Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 193 of 373
Found at i:64788888 original size:43 final size:42
Alignment explanation
Indices: 64788771--64788888 Score: 98
Period size: 43 Copynumber: 2.8 Consensus size: 42
64788761 GATTTAAGAT
* * * * * *
64788771 TTACGTGTAAGACCATGTTTGGGACATCGACATCATATCTGA
1 TTACATGTAAGACCACGTCTGGGACGTAGGCATCATATCTGA
* *
64788813 TTTCATGTAAGA-CACTGTCTAGGACAG-AGGCATCGATAT-TGAA
1 TTACATGTAAGACCAC-GTCTGGGAC-GTAGGCATC-ATATCTG-A
*
64788856 TTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 TTACATGTAAGACCACGTCTGGGACGTAGGCAT
64788889 TGTACTTGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
41 2 0.03
42 25 0.42
43 29 0.49
44 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGACGTAGGCATCATATCTGA
Found at i:64792255 original size:13 final size:13
Alignment explanation
Indices: 64792237--64792264 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
64792227 ACATATTATA
64792237 AATATTTTGTGTT
1 AATATTTTGTGTT
64792250 AATATTTTGTGTT
1 AATATTTTGTGTT
64792263 AA
1 AA
64792265 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:64793738 original size:40 final size:40
Alignment explanation
Indices: 64793681--64794007 Score: 507
Period size: 40 Copynumber: 8.2 Consensus size: 40
64793671 GGACTTAGAT
*
64793681 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
64793721 CTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
64793761 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
64793801 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
64793841 CCGAAGGCATTTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
64793882 CCGAAGGCATTTGTG-TGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCT-AGTGACTATATCCGGGCTAAGTC
*
64793922 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
64793962 CCAAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
64794001 CCGAAGG
1 CCGAAGG
64794008 TACTTGGGTT
Statistics
Matches: 264, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.06
40 209 0.79
41 40 0.15
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:64793955 original size:161 final size:159
Alignment explanation
Indices: 64793681--64794007 Score: 557
Period size: 161 Copynumber: 2.0 Consensus size: 159
64793671 GGACTTAGAT
* *
64793681 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
*
64793746 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
66 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCAAAGGCAT
*
64793811 TTGTGCGAGTTACTATATCCGGGCTAAGTC
131 TTGTGCGAGTTACTATATCC-GGCTAAATC
* *
64793841 CCGAAGGCATTTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTAC
1 CCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGAC
64793905 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCAAAGGC
64 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCAAAGGC
*
64793970 ATTTGTGCGAGTTGCTATATCCGGCTAAATC
129 ATTTGTGCGAGTTACTATATCCGGCTAAATC
64794001 CCGAAGG
1 CCGAAGG
64794008 TACTTGGGTT
Statistics
Matches: 158, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
160 25 0.16
161 133 0.84
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (159 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA
TATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCCAAAGGCAT
TTGTGCGAGTTACTATATCCGGCTAAATC
Found at i:64800021 original size:22 final size:22
Alignment explanation
Indices: 64799996--64800046 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
64799986 CATACTGGGG
**
64799996 GCATTCCAGTCTATTGGGTTGA
1 GCATTCCAGTCTATTGGGTCAA
*
64800018 GCATTCTAGTCTATTGGGTCAA
1 GCATTCCAGTCTATTGGGTCAA
64800040 GCATTCC
1 GCATTCC
64800047 CAGCACTAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (22 bp):
GCATTCCAGTCTATTGGGTCAA
Found at i:64802878 original size:42 final size:42
Alignment explanation
Indices: 64802797--64802881 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
64802787 CATTGCCAAC
* *
64802797 GCCATGCCCCAGACATGGTCTTATACGAGACCTCATATCGAT
1 GCCATGCCCCAGACATGGTCTTATACGAAACCACATATCGAT
* * * *
64802839 GCCATGTCCCAGTCATGGTCTTATACGAAATCACTTATCGAT
1 GCCATGCCCCAGACATGGTCTTATACGAAACCACATATCGAT
64802881 G
1 G
64802882 AAGAAGCCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (42 bp):
GCCATGCCCCAGACATGGTCTTATACGAAACCACATATCGAT
Found at i:64805492 original size:16 final size:15
Alignment explanation
Indices: 64805473--64805502 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
64805463 TGCATTTCAT
64805473 TTGCATTTAGGTTAAC
1 TTGCATTTA-GTTAAC
64805489 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
64805503 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:64807913 original size:37 final size:35
Alignment explanation
Indices: 64807871--64807980 Score: 107
Period size: 34 Copynumber: 3.0 Consensus size: 35
64807861 GTTTATATCT
64807871 TTTTAATATGTTCAATTTTTTCTATATTTTTTATAAA
1 TTTTAATATGTTCAATTTTTT-TATATTTTTTA-AAA
* * *
64807908 TTTTAAATAGTTTTTCTATTTTTTTATATTTTCTAAAA
1 TTTT-AATA--TGTTCAATTTTTTTATATTTTTTAAAA
*
64807946 -TTT-ATAATGTTCAATGTTTTTATATATTTTTAAAA
1 TTTTAAT-ATGTTCAATTTTTTTATAT-TTTTTAAAA
64807981 AATTGTAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
34 15 0.25
35 10 0.16
36 1 0.02
37 7 0.11
38 7 0.11
39 10 0.16
40 11 0.18
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.61
Consensus pattern (35 bp):
TTTTAATATGTTCAATTTTTTTATATTTTTTAAAA
Found at i:64807999 original size:28 final size:28
Alignment explanation
Indices: 64807963--64808032 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
64807953 TGTTCAATGT
**
64807963 TTTTATATATTTTTAAAAAATTGTAATAA
1 TTTT-TATATTTTTAAAAAATTAAAATAA
* * *
64807992 TTTTTATATTTTTTATAAATTAAAATAT
1 TTTTTATATTTTTAAAAAATTAAAATAA
*
64808020 TTTTTACATTTTT
1 TTTTTATATTTTT
64808033 TGCCACTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (28 bp):
TTTTTATATTTTTAAAAAATTAAAATAA
Found at i:64811344 original size:44 final size:44
Alignment explanation
Indices: 64811281--64811369 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
64811271 GCTCCAAAGC
64811281 TTGATTAGGATTACCAGTCCAGGCTAAACCCTAATCTTAACGCA
1 TTGATTAGGATTACCAGTCCAGGCTAAACCCTAATCTTAACGCA
*
64811325 TTGATTAGGATTACTAGTCCAGGCTAAACCCTAATCTTAACGCA
1 TTGATTAGGATTACCAGTCCAGGCTAAACCCTAATCTTAACGCA
64811369 T
1 T
64811370 ACTCGAGAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (44 bp):
TTGATTAGGATTACCAGTCCAGGCTAAACCCTAATCTTAACGCA
Found at i:64822739 original size:28 final size:27
Alignment explanation
Indices: 64822640--64822728 Score: 117
Period size: 27 Copynumber: 3.2 Consensus size: 27
64822630 AGGAAGCGTC
*
64822640 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAGA-TATCTGTT
* *
64822668 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAGATATCTGTT
64822695 CTGGTGGCACTGCCACAGATATCTGTAT
1 CTGGTGGCACTGCCACAGATATCTGT-T
64822723 CTGGTG
1 CTGGTG
64822729 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
27 32 0.58
28 23 0.42
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAGATATCTGTT
