.13, G:0.01, T:0.57
Consensus pattern (39 bp):
TCTTTTTAAATTATTTTTTCAACAACCAATATTATCTTT
Found at i:89338682 original size:23 final size:19
Alignment explanation
Indices: 89338659--89338696 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
89338649 TCACTGTCAC
*
89338659 CCACTGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
89338678 CCACCGTAATCAAATTTGT
1 CCACCGTAATCAAATTTGT
89338697 TAATAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CCACCGTAATCAAATTTGT
Found at i:89340389 original size:19 final size:19
Alignment explanation
Indices: 89340354--89340432 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
89340344 AGATTACAAG
89340354 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
89340375 ATCATATTTAAGATTG--T
1 ATCATATCTAAGATTGCAT
89340392 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89340411 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
89340430 ATC
1 ATC
89340433 CTTAAAGATT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 30 0.56
20 1 0.02
21 7 0.13
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:89340409 original size:36 final size:38
Alignment explanation
Indices: 89340354--89340426 Score: 123
Period size: 36 Copynumber: 2.0 Consensus size: 38
89340344 AGATTACAAG
*
89340354 ATCATATCTTCAAGATTGCATATCATATTTAAGATTGT
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
89340392 ATCATATC-T-AAGATTGCATATCATATCTAAGATTG
1 ATCATATCTTCAAGATTGCATATCATATCTAAGATTG
89340427 CATATCCTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
37 1 0.03
38 8 0.24
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (38 bp):
ATCATATCTTCAAGATTGCATATCATATCTAAGATTGT
Found at i:89340441 original size:36 final size:35
Alignment explanation
Indices: 89340355--89340442 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 35
89340345 GATTACAAGA
*
89340355 TCATATCTTCAAGATTGCATATCATATTTAAGATTG
1 TCATATCTT-AAGATTGCATATCATATCTAAGATTG
89340391 TATCATATC-TAAGATTGCATATCATATCTAAGATTG
1 --TCATATCTTAAGATTGCATATCATATCTAAGATTG
89340427 -CATATCCTTAAAGATT
1 TCATAT-CTT-AAGATT
89340443 ATATTTCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
33 5 0.11
34 1 0.02
35 1 0.02
36 31 0.67
37 1 0.02
38 7 0.15
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (35 bp):
TCATATCTTAAGATTGCATATCATATCTAAGATTG
Found at i:89341449 original size:19 final size:19
Alignment explanation
Indices: 89341424--89341502 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
89341414 AATCTTTAAG
89341424 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
89341443 AATATGCAATATTAGATAT
1 GATATGCAATCTTAGATAT
89341462 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
89341479 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
89341500 GAT
1 GAT
89341503 CTTGTAATCT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
17 16 0.31
19 27 0.52
21 9 0.17
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:89341471 original size:36 final size:37
Alignment explanation
Indices: 89341430--89341502 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 37
89341420 TAAGGATATG
89341430 CAATCTTAGATATAATATGCAATATT-AGATATGATA
1 CAATCTTAGATATAATATGCAATATTAAGATATGATA
* *
89341466 CAATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATAATATGCAATATT-AAGATATGAT
89341503 CTTGTAATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 24 0.73
38 9 0.27
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (37 bp):
CAATCTTAGATATAATATGCAATATTAAGATATGATA
Found at i:89350166 original size:49 final size:49
Alignment explanation
Indices: 89350109--89350342 Score: 369
Period size: 49 Copynumber: 4.7 Consensus size: 49
89350099 AAGCAATGGT
89350109 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
*
89350158 AGTATATCTGAAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
* * *
89350207 AATATATCTGCAAATCAGTGGTAGCTTGTCCACAAAATTTATCAATGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
* * *
89350256 AGTATATCTACATATCAGTGGTGCCTTGTCCACAAAAGTATTATCAGTGGC
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAA-T-TTATCAGTGGC
* *
89350307 AGTTTATCTGCAAATCAATGGTGGCTTGTCCACAAA
1 AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAA
89350343 TGGTATTTCA
Statistics
Matches: 167, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
49 125 0.75
50 1 0.01
51 41 0.25
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (49 bp):
AGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAATTTATCAGTGGC
Found at i:89355239 original size:27 final size:27
Alignment explanation
Indices: 89355165--89355228 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
89355155 ACTTCTCTGA
89355165 GTTTACTGTCTA-AATAGG-CTACCTCAT
1 GTTTACTGTC-ACAAT-GGACTACCTCAT
*
89355192 GTTTACTGTCACAATGGACTACCTCGT
1 GTTTACTGTCACAATGGACTACCTCAT
89355219 GTTTACTGTC
1 GTTTACTGTC
89355229 CTAGTGGACT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 3 0.09
27 31 0.91
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
GTTTACTGTCACAATGGACTACCTCAT
Found at i:89362587 original size:4 final size:4
Alignment explanation
