Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 209 of 427
Found at i:58763074 original size:16 final size:16
Alignment explanation
Indices: 58763055--58763085 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58763045 CTTCTTCACT
58763055 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
58763071 TACTTACTTACTTAA
1 TACTCACTTACTTAA
58763086 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:58763091 original size:20 final size:20
Alignment explanation
Indices: 58763052--58763091 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
58763042 AAACTTCTTC
* *
58763052 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
58763072 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
58763092 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:58763520 original size:55 final size:54
Alignment explanation
Indices: 58763282--58763536 Score: 208
Period size: 55 Copynumber: 4.8 Consensus size: 54
58763272 ACACGGGTAC
* * * *
58763282 CTTACC-ATTTCCATGACTTGTCATGGTCTTACATGGTTTCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
58763331 CTTACC-ATTTCCATGTCTCGACATGGTCTTATATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
58763384 CTCACCAA-TGCCATGCCTTGGCATGATCTTACATGAG-A-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATG-GTATCC-TTGCC-T-TAGAAA
* * * * * *
58763439 CTTATCAA-TGCCCTGTCTTGATATGGTCTTACATGATATCCTTGACTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
*
58763492 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
58763537 AAACCCTAAT
Statistics
Matches: 163, Mismatches: 28, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
49 38 0.23
52 4 0.02
53 39 0.24
54 13 0.08
55 67 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:58771183 original size:55 final size:53
Alignment explanation
Indices: 58771051--58771247 Score: 175
Period size: 55 Copynumber: 3.6 Consensus size: 53
58771041 ACTTACCATC
* *
58771051 GCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAAT
1 GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAT
* * * * *
58771104 GCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTTATCAAT
1 GCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAAT
* ** * *
58771159 TCCATGTCTTGACATGGTCTTACATGATATCCTTGCC-TAAGAAACCTTACCAATT
1 GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-T
* * *
58771214 TCCAT-TCCTTGGCATGGTCTTACATGGTATCCTT
1 GCCATGT-CTTGACATGGTCTTACATGGGATCCTT
58771248 AAACCCTAAT
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
52 2 0.02
53 36 0.30
54 11 0.09
55 68 0.57
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (53 bp):
GCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAAT
Found at i:58772017 original size:14 final size:14
Alignment explanation
Indices: 58771998--58772025 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
58771988 CTTACAATCG
58771998 AGCTATGTCTTCCT
1 AGCTATGTCTTCCT
58772012 AGCTATGTCTTCCT
1 AGCTATGTCTTCCT
58772026 CATGTGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (14 bp):
AGCTATGTCTTCCT
Found at i:58776608 original size:43 final size:42
Alignment explanation
Indices: 58776547--58776701 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 42
58776537 CAGTGCCTAC
* * * *
58776547 GTCCCAGACGAGGTCTTACATGTACTGAACTAT-CGATGCCACT
1 GTCCCAGACGTGGTCTTACATGAAAT-AA-TATACGATGCCAAT
*
58776590 GTCCCAGACGTGGTCTTACATGAAATCATATACGATGCCAAT
1 GTCCCAGACGTGGTCTTACATGAAATAATATACGATGCCAAT
* * * * * *
58776632 GTCCCAGACATGGTTTTACACAT-AAAT-CTCTAATTGATGCCAAC
1 GTCCCAGACGTGGTCTT--ACATGAAATAATAT-A-CGATGCCAAT
*
58776676 GTCCCAGACGTGGTCTTACACGAAAT
1 GTCCCAGACGTGGTCTTACATGAAAT
58776702 CACATATCGT
Statistics
Matches: 92, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.03
42 30 0.33
43 32 0.35
44 27 0.29
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACATGAAATAATATACGATGCCAAT
Found at i:58780448 original size:37 final size:37
Alignment explanation
Indices: 58780398--58780473 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
58780388 GAAGCACGAG
* *
58780398 AAGAAGCATGAAACAATCAAGGGAACCTGACTAAAAA
1 AAGAAGCATGAAACAATCAAAGGAACCTGACGAAAAA
58780435 AAGAAGCATGAAACAATCAAAGGAACCTGACGAAAAA
1 AAGAAGCATGAAACAATCAAAGGAACCTGACGAAAAA
58780472 AA
1 AA
58780474 ATAGTTGGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.57, C:0.16, G:0.18, T:0.09
Consensus pattern (37 bp):
AAGAAGCATGAAACAATCAAAGGAACCTGACGAAAAA
Found at i:58784891 original size:29 final size:29
Alignment explanation
Indices: 58784852--58784916 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
58784842 TTATTTGTGA
58784852 TTTTT-TTAGTTTTGCATTGTGGTTTAAT
1 TTTTTGTTAGTTTTGCATTGTGGTTTAAT
* *
58784880 TTTTTGTTAGTTTTTCATTTTGGTTTAAT
1 TTTTTGTTAGTTTTGCATTGTGGTTTAAT
*
58784909 TTTCTGTT
1 TTTTTGTT
58784917 TAAATTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.12, C:0.05, G:0.15, T:0.68
Consensus pattern (29 bp):
TTTTTGTTAGTTTTGCATTGTGGTTTAAT
Found at i:58791614 original size:37 final size:36
Alignment explanation
Indices: 58791563--58791649 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
58791553 TACGAAGTCT
58791563 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
58791599 GTACCCGGACGTAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
58791636 TCACCCGGAACATA
1 T-ACCCGG-ACATA
58791650 TTTCTAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 41 0.89
38 4 0.09
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:58791784 original size:49 final size:49
Alignment explanation
Indices: 58791718--58792105 Score: 648
Period size: 49 Copynumber: 8.1 Consensus size: 49
58791708 TTTACCACAT
* *
58791718 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
58791767 ATATGTATACACTTTCACATTCAT--CA-C-G----TAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
58791808 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
58791857 ATATGTATACATTTTCACATTCATCACCTCGGCCATTAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
58791906 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
58791955 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
58792004 ATATGTATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
58792053 ATATGTATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
58792102 ATAT
1 ATAT
58792106 ATTATTATGT
Statistics
Matches: 321, Mismatches: 10, Indels: 16
0.93 0.03 0.05
Matches are distributed among these distances:
41 36 0.11
43 2 0.01
44 1 0.00
45 2 0.01
46 1 0.00
47 1 0.00
49 278 0.87
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (49 bp):
ATATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:58795856 original size:25 final size:25
Alignment explanation
Indices: 58795807--58795860 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
58795797 AATTTTATTC
*
58795807 AATTATCTAATTTTTCAATTTATTA
1 AATTATCTAATTTTTCAATTAATTA
58795832 AATTAT-TAATATTTT-ACATTAATTA
1 AATTATCTAAT-TTTTCA-ATTAATTA
58795857 AATT
1 AATT
58795861 TTTGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.54
Consensus pattern (25 bp):
AATTATCTAATTTTTCAATTAATTA
Found at i:58800695 original size:18 final size:18
Alignment explanation
Indices: 58800672--58800713 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
58800662 ATTTTGTTCG
58800672 GTTTTTGATGATTTCTAT
1 GTTTTTGATGATTTCTAT
58800690 GTTTTTGATGATTTCTAT
1 GTTTTTGATGATTTCTAT
58800708 GTTTTT
1 GTTTTT
58800714 ATAATCGTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.14, C:0.05, G:0.17, T:0.64
Consensus pattern (18 bp):
GTTTTTGATGATTTCTAT
Found at i:58803868 original size:27 final size:27
Alignment explanation
Indices: 58803846--58804067 Score: 327
Period size: 27 Copynumber: 8.2 Consensus size: 27
58803836 CAATTTGTAA
58803846 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
58803873 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
58803900 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
58803927 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
58803954 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* * *
58803981 AATTACCGTGTTACCCTCAATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
58804008 AATTACCGTTATACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
58804035 AATTATCGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
58804062 AATTAC
1 AATTAC
58804068 TAAAATACCC
Statistics
Matches: 176, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 176 1.00
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:58804077 original size:81 final size:80
Alignment explanation
Indices: 58803827--58804109 Score: 287
Period size: 81 Copynumber: 3.5 Consensus size: 80
58803817 CCAAATTATT
* ** * *
58803827 AAATGCCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCG
1 AAATACCCTCAATTTACAAAATTACCATTATACCCTCGATTTACAGAATTAC-GTTTTACCCTCG
* *
58803892 ATTTATAGAATTACCA
65 ATTTACAAAATTACCA
*** * * * * *
58803908 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCG
1 AAATACCCTCAATTTACAAAATTACCATTATACCCTCGATTTACAGAATTA-CGTTTTACCCTCG
* * *
58803973 ATTTATAGAATTACCG
65 ATTTACAAAATTACCA
*** *
58803989 TGTTACCCTCAATTTACAAAATTACCGTTATACCCTCGATTTACAGAATTATCGTTTTACCCTCG
1 AAATACCCTCAATTTACAAAATTACCATTATACCCTCGATTTACAGAATTA-CGTTTTACCCTCG
*
58804054 ATTTACAAAATTACTA
65 ATTTACAAAATTACCA
* * * **
58804070 AAATACCCTTAGTTTACCAAATTACCAAAATACCCTCGAT
1 AAATACCCTCAATTTACAAAATTACCATTATACCCTCGAT
58804110 CAGTAAAATT
Statistics
Matches: 168, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
81 167 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.36
Consensus pattern (80 bp):
AAATACCCTCAATTTACAAAATTACCATTATACCCTCGATTTACAGAATTACGTTTTACCCTCGA
TTTACAAAATTACCA
Found at i:58804085 original size:27 final size:27
Alignment explanation
Indices: 58804055--58804237 Score: 161
Period size: 27 Copynumber: 6.8 Consensus size: 27
58804045 TTACCCTCGA
* * * *
58804055 TTTACAAAATTACTAAAATACCCTTAG
1 TTTATAAAATTACCAAAATACCCCTGG
** *
58804082 TTTACCAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
58804108 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATACCCCTGG
* *
58804136 TTTGTAAAATTACTAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
58804163 TTTGTGAAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* * * *
58804190 CTTGTAAAATTACCAAAATACCACTGA
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
58804217 TTTTTGAAATTATCAAAATAC
1 TTTATAAAATTACCAAAATAC
58804238 TCTCGATTTG
Statistics
Matches: 129, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
26 6 0.05
27 117 0.91
28 6 0.05
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:58804093 original size:54 final size:54
Alignment explanation
Indices: 58803857--58804095 Score: 194
Period size: 54 Copynumber: 4.4 Consensus size: 54
58803847 ATTACCGTTT
* * * * * * ***
58803857 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTAGATTTACAGAATTACCGTGTTACCCTCAATTTACAAAATTACCAAAA
* * * * * * ***
58803911 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTAGATTTACAGAATTACCGTGTTACCCTCAATTTACAAAATTACCAAAA
* * ***
58803965 TACCCTCGATTTATAGAATTACCGTGTTACCCTCAATTTACAAAATTACCGTTA
1 TACCCTAGATTTACAGAATTACCGTGTTACCCTCAATTTACAAAATTACCAAAA
* * * * *
58804019 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTAGATTTACAGAATTACCGTGTTACCCTCAATTTACAAAATTACCAAAA
58804073 TACCCTTAG-TTTACCA-AATTACC
1 TACCC-TAGATTTA-CAGAATTACC
58804096 AAAATACCCT
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
54 159 0.98