Found at i:64828547 original size:39 final size:39
Alignment explanation
Indices: 64828430--64828653 Score: 211
Period size: 39 Copynumber: 5.6 Consensus size: 39
64828420 GCTACTCGTT
* * *
64828430 CAAATGCCTTCCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTT-CGGGCTTAGCCCGGAAT-TAGTAACTCGCA
* * *
64828470 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
* *
64828510 CAAATGCCTTTGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * *
64828549 TAAATGCCTTCGAGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
** * * * *
64828588 CAAATGCCTTCAGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGAAT-TAGTAAC-TCGCA
64828629 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
64828654 CATCATTCAA
Statistics
Matches: 155, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
39 74 0.48
40 71 0.46
41 10 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:64828607 original size:79 final size:79
Alignment explanation
Indices: 64828458--64828653 Score: 200
Period size: 79 Copynumber: 2.5 Consensus size: 79
64828448 AGCCCGGTTA
* * * * *
64828458 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTTGG
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTAGA
64828523 GCTTAGCCCGGAAT
66 GCTTAGCCCGGAAT
* * * *
64828537 TAGTATCTCGCATAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCAG
1 TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTT-AG
* *
64828601 ATCTTAGTCCGG-AT
65 AGCTTAGCCCGGAAT
* * * * *
64828615 ATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 -TAGTAAC-TCGCACAAATGCCTTCGAGACTTAACCCGGA
64828654 CATCATTCAA
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
78 34 0.35
79 44 0.46
80 18 0.19
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (79 bp):
TAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTAGA
GCTTAGCCCGGAAT
Found at i:64833595 original size:27 final size:27
Alignment explanation
Indices: 64833537--64833626 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
64833527 AGGAAGCGTC
64833537 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
64833565 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
64833592 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
64833621 CTGGTG
1 CTGGTG
64833627 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:64833645 original size:55 final size:56
Alignment explanation
Indices: 64833537--64833651 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
64833527 AGGAAGCGTC
* *
64833537 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
64833592 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
64833648 CTGG
1 CTGG
64833652 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:64837819 original size:23 final size:24
Alignment explanation
Indices: 64837768--64837830 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
64837758 CAACCGAATT
***
64837768 CGCACACATAGTGCACAAGGATTTT
1 CGCACACATAGTGC-CAAGGATACA
64837793 CGCACACATAGTGCCAA-GATACA
1 CGCACACATAGTGCCAAGGATACA
*
64837816 CGCACACTTAGTGCC
1 CGCACACATAGTGCC
64837831 TCGAAAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 17 0.50
24 3 0.09
25 14 0.41
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (24 bp):
CGCACACATAGTGCCAAGGATACA
Found at i:64844110 original size:16 final size:15
Alignment explanation
Indices: 64844081--64844111 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
64844071 TAAAATAATT
64844081 ATAAAATATAATATA
1 ATAAAATATAATATA
64844096 ATAAAATAATAATATA
1 ATAAAAT-ATAATATA
64844112 TACTAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAAATATAATATA
Found at i:64858425 original size:48 final size:47
Alignment explanation
Indices: 64858311--64858431 Score: 136
Period size: 47 Copynumber: 2.6 Consensus size: 47
64858301 TATAATATTG
** * * *
64858311 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTCCATCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCCATCAAGTCA
* * *
64858358 ATGCCATGTTCCAGACATGGTCTTACACTAACACCTCTAT-ATGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCCATCAAGT--CA
*
64858406 ATGCCATGTCCCAGACATGGTTTTAC
1 ATGCCATGTCCCAGACATGGTCTTAC
64858432 TCTGACACAT
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 3 0.05
47 34 0.55
48 25 0.40
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCCATCAAGTCA
Found at i:64866285 original size:46 final size:46
Alignment explanation
Indices: 64866181--64866400 Score: 198
Period size: 46 Copynumber: 4.7 Consensus size: 46
64866171 CTATATGTGC
* * *
64866181 CGATGCCATGTCCCAGACATGGTCTTACTCT-G-ACACATCTCGTA-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTCG-AGGT
* * *
64866227 CGACGCATGTCCCAGACATGTCTTACACTGGCT-TACCTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCGAGGT
* * * *
64866273 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGT
* * * *
64866319 CGATGCCATGTCCCAAACATGGTCTTACGCTGGCTCTCATAAT-GTGGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCGAGGT
* *
64866367 TGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTC
64866401 ACAAATGACC
Statistics
Matches: 142, Mismatches: 24, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
44 9 0.06
45 16 0.11
46 67 0.47
47 27 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCGAGGT
Found at i:64866352 original size:94 final size:94
Alignment explanation
Indices: 64865985--64866400 Score: 307
Period size: 94 Copynumber: 4.4 Consensus size: 94
64865975 AGGGTATAAT
* * *
64865985 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCGTCCT-TCAA-GTTGATGCCAAGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCCTCTCAATGTCGATGCCATGTCCC
* *
64866048 AAACATGGTATTACACTAACTATCAAAATCGAG
65 AAACATGGTCTTACACTAAC--TC-ATATCGAG
* * * * **
64866081 GCCAACGCCATGTCCCAGAAATGGTCTTACACTAGCTCTCACACATCCGTGTCGATGCCATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC-CTC-TCAATGTCGATGCCATGTCC
* * * * **
64866146 CAAACATGGACTTACGCTAACTCCTCTATATG
64 CAAACATGGTCTTACACTAACTCATATCGA-G
* * * * * *
64866178 TGCCGATGCCATGTCCCAGACATGGTCTTACTCT-G-ACACATCTC-GTAGTCGACG-CATGTCC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCTCTCAAT-GTCGATGCCATGTCC
* ** * *
64866239 CAGACAT-GTCTTACACTGGCTTACCTCTCGAG
64 CAAACATGGTCTTACACTAAC-T-CATATCGAG
*
64866271 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCTCTCAATGTCGATGCCATGTCCCA
* ** *
64866334 AACATGGTCTTACGCTGGCTCTCATAAT-GTG
66 AACATGGTCTTACACT--AACTCAT-ATCGAG
**
64866365 GTTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
64866401 ACAAATGACC
Statistics
Matches: 255, Mismatches: 48, Indels: 36
0.75 0.14 0.11
Matches are distributed among these distances:
90 9 0.04
91 15 0.06
92 28 0.11
93 31 0.12
94 61 0.24
95 5 0.02
96 40 0.16
97 4 0.02
98 31 0.12
99 31 0.12
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCCTCTCAATGTCGATGCCATGTCCCA
AACATGGTCTTACACTAACTCATATCGAG
Found at i:64870705 original size:21 final size:20
Alignment explanation
Indices: 64870677--64870715 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