Indices: 89362578--89362606 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
89362568 AGCAAACGTG
89362578 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
89362607 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:89370241 original size:16 final size:16
Alignment explanation
Indices: 89370220--89370251 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
89370210 CTATTGGTAT
89370220 GCCAATATATCCTATC
1 GCCAATATATCCTATC
89370236 GCCAATATATCCTATC
1 GCCAATATATCCTATC
89370252 CTATGTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.06, T:0.31
Consensus pattern (16 bp):
GCCAATATATCCTATC
Found at i:89373227 original size:24 final size:27
Alignment explanation
Indices: 89373172--89373229 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 27
89373162 GTAAAATTAC
*
89373172 TTAATTATTATTTGAAATTATTTTATTG
1 TTAA-TATTATTTGAAATTATTTCATTG
*
89373200 TTAATATTA-TTG-AATT-TTTCATTT
1 TTAATATTATTTGAAATTATTTCATTG
89373224 TTAATA
1 TTAATA
89373230 ATGGTTACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 12 0.43
25 4 0.14
26 3 0.11
27 5 0.18
28 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (27 bp):
TTAATATTATTTGAAATTATTTCATTG
Found at i:89373270 original size:24 final size:22
Alignment explanation
Indices: 89373238--89373284 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
89373228 TAATGGTTAC
*
89373238 ATATGTTAATTATATGAAATAAAA
1 ATATGTTAA-TAAAT-AAATAAAA
*
89373262 ATATTTTAATAAATAAATAAAA
1 ATATGTTAATAAATAAATAAAA
89373284 A
1 A
89373285 ATGCGATACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 4 0.19
24 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (22 bp):
ATATGTTAATAAATAAATAAAA
Found at i:89389546 original size:24 final size:24
Alignment explanation
Indices: 89389519--89389567 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
89389509 GCTGTTTATT
89389519 TGTAGTTATCTCCTGAACAACCTG
1 TGTAGTTATCTCCTGAACAACCTG
*
89389543 TGTAGTTATTTCCTGAACAACCTG
1 TGTAGTTATCTCCTGAACAACCTG
89389567 T
1 T
89389568 TTAAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (24 bp):
TGTAGTTATCTCCTGAACAACCTG
Found at i:89389576 original size:24 final size:24
Alignment explanation
Indices: 89389529--89389577 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
89389519 TGTAGTTATC
**
89389529 TCCTGAACAACCTGTGTAGTTATT
1 TCCTGAACAACCTGTGTAAATATT
*
89389553 TCCTGAACAACCTGTTTAAATATT
1 TCCTGAACAACCTGTGTAAATATT
89389577 T
1 T
89389578 TGATATTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (24 bp):
TCCTGAACAACCTGTGTAAATATT
Found at i:89392488 original size:214 final size:213
Alignment explanation
Indices: 89392119--89392555 Score: 822
Period size: 214 Copynumber: 2.0 Consensus size: 213
89392109 TGTAAATTAC
89392119 TTTTTTATCATATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGGAAAAAAAACA
1 TTTTTTATCA-ATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGGAAAAAAAACA
89392184 TTAGAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTTA
65 TTAGAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTTA
89392249 CTTCAGTAATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAATCCTCCTTT
130 CTTCAGTAATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAATCCTCCTTT
89392314 CTTTTCCTTTCCTTTATAA
195 CTTTTCCTTTCCTTTATAA
89392333 TTTTTTATC-ATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGGAAAAAAAAAAC
1 TTTTTTATCAATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGG--AAAAAAAAC
89392397 ATTAGAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTT
64 ATTAGAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTT
*
89392462 ACTTCAGTAATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAATCCTCTTT
129 ACTTCAGTAATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAATCCTCCTT
89392527 TCTTTTCCTTTCCTTTATAA
194 TCTTTTCCTTTCCTTTATAA
*
89392547 TTATTTATC
1 TTTTTTATC
89392556 CAAACCTAGG
Statistics
Matches: 219, Mismatches: 2, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
212 44 0.20
214 175 0.80
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (213 bp):
TTTTTTATCAATCAATTTTTTACGTAAGTTATTTTACAAAAGGACATAATTGGGAAAAAAAACAT
TAGAATCAATCATTTCCTTTACTTTCCATAGTTGAACCAAACAAAGATTGTAAATATTACTTTAC
TTCAGTAATTTTAGCTATCCAAACAAAATAAACATGCATAATATCCTTTCTTTAATCCTCCTTTC
TTTTCCTTTCCTTTATAA
Found at i:89399394 original size:18 final size:18
Alignment explanation
Indices: 89399371--89399407 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
89399361 CCACTGTCAT
89399371 CATAGTCTTCATTCACTC
1 CATAGTCTTCATTCACTC
89399389 CATAGTCTTCATTCACTC
1 CATAGTCTTCATTCACTC
89399407 C
1 C
89399408 CCTGTCATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (18 bp):
CATAGTCTTCATTCACTC
Found at i:89407371 original size:20 final size:21
Alignment explanation
Indices: 89407346--89407385 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89407336 CCTGTCAATA
89407346 CCAATTC-ATTTCCAAATACG
1 CCAATTCAATTTCCAAATACG
*
89407366 CCAATTCAATTTCCACATAC
1 CCAATTCAATTTCCAAATAC
89407386 ACATCTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
CCAATTCAATTTCCAAATACG