55 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (54 bp):
TACCCTAGATTTACAGAATTACCGTGTTACCCTCAATTTACAAAATTACCAAAA
Found at i:58804227 original size:81 final size:81
Alignment explanation
Indices: 58804060--58804237 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 81
58804050 CTCGATTTAC
*
58804060 AAAATTACTAAAATACCCTTAGTTTACCAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTACCAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
* *
58804125 AATACCCCTGGTTTGT
66 AATACCACTGATTTGT
* *** * * *
58804141 AAAATTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTG-GCTTGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTACCAAATTACCAAAATACCCTCGATC-AGTAAAATTACCA
*
58804205 AAATACCACTGATTTTT
65 AAATACCACTGATTTGT
*
58804222 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
58804238 TCTCGATTTG
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 81 0.98
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTACCAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACCACTGATTTGT
Found at i:58804245 original size:27 final size:26
Alignment explanation
Indices: 58804088--58804264 Score: 101
Period size: 27 Copynumber: 6.6 Consensus size: 26
58804078 TTAGTTTACC
* **
58804088 AAATTACCAAAATACC-CTCGATCAGT
1 AAATTATCAAAATACCACT-GATTTGT
* * *
58804114 AAAATTACCAAAATACCCCTGGTTTGT
1 -AAATTATCAAAATACCACTGATTTGT
* *
58804141 AAAATTA-CTAAAATACCCCTGGTTTGT
1 -AAATTATC-AAAATACCACTGATTTGT
* **
58804168 GAAATTACCAAAATACC-CTTGGCTTGT
1 -AAATTATCAAAATACCAC-TGATTTGT
* *
58804195 AAAATTACCAAAATACCACTGATTTTT
1 -AAATTATCAAAATACCACTGATTTGT
*
58804222 GAAATTATCAAAATA-CTCTCGATTTGT
1 -AAATTATCAAAATACCACT-GATTTGT
* *
58804249 AAAATATCGAAATACC
1 AAATTATCAAAATACC
58804265 CTTGTAGGGC
Statistics
Matches: 128, Mismatches: 15, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
26 17 0.13
27 107 0.84
28 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
AAATTATCAAAATACCACTGATTTGT
Found at i:58804248 original size:81 final size:81
Alignment explanation
Indices: 58804060--58804268 Score: 203
Period size: 81 Copynumber: 2.6 Consensus size: 81
58804050 CTCGATTTAC
* ** *
58804060 AAAATTACTAAAATA-CCCTTAGTTTACCAAATTACCAAAATACCC-TCGATCAGTAAAATTACC
1 AAAATTACTAAAATACCCCTGA-TTT-GTAAATTACCAAAATACCCTTGGATCAGTAAAATTACC
* *
58804123 AAAATACCCCTGGTTTGT
64 AAAATACCACTGATTTGT
* * *
58804141 AAAATTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCT-TGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGATTTGT-AAATTACCAAAATACCCTTGGATCAGTAAAATTACCA
*
58804205 AAATACCACTGATTTTT
65 AAATACCACTGATTTGT
* * * * *
58804222 GAAATTA-TCAAAATA-CTCTCGATTTGTAAAATATCGAAATACCCTTG
1 AAAATTACT-AAAATACCCCT-GATTTGTAAATTACCAAAATACCCTTG
58804269 TAGGGCAGAA
Statistics
Matches: 107, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
80 21 0.20
81 79 0.74
82 7 0.07
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGATTTGTAAATTACCAAAATACCCTTGGATCAGTAAAATTACCAA
AATACCACTGATTTGT
Found at i:58804249 original size:54 final size:52
Alignment explanation
Indices: 58804088--58804266 Score: 180
Period size: 54 Copynumber: 3.3 Consensus size: 52
58804078 TTAGTTTACC
** * *
58804088 AAATTACCAAAATACCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCT-GATTTGTGAAATTACCAAAATACCTC-GGTTTGTA
* * * *
58804142 AAATTACTAAAATACCCCTGGTTTGTGAAATTACCAAAATACCCTTGGCTTGTA
1 AAATTACCAAAATA-CCCTGATTTGTGAAATTACCAAAATA-CCTCGGTTTGTA
* * *
58804196 AAATTACCAAAATACCACTGATTTTTGAAATTATCAAAATACTCTCGATTTGTA
1 AAATTACCAAAATACC-CTGATTTGTGAAATTACCAAAATAC-CTCGGTTTGTA
* *
58804250 AAA-TATCGAAATACCCT
1 AAATTACCAAAATACCCT
58804267 TGTAGGGCAG
Statistics
Matches: 104, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
52 2 0.02
53 13 0.12
54 83 0.80
55 6 0.06
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (52 bp):
AAATTACCAAAATACCCTGATTTGTGAAATTACCAAAATACCTCGGTTTGTA
Found at i:58804297 original size:27 final size:27
Alignment explanation
Indices: 58804258--58804472 Score: 216
Period size: 27 Copynumber: 8.0 Consensus size: 27
58804248 TAAAATATCG
* *
58804258 AAATACCCTTGTAGGGCAGAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
*
58804285 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCA
* * * * *
58804312 AAATAACCCTGTAAGGTATAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCA
* * *
58804339 AAATACCCCTATAGGGCAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCA
* * *
58804366 AAATACCCCTGTAAGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCA
* * *
58804393 AAATACCCTTGTAGGGTA-AAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCA
**
58804419 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCA
* * * *
58804446 AGATACCCTTGTGGGGTAAAATTACCA
1 AAATACCCCTGTAGGGTAGAATTACCA
58804473 TTTTGCCCCT
Statistics
Matches: 151, Mismatches: 36, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
26 23 0.15
27 128 0.85
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCA
Found at i:58804335 original size:54 final size:54
Alignment explanation
Indices: 58804258--58804470 Score: 239
Period size: 54 Copynumber: 4.0 Consensus size: 54
58804248 TAAAATATCG
* * * *
58804258 AAATACCCTTGTAGGGCAGAATTACCAAAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTA
* * * * *
58804312 AAATAACCCTGTAAGGTATAATTATCGAAATACCCCTATAGGGCAGAATTACTA
1 AAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTA
* * * **
58804366 AAATACCCCTGTAAGGTAGAATTATCGAAATACCCTTGTAGGGTA-AAATACCG
1 AAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTA
* * * * * *
58804419 AAATACCCCTGTAGGGTAGAATTACTGAGATACCCTTGTGGGGTAAAATTAC
1 AAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
58804471 CATTTTGCCC
Statistics
Matches: 135, Mismatches: 23, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
53 45 0.33
54 90 0.67
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (54 bp):
AAATACCCCTGTAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTA
Found at i:58804362 original size:81 final size:81
Alignment explanation
Indices: 58804247--58804470 Score: 283
Period size: 81 Copynumber: 2.8 Consensus size: 81
58804237 CTCTCGATTT
* *
58804247 GTAAAATATCGAAATACCCTTGTAGGGCAGAATTACCAAAATACCCCTGTAGGGTAGAATTACT-
1 GTAAAATATCGAAATACCCCTGTAGGGCAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTC
58804311 AAAATAACCC-TGTAAG
66 AAAAT-ACCCTTGTAAG
* * *
58804327 GTATAATTATCGAAATACCCCTATAGGGCAGAATTACTAAAATACCCCTGTAAGGTAGAATTA-T
1 GTA-AAATATCGAAATACCCCTGTAGGGCAGAATTACTAAAATACCCCTGTAGGGTAGAATTACT
* *
58804391 CGAAATACCCTTGTAGG
65 CAAAATACCCTTGTAAG
* * * * * * *
58804408 GTAAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAGATACCCTTGTGGGGTAAAATTAC
1 GTAAAATATCGAAATACCCCTGTAGGGCAGAATTACTAAAATACCCCTGTAGGGTAGAATTAC
58804471 CATTTTGCCC
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
80 57 0.46
81 66 0.54
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (81 bp):
GTAAAATATCGAAATACCCCTGTAGGGCAGAATTACTAAAATACCCCTGTAGGGTAGAATTACTC
AAAATACCCTTGTAAG
Found at i:58804712 original size:25 final size:25
Alignment explanation
Indices: 58804674--58804768 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
58804664 AGGAAGTGCT
* *
58804674 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
58804699 AAAAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
58804724 AAAAAGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
58804749 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
58804769 GTTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:58804792 original size:50 final size:49
Alignment explanation
Indices: 58804673--58804793 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 49
58804663 GAGGAAGTGC
*
58804673 TAAAAG-GGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTA
1 TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTA
* * * * *
58804721 CCAAAAAAGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCTAGTTGT-
1 -TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTT-TA
*
58804771 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAGAGGCTATGCC-CCAGTT
58804794 ATATGATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
49 16 0.27
50 42 0.71
51 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (49 bp):
TAAAAGAGGCTATGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTA
Found at i:58807205 original size:27 final size:27
Alignment explanation
Indices: 58807177--58807444 Score: 320
Period size: 27 Copynumber: 9.9 Consensus size: 27
58807167 AAAATTGTCG
* * * * *
58807177 TTTTGCCCTCAATTTGTAAAATTACCG
1 TTTTACCCTCGATTTATAGAATTACCA
* * *
58807204 TTCTACCCTCGATTTACAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACCA
58807231 TTTTACCCTCGATTTATAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCA
*
58807258 TTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCA
* *
58807285 TTTTACCTTTGATTTATAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCA
*
58807312 TTTTACCCTTGATTTATAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCA
* **
58807339 TTTTACCCTCGATTTATAAAATTACTG
1 TTTTACCCTCGATTTATAGAATTACCA
* * *
58807366 TGTTACCCTCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCA
* * * *
58807393 TTATACCCTCGATTTACAGAATTATCG
1 TTTTACCCTCGATTTATAGAATTACCA
* *
58807420 TTTTACCCTCGATTTACAAAATTAC
1 TTTTACCCTCGATTTATAGAATTAC
58807445 TAAAATACCC
Statistics
Matches: 209, Mismatches: 32, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 209 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TTTTACCCTCGATTTATAGAATTACCA
Found at i:58807299 original size:81 final size:81
Alignment explanation
Indices: 58807194--58807444 Score: 358
Period size: 81 Copynumber: 3.1 Consensus size: 81
58807184 CTCAATTTGT
* *
58807194 AAAATTACCGTTCTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCAT
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
58807259 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
* * * * * *
58807275 AGAATTACCATTTTACCTTTGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCAT
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
*
58807340 TTTACCCTCGATTTAT
66 TTTACCCTCGATTTAC
* * * * * * *
58807356 AAAATTACTGTGTTACCCTCGATTTACAAAATTACCATTATACCCTCGATTTACAGAATTATCGT
1 AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
58807421 TTTACCCTCGATTTAC
66 TTTACCCTCGATTTAC
58807437 AAAATTAC
1 AAAATTAC
58807445 TAAAATACCC
Statistics
Matches: 147, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 147 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
AAAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCAT
TTTACCCTCGATTTAC
Found at i:58807453 original size:27 final size:27
Alignment explanation
Indices: 58807182--58807500 Score: 264
Period size: 27 Copynumber: 11.8 Consensus size: 27
58807172 TGTCGTTTTG
* * * *
58807182 CCCTCAATTTGTAAAATTACCGTTCTA
1 CCCTCGATTTATAAAATTACCATTATA
* * * *
58807209 CCCTCGATTTACAGAATTACTATTTTA
1 CCCTCGATTTATAAAATTACCATTATA
* *
58807236 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTATA
* * *
58807263 CCCTCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTATA
* * * *
58807290 CCTTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTATA
* * *
58807317 CCCTTGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTATA
**
58807344 CCCTCGATTTATAAAATTACTGTGT-TA
1 CCCTCGATTTATAAAATTACCAT-TATA
*
58807371 CCCTCGATTTACAAAATTACCATTATA
1 CCCTCGATTTATAAAATTACCATTATA
* * * * *
58807398 CCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCGATTTATAAAATTACCATTATA
* * **
58807425 CCCTCGATTTACAAAATTACTAAAATA
1 CCCTCGATTTATAAAATTACCATTATA
* * * **
58807452 CCCTTGGTTTATCAAATTACCAAAATA
1 CCCTCGATTTATAAAATTACCATTATA
*
58807479 CCCTCGA-TCAGTAAAATTACCA
1 CCCTCGATTTA-TAAAATTACCA
58807501 AAATATCCTG
Statistics
Matches: 248, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.01
27 244 0.98
28 1 0.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.38
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTATA
Found at i:58807454 original size:81 final size:81
Alignment explanation
Indices: 58807207--58807486 Score: 328
Period size: 81 Copynumber: 3.5 Consensus size: 81
58807197 ATTACCGTTC
* * *
58807207 TACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTATACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* * *
58807272 TACAGAATTACCATTT
66 TACAAAATTACTATAT
* * * * * *
58807288 TACCTTTGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTATACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* * *
58807353 TATAAAATTACTGTGT
66 TACAAAATTACTATAT
* * *
58807369 TACCCTCGATTTACAAAATTACCATTATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTATACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
* *
58807434 TACAAAATTACTAAAA
66 TACAAAATTACTATAT
* * **
58807450 TACCCTTGGTTTATC-AAATTACCAAAATACCCTCGAT
1 TACCCTCGATTTA-CAAAATTACCATTATACCCTCGAT
58807487 CAGTAAAATT
Statistics
Matches: 170, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 169 0.99
82 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTATACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TACAAAATTACTATAT
Found at i:58807470 original size:54 final size:54
Alignment explanation
Indices: 58807177--58807444 Score: 356
Period size: 54 Copynumber: 5.0 Consensus size: 54
58807167 AAAATTGTCG
* * * * * *
58807177 TTTTGCCCTCAATTTGTAAAATTACCGTTCTACCCTCGATTTACAGAATTACTA
1 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCA
*
58807231 TTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCA
* * * * *
58807285 TTTTACCTTTGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCA
* * * *
58807339 TTTTACCCTCGATTTATAAAATTACTGTGTTACCCTCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCA
* * * *
58807393 TTATACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTAC
1 TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTAC
58807445 TAAAATACCC
Statistics
Matches: 188, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 188 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
TTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACCA
Found at i:58807501 original size:27 final size:27
Alignment explanation
Indices: 58807234--58807641 Score: 187
Period size: 27 Copynumber: 15.2 Consensus size: 27
58807224 ATTACTATTT
* * ***
58807234 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** * ***
58807261 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * * ***
58807288 TACCTTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * ***
58807315 TACCCTTGATTTATAGAATTACCATTT
1 TACCCTCGATTTGTAAAATTACCAAAA
* *****
58807342 TACCCTCGATTTATAAAATTACTGTGT
1 TACCCTCGATTTGTAAAATTACCAAAA
** **
58807369 TACCCTCGATTTACAAAATTACCATTA
1 TACCCTCGATTTGTAAAATTACCAAAA
** * * ****
58807396 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
58807423 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
58807450 TACCCTTGGTTTATCAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
58807477 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
58807504 TATCCT-GGTTTGTAAAA-TACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
58807529 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
**
58807556 TACCC-CTGGCTTGTAAAATTACCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
* * *
58807583 TACCCTTGATTTGTGAAATTATCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * *
58807610 TACTCTTGATTTGTAAAA-TATCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
58807636 TGCCCT
1 TACCCT
58807642 TGTAGGGTAG
Statistics
Matches: 318, Mismatches: 58, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
25 11 0.03
26 29 0.09
27 278 0.87
ACGTcount: A:0.35, C:0.21, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:58807540 original size:26 final size:27
Alignment explanation
Indices: 58807437--58807636 Score: 192
Period size: 27 Copynumber: 7.5 Consensus size: 27
58807427 CTCGATTTAC
* * *
58807437 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * **
58807464 CAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
*
58807491 AAAATTACCAAAATA-TCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
58807517 AAAA-TACTAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
58807543 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
58807570 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * * *
58807597 GAAATTATCAAAATACTCTTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
58807624 AAAA-TATCAAAAT
1 AAAATTACCAAAAT
58807637 GCCCTTGTAG
Statistics
Matches: 145, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
25 9 0.06
26 33 0.23
27 103 0.71
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:58807554 original size:79 final size:80
Alignment explanation
Indices: 58807437--58807612 Score: 214
Period size: 79 Copynumber: 2.2 Consensus size: 80
58807427 CTCGATTTAC
* * *
58807437 AAAATTACTAAAATACCCTTGGTTTATCAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTCGAT-AGTAAAATTACCA
58807501 AAATATCCTGGTTTGT
65 AAATATCCTGGTTTGT
* * * *
58807517 AAAA-TACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTCGATAGTAAAATTACCAA
* *
58807581 AATACCCTTGATTTGT
66 AATATCC-TGGTTTGT
*
58807597 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
58807613 TCTTGATTTG
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
79 52 0.63
80 21 0.26
81 9 0.11
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTAGTTTATAAAATTACCAAAATACCCCTCGATAGTAAAATTACCAA
AATATCCTGGTTTGT
Found at i:58807575 original size:106 final size:107
Alignment explanation
Indices: 58807437--58807629 Score: 271
Period size: 106 Copynumber: 1.8 Consensus size: 107
58807427 CTCGATTTAC
* * * *
58807437 AAAATTACTAAAATACCCTTGGTTTATCAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACCAAAATACCCCTGGCTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
*
58807502 AATA-TCCTGGTTTGTAAAATACTAAAATACCCCTAGTTTGT
66 AATACTCCTGATTTGTAAAATACTAAAATACCCCTAGTTTGT
* * ** * *
58807543 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTATCAA
1 AAAATTACCAAAATACCCCTGGCTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
*
58807608 AATACTCTTGATTTGTAAAATA
66 AATACTCCTGATTTGTAAAATA
58807630 TCAAAATGCC
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
106 59 0.80
107 15 0.20
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (107 bp):
AAAATTACCAAAATACCCCTGGCTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
AATACTCCTGATTTGTAAAATACTAAAATACCCCTAGTTTGT
Found at i:58807662 original size:27 final size:28
Alignment explanation
Indices: 58807633--58807872 Score: 261
Period size: 27 Copynumber: 8.9 Consensus size: 28
58807623 TAAAATATCA
* *
58807633 AAATGCCCTTGTAGGGTAGAATTACT-A
1 AAATACCCTTGTAGGGTAGAATTACTCG
*
58807660 AAATACCCCTGTAGGGTAGAATTA-TCG
1 AAATACCCTTGTAGGGTAGAATTACTCG
*
58807687 AAATA-CCTCTGTAGGGTAGAATTACT-A
1 AAATACCCT-TGTAGGGTAGAATTACTCG
58807714 AAATAACCC-TGTAGGGTAGAATTA-TCG
1 AAAT-ACCCTTGTAGGGTAGAATTACTCG
* *
58807741 AAATACCCCTGTAGAGTAGAATTACT-G
1 AAATACCCTTGTAGGGTAGAATTACTCG
* *
58807768 AAATATCCC-TGTAAGGTAAAATTA-TCG
1 AAATA-CCCTTGTAGGGTAGAATTACTCG
*
58807795 AAATACCCTTGTAGGGTAGAAATAC-CG
1 AAATACCCTTGTAGGGTAGAATTACTCG
*
58807822 AAATACCCCTGTAGGGTAGAATTAC-CG
1 AAATACCCTTGTAGGGTAGAATTACTCG
* *
58807849 AGATACCCTTGT-GGGTAAAATTAC
1 AAATACCCTTGTAGGGTAGAATTAC
58807873 CATTTTGCCC
Statistics
Matches: 183, Mismatches: 18, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
26 23 0.13
27 152 0.83
28 6 0.03
29 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (28 bp):
AAATACCCTTGTAGGGTAGAATTACTCG
Found at i:58807707 original size:54 final size:54
Alignment explanation
Indices: 58807628--58807872 Score: 332
Period size: 54 Copynumber: 4.6 Consensus size: 54
58807618 ATTTGTAAAA
* *
58807628 TATCAAAATGCCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
*
58807682 TATCGAAATA-CCTCTGTAGGGTAGAATTACTAAAATAACCCTGTAGGGTAGAAT
1 TATCGAAATACCCT-TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
* * * * * *
58807736 TATCGAAATACCCCTGTAGAGTAGAATTACTGAAATATCCCTGTAAGGTAAAAT
1 TATCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
* **
58807790 TATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAAT
1 TATCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
* * *
58807844 TACCGAGATACCCTTGT-GGGTAAAATTAC
1 TATCGAAATACCCTTGTAGGGTAGAATTAC
58807873 CATTTTGCCC
Statistics
Matches: 169, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
53 13 0.08
54 154 0.91
55 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (54 bp):
TATCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAAT
Found at i:58807745 original size:81 final size:79
Alignment explanation
Indices: 58807622--58807872 Score: 298
Period size: 81 Copynumber: 3.1 Consensus size: 79
58807612 CTCTTGATTT
* *
58807622 GTAAAA-TA-TCAAAATGCCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTAT
1 GTAAAATTACTCAAAATACCCTTGTAGGGTAGAATTAC-GAAATACCCCTGTAGGGTAGAATTA-
58807685 CGAAATACCTCTGTAGG
64 CGAAATACC-CTGTAGG
* *
58807702 GTAGAATTACT-AAAATAACCC-TGTAGGGTAGAATTATCGAAATACCCCTGTAGAGTAGAATTA
1 GTAAAATTACTCAAAAT-ACCCTTGTAGGGTAGAATTA-CGAAATACCCCTGTAGGGTAGAATTA
*
58807765 CTGAAATATCCCTGTAAG
64 C-GAAATA-CCCTGTAGG
* *
58807783 GTAAAATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTAC
1 GTAAAATTACTCAAAATACCCTTGTAGGGTAGAATTA-CGAAATACCCCTGTAGGGTAGAATTA-
*
58807847 CGAGATACCCTTGT-GG
64 CGAAATACCC-TGTAGG
58807863 GTAAAATTAC
1 GTAAAATTAC
58807873 CATTTTGCCC
Statistics
Matches: 148, Mismatches: 12, Indels: 21
0.82 0.07 0.12
Matches are distributed among these distances:
80 24 0.16
81 116 0.78
82 8 0.05
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (79 bp):
GTAAAATTACTCAAAATACCCTTGTAGGGTAGAATTACGAAATACCCCTGTAGGGTAGAATTACG
AAATACCCTGTAGG
Found at i:58808114 original size:25 final size:25
Alignment explanation
Indices: 58808076--58808145 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
58808066 AGGAAGTGCT
* *
58808076 AAAAGGGCTATGCCCCAGTTTA-CTG
1 AAAAGGGCTTTGCCCCAGTTTATC-A
58808101 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
58808126 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
58808146 GTTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
25 40 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:58814096 original size:20 final size:20
Alignment explanation
Indices: 58814071--58814116 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
58814061 AAAGTGTGGC
58814071 ATGTATAGGCTAGAAAGTCT
1 ATGTATAGGCTAGAAAGTCT
58814091 ATGTATAGGCTAGAAAGTCT
1 ATGTATAGGCTAGAAAGTCT
58814111 ATGTAT
1 ATGTAT
58814117 TAAGTTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.24, T:0.33
Consensus pattern (20 bp):
ATGTATAGGCTAGAAAGTCT
Found at i:58820159 original size:22 final size:22
Alignment explanation
Indices: 58820131--58820174 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
58820121 CGAGTATGAC
*
58820131 GTAAGTTCGTACATGATAAATG