64870667 TATTCAGTAA
*
64870677 AAATATTTCAAAATACTTTC
1 AAATATTTCAAAACACTTTC
64870697 AAATCATTTCAAAACACTT
1 AAAT-ATTTCAAAACACTT
64870716 CATTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATTTCAAAACACTTTC
Found at i:64871771 original size:27 final size:26
Alignment explanation
Indices: 64871740--64871800 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 26
64871730 CATACATCTC
64871740 ATAGGGGCATAACAGTCATTTTATCA
1 ATAGGGGCATAACAGTCATTTTATCA
**
64871766 TATAGGGGCATTTCAGTCATTTTATCA
1 -ATAGGGGCATAACAGTCATTTTATCA
64871793 ATTAGGGG
1 A-TAGGGG
64871801 GTCTAGGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 1 0.03
27 30 0.97
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (26 bp):
ATAGGGGCATAACAGTCATTTTATCA
Found at i:64874740 original size:39 final size:40
Alignment explanation
Indices: 64874589--64874758 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
64874579 GGACTAAGAT
* * *
64874589 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
64874629 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
64874669 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
64874709 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
64874748 CCGAAGGCATT
1 CCGAAGGCATT
64874759 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:64874778 original size:79 final size:80
Alignment explanation
Indices: 64874611--64874793 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
64874601 GTGCGAGATA
* * * *
64874611 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
64874676 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
64874691 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
64874755 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
64874770 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
64874794 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:64880163 original size:39 final size:40
Alignment explanation
Indices: 64880012--64880181 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
64880002 GGACTAAGAT
* * *
64880012 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
64880052 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
64880092 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
64880132 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
64880171 CCGAAGGCATT
1 CCGAAGGCATT
64880182 TGAACGAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:64880201 original size:79 final size:80
Alignment explanation
Indices: 64880034--64880216 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
64880024 GTGCGAGATA
* * * *
64880034 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
64880099 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
64880114 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
64880178 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
64880193 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
64880217 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.55
80 24 0.28
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:64889503 original size:18 final size:18
Alignment explanation
Indices: 64889481--64889535 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 18
64889471 ATAGCAAGTA
64889481 ACATAATCATGCAATTCC
1 ACATAATCATGCAATTCC
*
64889499 CCATAAACATCATTTGCAATTCC
1 ACAT--A-ATCA--TGCAATTCC
64889522 ACATAATCATGCAA
1 ACATAATCATGCAA
64889536 ATAGTAAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
18 8 0.27
20 5 0.17
21 5 0.17
23 12 0.40
ACGTcount: A:0.40, C:0.27, G:0.05, T:0.27
Consensus pattern (18 bp):
ACATAATCATGCAATTCC
Found at i:64892544 original size:13 final size:14
Alignment explanation
Indices: 64892526--64892554 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64892516 AGTATTTAAT
64892526 AATAAAT-AAACAA
1 AATAAATAAAACAA
64892539 AATAAATAAAACAA
1 AATAAATAAAACAA
64892553 AA
1 AA
64892555 ATCACATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
AATAAATAAAACAA
Found at i:64902733 original size:13 final size:13
Alignment explanation
Indices: 64902715--64902754 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
64902705 GCTCGATAGG
64902715 GACACGCCCGTGT
1 GACACGCCCGTGT
*
64902728 GACACGCCCATGT
1 GACACGCCCGTGT
64902741 GACACGCCCGTGT
1 GACACGCCCGTGT
64902754 G
1 G
64902755 CTATTTCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.17, C:0.38, G:0.30, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:64916660 original size:20 final size:20
Alignment explanation
Indices: 64916637--64916675 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
64916627 GACACGGGCA
64916637 TGTCCCAATACACACAAGCG
1 TGTCCCAATACACACAAGCG
*
64916657 TGTCCCAATGCACACAAGC
1 TGTCCCAATACACACAAGC
64916676 ATTCTCGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.36, G:0.15, T:0.15
Consensus pattern (20 bp):
TGTCCCAATACACACAAGCG
Found at i:64917284 original size:19 final size:21
Alignment explanation
Indices: 64917260--64917307 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
64917250 TTAAAGATTC
*
64917260 ATTTCACAT-ACATT-TTCAA
1 ATTTCAAATAACATTATTCAA
64917279 ATTTCAAATAAACATTATTCAA
1 ATTTCAAAT-AACATTATTCAA
64917301 A-TTCAAA
1 ATTTCAAA
64917308 CACATTGCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
21 11 0.44
22 6 0.24
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTTCAAATAACATTATTCAA
Found at i:64929355 original size:18 final size:18
Alignment explanation
Indices: 64929315--64929355 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
64929305 AGGCCATTCC
64929315 TGGGCTGTGTGGGCCACA
1 TGGGCTGTGTGGGCCACA
*
64929333 CGGGC-GTGTGGGCCCACA
1 TGGGCTGTGTGGG-CCACA
64929351 TGGGC
1 TGGGC
64929356 CCATATTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.10, C:0.27, G:0.46, T:0.17
Consensus pattern (18 bp):
TGGGCTGTGTGGGCCACA
Found at i:64930337 original size:18 final size:18
Alignment explanation
Indices: 64930290--64930338 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
64930280 TAGAATGATG
*
64930290 TTTTTGGAAATAAATAAC
1 TTTTTGGAAGTAAATAAC
64930308 TATTTT-GAAGTAAATAA-
1 T-TTTTGGAAGTAAATAAC
64930325 TTTTTGGATAGTAA
1 TTTTTGGA-AGTAA
64930339 TGCAAGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 4 0.15
17 3 0.11
18 16 0.59
19 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (18 bp):
TTTTTGGAAGTAAATAAC
Found at i:64932101 original size:43 final size:44
Alignment explanation
Indices: 64931999--64932104 Score: 146
Period size: 43 Copynumber: 2.5 Consensus size: 44
64931989 ATGTGTTCTC
* * *
64931999 ATGTAAGACCATGTCTAGGACATTGGCATCGATAAGTGATTACG
1 ATGTAAGACCACGTCTGGGACAGTGGCATCGATAAGTGATTACG
*
64932043 -TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTA-G
1 ATGTAAGACCAC-GTCTGGGACAGTGGCATCGATAAGTGATTACG
64932085 ATGTAAGACCACGTCTGGGA
1 ATGTAAGACCACGTCTGGGA
64932105 TGTTGGGATT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
42 1 0.02
43 53 0.96
44 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (44 bp):