Found at i:89408046 original size:30 final size:30
Alignment explanation
Indices: 89408010--89408151 Score: 196
Period size: 30 Copynumber: 4.7 Consensus size: 30
89408000 ATAGTTGCCT
* *
89408010 ACACAAGTTGGCATTATAATTGAATTGCTC
1 ACACAAGCTGACATTATAATTGAATTGCTC
* *
89408040 ACACAAGCTGACATTATAA-TCAGATTGCTT
1 ACACAAGCTGACATTATAATTGA-ATTGCTC
* *
89408070 AAACAAGCTAACATTATAATTGAATTGCTC
1 ACACAAGCTGACATTATAATTGAATTGCTC
89408100 ACACAAGCTGACATTATAATTGAATTGCTC
1 ACACAAGCTGACATTATAATTGAATTGCTC
* *
89408130 AGACAAGCTGGCATTATAATTG
1 ACACAAGCTGACATTATAATTG
89408152 TGGTTCCTGT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
29 2 0.02
30 94 0.96
31 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (30 bp):
ACACAAGCTGACATTATAATTGAATTGCTC
Found at i:89414595 original size:20 final size:20
Alignment explanation
Indices: 89414553--89414601 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
89414543 ACCAAAAATC
89414553 CAAAGTATCAATACCCCTAT
1 CAAAGTATCAATACCCCTAT
* ** *
89414573 CAAGGTATCAATACCTTTCT
1 CAAAGTATCAATACCCCTAT
89414593 CAAAGTATC
1 CAAAGTATC
89414602 GGTACATTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.29
Consensus pattern (20 bp):
CAAAGTATCAATACCCCTAT
Found at i:89415835 original size:17 final size:17
Alignment explanation
Indices: 89415815--89415865 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
89415805 AATTTAATTC
89415815 ATTTATTTATTTTTCAT
1 ATTTATTTATTTTTCAT
*
89415832 ATTTATTTA-TTTTCTTT
1 ATTTATTTATTTTTC-AT
*
89415849 ATTTATTT-TTTATCAT
1 ATTTATTTATTTTTCAT
89415865 A
1 A
89415866 ATCTAGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTATTTATTTTTCAT
Found at i:89415849 original size:13 final size:13
Alignment explanation
Indices: 89415833--89415857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89415823 ATTTTTCATA
89415833 TTTATTTATTTTC
1 TTTATTTATTTTC
89415846 TTTATTTATTTT
1 TTTATTTATTTT
89415858 TTATCATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTC
Found at i:89416212 original size:6 final size:6
Alignment explanation
Indices: 89416187--89416228 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
89416177 TATAGATACA
*
89416187 ATTTTT AATTTTT -TTATTT ATTTTT ATTTCT ATTTTT ATTTT
1 ATTTTT -ATTTTT ATT-TTT ATTTTT ATTTTT ATTTTT ATTTT
89416229 CTTTTTAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
5 2 0.06
6 21 0.68
7 8 0.26
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:89416220 original size:12 final size:11
Alignment explanation
Indices: 89416197--89416235 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
89416187 ATTTTTAATT
89416197 TTTTTA-TTTA
1 TTTTTATTTTA
89416207 TTTTTATTTCTA
1 TTTTTATTT-TA
*
89416219 TTTTTATTTTC
1 TTTTTATTTTA
89416230 TTTTTA
1 TTTTTA
89416236 GGTCGTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 6 0.23
11 9 0.35
12 11 0.42
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:89430770 original size:23 final size:23
Alignment explanation
Indices: 89430744--89430798 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
89430734 AGTGCATTTT
89430744 TCACTTGCACCAAAGTGTCACTA
1 TCACTTGCACCAAAGTGTCACTA
* * * *
89430767 TCACTGGCACTATAGTGTCACTT
1 TCACTTGCACCAAAGTGTCACTA
89430790 TCACTTGCA
1 TCACTTGCA
89430799 TCGAAGTGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (23 bp):
TCACTTGCACCAAAGTGTCACTA
Found at i:89432651 original size:2 final size:2
Alignment explanation
Indices: 89432640--89432685 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
89432630 TAATTTTCAC
89432640 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
89432681 CT CT C
1 CT CT C
89432686 CTATTTCTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:89435773 original size:15 final size:15
Alignment explanation
Indices: 89435737--89435773 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
89435727 CTCATTTGAA
*
89435737 GGAGTTAGAATTCTT
1 GGAGTTGGAATTCTT
89435752 GGAGTTGGAATTCTT
1 GGAGTTGGAATTCTT
89435767 GGAGTTG
1 GGAGTTG
89435774 CTAGCTTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.05, G:0.35, T:0.38
Consensus pattern (15 bp):
GGAGTTGGAATTCTT
Found at i:89453544 original size:16 final size:16
Alignment explanation
Indices: 89453523--89453557 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
89453513 TCTTCATCTG
89453523 AAACCTAATTGAAACA
1 AAACCTAATTGAAACA
89453539 AAACCTAATTGAAACA
1 AAACCTAATTGAAACA
89453555 AAA
1 AAA
89453558 ATAACATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (16 bp):
AAACCTAATTGAAACA
Found at i:89455994 original size:14 final size:15
Alignment explanation
Indices: 89455961--89456000 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
89455951 AATTATCCTT
89455961 TTTTTTCTT-TTTCC
1 TTTTTTCTTCTTTCC
89455975 TATTTTTCTTCTTT-C
1 T-TTTTTCTTCTTTCC
89455990 TTTTTTCTTCT
1 TTTTTTCTTCT
89456001 CTATTATTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 11 0.46
15 10 0.42
16 3 0.12
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTTTTCTTCTTTCC
Found at i:89460042 original size:16 final size:16
Alignment explanation
Indices: 89460021--89460055 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