1 GTAAGTTCGCACATGATAAATG
*
58820153 GTAAGTTTGCACATGATAAATG
1 GTAAGTTCGCACATGATAAATG
58820175 ATGTTACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (22 bp):
GTAAGTTCGCACATGATAAATG
Found at i:58836990 original size:51 final size:50
Alignment explanation
Indices: 58836901--58836997 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
58836891 TGGATACACG
58836901 GTGGCCTTCACATAGTACCACCTTTGTAGCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACCTTTGTA-CCAAAGCTATTATATTCACAAA
* * *
58836952 GTGGCCTTTACATAGTACCACACTTGTGT-CCAATGCTATTTTATTC
1 GTGGCCTTCACATAGTACCAC-CTT-TGTACCAAAGCTATTATATTC
58836998 CTAAGGTTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
51 35 0.85
52 3 0.07
53 3 0.07
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACCTTTGTACCAAAGCTATTATATTCACAAA
Found at i:58837077 original size:52 final size:52
Alignment explanation
Indices: 58837021--58837139 Score: 202
Period size: 52 Copynumber: 2.3 Consensus size: 52
58837011 GGGAAATTTC
58837021 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
* * * *
58837073 TCACTTAGCACATTGCCATGGACTTCTTTCACTTAGATGTCATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
58837125 TCACTTAGCACAATG
1 TCACTTAGCACAATG
58837140 TCATATCCTA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGGCTTATT
Found at i:58837102 original size:28 final size:27
Alignment explanation
Indices: 58837021--58837136 Score: 136
Period size: 24 Copynumber: 4.4 Consensus size: 27
58837011 GGGAAATTTC
58837021 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
58837049 TCACTTAG---ATGCCATGGGCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
58837073 TCACTTAGCACATTGCCATGGACTTCTT
1 TCACTTAGCACA-TGCCATGGACTTATT
* *
58837101 TCACTTAG---ATGTCATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
58837125 TCACTTAGCACA
1 TCACTTAGCACA
58837137 ATGTCATATC
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
24 43 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:58839250 original size:40 final size:40
Alignment explanation
Indices: 58839205--58839389 Score: 180
Period size: 40 Copynumber: 4.6 Consensus size: 40
58839195 TACACATTCA
* *
58839205 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
58839245 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
58839285 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * ** * *
58839325 TATGCCGTC-GGATCTTATTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
58839365 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
58839390 ATCATTCGAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 107 0.89
41 10 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:58839369 original size:80 final size:80
Alignment explanation
Indices: 58839208--58839389 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
58839198 ACATTCAAAT
* * *
58839208 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTT
* *
58839272 AGTAGCTCGCTCGAAA
65 AGTAGCTAGCACGAAA
* * **
58839288 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTATTCCGGATT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTTAACCCGGATT
58839351 TAGTCA-CTTAGCAC-AAA
64 TAGT-AGC-TAGCACGAAA
58839368 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
58839390 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.07
80 70 0.81
81 10 0.12
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTTA
GTAGCTAGCACGAAA
Found at i:58845972 original size:51 final size:51
Alignment explanation
Indices: 58845888--58846137 Score: 389
Period size: 51 Copynumber: 4.9 Consensus size: 51
58845878 CGGATACACG
*
58845888 GTGGCCTTCACATAGTACCAC-CTT-TGTAGCCAAAGCTATTGTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGT--CCAAAGCTATTTTATTCACAAA
58845939 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
58845990 GTGGCCTTCACATAGTACCACATTTGTGTCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* * *
58846041 GTGGCCTTCACATAATTCCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
58846092 G-GGACCTTCACATAGTACCACACATGTGTCTAAAGCTATTTTATTC
1 GTGG-CCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
58846138 CTAAGGTTCA
Statistics
Matches: 185, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
50 2 0.01
51 177 0.96
52 3 0.02
53 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:58846217 original size:52 final size:52
Alignment explanation
Indices: 58846161--58846279 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
58846151 GGGAAATTTC
**
58846161 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTCATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
* * *
58846213 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATAACATGGTCTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
58846265 TCACTTAGCACAATG
1 TCACTTAGCACAATG
58846280 TCATATCCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATAACATGGACTCATT
Found at i:58846241 original size:28 final size:27
Alignment explanation
Indices: 58846161--58846276 Score: 136
Period size: 24 Copynumber: 4.4 Consensus size: 27
58846151 GGGAAATTTC
58846161 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
58846189 TCACTTAG---ATGCCATGGACTCATT
1 TCACTTAGCACATGCCATGGACTTATT
58846213 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
** *
58846241 TCACTTAG---ATAACATGGTCTTATT
1 TCACTTAGCACATGCCATGGACTTATT
58846265 TCACTTAGCACA
1 TCACTTAGCACA
58846277 ATGTCATATC
Statistics
Matches: 76, Mismatches: 5, Indels: 15
0.79 0.05 0.16
Matches are distributed among these distances:
24 43 0.57
25 1 0.01
27 2 0.03
28 30 0.39
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:58850515 original size:13 final size:13
Alignment explanation
Indices: 58850497--58850540 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
58850487 AATGGCTATA
58850497 TCAAGTTTTATTG
1 TCAAGTTTTATTG
*
58850510 TCAAG-TTTA-TA
1 TCAAGTTTTATTG
58850521 TCAAGTTTTATTG
1 TCAAGTTTTATTG
58850534 TCAAGTT
1 TCAAGTT
58850541 AATTAGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 6 0.22
12 8 0.30
13 13 0.48
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (13 bp):
TCAAGTTTTATTG
Found at i:58850520 original size:24 final size:24
Alignment explanation
Indices: 58850493--58850540 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
58850483 TGGGAATGGC
58850493 TATATCAAGTTTTATTGTCAAGTT
1 TATATCAAGTTTTATTGTCAAGTT
58850517 TATATCAAGTTTTATTGTCAAGTT
1 TATATCAAGTTTTATTGTCAAGTT
58850541 AATTAGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.50
Consensus pattern (24 bp):
TATATCAAGTTTTATTGTCAAGTT
Found at i:58850530 original size:12 final size:12
Alignment explanation
Indices: 58850493--58850531 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
58850483 TGGGAATGGC
58850493 TATATCAAGTTT
1 TATATCAAGTTT
*
58850505 TATTGTCAAG-TT
1 TA-TATCAAGTTT
58850517 TATATCAAGTTT
1 TATATCAAGTTT
58850529 TAT
1 TAT
58850532 TGTCAAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.26
12 11 0.48
13 6 0.26
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (12 bp):
TATATCAAGTTT
Found at i:58858449 original size:65 final size:65
Alignment explanation
Indices: 58858367--58858497 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
58858357 CAAATAATGC
* *
58858367 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAGTTCAATTTCA
1 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAATTCAATGTCA
*
58858432 TTAAATTGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAATTCAATGTCA
1 TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAATTCAATGTCA
58858497 T
1 T
58858498 ATGCTCAACC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (65 bp):
TTAAATCGAAACCAGTCAAATACATATTTTCAGTCACAATATCAATCCATAATAATTCAATGTCA
Found at i:58863502 original size:46 final size:48
Alignment explanation
Indices: 58863397--58863573 Score: 204
Period size: 46 Copynumber: 3.8 Consensus size: 48
58863387 GCCACATTAT
* *
58863397 GAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGG-C
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTG-GGAC
* *
58863445 AAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTTTGGGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTGGGAC
** * *
58863491 GTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGAT
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTGGGAC
* *
58863537 GATAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
58863574 AACACTTTAC
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
45 3 0.03
46 63 0.56
47 28 0.25
48 19 0.17
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTTGGGAC
Found at i:58863565 original size:93 final size:95
Alignment explanation
Indices: 58863400--58863573 Score: 232
Period size: 93 Copynumber: 1.9 Consensus size: 95
58863390 ACATTATGAG
* * *
58863400 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGGCAAGAGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAGAGCTAGTGTAAGACATG
58863465 TCTGGGACAT-GCATCGGCTTTGGGACGTA
66 TCTGGGACATGGCATCGGCTTTGGGACGTA
** *
58863494 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGATGATAG-TCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGACAAGAGCT-AGTGTAAGA-C
58863555 ATGTCTGGGACATGGCATC
63 ATGTCTGGGACATGGCATC
58863574 AACACTTTAC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
91 2 0.03
92 23 0.33
93 27 0.39
94 18 0.26
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACAAGAGCTAGTGTAAGACATG
TCTGGGACATGGCATCGGCTTTGGGACGTA
Found at i:58871439 original size:16 final size:17
Alignment explanation
Indices: 58871407--58871440 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
58871397 GGGAATGGAG
58871407 TTTGTTTGATATTTATT
1 TTTGTTTGATATTTATT
*
58871424 TTTGTTTG-TTTTTATT
1 TTTGTTTGATATTTATT
58871440 T
1 T
58871441 CATAATAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTGTTTGATATTTATT
Found at i:58872706 original size:21 final size:21
Alignment explanation
Indices: 58872682--58872726 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
58872672 TATATCTACT
58872682 CAAGGAAATTATAATTCAA-GA
1 CAAGGAAATTATAA-TCAACGA
*
58872703 CAAGGGAATTATAATCAACGA
1 CAAGGAAATTATAATCAACGA
58872724 CAA
1 CAA
58872727 TAGAGCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (21 bp):
CAAGGAAATTATAATCAACGA
Found at i:58875338 original size:46 final size:48
Alignment explanation
Indices: 58875232--58875345 Score: 151
Period size: 46 Copynumber: 2.4 Consensus size: 48
58875222 AAGCTGACGC
* * *
58875232 CATGTCCTAGATAGGTCTTACACTAGCTTATATATCTCGAGGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTATATATCTCAAGGCCGATG
* * *
58875280 CATGTCCTAGACATGTCTTACACTAG-TTCT-TGTCTCAATGCCGATG
1 CATGTCCTAGACATGTCTTACACTAGCTTATATATCTCAAGGCCGATG
*
58875326 CATGTCCCAGACATGTCTTA
1 CATGTCCTAGACATGTCTTA
58875346 AACTGGCACA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 32 0.54
47 3 0.05
48 24 0.41
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
CATGTCCTAGACATGTCTTACACTAGCTTATATATCTCAAGGCCGATG
Found at i:58879325 original size:40 final size:40
Alignment explanation
Indices: 58879270--58879493 Score: 272
Period size: 40 Copynumber: 5.5 Consensus size: 40
58879260 TATTCAGATG
*
58879270 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
58879310 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
58879353 ATACCCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
58879393 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAA-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACT
* * * *
58879433 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
58879473 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
58879494 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 19, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
39 14 0.09
40 109 0.68
41 2 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:58879415 original size:83 final size:80
Alignment explanation
Indices: 58879276--58879493 Score: 271
Period size: 83 Copynumber: 2.7 Consensus size: 80
58879266 GATGATATCT
* * *
58879276 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCTCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATG
*
58879341 CGAGTAGTTG-CTATACCC
66 C---TA-ATGACTATACCC
* *
58879359 GGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATG
*
58879424 CTAATGACTATATCC
66 CTAATGACTATACCC
* * * *
58879439 GGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
58879494 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
79 16 0.13
80 42 0.35
81 2 0.02
83 61 0.50
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTATG
CTAATGACTATACCC
Found at i:58885809 original size:17 final size:17
Alignment explanation
Indices: 58885769--58885822 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
58885759 GGATCAAACG
* *
58885769 AAAAAGAGAGCAAGGGAA
1 AAAAAGA-AGGAAGGAAA
*
58885787 AGAAAGAAGGAAGGAAA
1 AAAAAGAAGGAAGGAAA
*
58885804 AAAAAGAAAGAAGGAAA
1 AAAAAGAAGGAAGGAAA
58885821 AA
1 AA
58885823 GGGAAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
17 25 0.81
18 6 0.19
ACGTcount: A:0.69, C:0.02, G:0.30, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGGAAGGAAA
Found at i:58885829 original size:21 final size:22
Alignment explanation
Indices: 58885780--58885829 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
58885770 AAAAGAGAGC
58885780 AAGGG-AAAGAAAGAAGGAAGGA
1 AAGGGAAAAGAAAGAAGGAA-GA
*
58885802 AA--AAAAAGAAAGAAGGAA-A
1 AAGGGAAAAGAAAGAAGGAAGA
58885821 AAGGGAAAA
1 AAGGGAAAA
58885830 ATTGGGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
19 3 0.13
21 18 0.78
22 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (22 bp):
AAGGGAAAAGAAAGAAGGAAGA
Found at i:58887949 original size:46 final size:46
Alignment explanation
Indices: 58887897--58888172 Score: 453
Period size: 46 Copynumber: 6.0 Consensus size: 46
58887887 AGTGTGCTCT
*
58887897 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
58887943 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
58887989 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAGCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
58888035 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
58888081 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
58888127 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
58888173 ATGACAGAAA
Statistics
Matches: 220, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 220 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:58888219 original size:50 final size:49
Alignment explanation
Indices: 58887912--58888225 Score: 309
Period size: 46 Copynumber: 6.7 Consensus size: 49
58887902 ATGAAATGTG
* * * *
58887912 TAAGACCATGGTTGAAAGATACCATGACAACCTGATATGAAATG--TG-
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
* * *
58887958 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATG--TG-
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
* * * *
58888004 TAAGACCATGGTTGAAAGATAGCATGGCAACCTGATATGAAATG--TG-
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
* * * *
58888050 TAAGACTATGGTTGAAAGATACCATGGCAACGTGATATGAAATG-A--A
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
*
58888096 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAG-A--A
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
58888142 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-GAATGA
* * * * *
58888191 GTAAGACCATAGCTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
58888226 TCAAAGATAA
Statistics
Matches: 247, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
45 5 0.02
46 211 0.85
47 1 0.00
49 1 0.00
50 29 0.12
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (49 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAATGA
Found at i:58889977 original size:31 final size:31
Alignment explanation
Indices: 58889942--58890003 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
58889932 AAGATATCTG
58889942 TGTTCGTGTAGATAAATTCATTTTTCTGATT
1 TGTTCGTGTAGATAAATTCATTTTTCTGATT
58889973 TGTTCGTGTAGATAAATTCATTTTTCTGATT
1 TGTTCGTGTAGATAAATTCATTTTTCTGATT
58890004 GATTTTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.16, T:0.52
Consensus pattern (31 bp):
TGTTCGTGTAGATAAATTCATTTTTCTGATT
Found at i:58895995 original size:20 final size:20
Alignment explanation
Indices: 58895976--58896013 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
58895966 ATGTAAAAAT
*
58895976 TATATA-TTTAAAATATAAA
1 TATATATTTTAAAAAATAAA
*
58895995 TATGTATTTTAAAAAATAA
1 TATATATTTTAAAAAATAA
58896014 TATCTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TATATATTTTAAAAAATAAA
Found at i:58896966 original size:24 final size:28
Alignment explanation
Indices: 58896939--58896996 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 28
58896929 TCTTCATTTT
*
58896939 ATTTTTTTA-ATTT-TAAAA-A-ATTAA
1 ATTTTTATATATTTATAAAATATATTAA
58896963 ATTTTTATATATTTATAAAATATTATTAA
1 ATTTTTATATATTTATAAAATA-TATTAA
58896992 ATTTT
1 ATTTT
58896997 ATAAAAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 8 0.29
25 4 0.14
26 5 0.18
27 1 0.04
29 10 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTTTATATATTTATAAAATATATTAA
Found at i:58897019 original size:21 final size:19
Alignment explanation
Indices: 58896995--58897041 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
58896985 TTATTAAATT
*
58896995 TTATAAAAATGTTAAATAAAA
1 TTATAAAAAT-TCAAA-AAAA
58897016 TTATAAAAATTCAAAAAAA
1 TTATAAAAATTCAAAAAAA
58897035 TT-TAAAA
1 TTATAAAA
58897042 TCATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 6 0.24
20 4 0.16
21 10 0.40
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
TTATAAAAATTCAAAAAAA
Found at i:58906265 original size:24 final size:24
Alignment explanation
Indices: 58906233--58906319 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
58906223 AATCTCAAAT
58906233 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
58906257 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
58906281 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
58906305 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
58906320 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:58906285 original size:48 final size:48
Alignment explanation
Indices: 58906233--58906341 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
58906223 AATCTCAAAT
** *
58906233 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
58906281 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
58906329 GCACTATGTGTGC
1 GCACTATGTGTGC
58906342 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:58906332 original size:24 final size:24
Alignment explanation
Indices: 58906233--58906341 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
58906223 AATCTCAAAT
*
58906233 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
58906257 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
58906281 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
58906305 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
58906329 GCACTATGTGTGC
1 GCACTATGTGTGC
58906342 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:58914134 original size:24 final size:24
Alignment explanation
Indices: 58914102--58914188 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
58914092 AATCTCAAAT
58914102 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
58914126 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
58914150 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
58914174 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
58914189 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:58914154 original size:48 final size:48
Alignment explanation
Indices: 58914102--58914210 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
58914092 AATCTCAAAT
** *
58914102 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
58914150 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
58914198 GCACTATGTGTGC
1 GCACTATGTGTGC
58914211 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:58914201 original size:24 final size:24
Alignment explanation
Indices: 58914102--58914210 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
58914092 AATCTCAAAT
*
58914102 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
58914126 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
58914150 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
58914174 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
58914198 GCACTATGTGTGC
1 GCACTATGTGTGC
58914211 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:58918325 original size:69 final size:70
Alignment explanation
Indices: 58918193--58918325 Score: 207
Period size: 69 Copynumber: 1.9 Consensus size: 70
58918183 TAGTTTATTA
* * * *
58918193 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGTCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGTCTGTCCAAATTAGGACAAAATCATGGTA
58918258 CTTAG
66 CTTAG
58918263 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGT-TGTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATT-GTCTGTCCAAATTAGGACAAAATCATGGT
58918326 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
69 33 0.57
70 25 0.43
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGTCTGTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:58919136 original size:39 final size:39
Alignment explanation
Indices: 58919084--58919332 Score: 320
Period size: 39 Copynumber: 6.3 Consensus size: 39
58919074 ATTTGATGTA
*
58919084 TATCCGGACTTAAGGTCTGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
58919123 TATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* * *
58919162 TATCTGGACTTAAGGTCCACAAGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
* ** * *
58919201 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGACTT-AAGGTCCGCAGGCT-TCGTGCTGGAATTG
* *** *
58919241 TATCCGGGCTTAAAAACTCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGACTTAAGGTC-CGCAGGCTTCGTGCTGGAATTG
58919281 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
*
58919320 TATCCGGGCTTAA
1 TATCCGGACTTAA
58919333 AGACCCACAG
Statistics
Matches: 184, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 121 0.66
40 62 0.34
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTG
Found at i:58919293 original size:119 final size:118
Alignment explanation
Indices: 58919112--58919338 Score: 355
Period size: 119 Copynumber: 1.9 Consensus size: 118
58919102 GCAGGCTTCG
* *** *
58919112 TGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCTGGACTTAAGG
1 TGCTGGAATTATATCCGGACTTAAAAACCGCAAGCTTCGTGCTGGAATTGTATCCGGACTTAAGG
58919177 TCCACAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATA
66 TCCACAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATA
* * *
58919230 TGCTGGAATTATATCCGGGCTTAAAAACTCGCAGGCTTTGTGCTGGAATTGTATCCGGACTTAAG
1 TGCTGGAATTATATCCGGACTTAAAAAC-CGCAAGCTTCGTGCTGGAATTGTATCCGGACTTAAG
* *