ATGTAAGACCACGTCTGGGACAGTGGCATCGATAAGTGATTACG
Found at i:64932507 original size:18 final size:19
Alignment explanation
Indices: 64932480--64932519 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
64932470 CGGCTAAGAT
*
64932480 AAAGTTTATA-TATATATG
1 AAAGTATATATTATATATG
*
64932498 AAAGTATATATTGTATATG
1 AAAGTATATATTATATATG
64932517 AAA
1 AAA
64932520 CTGTAAGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (19 bp):
AAAGTATATATTATATATG
Found at i:64936170 original size:26 final size:26
Alignment explanation
Indices: 64936133--64936239 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
64936123 CCAGTTTGTA
* * * *
64936133 AAATTACTGAAATATCCTTTTAGGGT
1 AAATTACCGAAATACCCCTATAGGGT
64936159 AAATTACCGAAATACCCCTATAGGGT
1 AAATTACCGAAATACCCCTATAGGGT
* *
64936185 AAATTATCGAAATACCCCTGTAGGGT
1 AAATTACCGAAATACCCCTATAGGGT
* * *
64936211 AAATTACAGAAATACCCCTGTATGGT
1 AAATTACCGAAATACCCCTATAGGGT
64936237 AAA
1 AAA
64936240 ATGACGTTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (26 bp):
AAATTACCGAAATACCCCTATAGGGT
Found at i:64936523 original size:25 final size:25
Alignment explanation
Indices: 64936494--64936677 Score: 181
Period size: 25 Copynumber: 7.4 Consensus size: 25
64936484 TCTGATTATA
* *
64936494 GCTTTGTGCC-AGTATGCTATTGAAG
1 GCTTTGTGCCGA-TATGATATTGATG
* * * *
64936519 GCTTTGTGCTGATATGCTATCGAAG
1 GCTTTGTGCCGATATGATATTGATG
* * *
64936544 GCTTCGTGCCGGTATGTTATTGATG
1 GCTTTGTGCCGATATGATATTGATG
*
64936569 GCTTTGTGCCGAAATGATATTGATG
1 GCTTTGTGCCGATATGATATTGATG
* * * *
64936594 GCTATGTGTCGATCTGTTATTGATG
1 GCTTTGTGCCGATATGATATTGATG
64936619 GCTTTGTGCCGATATGATATTGATG
1 GCTTTGTGCCGATATGATATTGATG
* * * **
64936644 GCTATGTGCCGATCTGTTATCAATG
1 GCTTTGTGCCGATATGATATTGATG
64936669 GCTTTGTGC
1 GCTTTGTGC
64936678 TAATATTATT
Statistics
Matches: 131, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
25 130 0.99
26 1 0.01
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (25 bp):
GCTTTGTGCCGATATGATATTGATG
Found at i:64936612 original size:50 final size:50
Alignment explanation
Indices: 64936511--64936677 Score: 210
Period size: 50 Copynumber: 3.3 Consensus size: 50
64936501 GCCAGTATGC
* * * * * * * *
64936511 TATTGAAGGCTTTGTGCTGATATGCTATCGAAGGCT-TCGTGCCGGTATGT
1 TATTGATGGCTTTGTGCCGAAATGATATTGATGGCTAT-GTGCCGATCTGT
*
64936561 TATTGATGGCTTTGTGCCGAAATGATATTGATGGCTATGTGTCGATCTGT
1 TATTGATGGCTTTGTGCCGAAATGATATTGATGGCTATGTGCCGATCTGT
*
64936611 TATTGATGGCTTTGTGCCGATATGATATTGATGGCTATGTGCCGATCTGT
1 TATTGATGGCTTTGTGCCGAAATGATATTGATGGCTATGTGCCGATCTGT
**
64936661 TATCAATGGCTTTGTGC
1 TATTGATGGCTTTGTGC
64936678 TAATATTATT
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
50 102 0.99
51 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.39
Consensus pattern (50 bp):
TATTGATGGCTTTGTGCCGAAATGATATTGATGGCTATGTGCCGATCTGT
Found at i:64940641 original size:12 final size:12
Alignment explanation
Indices: 64940624--64940648 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64940614 TTCAGCCATG
64940624 TTGATGATAGTT
1 TTGATGATAGTT
64940636 TTGATGATAGTT
1 TTGATGATAGTT
64940648 T
1 T
64940649 AAGCTGTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (12 bp):
TTGATGATAGTT
Found at i:64947820 original size:16 final size:16
Alignment explanation
Indices: 64947784--64947821 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
64947774 TGGCTAAACT
64947784 TTTATTGTTAAATTCGA
1 TTTA-TGTTAAATTCGA
*
64947801 -TTATGTTAAGTTCGA
1 TTTATGTTAAATTCGA
64947816 TTTATG
1 TTTATG
64947822 CTCACTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTATGTTAAATTCGA
Found at i:64952006 original size:27 final size:27
Alignment explanation
Indices: 64951975--64952027 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64951965 GCATCAGATA
*
64951975 CTGATTCTG-TACTGGGCTTAGGCCCAT
1 CTGATTCTGTTAATGGGC-TAGGCCCAT
*
64952002 CTGATTTTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTTAATGGGCTAGGCCCA
64952028 ACTGTTATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (27 bp):
CTGATTCTGTTAATGGGCTAGGCCCAT
Found at i:64958717 original size:40 final size:40
Alignment explanation
Indices: 64958507--64958726 Score: 205
Period size: 40 Copynumber: 5.5 Consensus size: 40
64958497 ACCCAAGTAT
* ** * *
64958507 CTTCGGGATTTAGCC-GGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
* * * *
64958545 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
* * *
64958585 CTTCGGGACTTAGCCGGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
* * *
64958625 CTTCGGGGCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCTGGATATAGTC-ACTAGCACAAATGC
* * *
64958665 CTTC-GGATCTTAGTCTGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCTGGATATAGTCACTAGCACAAATGC
* * *
64958705 GTTCGAGACTTAGCTTGGATAT
1 CTTCGGGACTTAGCCTGGATAT
64958727 CATTCAAATA
Statistics
Matches: 147, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
38 13 0.09
39 16 0.11
40 115 0.78
41 3 0.02
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
Found at i:64975891 original size:26 final size:26
Alignment explanation
Indices: 64975833--64975884 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
64975823 ATACTACAAT
* *
64975833 TATGGCAGCTAGACTGTAAATCTATG
1 TATGGCAGCTAGACTGCAAATATATG
64975859 TATGGCAGCTTAG-CTGCAAATATATG
1 TATGGCAGC-TAGACTGCAAATATATG
64975885 AGTGGCACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (26 bp):
TATGGCAGCTAGACTGCAAATATATG
Found at i:64976022 original size:30 final size:30
Alignment explanation
Indices: 64975988--64976046 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
64975978 ATGGGGGTAG
64975988 GATATGATATGTTATACTATGATTTGATCC
1 GATATGATATGTTATACTATGATTTGATCC
* *
64976018 GATATGATATGTTATGCTATGGTTTGATC
1 GATATGATATGTTATACTATGATTTGATC
64976047 TAATATGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.27, C:0.08, G:0.20, T:0.44
Consensus pattern (30 bp):
GATATGATATGTTATACTATGATTTGATCC
Found at i:64976053 original size:30 final size:30
Alignment explanation
Indices: 64975989--64976053 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
64975979 TGGGGGTAGG
*
64975989 ATATGATATGTTATACTATGATTTGATCCG
1 ATATGATATGTTATACTATGATTTGATCCA
* * *
64976019 ATATGATATGTTATGCTATGGTTTGATCTA
1 ATATGATATGTTATACTATGATTTGATCCA
64976049 ATATG
1 ATATG
64976054 CTATTCAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (30 bp):
ATATGATATGTTATACTATGATTTGATCCA
Found at i:64978763 original size:16 final size:16
Alignment explanation
Indices: 64978744--64978774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
64978734 TTCTATTGAA
*
64978744 ATCACTTAACAAAATC
1 ATCACATAACAAAATC
64978760 ATCACATAACAAAAT
1 ATCACATAACAAAAT
64978775 TAGAACTTCA
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:0.23, G:0.00, T:0.23
Consensus pattern (16 bp):
ATCACATAACAAAATC
Found at i:64979606 original size:44 final size:44
Alignment explanation
Indices: 64979545--64979634 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