89460011 TCTTCATCTG
89460021 AAACCTAATTGAAACA
1 AAACCTAATTGAAACA
89460037 AAACCTAATTGAAACA
1 AAACCTAATTGAAACA
89460053 AAA
1 AAA
89460056 ATAACATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.17, G:0.06, T:0.17
Consensus pattern (16 bp):
AAACCTAATTGAAACA
Found at i:89470543 original size:98 final size:98
Alignment explanation
Indices: 89470414--89470609 Score: 320
Period size: 98 Copynumber: 2.0 Consensus size: 98
89470404 CAAAATAGAA
* *
89470414 GCAAGAGTGCATTTGACATATTAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGTT
1 GCAAGAGTGCATTTGACATATCAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGAT
* * *
89470479 CTATGTGCAGAAGTTGTATTCGTATAGGACTAT
66 CAATGTGCACAAGTTGTATTCGTATAGAACTAT
* * *
89470512 GCAAGAGTTCATTTGACATGTCAGACTTGTGTGACTCAATCCTGTTTGATCCAGCCTGAAAAGAT
1 GCAAGAGTGCATTTGACATATCAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGAT
89470577 CAATGTGCACAAGTTGTATTCGTATAGAACTAT
66 CAATGTGCACAAGTTGTATTCGTATAGAACTAT
89470610 ACTTCTTCTA
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 90 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (98 bp):
GCAAGAGTGCATTTGACATATCAGACTTGTGTGACTCAATCCTGTTAGATCCAGCCTGAAAAGAT
CAATGTGCACAAGTTGTATTCGTATAGAACTAT
Found at i:89473305 original size:8 final size:9
Alignment explanation
Indices: 89473290--89473314 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
89473280 TATTTAGAAC
89473290 TTTAAAAAA
1 TTTAAAAAA
89473299 TTTAAAAAA
1 TTTAAAAAA
89473308 TTTAAAA
1 TTTAAAA
89473315 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:89473316 original size:16 final size:16
Alignment explanation
Indices: 89473295--89473349 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
89473285 AGAACTTTAA
89473295 AAAATTTAAAAAATTT
1 AAAATTTAAAAAATTT
* *
89473311 AAAATTAATAAAAATAT
1 AAAATTTA-AAAAATTT
*
89473328 -AGATTATAAAAAA-TT
1 AAAATT-TAAAAAATTT
89473343 AAAATTT
1 AAAATTT
89473350 TATTTGACTT
Statistics
Matches: 30, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
15 2 0.07
16 20 0.67
17 8 0.27
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAATTTAAAAAATTT
Found at i:89477584 original size:34 final size:35
Alignment explanation
Indices: 89477526--89477592 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
89477516 CAAACATCAG
89477526 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
*
89477561 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
89477593 TATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:89479454 original size:21 final size:21
Alignment explanation
Indices: 89479421--89479460 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
89479411 CTATTTTTTT
*
89479421 AAAATCTTATTC-ATTTTTAA
1 AAAATATTATTCAATTTTTAA
89479441 AAAATATTATTTCAATTTTT
1 AAAATATTA-TTCAATTTTT
89479461 GACATAAACG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
AAAATATTATTCAATTTTTAA
Found at i:89479481 original size:24 final size:23
Alignment explanation
Indices: 89479449--89479503 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
89479439 AAAAAATATT
* *
89479449 ATTTCAATTT-TTGACATAAACGTA
1 ATTTTAATTTGTTGAAATAAA--TA
*
89479473 ATTTTAATTTGTTTAAATAAATA
1 ATTTTAATTTGTTGAAATAAATA
89479496 ATTTTAAT
1 ATTTTAAT
89479504 ACATATTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 10 0.37
24 9 0.33
25 8 0.30
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.49
Consensus pattern (23 bp):
ATTTTAATTTGTTGAAATAAATA
Found at i:89482490 original size:17 final size:18
Alignment explanation
Indices: 89482451--89482489 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
89482441 AAGTAATATT
89482451 AAAATAAATGATGTTTAA
1 AAAATAAATGATGTTTAA
89482469 AAAATAAATGATGTTTAA
1 AAAATAAATGATGTTTAA
89482487 AAA
1 AAA
89482490 TTGCAGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (18 bp):
AAAATAAATGATGTTTAA
Found at i:89498440 original size:19 final size:19
Alignment explanation
Indices: 89498416--89498455 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
89498406 ATTAATTTTG
89498416 ATCAAATAAAATTA-AATTA
1 ATCAAAT-AAATTATAATTA
*
89498435 ATCAAATTAATTATAATTA
1 ATCAAATAAATTATAATTA
89498454 AT
1 AT
89498456 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATCAAATAAATTATAATTA
Found at i:89499045 original size:58 final size:63
Alignment explanation
Indices: 89498918--89499047 Score: 164
Period size: 58 Copynumber: 2.1 Consensus size: 63
89498908 TCTTGATAGT
* * *
89498918 ATTTATTAATTTAATATTAAAGTGATTAAATTTAATATTTATCTTGTAGATAAATATTATTTTA
1 ATTTAATAATTTAATATTAAAGT-ATTAAATCTAATATTTATCTTGTAGATAAATATTATATTA
*
89498982 ATTTAATAGATTTAATATTAAA-T-TT-AATCTAATATTTATC-T-T-GATAACTATTATATTA
1 ATTTAATA-ATTTAATATTAAAGTATTAAATCTAATATTTATCTTGTAGATAAATATTATATTA
89499040 ATTTAATA
1 ATTTAATA
89499048 TTAAAGTGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
58 22 0.36
59 1 0.02
60 1 0.02
61 14 0.23
62 2 0.03
64 8 0.13
65 13 0.21
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (63 bp):
ATTTAATAATTTAATATTAAAGTATTAAATCTAATATTTATCTTGTAGATAAATATTATATTA