58919295 GTCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCC
65 GTCCACAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCC
58919339 ACAGTGTGAC
Statistics
Matches: 98, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
118 23 0.23
119 75 0.77
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.28
Consensus pattern (118 bp):
TGCTGGAATTATATCCGGACTTAAAAACCGCAAGCTTCGTGCTGGAATTGTATCCGGACTTAAGG
TCCACAAGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTATA
Found at i:58927298 original size:39 final size:39
Alignment explanation
Indices: 58927241--58927571 Score: 317
Period size: 40 Copynumber: 8.4 Consensus size: 39
58927231 GTGTTACACA
* *
58927241 CAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTCCG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCG
* * * *
58927280 CAAGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGATCCG
* ** * *
58927320 CAGGCTATAC--GCTGGAATTATATTTGGGCTTAAAGACCCG
1 CAGGCT-T-CGTGCTGGAATTGTATCCGGACTT-AAGATCCG
* * *
58927360 CAGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGTCTG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCG
* * * *
58927399 CAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCA
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGATCCG
* * * *
58927439 TAGGCTTCATGCTGGAATTGTATCTAGG-CTTAAAGACCCG
1 CAGGCTTCGTGCTGGAATTGTATC-CGGACTT-AAGATCCG
58927479 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCG
* * * * * *
58927518 TAGGCTTCGTGCTGGTACTATATTCGGACTTAAGGTCCG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCG
*
58927557 CAGGCTTCGTACTGG
1 CAGGCTTCGTGCTGG
58927572 TACTATATCC
Statistics
Matches: 244, Mismatches: 40, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
39 116 0.48
40 124 0.51
41 3 0.01
42 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCG
Found at i:58927403 original size:79 final size:79
Alignment explanation
Indices: 58927241--58927603 Score: 288
Period size: 79 Copynumber: 4.6 Consensus size: 79
58927231 GTGTTACACA
* * * * ** * *
58927241 CAGGCTTCATGCTGGAATTGTATCCGGACTT-AAGGTCCGCAAGCTTCGTGCTGGAATTGTATCT
1 CAGGCTTC-GGCTGGAATTATATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCC
*
58927305 GGGCTTAAAGACCCG
65 GGACTTAAAGACCCG
* *
58927320 CAGGCTATAC-GCTGGAATTATATTTGGGCTTAAAGACCCGCAGGCTTTGTGCTGGAATTGTATC
1 CAGGCT-T-CGGCTGGAATTATATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC
** *
58927384 CGGACTT-AAGGTCTG
64 CGGACTTAAAGACCCG
* ** *
58927399 CAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCATAGGCTTCATGCTGGAATTGTATCT
1 CAGGCTTCG-GCTGGAATTATATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATC-
*
58927464 AGG-CTTAAAGACCCG
64 CGGACTTAAAGACCCG
* * * * * * * * *
58927479 CAGGCTTCGTGCTGGAATTGTATCCGGACTT-AAGATCCGTAGGCTTCGTGCTGGTACTATATTC
1 CAGGCTTCG-GCTGGAATTATATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCC
**
58927543 GGACTT-AAGGTCCG
65 GGACTTAAAGACCCG
* * * * * * *
58927557 CAGGCTTCGTACTGGTACTATATCCGAGCTTAAAGTCCCGTAGGCTT
1 CAGGCTTCG-GCTGGAATTATATCTGGGCTTAAAGACCCGCAGGCTT
58927604 TGTGTTGGTG
Statistics
Matches: 232, Mismatches: 43, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
77 1 0.00
78 34 0.15
79 126 0.54
80 70 0.30
81 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (79 bp):
CAGGCTTCGGCTGGAATTATATCTGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCG
GACTTAAAGACCCG
Found at i:58927550 original size:119 final size:119
Alignment explanation
Indices: 58927241--58927532 Score: 460
Period size: 119 Copynumber: 2.5 Consensus size: 119
58927231 GTGTTACACA
* *
58927241 CAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTCCGCAAGCTTCGTGCTGGAATTGTATCTG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCTG
* * *
58927306 GGCTTAAAGACCCGCAGGCTATACGCTGGAATTATATTTGGGCTTAAAGACCCG
66 GGCTTAAAGACCCACAGGCTATACGCTGGAATTATATCTAGGCTTAAAGACCCG
* *
58927360 CAGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGTCTGCAGGCTTCGTGCTGGAATTGTATCTG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCTG
* * *
58927425 GGCTTAAAGACCCATAGGCT-TCATGCTGGAATTGTATCTAGGCTTAAAGACCCG
66 GGCTTAAAGACCCACAGGCTAT-ACGCTGGAATTATATCTAGGCTTAAAGACCCG
* *
58927479 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCGTAGGCTTCGTGCTGG
1 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGG
58927533 TACTATATTC
Statistics
Matches: 158, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
118 1 0.01
119 157 0.99
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (119 bp):
CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGGTCCGCAGGCTTCGTGCTGGAATTGTATCTG
GGCTTAAAGACCCACAGGCTATACGCTGGAATTATATCTAGGCTTAAAGACCCG
Found at i:58927572 original size:39 final size:39
Alignment explanation
Indices: 58927241--58927582 Score: 195
Period size: 39 Copynumber: 8.7 Consensus size: 39
58927231 GTGTTACACA
* * * * *
58927241 CAGGCTTCATGCTGGAATTGTATCCGGACTTAAGGTCCG
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGATCCG
* * * * * * *
58927280 CAAGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCG
1 CAGGCTTCGTGCTGGTACTATATCCGGACTT-AAGATCCG
* * ** * *
58927320 CAGGCTATAC--GCTGGAATTATATTTGGGCTTAAAGACCCG
1 CAGGCT-T-CGTGCTGGTACTATATCCGGACTT-AAGATCCG
* * * * * *
58927360 CAGGCTTTGTGCTGGAATTGTATCCGGACTTAAGGTCTG
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGATCCG
* * * * * * *
58927399 CAGGCTTCGTGCTGGAATTGTATCTGGGCTTAAAGACCCA
1 CAGGCTTCGTGCTGGTACTATATCCGGACTT-AAGATCCG
* * * * * * *
58927439 TAGGCTTCATGCTGGAATTGTATCTAGG-CTTAAAGACCCG
1 CAGGCTTCGTGCTGGTACTATATC-CGGACTT-AAGATCCG
* * *
58927479 CAGGCTTCGTGCTGGAATTGTATCCGGACTTAAGATCCG
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGATCCG
* * *
58927518 TAGGCTTCGTGCTGGTACTATATTCGGACTTAAGGTCCG
1 CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGATCCG
*
58927557 CAGGCTTCGTACTGGTACTATATCCG
1 CAGGCTTCGTGCTGGTACTATATCCG
58927583 AGCTTAAAGT
Statistics
Matches: 254, Mismatches: 41, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
39 126 0.50
40 124 0.49
41 3 0.01
42 1 0.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (39 bp):
CAGGCTTCGTGCTGGTACTATATCCGGACTTAAGATCCG
Found at i:58930786 original size:43 final size:43
Alignment explanation
Indices: 58930725--58930816 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
58930715 CCCCAAGGGG
* *
58930725 CACACGACCGTGCAACATAGCCATGTGTTGCACACGGCTGAGA
1 CACACGACCGTCCAACATAGCCATGTGTCGCACACGGCTGAGA
* *
58930768 CACACGACCGTCCAACATAGCCGTGTGTCGCACACGGTTGAGA
1 CACACGACCGTCCAACATAGCCATGTGTCGCACACGGCTGAGA
58930811 CACACG
1 CACACG
58930817 GCTGTGTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.27, C:0.33, G:0.25, T:0.15
Consensus pattern (43 bp):
CACACGACCGTCCAACATAGCCATGTGTCGCACACGGCTGAGA
Found at i:58940127 original size:22 final size:22
Alignment explanation
Indices: 58940102--58940148 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
58940092 GTTTGAATGT
*
58940102 GTAAGATAAGCTAAATGGCTAG
1 GTAAGATAAGCTAAATGGCAAG
58940124 GTAAGATAAGCTAAATGGCAAG
1 GTAAGATAAGCTAAATGGCAAG
58940146 GTA
1 GTA
58940149 CAAATTGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.28, T:0.21
Consensus pattern (22 bp):
GTAAGATAAGCTAAATGGCAAG
Found at i:58948040 original size:13 final size:13
Alignment explanation
Indices: 58947992--58948029 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
58947982 ATTACTTAAG
*
58947992 TAATAAT-TATTA
1 TAATAATATAATA
*
58948004 TTATAATATAATA
1 TAATAATATAATA
58948017 TAATAATATAATA
1 TAATAATATAATA
58948030 ACATAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:58955639 original size:16 final size:16
Alignment explanation
Indices: 58955618--58955648 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58955608 GTATGGATAA
*
58955618 ATAAGTTAATTAAATC
1 ATAAGTTAATAAAATC
58955634 ATAAGTTAATAAAAT
1 ATAAGTTAATAAAAT
58955649 ATATTATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (16 bp):
ATAAGTTAATAAAATC
Found at i:58956938 original size:2 final size:2
Alignment explanation
Indices: 58956925--58956970 Score: 58
Period size: 2 Copynumber: 23.0 Consensus size: 2
58956915 TAAATTTTGG
* *
58956925 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT CAT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
58956967 AT AT
1 AT AT
58956971 TCGTTCATAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 35 0.92
3 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:58961697 original size:67 final size:67
Alignment explanation
Indices: 58961598--58961779 Score: 312
Period size: 67 Copynumber: 2.7 Consensus size: 67
58961588 TAGTACCACC
* * * *
58961598 CATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCA
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCA
58961662 TG
66 TG
*
58961664 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCA
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCA
58961729 TG
66 TG
58961731 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
58961780 ACACATAGTA
Statistics
Matches: 110, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
66 13 0.12
67 97 0.88
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.32
Consensus pattern (67 bp):
CATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCA
TG
Found at i:58962578 original size:30 final size:30
Alignment explanation
Indices: 58962544--58962604 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58962534 TCCTTAACTC
58962544 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
58962574 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
58962604 A
1 A
58962605 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:58967444 original size:17 final size:18
Alignment explanation
Indices: 58967431--58967623 Score: 95
Period size: 18 Copynumber: 10.8 Consensus size: 18
58967421 TAATCTTCAA
58967431 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
58967450 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
58967467 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
58967486 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
58967502 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
* *
58967521 TGGT-TGCAATCTTA-AA
1 TGATATGCAATCTTAGAG
* *
58967537 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
58967556 TGAT-TGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* * *
58967572 T-ATGATACAATCATAGATA
1 TGAT-ATGCAATCTTAGA-G
*
58967591 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
58967609 TGATATACAATCTTA
1 TGATATGCAATCTTA
58967624 AAAGATATGA
Statistics
Matches: 141, Mismatches: 13, Indels: 40
0.73 0.07 0.21
Matches are distributed among these distances:
15 5 0.04
16 6 0.04
17 44 0.31
18 48 0.34
19 31 0.22
20 7 0.05
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:58967500 original size:35 final size:35
Alignment explanation
Indices: 58967438--58967623 Score: 309
Period size: 35 Copynumber: 5.2 Consensus size: 35
58967428 CAATGATATG
*
58967438 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
58967474 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
* *
58967509 CAATCTTAGATATGGTTGCAATCTTAAATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
58967544 CAATCTTAGATATGATTGCAATCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
*
58967579 CAATCATAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
58967616 CAATCTTA
1 CAATCTTA
58967624 AAAGATATGA
Statistics
Matches: 141, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
35 116 0.82