64979535 GTTGAAATGG
* * * *
64979545 AATAGAAGTTGTGATAATTATACATTTAAAAATAATTATAATTT
1 AATAAAAGTTGTAATAATTACACATTTAAAAATAATTAGAATTT
*
64979589 AATAAAAGTTGTAATAATTACACATTTACAAATAATTAGAATTT
1 AATAAAAGTTGTAATAATTACACATTTAAAAATAATTAGAATTT
64979633 AA
1 AA
64979635 ATTACAATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (44 bp):
AATAAAAGTTGTAATAATTACACATTTAAAAATAATTAGAATTT
Found at i:64986035 original size:23 final size:23
Alignment explanation
Indices: 64986009--64986060 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
64985999 ATAAATATTT
* *
64986009 AATATTAATTTTTTAATGTATA-A
1 AATATTAATATTTAAAT-TATATA
*
64986032 AATATGAATATTTAAATTATATA
1 AATATTAATATTTAAATTATATA
64986055 AATATT
1 AATATT
64986061 TGTATTTGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AATATTAATATTTAAATTATATA
Found at i:64987832 original size:43 final size:43
Alignment explanation
Indices: 64987784--64987907 Score: 151
Period size: 43 Copynumber: 2.9 Consensus size: 43
64987774 GTTATTGAGA
* * * *
64987784 TGTGATTATATTTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
64987827 TGTGATTACGTGTAAGACCATGTCTGGGACATTAGCATCGTAT
1 TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
64987870 TATGATT-TCGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 TGTGATTAT-GTGTAAGACCATGTCTGGGACATTGGCAT
64987908 GATATATGAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:64988665 original size:8 final size:8
Alignment explanation
Indices: 64988652--64988677 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
64988642 GACATGAAAT
64988652 AGTTGATA
1 AGTTGATA
64988660 AGTTGATA
1 AGTTGATA
64988668 AGTTGATA
1 AGTTGATA
64988676 AG
1 AG
64988678 GAAATGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.35
Consensus pattern (8 bp):
AGTTGATA
Found at i:64990274 original size:23 final size:24
Alignment explanation
Indices: 64990236--64990280 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
64990226 TTTGCTCTTC
*
64990236 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
64990260 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
64990281 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:64990539 original size:55 final size:53
Alignment explanation
Indices: 64990408--64990603 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 53
64990398 CTTACCATTG
* * *
64990408 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCGCCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATA
* * * *
64990461 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATA
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATA
*** * *
64990516 CCATGTCTTGACATGGTCTTACATGATCTCCTTGCCTTA-GAAACCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TA
* * *
64990571 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
64990604 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 37 0.31
54 8 0.07
55 69 0.58
56 2 0.02
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATA
Found at i:64995276 original size:17 final size:17
Alignment explanation
Indices: 64995250--64995307 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
64995240 ACTTTTCCTT
* *
64995250 CTATTGTATTGTATGAA
1 CTATTATATTGAATGAA
64995267 CTATTATATTGAATGAA
1 CTATTATATTGAATGAA
*
64995284 CTATTAT-TATGCATGAA
1 CTATTATAT-TGAATGAA
64995301 CTATTAT
1 CTATTAT
64995308 TTTTTGCGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 1 0.03
17 36 0.97
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (17 bp):
CTATTATATTGAATGAA
Found at i:64995308 original size:17 final size:18
Alignment explanation
Indices: 64995256--64995308 Score: 74
Period size: 17 Copynumber: 3.1 Consensus size: 18
64995246 CCTTCTATTG
*
64995256 TATTGTATGAACTATTA-
1 TATTGAATGAACTATTAT
64995273 TATTGAATGAACTATTAT
1 TATTGAATGAACTATTAT
*
64995291 TA-TGCATGAACTATTAT
1 TATTGAATGAACTATTAT
64995308 T
1 T
64995309 TTTTGCGAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
17 31 0.94
18 2 0.06
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (18 bp):
TATTGAATGAACTATTAT
Found at i:65002225 original size:50 final size:48
Alignment explanation
Indices: 65002115--65002340 Score: 192
Period size: 50 Copynumber: 4.7 Consensus size: 48
65002105 ATGGTAAGAT
* * * *
65002115 GCCGACGCCATATCTCC-GACATGGTCTTACACTG-GCTCATACATCTAA
1 GCCGATGCCATGTC-CCAGACATGGTCTTACACTGATCTCATATATC-AA
**
65002163 GTTGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-TCTCATATATCAA
* * * * * * * *
65002212 GACTGATGCCATGTCCCAAATATGGTCTTACACTGGCTTTCATCTGTCAGT
1 G-CCGATGCCATGTCCCAGACATGGTCTTACACT-GATCTCATATATCA-A
* * * *
65002263 GCCGATGTCATGTCCCAAACATGGTCTTACACT-A--ACACATATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGATCTCATATATCAA
*
65002308 GCCGATGCCTTGTCCCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
65002341 AGCTCTTATA
Statistics
Matches: 146, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 30 0.21
46 6 0.04
47 2 0.01
48 27 0.18
49 3 0.02
50 76 0.52
51 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGATCTCATATATCAA
Found at i:65009513 original size:40 final size:41
Alignment explanation
Indices: 65009454--65009625 Score: 219
Period size: 40 Copynumber: 4.3 Consensus size: 41
65009444 CATTTGAATG
* * *
65009454 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
65009494 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
65009534 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * **
65009574 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
65009614 ATATCC-GGCTAA
1 ATATCCGGGCTAA
65009626 ATTCTGAAGA
Statistics
Matches: 116, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 7 0.06
40 106 0.91
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:65012764 original size:50 final size:47
Alignment explanation
Indices: 65012657--65012876 Score: 169
Period size: 50 Copynumber: 4.6 Consensus size: 47
65012647 TAAGATGCCG
* * *
65012657 ATGCCATATCCCAGACATGGTCTTACACTG-GCTCATACATCGAAGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGATCTCATATATCG-AG-CA
** * *
65012705 ATGTTATGTCCTAGACATGGTCTTACAATGACTCTCATATATCGAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-TCTCATATATCGAG-CA
* * * * * * * *
65012754 GATGTCATGTCCCAAACATGGTCTTGCACTGGCTCTCATCTGTTGGTGCCA
1 -ATGCCATGTCCCAGACATGGTCTTACACT-GATCTCATAT-ATCGAG-CA
* * *
65012805 ATGCCATGTCCCAGACATGGTCTTACACTGA---CACATATCAAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGATCTCATATATCGAG-CA
65012850 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
65012877 TTAGCTTTCA
Statistics
Matches: 137, Mismatches: 30, Indels: 13
0.76 0.17 0.07
Matches are distributed among these distances:
45 31 0.23
46 3 0.02
48 25 0.18
49 5 0.04
50 67 0.49
51 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGATCTCATATATCGAGCA
Found at i:65014328 original size:26 final size:26
Alignment explanation
Indices: 65014296--65014347 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