Found at i:89499060 original size:58 final size:58
Alignment explanation
Indices: 89498886--89499068 Score: 182
Period size: 56 Copynumber: 3.2 Consensus size: 58
89498876 TAGTTTTAAT
* * *
89498886 ATTAAATTTAATTTAAT-GCGTATCTTGAT-AGTATT-TATTAATTTAATATTAAAGTG
1 ATTAAATTTAATATAATATC-TATCTTGATAAATATTATATTAATTTAATATTAAAGTG
* * * * *
89498942 ATTAAATTTAATAT-TTATCT-TGTAGATAAATATTATTTTAATTTAATAGATTTAA-T-
1 ATTAAATTTAATATAATATCTATCTTGATAAATATTATATTAATTTAAT--ATTAAAGTG
* * *
89498998 ATTAAATTTAATCTAATATTTATCTTGATAACTATTATATTAATTTAATATTAAAGTG
1 ATTAAATTTAATATAATATCTATCTTGATAAATATTATATTAATTTAATATTAAAGTG
*
89499056 ATTAAGTTTAATA
1 ATTAAATTTAATA
89499069 ATAGTTGAAC
Statistics
Matches: 100, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
54 5 0.05
55 7 0.07
56 43 0.43
57 6 0.06
58 39 0.39
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.49
Consensus pattern (58 bp):
ATTAAATTTAATATAATATCTATCTTGATAAATATTATATTAATTTAATATTAAAGTG
Found at i:89501311 original size:47 final size:47
Alignment explanation
Indices: 89501252--89501345 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
89501242 AAAATTTCAA
89501252 GAGTAGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
1 GAGTAGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
* *
89501299 GAGTTGTGATATTTTATTAATTGTTGCTGTAGTTGGGTAGAAGATTC
1 GAGTAGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
89501346 TAGAGCACAC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.24, C:0.05, G:0.28, T:0.43
Consensus pattern (47 bp):
GAGTAGTGATATTTTATTAATTGTTGCTGCAGTTGGGTAGAAGATTC
Found at i:89501562 original size:69 final size:68
Alignment explanation
Indices: 89501489--89501623 Score: 191
Period size: 69 Copynumber: 2.0 Consensus size: 68
89501479 CAAAAAAAAT
* * * * * *
89501489 TAATCACTTTAATATTAAATTAATATAATATTTATTAATATAAATGTTACATT-TTATTTAATAT
1 TAATCACTTTAATATTAAATTAATAAAATA-ATATTAAGATAAATATTAAATTAAT-TTTAATAT
89501553 TAAGA
64 TAAGA
89501558 TAATCACTTTAATATTAAATTAATAAAATAATATTAAGATAAATATTAAATTAATTTTAATATTA
1 TAATCACTTTAATATTAAATTAATAAAATAATATTAAGATAAATATTAAATTAATTTTAATATTA
89501623 A
66 A
89501624 ACTATAAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
68 29 0.49
69 30 0.51
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATAATATTAAGATAAATATTAAATTAATTTTAATATTA
AGA
Found at i:89501580 original size:11 final size:11
Alignment explanation
Indices: 89501566--89501623 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
89501556 GATAATCACT
89501566 TTAATATTAAA
1 TTAATATTAAA
89501577 TTAATA--AAA
1 TTAATATTAAA
89501586 -TAATATTAAGA
1 TTAATATTAA-A
*
89501597 TAAATATTAAA
1 TTAATATTAAA
*
89501608 TTAATTTTAATA
1 TTAATATTAA-A
89501620 TTAA
1 TTAA
89501624 ACTATAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
8 5 0.13
9 3 0.08
10 2 0.05
11 16 0.41
12 13 0.33
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:89502054 original size:19 final size:19
Alignment explanation
Indices: 89502012--89502054 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
89502002 TTTCAAAAAG
*
89502012 TATTATATTAATTTTAATT
1 TATTTTATTAATTTTAATT
*
89502031 AATTTTATTAA-TTTAATTT
1 TATTTTATTAATTTTAA-TT
89502050 TATTT
1 TATTT
89502055 GATCAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTTATTAATTTTAATT
Found at i:89507551 original size:72 final size:72
Alignment explanation
Indices: 89507468--89507611 Score: 270
Period size: 72 Copynumber: 2.0 Consensus size: 72
89507458 TTATATTTAA
89507468 ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTACTAAGCTATAAAG
1 ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTACTAAGCTATAAAG
89507533 CTTACTT
66 CTTACTT
* *
89507540 ATTGCTGAATTATAATCTTGATATTTCATTAAGTTTATTTCATACGAGCTTACTAAGCTATAAAG
1 ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTACTAAGCTATAAAG
89507605 CTTACTT
66 CTTACTT
89507612 TGTGTATTTC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (72 bp):
ATTGCTGAATTATAATCTTGAGATTTCATTAAATTTATTTCATACGAGCTTACTAAGCTATAAAG
CTTACTT
Found at i:89514551 original size:69 final size:68
Alignment explanation
Indices: 89514467--89514599 Score: 194
Period size: 69 Copynumber: 1.9 Consensus size: 68
89514457 TCGAAAAAAT
* * * *
89514467 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGACAAATATTAGATTTAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATA-ATATCAAGACAAATATTAAATTAAATTTAATATT
89514532 AAGA
65 AAGA
* * *
89514536 TAATCACTTTAATATTAAATTAATAAAATAATATTAAGATAAGTATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATAATATCAAGACAAATATTAAATTAAATTTAATATT
89514600 GAACTATTAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
68 28 0.49
69 29 0.51
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATAATATCAAGACAAATATTAAATTAAATTTAATATTA
AGA
Found at i:89529691 original size:29 final size:29
Alignment explanation
Indices: 89529605--89529705 Score: 85
Period size: 29 Copynumber: 3.5 Consensus size: 29
89529595 ACACTTTCTG
** *
89529605 TTCTAATAATGCACTTCATTGCCACTCTG
1 TTCTAATAATGCACTTCGGTGCCACTCTA
* * * ****
89529634 TTATGATAAAGCACTTCGGTGTTGTTCTA
1 TTCTAATAATGCACTTCGGTGCCACTCTA
*