36 15 0.11
37 10 0.07
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:58974312 original size:44 final size:44
Alignment explanation
Indices: 58974262--58974403 Score: 123
Period size: 44 Copynumber: 3.3 Consensus size: 44
58974252 CGCCTTAATC
58974262 CCCTAAGCAGTAGGGTAACAGTTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGTTTAAATTTGCAGATCTTATTCT
* * ** ** * * *
58974306 CCCTAAGTAGTAGTGG-AGCAGATCGAAA--ACCCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAG-TTTAAATTTGCAGATCTTATTCT
* *
58974347 CCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCT
1 CCCTAAGCAGTAGGGTAACAGTTTAAATTTGCAGATCTTATTCT
*
58974391 CTCTAAGCAGTAG
1 CCCTAAGCAGTAG
58974404 TGGAGAAGAT
Statistics
Matches: 69, Mismatches: 22, Indels: 14
0.66 0.21 0.13
Matches are distributed among these distances:
40 5 0.07
41 15 0.22
42 8 0.12
43 8 0.12
44 27 0.39
45 6 0.09
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
CCCTAAGCAGTAGGGTAACAGTTTAAATTTGCAGATCTTATTCT
Found at i:58974397 original size:85 final size:85
Alignment explanation
Indices: 58974252--58974616 Score: 469
Period size: 85 Copynumber: 4.3 Consensus size: 85
58974242 CAAAATTCAG
* *
58974252 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGTTTAAATTTGCAGATCTTATTCTCCCTAAGTAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
** * *
58974317 AGTGGAGCAGATCGAAAACC
66 AGCAGAGCAGATCGAAGACT
* *
58974337 CGCCTTAATCCCCTAAGCAGTAAGGTAACAGGTTAAATTTGCAGATCTTATTCTCTCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
** *
58974402 AGTGGAGAAGATCGAAGACT
66 AGCAGAGCAGATCGAAGACT
* *
58974422 CACCTTAATCCCCTAAGCAGTAGGGTAACAGG-----TTCGCAGATCTTA-TCTCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
58974481 AGCAGAGCAGA-CGATGACGACT
66 AGCAGAGCAGATCGA--A-GACT
* *
58974503 CGCCTTAATCCCCTAAGCAGTAGGGTAATAGGTTAAATTTACAGATCTTATT-TCCCTAAGCAGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
58974567 AGCAGAGCAGATCGAAGACGAT
66 AGCAGAGCAGATCGAAGAC--T
*
58974589 GCACCTTAA-CCCCTAAGCAGTAGGGTAA
1 -CGCCTTAATCCCCTAAGCAGTAGGGTAA
58974617 TAGACCAAGA
Statistics
Matches: 248, Mismatches: 19, Indels: 25
0.85 0.07 0.09
Matches are distributed among these distances:
78 3 0.01
79 21 0.08
80 13 0.05
81 34 0.14
84 3 0.01
85 109 0.44
86 54 0.22
87 11 0.04
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (85 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTTAAATTTGCAGATCTTATTCTCCCTAAGCAGT
AGCAGAGCAGATCGAAGACT
Found at i:58974936 original size:206 final size:207
Alignment explanation
Indices: 58974623--58975744 Score: 1874
Period size: 207 Copynumber: 5.4 Consensus size: 207
58974613 GTAATAGACC
58974623 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * *
58974688 TGTATTATCAGA-AACAAATCAAAGTTTGGCGTTTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
58974752 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGACGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
58974817 AGGAACAAATCA
196 AGGAACAAATCG
*
58974829 AAGACATAGCTGATTT-GTTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
58974893 TGTATTGTCAGAGAACAAATTGAAGTTTGGCGTCTCCATATTCGATGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
58974958 GATCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
58975023 AGGAACAAATCG
196 AGGAACAAATCG
* *
58975035 AAGACATAGTTGATTTGGCTTTCACGTGTTTACATTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
58975100 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* *
58975165 GATCTGGCCTTTAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
58975230 AAGAACAAATCG
196 AGGAACAAATCG
*
58975242 AAGACATAGCTGATTTGG-TTGTCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCT
1 AAGACATAGCTGATTTGGCTT-TCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCT
* *
58975306 CTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCAGATTCGACGGAGGCCAGACACATAGC
65 CTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGC
* *
58975371 AGATTTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTTCTTAC
130 AGATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTAC
58975436 AAGGAACAAATCG
195 AAGGAACAAATCG
*
58975449 AAGACATAGCTGAATTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
58975514 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGACAGACATATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* ** * * * *
58975579 GATATAACCTTCAGATGATTAGACTGAAGT-AGATCCAAGATGGTTTGGTATCATTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
58975643 AGGAGCAAATCG
196 AGGAACAAATCG
* * * * *
58975655 AAGGCATAGCTGATTTGGCTTTCGCGTGTTTACGCTAAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
58975720 TGTATTGTCAGGGAACAAATTGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
58975745 AAGCAGATTT
Statistics
Matches: 864, Mismatches: 48, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
205 58 0.07
206 279 0.32
207 525 0.61
208 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCG
Found at i:58976189 original size:19 final size:19
Alignment explanation
Indices: 58976139--58976193 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
58976129 ATAATCTTCA
58976139 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
58976158 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
58976176 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
58976194 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:58982019 original size:21 final size:20
Alignment explanation
Indices: 58981995--58982034 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
58981985 TGAGTATTTT
58981995 AATGTTTGATGATAGATTATG
1 AATGTTTGATGATA-ATTATG
58982016 AATGTTTGATGATAATTAT
1 AATGTTTGATGATAATTAT
58982035 ACAAGTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (20 bp):
AATGTTTGATGATAATTATG
Found at i:58982044 original size:21 final size:21
Alignment explanation
Indices: 58981995--58982042 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
58981985 TGAGTATTTT
*
58981995 AATGTTTGATGATAGATTATG
1 AATGTTTGATGATAGATTATC
58982016 AATGTTTGATGATA-ATTATAC
1 AATGTTTGATGATAGATTAT-C
58982037 AA-GTTT
1 AATGTTT
58982043 TGTTATGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (21 bp):
AATGTTTGATGATAGATTATC
Found at i:58986372 original size:28 final size:27
Alignment explanation
Indices: 58986309--58986378 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58986299 ATAGTGAGTC
58986309 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58986336 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58986364 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58986379 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58994170 original size:28 final size:27
Alignment explanation
Indices: 58994107--58994176 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
58994097 ATAGTGAGTC
58994107 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
58994134 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
58994162 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58994177 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:58999780 original size:43 final size:42
Alignment explanation
Indices: 58999736--58999976 Score: 281
Period size: 43 Copynumber: 5.6 Consensus size: 42
58999726 TTTATGAAAA
* * * * *
58999736 AAACGCCGCTATAGAACATGATCTTTAGCGACGGTTTTCCAAA
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCC-AC
58999779 AAACAG-CGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
1 AAAC-GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTT-CCAC
* *
58999822 AAATGCCGCTAAAGAGCATGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTT-CCAC
* *
58999865 AAACACCGCTAAAGAACATGACTTTTAGCGGCGCTTTTGCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTT-CCAC
* * *
58999908 AAACGCCACTATA-AA-ATAAACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACAT-GACCTTTAGCGGCGCTTTTC-CAC
*
58999950 AAACGCCGCTAAAGATCATGACCTTTA
1 AAACGCCGCTAAAGAACATGACCTTTA
58999977 AAAAAATTAT
Statistics
Matches: 170, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
41 3 0.02
42 34 0.20
43 128 0.75
44 5 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCAC
Found at i:59000040 original size:18 final size:19
Alignment explanation
Indices: 59000003--59000037 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
58999993 TTAATTAAAT
59000003 AATATTTATTTCTATGTTA
1 AATATTTATTTCTATGTTA
59000022 AATA-TTATTT-TATGTT
1 AATATTTATTTCTATGTT
59000038 TAATTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 6 0.38
19 4 0.25
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (19 bp):
AATATTTATTTCTATGTTA
Found at i:59001916 original size:15 final size:16
Alignment explanation
Indices: 59001890--59001920 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
59001880 TCTCTCTTGC
59001890 TTTTAGATCATATATA
1 TTTTAGATCATATATA
59001906 TTTTA-ATCATATATA
1 TTTTAGATCATATATA
59001921 AGAAAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:59003290 original size:157 final size:157
Alignment explanation
Indices: 59002997--59003310 Score: 583
Period size: 157 Copynumber: 2.0 Consensus size: 157
59002987 GGAAACTCAG
* *
59002997 TGTGACAGCCTTAAAATGACCCTAGTCGGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAAA
1 TGTGACAGCCTTAAAACGACCCTAGTCAGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAAA
*
59003062 ATAATTTAATATTTATTTTATTGCCTATAATATGTGTTAACTCATGTGTGACATTTTTGATGTTT
66 ATAATTTAATATTTATTTTATTGCCTATAATATGTGTTAACTCATGTGTGACATTTTTGATGCTT
*
59003127 TGATTTAGAGCTATAAATGTGAATTTC
131 TAATTTAGAGCTATAAATGTGAATTTC
59003154 TGTGACAGCCTTAAAACGACCCTAGTCAGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAAA
1 TGTGACAGCCTTAAAACGACCCTAGTCAGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAAA
59003219 ATAATTTAATATTTATTTTATTGCCTATAATATGTGTTAACTCATGTGTGACATTTTTGATGCTT
66 ATAATTTAATATTTATTTTATTGCCTATAATATGTGTTAACTCATGTGTGACATTTTTGATGCTT
*
59003284 TAATTTAGAGTTATAAATGTGAATTTC
131 TAATTTAGAGCTATAAATGTGAATTTC
59003311 ACTAGAAAGG
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (157 bp):
TGTGACAGCCTTAAAACGACCCTAGTCAGAATGTGGTTTCGGGACCACAAAACCGAGGCATAAAA
ATAATTTAATATTTATTTTATTGCCTATAATATGTGTTAACTCATGTGTGACATTTTTGATGCTT
TAATTTAGAGCTATAAATGTGAATTTC
Found at i:59004873 original size:40 final size:40
Alignment explanation
Indices: 59004814--59005020 Score: 220
Period size: 40 Copynumber: 5.2 Consensus size: 40
59004804 CATTGGAATG
* * *
59004814 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
59004854 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
59004894 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
59004934 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
59004974 ATAACCGGGCTTCG-TCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
59005013 ATATCCGG
1 ATATCCGG
59005021 TTAAATTCCG
Statistics
Matches: 140, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 31 0.22
40 107 0.76
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:59012890 original size:40 final size:40
Alignment explanation
Indices: 59012831--59013038 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
59012821 CATTGGAATG
* * *
59012831 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
59012871 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
59012911 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
59012951 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
59012991 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
59013031 ATATCCGG