65014286 TCATAATACT
65014296 TAATACTTTAACTAAAATGAATTTAA
1 TAATACTTTAACTAAAATGAATTTAA
65014322 TAATACTTTAACTAAAATGAATTTAA
1 TAATACTTTAACTAAAATGAATTTAA
65014348 CCCACAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (26 bp):
TAATACTTTAACTAAAATGAATTTAA
Found at i:65014348 original size:15 final size:15
Alignment explanation
Indices: 65014302--65014348 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
65014292 TACTTAATAC
65014302 TTTAACTAAAATGAA
1 TTTAACTAAAATGAA
*
65014317 TTTAA-T--AAT-AC
1 TTTAACTAAAATGAA
65014328 TTTAACTAAAATGAA
1 TTTAACTAAAATGAA
65014343 TTTAAC
1 TTTAAC
65014349 CCACAATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
14 4 0.15
15 12 0.46
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (15 bp):
TTTAACTAAAATGAA
Found at i:65021838 original size:24 final size:24
Alignment explanation
Indices: 65021788--65021841 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
65021778 AATCGAATTT
*
65021788 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
65021812 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
65021836 GCACAC
1 GCACAC
65021842 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:65025724 original size:33 final size:34
Alignment explanation
Indices: 65025674--65025738 Score: 98
Period size: 33 Copynumber: 1.9 Consensus size: 34
65025664 TTTCATACTG
*
65025674 TACTGATTCTGTAATGGGCTTAGGCCC-CACTTA
1 TACTGATTCTGTAATGGGCTCAGGCCCACACTTA
65025707 TACT-ATTACTGTAATGGGCTCAGGCCCACACT
1 TACTGATT-CTGTAATGGGCTCAGGCCCACACT
65025739 GTTTCTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 3 0.10
33 22 0.76
34 4 0.14
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (34 bp):
TACTGATTCTGTAATGGGCTCAGGCCCACACTTA
Found at i:65032130 original size:46 final size:46
Alignment explanation
Indices: 65032077--65032252 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
65032067 TATTTGGGAA
*
65032077 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
65032123 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGTGAA-T--G
* * *
65032168 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
65032216 GCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65032253 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
45 1 0.01
46 61 0.55
47 26 0.24
48 1 0.01
49 1 0.01
50 6 0.05
51 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:65037244 original size:43 final size:40
Alignment explanation
Indices: 65037129--65037247 Score: 125
Period size: 38 Copynumber: 2.9 Consensus size: 40
65037119 AGCTCGTACA
* * *
65037129 ATGCCATATTCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCA-A-TCCAGACATGGTCTTACATGTAATCACATAACG
* * *
65037171 ATGCCAAT--AGACATAGTCTTACATGAAATCATATAACG
1 ATGCCAATCCAGACATGGTCTTACATGTAATCACATAACG
65037209 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGCCAA--T-CCAGACATGGTCTTACATGTAATCACAT
65037248 CTCGGTAATC
Statistics
Matches: 63, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
38 31 0.49
40 2 0.03
41 1 0.02
42 6 0.10
43 23 0.37
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (40 bp):
ATGCCAATCCAGACATGGTCTTACATGTAATCACATAACG
Found at i:65037900 original size:19 final size:19
Alignment explanation
Indices: 65037878--65037917 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
65037868 TCAAGCATTC
65037878 ATCAATGAC-ACTTCACAAA
1 ATCAATGACAACTTCA-AAA
*
65037897 ATCATTGACAACTTCAAAA
1 ATCAATGACAACTTCAAAA
65037916 AT
1 AT
65037918 TAAGGCATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.25
Consensus pattern (19 bp):
ATCAATGACAACTTCAAAA
Found at i:65045149 original size:14 final size:14
Alignment explanation
Indices: 65045130--65045169 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
65045120 TTCAATTCTA
65045130 ATAAGAAAAAATTT
1 ATAAGAAAAAATTT
65045144 ATAAG-AAAAATTT
1 ATAAGAAAAAATTT
*
65045157 AAAAGATAAAAAT
1 ATAAGA-AAAAAT
65045170 AAAATTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 12 0.52
14 5 0.22
15 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (14 bp):
ATAAGAAAAAATTT
Found at i:65045440 original size:20 final size:20
Alignment explanation
Indices: 65045403--65045441 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
65045393 TCAATCTTAT
*
65045403 AAATTAATTTAATATTAAAA
1 AAATTAATTAAATATTAAAA
65045423 AAATTAA-TAAATACTTAAA
1 AAATTAATTAAATA-TTAAA
65045442 CTTAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTAATTAAATATTAAAA
Found at i:65048431 original size:31 final size:31
Alignment explanation
Indices: 65048395--65048457 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
65048385 GTGTTAAAAT
*
65048395 ATAAAAATATAGTTTATTTTGTTATAAAGTA
1 ATAAAAATATAGTTTAATTTGTTATAAAGTA
65048426 ATAAAAATATAGTTTAATTTGTTATAAAGTA
1 ATAAAAATATAGTTTAATTTGTTATAAAGTA
65048457 A
1 A
65048458 AGAGAGATGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (31 bp):
ATAAAAATATAGTTTAATTTGTTATAAAGTA
Found at i:65049435 original size:32 final size:32
Alignment explanation
Indices: 65049399--65049463 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
65049389 ATAAGAGAAA
* *
65049399 TTAAAACTGTTTAATAGACTTGTGGTCACTGC
1 TTAAAACTGTTCAATAGACTTGTGGCCACTGC
65049431 TTAAAACTGTTCAATAGACTTGTGGCCACTGC
1 TTAAAACTGTTCAATAGACTTGTGGCCACTGC
65049463 T
1 T
65049464 GAGTCCTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (32 bp):
TTAAAACTGTTCAATAGACTTGTGGCCACTGC
Found at i:65056782 original size:52 final size:52
Alignment explanation
Indices: 65056720--65056826 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
65056710 TCCCACGTGG
65056720 CTTCCTCTGAACCGTGATTACGCCAAAGCACTTTGACCAGTGGAACAGATTT
1 CTTCCTCTGAACCGTGATTACGCCAAAGCACTTTGACCAGTGGAACAGATTT
*
65056772 CTTCCTCTGAACCGTGATTACGCCAAAGCACTTTGACCAGTGGAGCAGATTT
1 CTTCCTCTGAACCGTGATTACGCCAAAGCACTTTGACCAGTGGAACAGATTT
65056824 CTT
1 CTT
65056827 TCTTAATACC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (52 bp):
CTTCCTCTGAACCGTGATTACGCCAAAGCACTTTGACCAGTGGAACAGATTT
Found at i:65059884 original size:27 final size:27
Alignment explanation
Indices: 65059853--65060030 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65059843 TAAATTGTAC
65059853 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65059880 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65059906 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65059934 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65059962 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65059989 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65060016 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65060031 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65059967 original size:82 final size:81
Alignment explanation
Indices: 65059854--65060009 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65059844 AAATTGTACA
* *
65059854 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65059918 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