89529663 TTCTAATATTGCACTTCGGTGCCACTCTA
1 TTCTAATAATGCACTTCGGTGCCACTCTA
* *
89529692 TTCTATTACTGCAC
1 TTCTAATAATGCAC
89529706 CTAAGTGCAA
Statistics
Matches: 52, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.40
Consensus pattern (29 bp):
TTCTAATAATGCACTTCGGTGCCACTCTA
Found at i:89542731 original size:98 final size:98
Alignment explanation
Indices: 89542562--89542749 Score: 245
Period size: 98 Copynumber: 1.9 Consensus size: 98
89542552 TTAAGTAAAC
** *
89542562 TGTTTGAATGGAATTACGATCGTAAATTGATGAACTCAAAATAAGTTTTTCATGATCATAAATCA
1 TGTTTGAATGGAATTACGATCGTAAATCAACGAACTCAAAATAAGTTTTTCATGATCATAAATCA
* *
89542627 ATGAACTAAAGCTGTGATCGTAAATAAAAAAAT
66 ATGAACTAAAGCTGCGATAGTAAATAAAAAAAT
* * * **
89542660 TGTTTGAAT-GAAGTTACGTTCGTAAATCAACGAACTCTAAATGAGTTGTTT-ATGATTGTAAAT
1 TGTTTGAATGGAA-TTACGATCGTAAATCAACGAACTCAAAATAAGTT-TTTCATGATCATAAAT
*
89542723 CAATGAACTAAATCTGCGATAGTAAAT
64 CAATGAACTAAAGCTGCGATAGTAAAT
89542750 CAACGAGCTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
97 3 0.04
98 71 0.92
99 3 0.04
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (98 bp):
TGTTTGAATGGAATTACGATCGTAAATCAACGAACTCAAAATAAGTTTTTCATGATCATAAATCA
ATGAACTAAAGCTGCGATAGTAAATAAAAAAAT
Found at i:89546898 original size:30 final size:30
Alignment explanation
Indices: 89546864--89546923 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
89546854 ACTTAACAAG
*
89546864 CAAATACCTCTAAAATAATAATAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
** *
89546894 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
89546924 TAATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:89557496 original size:51 final size:51
Alignment explanation
Indices: 89557439--89557544 Score: 169
Period size: 51 Copynumber: 2.1 Consensus size: 51
89557429 GCCTTCAAAG
* *
89557439 TTTACATGTTCTATCAATTTGGTATTGATTTAATAAATTTATC-CAACAATA
1 TTTACATATTCTATCAATTTGGTATTGATTTAATAAATTTAGCTC-ACAATA
*
89557490 TTTACATATTCTATCAATTTGGTCTTGATTTAATAAATTTAGCTCACAATA
1 TTTACATATTCTATCAATTTGGTATTGATTTAATAAATTTAGCTCACAATA
89557541 TTTA
1 TTTA
89557545 TATTTTGTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
51 50 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (51 bp):
TTTACATATTCTATCAATTTGGTATTGATTTAATAAATTTAGCTCACAATA
Found at i:89560528 original size:3 final size:3
Alignment explanation
Indices: 89560520--89560545 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
89560510 TCTCCTTAGG
89560520 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
89560546 TATCAATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:89561202 original size:29 final size:29
Alignment explanation
Indices: 89561137--89561196 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
89561127 ATTAAGATTT
89561137 TTGTTTAGGCTTTAGATTGAAAAGCTATA
1 TTGTTTAGGCTTTAGATTGAAAAGCTATA
89561166 TTGTTTAGGCTTTAGATTGAAAAGCTATA
1 TTGTTTAGGCTTTAGATTGAAAAGCTATA
89561195 TT
1 TT
89561197 AGTTAGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (29 bp):
TTGTTTAGGCTTTAGATTGAAAAGCTATA
Found at i:89563749 original size:6 final size:6
Alignment explanation
Indices: 89563740--89563768 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
89563730 TATAAATTTA
89563740 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
89563769 ACCTTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:89579470 original size:20 final size:20
Alignment explanation
Indices: 89579445--89579492 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
89579435 GCTTGTATGG
89579445 GATTGCACTTCGGTGCCTT-T
1 GATTGCACTTCGGTG-CTTCT
*
89579465 GATTGCACTTTGGTGCTTCT
1 GATTGCACTTCGGTGCTTCT
89579485 GATTGCAC
1 GATTGCAC
89579493 ATTTGTGCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.12, C:0.23, G:0.25, T:0.40
Consensus pattern (20 bp):
GATTGCACTTCGGTGCTTCT
Found at i:89579966 original size:13 final size:13
Alignment explanation
Indices: 89579940--89579983 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
89579930 ATTATATATT
89579940 AAATGTGTAAATG
1 AAATGTGTAAATG
89579953 AAATG-GTAAGATG
1 AAATGTGTAA-ATG
* *
89579966 AAATATTTAAATG
1 AAATGTGTAAATG
89579979 AAATG
1 AAATG
89579984 GTTATACGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 4 0.15
13 19 0.73
14 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (13 bp):
AAATGTGTAAATG
Found at i:89585210 original size:17 final size:17
Alignment explanation
Indices: 89585188--89585221 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
89585178 GAAAGTGTAA
89585188 ATAATTGTAAGCTACAG
1 ATAATTGTAAGCTACAG
89585205 ATAATTGTAAGCTACAG
1 ATAATTGTAAGCTACAG
89585222 TGATAACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
ATAATTGTAAGCTACAG
Found at i:89586023 original size:45 final size:44
Alignment explanation
Indices: 89585954--89586150 Score: 145
Period size: 45 Copynumber: 4.4 Consensus size: 44
89585944 TTGTCGTAAA
89585954 TCATATTCGTATAAT-TTTTGTTTAGCATATGAAGAAATATTTTT
1 TCATATTCGTATAATATTTT-TTTAGCATATGAAGAAATATTTTT
* *
89585998 TCCATATTTGTATAATATTTTTTTAGCAGT-TGATGAAA-ATTTTT
1 T-CATATTCGTATAATATTTTTTTAGCA-TATGAAGAAATATTTTT