1 ATATCCGG
59013039 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:59015952 original size:40 final size:40
Alignment explanation
Indices: 59015874--59016091 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
59015864 TTCGGATGAC
*
59015874 ATCCGGGCTAAGT-CCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
59015912 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
59015952 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
59015992 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
59016032 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
59016072 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
59016092 TACTTGGGTT
Statistics
Matches: 171, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 13 0.08
39 24 0.14
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:59024407 original size:40 final size:40
Alignment explanation
Indices: 59024327--59024545 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
59024317 TTCGGATGAC
*
59024327 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
59024366 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
59024406 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
59024446 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
59024486 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
59024526 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
59024546 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 38 0.22
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:59027504 original size:19 final size:20
Alignment explanation
Indices: 59027436--59027512 Score: 88
Period size: 20 Copynumber: 4.0 Consensus size: 20
59027426 CACTCTCAAT
* *
59027436 CATATAAACAGTAATCCATT
1 CATATAAACAGTAATTCATC
*
59027456 CA-AT-AACAGTAACTCATC
1 CATATAAACAGTAATTCATC
* *
59027474 CATTTAAACAGTACTTCATC
1 CATATAAACAGTAATTCATC
59027494 CATAT-AACAGTAATTCATC
1 CATATAAACAGTAATTCATC
59027513 TGTGTAACAC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
18 13 0.28
19 16 0.34
20 18 0.38
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.30
Consensus pattern (20 bp):
CATATAAACAGTAATTCATC
Found at i:59032818 original size:27 final size:27
Alignment explanation
Indices: 59032788--59032859 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
59032778 AGCATAGCTG
*
59032788 CCAGAAACAGTAAATGTGGCAAAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
* * *
59032815 CCAGTATCAGTAATTGTGGCATAGCCA
1 CCAGTAACAGTAAATGTGGCAAAGCCA
* *
59032842 CTAGTAACAGTGAATGTG
1 CCAGTAACAGTAAATGTG
59032860 ACATAATCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGGCAAAGCCA
Found at i:59032864 original size:27 final size:26
Alignment explanation
Indices: 59032779--59032879 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
59032769 TAATAATGCA
** *
59032779 GCATAGCTGCCAGAAACAGTAAATGTG
1 GCATAGCCACCAGTAACAGT-AATGTG
* *
59032806 GCAAAGCCACCAGTATCAGTAATTGTG
1 GCATAGCCACCAGTAACAGTAA-TGTG
*
59032833 GCATAGCCACTAGTAACAGTGAATGTG
1 GCATAGCCACCAGTAACAGT-AATGTG
* **
59032860 ACATAATCACCAGT-ACAGTA
1 GCATAGCCACCAGTAACAGTA
59032880 CTTCCTCCAT
Statistics
Matches: 60, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
25 1 0.02
26 7 0.12
27 50 0.83
28 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
GCATAGCCACCAGTAACAGTAATGTG
Found at i:59033153 original size:27 final size:27
Alignment explanation
Indices: 59033015--59033153 Score: 206
Period size: 27 Copynumber: 5.1 Consensus size: 27
59033005 GGGCATAATC
59033015 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
59033042 ATCATTTTATCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
59033069 GTCATTTTACCTTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
59033096 GTTATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
59033123 GTCATTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
59033150 GTCA
1 GTCA
59033154 GATAACGACC
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:59035450 original size:30 final size:30
Alignment explanation
Indices: 59035409--59035465 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
59035399 AAAATCATAT
***
59035409 TTTGGCAAAATTATGTTTTTGCCCCTAAAC
1 TTTGGCAAAATTACACTTTTGCCCCTAAAC
*
59035439 TTTGTCAAAATTACACTTTTGCCCCTA
1 TTTGGCAAAATTACACTTTTGCCCCTA
59035466 GGCTTGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTGGCAAAATTACACTTTTGCCCCTAAAC
Found at i:59036211 original size:13 final size:13
Alignment explanation
Indices: 59036193--59036217 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59036183 TGTAGGCCTT
59036193 AAAAATATATTAA
1 AAAAATATATTAA
59036206 AAAAATATATTA
1 AAAAATATATTA
59036218 CATCGAATTT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATATATTAA
Found at i:59052881 original size:23 final size:23
Alignment explanation
Indices: 59052855--59052908 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
59052845 TGATGGACAA
* *
59052855 TAAGCTCT-ATTGAGCTGAAACGG
1 TAAGCTCTGA-TGAACTGAAACAG
*
59052878 TAAGCTCTGATGAACTGAAATAG
1 TAAGCTCTGATGAACTGAAACAG
59052901 TAAGCTCT
1 TAAGCTCT
59052909 TAGGGGCTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (23 bp):
TAAGCTCTGATGAACTGAAACAG
Found at i:59056455 original size:25 final size:25
Alignment explanation
Indices: 59056446--59056662 Score: 249
Period size: 25 Copynumber: 8.7 Consensus size: 25
59056436 TGACAGAATT
59056446 AGAATCAGAATCA-AGATCAGGTGAC
1 AGAATCAGAATCAGA-ATCAGGTGAC
* * *
59056471 AGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
59056496 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * * *
59056521 AGAATTAGAATCAGTATGAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
*
59056546 AGAATCAGAATC-GAAATTAGGTGAC
1 AGAATCAGAATCAG-AATCAGGTGAC
* * *
59056571 AGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTGAC
* *
59056596 GGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
59056621 AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTGAC
59056646 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
59056663 GTGAATGCAA
Statistics
Matches: 158, Mismatches: 31, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
24 1 0.01
25 156 0.99
26 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:59056465 original size:31 final size:31
Alignment explanation
Indices: 59056430--59056489 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
59056420 CAAAATTAGA
59056430 ATCAGGTGACAGAATTAGAATCAGAATCAAG
1 ATCAGGTGACAGAATTAGAATCAGAATCAAG
*
59056461 ATCAGGTGACAGAATTAGAATCAGTATCA
1 ATCAGGTGACAGAATTAGAATCAGAATCA
59056490 GGTAACAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (31 bp):
ATCAGGTGACAGAATTAGAATCAGAATCAAG
Found at i:59056480 original size:50 final size:51
Alignment explanation
Indices: 59056446--59056662 Score: 311
Period size: 50 Copynumber: 4.3 Consensus size: 51
59056436 TGACAGAATT
*
59056446 AGAATCAGAATCA-AGATCAGGTGACAGAATTAGAATCA-GTATCAGGTAAC
1 AGAATCAGAATCAGA-ATTAGGTGACAGAATTAGAATCAGGTATCAGGTAAC
*
59056496 AGAATCAGAATCAGAATTAGGTGACAGAATTAGAATCA-GTATGAGGTAAC
1 AGAATCAGAATCAGAATTAGGTGACAGAATTAGAATCAGGTATCAGGTAAC
* *
59056546 AGAATCAGAATC-GAAATTAGGTGACAGAATCAGAATCA-GTATCAGGTAAT
1 AGAATCAGAATCAG-AATTAGGTGACAGAATTAGAATCAGGTATCAGGTAAC
* * *
59056596 GGAATCAGAATCAGAATTAGGTGACAGAATCAAAATCA-GTATCAGGTAAC
1 AGAATCAGAATCAGAATTAGGTGACAGAATTAGAATCAGGTATCAGGTAAC
59056646 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
59056663 GTGAATGCAA
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
49 1 0.01
50 152 0.98
51 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (51 bp):
AGAATCAGAATCAGAATTAGGTGACAGAATTAGAATCAGGTATCAGGTAAC
Found at i:59056550 original size:100 final size:99
Alignment explanation
Indices: 59056446--59056658 Score: 345
Period size: 100 Copynumber: 2.1 Consensus size: 99
59056436 TGACAGAATT
*
59056446 AGAATCAGAATCAAGATCAGGTGACAGAATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGA
1 AGAATCAGAATCAA-ATCAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGA
* * *
59056511 ATTAGGTGACAGAATTAGAATCAGTATGAGGTAAC
65 ATTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
* **
59056546 AGAATCAGAATCGAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAATGGAATCAGAATCAGA
1 AGAATCAGAATC-AAATCAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGA
59056611 ATTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
65 ATTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
59056646 AGAATCAGAATCA
1 AGAATCAGAATCA
59056659 GAATGTGAAT
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
99 1 0.01
100 102 0.97
101 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.21
Consensus pattern (99 bp):
AGAATCAGAATCAAATCAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
TTAGGTGACAGAATCAAAATCAGTATCAGGTAAC
Found at i:59056829 original size:27 final size:26
Alignment explanation
Indices: 59056787--59056887 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 26
59056777 CTGCCAAAAC
** * *
59056787 AGATATTGTGATAGAGTCACCAGATAG
1 AGATATTGTGGCAGAGCCACCAGA-AA
59056814 AGATATTGTGGCAGAGCCACCAGAAA
1 AGATATTGTGGCAGAGCCACCAGAAA
*
59056840 AGATATTTGTGGCATAGCCACCAGAAA
1 AGATA-TTGTGGCAGAGCCACCAGAAA
* *
59056867 CAGATAATGTGGCAAAGCCAC
1 -AGATATTGTGGCAGAGCCAC
59056888 TTAACAGAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.09
27 54 0.83
28 5 0.08
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGGCAGAGCCACCAGAAA
Found at i:59058447 original size:29 final size:29
Alignment explanation
Indices: 59058415--59058487 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
59058405 CTTCGAGCTC
*
59058415 GCACACTCAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
59058444 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
59058473 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
59058488 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:59065340 original size:29 final size:29
Alignment explanation
Indices: 59065307--59065525 Score: 206
Period size: 29 Copynumber: 7.6 Consensus size: 29
59065297 GTGACGAGAT
59065307 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
**
59065336 TGGCACTAAGTGTGCGTATTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59065365 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
59065394 AGGCACTAAGTGTGCGTGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * * ** *
59065423 TGACACCATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
59065452 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * * * *
59065481 TGGCACTGTGTGTGCGGGCT-TAAATTGTG
1 TGGCACTAAGTGTGCGTGCTGGAAA-TATA
59065510 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
59065526 AAATCGAGTA
Statistics
Matches: 158, Mismatches: 31, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
28 2 0.01
29 156 0.99
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:59073449 original size:29 final size:29
Alignment explanation
Indices: 59073416--59073533 Score: 200
Period size: 29 Copynumber: 4.1 Consensus size: 29
59073406 GTGACGAGAT
59073416 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
59073445 TGGCACTAAGTGTGCGTACTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59073474 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
59073503 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
59073532 TG
1 TG
59073534 ACTCCATGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 83 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Done.