65059935 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
65060000 TGCGAGTTGA
65 TGCGAATTGA
65060010 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65060021 original size:82 final size:81
Alignment explanation
Indices: 65059850--65060030 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
65059840 GATTAAATTG
* *
65059850 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65059915 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65059931 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65059995 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65060013 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65060031 GGCTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65060041 original size:27 final size:27
Alignment explanation
Indices: 65059935--65060041 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
65059925 TGACCATGCG
* * * *
65059935 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
65059963 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
65059990 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
65060017 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
65060042 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:65067928 original size:27 final size:27
Alignment explanation
Indices: 65067897--65068074 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
65067887 TAAATTGTAC
65067897 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
65067924 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
65067950 ATGCACTAAGTGTGTGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
65067978 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
65068006 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
65068033 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
65068060 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
65068075 GGCTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:65068065 original size:82 final size:81
Alignment explanation
Indices: 65067894--65068074 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
65067884 GATTAAATTG
* *
65067894 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
65067959 GTGTGTGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
65067975 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
65068039 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
65068057 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
65068075 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65068085 original size:27 final size:27
Alignment explanation
Indices: 65067979--65068085 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
65067969 TGACCATGCG
* * * *
65067979 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
65068007 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
65068034 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
65068061 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
65068086 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:65079283 original size:23 final size:24
Alignment explanation
Indices: 65079248--65079316 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 24
65079238 GCTTACTTTA
65079248 CAGCTCGAAAGAGCTTACCG-T-AT
1 CAGCTC-AAAGAGCTTACCGTTCAT
* *
65079271 CAGCTCAATAGAGTTTACTGTTCAT
1 CAGCTCAA-AGAGCTTACCGTTCAT
*
65079296 CAGCTCAGGAGGAGCTTACCG
1 CAGCTCA--AAGAGCTTACCG
65079317 ATCCTGGCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
22 2 0.06
23 15 0.42
24 1 0.03
25 9 0.25
26 8 0.22
27 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (24 bp):
CAGCTCAAAGAGCTTACCGTTCAT
Found at i:65088182 original size:23 final size:23
Alignment explanation
Indices: 65088155--65088211 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
65088145 CTTATTGTTT
65088155 AGCTCGAA-AGAACTTA-CCTTATC
1 AGCTC-AATAGAACTTACCCTT-TC
*
65088178 AGCTCAATAGAGCTTACCCTTTC
1 AGCTCAATAGAACTTACCCTTTC
65088201 AGCTCAATAGA
1 AGCTCAATAGA
65088212 GTTTACTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 2 0.06
23 25 0.81
24 4 0.13
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (23 bp):
AGCTCAATAGAACTTACCCTTTC
Found at i:65088212 original size:23 final size:24
Alignment explanation
Indices: 65088167--65088217 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
65088157 CTCGAAAGAA
65088167 CTTA-CCTTATCAGCTCAATAGAG
1 CTTACCCTTATCAGCTCAATAGAG
65088190 CTTACCCTT-TCAGCTCAATAGAG
1 CTTACCCTTATCAGCTCAATAGAG
*
65088213 TTTAC
1 CTTAC
65088218 TGTTCATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.33
Consensus pattern (24 bp):
CTTACCCTTATCAGCTCAATAGAG
Found at i:65098443 original size:75 final size:71
Alignment explanation
Indices: 65098270--65098450 Score: 254
Period size: 75 Copynumber: 2.5 Consensus size: 71
65098260 GTTTGTTTAT
* * * * * *
65098270 TTTTTACATCAATAATATACTTATTTACAATTGACGAAAAAAGTGAATAAATTTGTTTATATTGT
1 TTTTTACATCAATAATATACTTATTTACAATTTATGAAAAAAATAAAAAAATTTATTTATATTGT
65098335 ATTGTA
66 ATTGTA
*
65098341 TTTTTACATCAATAATATACTTATTTACAATTTATGAAAAAAATAAAAAAAATGTTTATATTGTA
1 TTTTTACATCAATAATATACTTATTTACAATTTATGAAAAAAAT-AAAAAAA--TTTAT-TTATA
65098406 TTGTATTGTA
62 TTGTATTGTA
*
65098416 TTTTTACATCAATAATATATTTATTTACAATTTAT
1 TTTTTACATCAATAATATACTTATTTACAATTTAT
65098451 CTAAAAATGA
Statistics
Matches: 98, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
71 41 0.42
72 5 0.05
74 4 0.04
75 48 0.49
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (71 bp):
TTTTTACATCAATAATATACTTATTTACAATTTATGAAAAAAATAAAAAAATTTATTTATATTGT
ATTGTA
Found at i:65106767 original size:57 final size:59
Alignment explanation
Indices: 65106667--65106789 Score: 171
Period size: 57 Copynumber: 2.1 Consensus size: 59
65106657 TCGAAATGGA
* *
65106667 AAAAATGGTGAAATGGAAAACATTTGGAAATGATTATGGTTTTCTCCAAAATG-AAAAT
1 AAAAATGGAGAAATGGAAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAAAT
**
65106725 AAAAATGGAGAAAT-GAAATTATTTGGAAATGGATT-TGATTTTCTCCAAAATGAAAAAT
1 AAAAATGGAGAAATGGAAAACATTTGGAAAT-GATTATGATTTTCTCCAAAATGAAAAAT
*
65106783 GAAAATG
1 AAAAATG
65106790 ACCTAAAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
57 30 0.52
58 28 0.48
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (59 bp):
AAAAATGGAGAAATGGAAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAAAT
Found at i:65111525 original size:421 final size:421
Alignment explanation
Indices: 65110741--65111557 Score: 1355
Period size: 421 Copynumber: 1.9 Consensus size: 421
65110731 AATCTCGATG
* * **
65110741 AAATACCCATTGTCCGTCAATTCTTACGAATGATCATTTCACATATATGCACTCCCGTGAACCTC
1 AAATACCCATTATCCGTCAATTCTTACAAATGATCATTTCACATATATGCACTCCCGCAAACCTC
* ** * * *
65110806 ACTTCTTACGGTGATTTTACTAGTCCAGGCTTAATCCCCCGTATCGTAAACTCATAAGGTGATGT
66 ACTTCTTACGGCGAGATTACCAGTCCAAGCTAAATCCCCCGTATCGTAAACTCATAAGGTGATGT
* * * *
65110871 TGGAATTACTAGTCCAGGCCAAATCCCTTATAACGACAAACACCCTTAGTGAGCTCGGATCTGAA
131 CGGAATTACCAGTCCAGGCCAAATCCCTTAGAACGACAAACACCCTTAATGAGCTCGGATCTGAA
* * *