* * * * * * * *
89586042 TTAGTATTTGCAAAATATTTGTTTAGCGTCTTAAGAAATATCTTGTT
1 TCA-TATTCGTATAATATTTTTTTAGCATATGAAGAAATAT-TT-TT
* * *
89586089 TC-TATTCGTATAA-ATTTTTTTTATCA-ATTGATGAAATATTGTT
1 TCATATTCGTATAATA-TTTTTTTAGCATA-TGAAGAAATATTTTT
*
89586132 TCAATATTGGTATAATATT
1 TC-ATATTCGTATAATATT
89586151 CGTATAAAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 25
0.72 0.13 0.15
Matches are distributed among these distances:
43 6 0.05
44 36 0.30
45 66 0.55
46 8 0.07
47 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (44 bp):
TCATATTCGTATAATATTTTTTTAGCATATGAAGAAATATTTTT
Found at i:89586061 original size:22 final size:21
Alignment explanation
Indices: 89585988--89586067 Score: 56
Period size: 22 Copynumber: 3.7 Consensus size: 21
89585978 GCATATGAAG
*
89585988 AAATATTTTTTCCA-TATTTGTA
1 AAATATTTTTT-TAGTATTTG-A
* * *
89586010 TAATATTTTTTTAGCAGTTGA
1 AAATATTTTTTTAGTATTTGA
89586031 TGAAA-ATTTTTTTAGTATTTGCA
1 --AAATATTTTTTTAGTATTTG-A
*
89586054 AAATATTTGTTTAG
1 AAATATTTTTTTAG
89586068 CGTCTTAAGA
Statistics
Matches: 45, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
21 5 0.11
22 37 0.82
23 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (21 bp):
AAATATTTTTTTAGTATTTGA
Found at i:89586222 original size:44 final size:44
Alignment explanation
Indices: 89586173--89586264 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 44
89586163 GTCTAGCATG
*
89586173 TTAAGAAAAAAAAATTTATACTTGTATA-ATACTTGTTTACCATA
1 TTAAGAAAAAAAAATTTATACTCGTA-AGATACTTGTTTACCATA
* ** * * *
89586217 TTAAGAAATAAATTTTTTTACTCGTAAGATATTTGTTTACCATG
1 TTAAGAAAAAAAAATTTATACTCGTAAGATACTTGTTTACCATA
89586261 TTAA
1 TTAA
89586265 AGAATATTTG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (44 bp):
TTAAGAAAAAAAAATTTATACTCGTAAGATACTTGTTTACCATA
Found at i:89586292 original size:43 final size:43
Alignment explanation
Indices: 89586197--89586345 Score: 178
Period size: 43 Copynumber: 3.4 Consensus size: 43
89586187 TTTATACTTG
* *
89586197 TATAATACTTGTTTACCATATT-AAGAAATAAATTT-TTTTACTCG
1 TATAATATTTGTTTACCATATTAAAG-AAT--ATTTGTTTTACTCA
*
89586241 TA-AGATATTTGTTTACCATGTTAAAGAATATTTGTTTTACTCA
1 TATA-ATATTTGTTTACCATATTAAAGAATATTTGTTTTACTCA
* *
89586284 TATAATATTTGTTTATCATATTAAGGAATATTTGTTTTACTCA
1 TATAATATTTGTTTACCATATTAAAGAATATTTGTTTTACTCA
* *
89586327 TATAACATTTTTTTACCAT
1 TATAATATTTGTTTACCAT
89586346 TTTTCAAAAT
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
42 4 0.04
43 63 0.68
44 22 0.24
45 3 0.03
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.48
Consensus pattern (43 bp):
TATAATATTTGTTTACCATATTAAAGAATATTTGTTTTACTCA
Found at i:89586304 original size:18 final size:20
Alignment explanation
Indices: 89586267--89586342 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
89586257 CATGTTAAAG
89586267 AATATTTGTTTTACTCATAT
1 AATATTTGTTTTACTCATAT
89586287 AATATTTG-TTTA-TCATATT
1 AATATTTGTTTTACTCATA-T
89586306 AAGGAATATTTGTTTTACTCATAT
1 ----AATATTTGTTTTACTCATAT
*
89586330 AACATTT-TTTTAC
1 AATATTTGTTTTAC
89586343 CATTTTTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 15
0.75 0.02 0.23
Matches are distributed among these distances:
18 5 0.10
19 11 0.23
20 14 0.29
23 8 0.17
24 5 0.10
25 5 0.10
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.53
Consensus pattern (20 bp):
AATATTTGTTTTACTCATAT
Found at i:89586317 original size:23 final size:24
Alignment explanation
Indices: 89586241--89586329 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 24
89586231 TTTTTACTCG
*
89586241 TAAG-ATATTTG-TTTAC-CATGT
1 TAAGAATATTTGTTTTACTCATAT
89586262 TAAAGAATATTTGTTTTACTCATA-
1 T-AAGAATATTTGTTTTACTCATAT
89586286 T---AATATTTG-TTTA-TCATAT
1 TAAGAATATTTGTTTTACTCATAT
89586305 TAAGGAATATTTGTTTTACTCATAT
1 TAA-GAATATTTGTTTTACTCATAT
89586330 AACATTTTTT
Statistics
Matches: 56, Mismatches: 1, Indels: 18
0.75 0.01 0.24
Matches are distributed among these distances:
18 5 0.09
19 5 0.09
20 8 0.14
21 1 0.02
22 3 0.05
23 15 0.27
24 10 0.18
25 9 0.16
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (24 bp):
TAAGAATATTTGTTTTACTCATAT
Found at i:89586377 original size:21 final size:23
Alignment explanation
Indices: 89586344--89586385 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
89586334 TTTTTTTACC
89586344 ATTTTTCAAAATA-TTATTTAAT
1 ATTTTTCAAAATATTTATTTAAT
*
89586366 ATTTTT-ATAATATTTATTTA
1 ATTTTTCAAAATATTTATTTA
89586386 GCATCAGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTTCAAAATATTTATTTAAT
Found at i:89587990 original size:37 final size:38
Alignment explanation
Indices: 89587903--89587991 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 38
89587893 AACAGTAGAT
* * *
89587903 ATGCCTAACATGTATTCAGTTCAACACTAGCAGTGGAC
1 ATGCATAACATGTATTCAATTCAACACTAGCAATGGAC
* * * *
89587941 ATGCTTAACATGTATTCAATTCAACATTGGCAAT-GTC
1 ATGCATAACATGTATTCAATTCAACACTAGCAATGGAC
89587978 ATGCATAACATGTA
1 ATGCATAACATGTA
89587992 CTCAGTAGGG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
37 15 0.34
38 29 0.66
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (38 bp):
ATGCATAACATGTATTCAATTCAACACTAGCAATGGAC
Found at i:89590520 original size:13 final size:13
Alignment explanation
Indices: 89590498--89590530 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89590488 AAGGATTTGT
89590498 TTAT-TAAACTAA
1 TTATCTAAACTAA
89590510 TTATCTAAACTAA
1 TTATCTAAACTAA
*
89590523 TTAACTAA
1 TTATCTAA
89590531 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:89593432 original size:5 final size:5
Alignment explanation
Indices: 89593422--89593518 Score: 65
Period size: 6 Copynumber: 18.0 Consensus size: 5
89593412 ATATGTCTTT
*
89593422 TAAAA TAAAA T--AA TAAAA TTGAAA TGAAAA TGAAAA TAAAAA TCAAAA
1 TAAAA TAAAA TAAAA TAAAA -TAAAA T-AAAA T-AAAA T-AAAA T-AAAA
*
89593470 TCAAAA GAAAAA TAAAAA TAAAA TAAAA TAAAAA TAAGAA T-AAA TAAAA
1 T-AAAA -TAAAA T-AAAA TAAAA TAAAA T-AAAA TAA-AA TAAAA TAAAA
89593519 AATAGGAGGA
Statistics
Matches: 77, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 25 0.32
6 46 0.60
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:89593452 original size:6 final size:6
Alignment explanation
Indices: 89593443--89593522 Score: 76
Period size: 6 Copynumber: 13.8 Consensus size: 6
89593433 AATAAAATTG
* * * * *
89593443 AAATGA AAATGA AAATAA AAATCA AAATCA AAAGAA AAATAA AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
89593490 AAAT-A AAATAA AAATAA GAATAA ATA-AA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA
89593523 GGAGGATTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
5 14 0.22
6 49 0.78
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:89593464 original size:18 final size:17
Alignment explanation
Indices: 89593423--89593522 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 17
89593413 TATGTCTTTT
*
89593423 AAAATAAAATAATAAAATT
1 AAAAT-AAA-AATAAAATA
* *
89593442 GAAATGAAAATGAAAATA
1 AAAATAAAAAT-AAAATA
* *
89593460 AAAATCAAAATCAAAAGA
1 AAAATAAAAAT-AAAATA
89593478 AAAATAAAAATAAAAT-
1 AAAATAAAAATAAAATA
89593494 AAAATAAAAATAAGAATA
1 AAAATAAAAATAA-AATA
*
89593512 AATA-AAAAATA
1 AAAATAAAAATA
89593523 GGAGGATTCA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
16 13 0.19
17 17 0.25
18 34 0.50
19 4 0.06
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:89593522 original size:11 final size:10
Alignment explanation
Indices: 89593424--89593519 Score: 52
Period size: 11 Copynumber: 8.9 Consensus size: 10
89593414 ATGTCTTTTA
89593424 AAAT-AAAAT
1 AAATAAAAAT
*
89593433 -AATAAAATT
1 AAATAAAAAT
*
89593442 GAAATGAAAAT
1 -AAATAAAAAT
89593453 GAAAATAAAAAT
1 --AAATAAAAAT
*
89593465 CAAAATCAAAAGAA
1 --AAAT-AAAA-AT
89593479 AAATAAAAAT
1 AAATAAAAAT
*
89593489 AAAATAAAATAA
1 -AAATAAAA-AT
*
89593501 AAATAAGAAT
1 AAATAAAAAT
89593511 AAATAAAAA
1 AAATAAAAA
89593520 ATAGGAGGAT
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 10 0.15
11 26 0.39
12 19 0.28
13 4 0.06
14 1 0.01
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:89595571 original size:22 final size:23
Alignment explanation
Indices: 89595546--89595588 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
89595536 TTGTCCCTGG
89595546 CACGCCCGTGGTTTT-CTATCCC
1 CACGCCCGTGGTTTTCCTATCCC
*
89595568 CACGCCCGTGTTTTTCCTATC
1 CACGCCCGTGGTTTTCCTATC
89595589 AAGTTCACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.09, C:0.40, G:0.16, T:0.35
Consensus pattern (23 bp):
CACGCCCGTGGTTTTCCTATCCC
Found at i:89599744 original size:13 final size:13
Alignment explanation
Indices: 89599726--89599751 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
89599716 GCTCCGCAGG
89599726 GACACGCCCGTGT
1 GACACGCCCGTGT
89599739 GACACGCCCGTGT
1 GACACGCCCGTGT
89599752 TCTATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:89599869 original size:20 final size:21
Alignment explanation
Indices: 89599844--89599886 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
89599834 GATTTTGTAC
* *
89599844 TTTGGCTCATTT-TCTTTATT
1 TTTGGCCCATTTCTCATTATT
89599864 TTTGGCCCATTTCTCATTATT
1 TTTGGCCCATTTCTCATTATT
89599885 TT
1 TT
89599887 CACTCTCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.12, C:0.19, G:0.09, T:0.60
Consensus pattern (21 bp):
TTTGGCCCATTTCTCATTATT
Found at i:89608056 original size:19 final size:19
Alignment explanation
Indices: 89608019--89608056 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
89608009 TATTTTAAGG
* *
89608019 TTAGGGTTTAAGGTTTTTT
1 TTAGGGTTTAAGATATTTT
89608038 TTAGGGTTTAAGATATTTT
1 TTAGGGTTTAAGATATTTT
89608057 AAAAGTGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.24, T:0.55
Consensus pattern (19 bp):
TTAGGGTTTAAGATATTTT
Found at i:89609463 original size:26 final size:26
Alignment explanation
Indices: 89609427--89609536 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
89609417 TGATACAAAT
89609427 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89609453 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89609479 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
89609505 TGATAGTGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89609531 TGATAA
1 TGATAA
89609537 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Done.