65110936 TTACCAGTCTAGGCTAAATTTAGACCCTAATCGGATTACTCGTCCGGGCTAAATCCATAATGCAC
196 TTACCAGTCCAGGCTAAATTCAGACCCTAATCGGATTACCCGTCCGGGCTAAATCCATAATGCAC
65111001 ACATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATACTT
261 ACATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATACTT
* *
65111066 GAGATCACGGATTACCCGTCTAGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACACAT
326 GAGATCACAGATTACCCGTCCAGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACACAT
65111131 ATCAATATATATATATGAATTACGGTTTATC
391 ATCAATATATATATATGAATTACGGTTTATC
*
65111162 AAATACCCATTATCCGTCAATTCTTACAAATGATTATTTCACATATATGCACTCCCGCAAACCTC
1 AAATACCCATTATCCGTCAATTCTTACAAATGATCATTTCACATATATGCACTCCCGCAAACCTC
* *
65111227 ACTTCTTACGGCGGGATTACCAGTCCAAGCTAAATCCCCTGTATCGTAAACTCATAAGGTGATGT
66 ACTTCTTACGGCGAGATTACCAGTCCAAGCTAAATCCCCCGTATCGTAAACTCATAAGGTGATGT
* * * *
65111292 CGGGATTACCAGTCTAGGCTAAATCCCTTAGAACGACAAACACCCTTAATGAGTTCGGATCTGAA
131 CGGAATTACCAGTCCAGGCCAAATCCCTTAGAACGACAAACACCCTTAATGAGCTCGGATCTGAA
* *
65111357 TTACTAGTCCAGGCTAAATTCAGACCCTAATTGGATTACCCGTCCGGGCTAAATCCATAATGCAC
196 TTACCAGTCCAGGCTAAATTCAGACCCTAATCGGATTACCCGTCCGGGCTAAATCCATAATGCAC
* *
65111422 ACATATTCTTCGGGAGGCTTGATCATTCAAGGAATACCTGACTGGGTTAGATCCTTTTCATACTT
261 ACATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATACTT
*
65111487 GAGATCACAGATTACCCGTCCGGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACACAT
326 GAGATCACAGATTACCCGTCCAGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACACAT
65111552 ATCAAT
391 ATCAAT
65111558 GAGGGTTTAT
Statistics
Matches: 365, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
421 365 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (421 bp):
AAATACCCATTATCCGTCAATTCTTACAAATGATCATTTCACATATATGCACTCCCGCAAACCTC
ACTTCTTACGGCGAGATTACCAGTCCAAGCTAAATCCCCCGTATCGTAAACTCATAAGGTGATGT
CGGAATTACCAGTCCAGGCCAAATCCCTTAGAACGACAAACACCCTTAATGAGCTCGGATCTGAA
TTACCAGTCCAGGCTAAATTCAGACCCTAATCGGATTACCCGTCCGGGCTAAATCCATAATGCAC
ACATATTCTTCGGGAGGCTTGATCATTCAAGGAACACCCGACTGGGTTAGATCCTTTTCATACTT
GAGATCACAGATTACCCGTCCAGGCTAAATCCTTACTGCAACACATGCAGGATCTTTTGACACAT
ATCAATATATATATATGAATTACGGTTTATC
Found at i:65114217 original size:47 final size:47
Alignment explanation
Indices: 65114146--65114595 Score: 724
Period size: 47 Copynumber: 9.6 Consensus size: 47
65114136 CCCTTCGGGA
* * * * * *
65114146 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
65114193 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65114240 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65114287 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65114334 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65114381 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65114428 CTTATCACATATATACAC-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65114474 CTTATCACATATATATACAC-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65114522 CTTATCACATATATACACTTTCACATTCATCACATCGCCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65114569 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
65114596 TATTCAAATA
Statistics
Matches: 383, Mismatches: 17, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 44 0.11
47 293 0.77
48 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65114224 original size:25 final size:25
Alignment explanation
Indices: 65114196--65114274 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
65114186 ACTCGGCCCT
65114196 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
65114221 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
65114243 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
65114268 ATCACAT
1 ATCACAT
65114275 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:65122541 original size:9 final size:9
Alignment explanation
Indices: 65122529--65122555 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
65122519 ACACCTATAA
65122529 CAAAATACT
1 CAAAATACT
65122538 CAAAATACT
1 CAAAATACT
65122547 CAAAATACT
1 CAAAATACT
65122556 ATACATGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
CAAAATACT
Found at i:65131914 original size:12 final size:13
Alignment explanation
Indices: 65131897--65131934 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
65131887 ATCCTAGAAT
65131897 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
65131909 ATTAAGAACACATA
1 ATTAAGAACA-AGA
65131923 ATTAAGAACAAG
1 ATTAAGAACAAG
65131935 CCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:65139500 original size:32 final size:32
Alignment explanation
Indices: 65139464--65139524 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
65139454 TAACTAGGCA
*
65139464 TCTGAACTTGTTGAGTTGAGTCCGAGTTTACG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTTACG
*
65139496 TCTGAACTCGTTGAGTTGAGTCTGAGTTT
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTT
65139525 GTGAGATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.39
Consensus pattern (32 bp):
TCTGAACTCGTTGAGTTGAGTCCGAGTTTACG
Found at i:65139550 original size:79 final size:79
Alignment explanation
Indices: 65139416--65139570 Score: 229
Period size: 79 Copynumber: 2.0 Consensus size: 79
65139406 GGATGCGAAT
* * * *
65139416 GTCTGAACTTATTGAGTTGAGTCCGTGTTCGTGAGATGTAACTAGGCATCTGAACTTGTTGAGTT
1 GTCTGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCAGAACTCGTTGAGTT
*
65139481 GAGTCCGAGTTTAC
66 AAGTCCGAGTTTAC
* * *
65139495 GTCTGAACTCGTTGAGTTGAGTCTGAGTTTGTGAGATGTAACTAGGCATCAGAACTCGTTGAGTT
1 GTCTGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCAGAACTCGTTGAGTT
*
65139560 AAGTCTGAGTT
66 AAGTCCGAGTT
65139571 CACTTATGGT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (79 bp):
GTCTGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCAGAACTCGTTGAGTT
AAGTCCGAGTTTAC
Found at i:65142617 original size:15 final size:15
Alignment explanation
Indices: 65142597--65142661 Score: 71
Period size: 15 Copynumber: 4.4 Consensus size: 15
65142587 GTATCTTCGG
*
65142597 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
*
65142612 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
65142627 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
65142642 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
65142656 TTTCTT
1 TTTCTT
65142662 GTTATCTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
14 10 0.24
15 30 0.71
16 2 0.05
ACGTcount: A:0.11, C:0.15, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:65142629 original size:30 final size:29
Alignment explanation
Indices: 65142595--65142661 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
65142585 TCGTATCTTC
65142595 GGTTTCTTTAT-TCTAGATTTCTTTATTCTG
1 GGTTTCTTTATCT-TAGATTTCTTTATTC-G
* *
65142625 GGTTTCTCTATCTTGGATTTCTTTATTCG
1 GGTTTCTTTATCTTAGATTTCTTTATTCG
*
65142654 GTTTTCTT
1 GGTTTCTT
65142662 GTTATCTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 7 0.22
30 24 0.75
31 1 0.03
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.60
Consensus pattern (29 bp):
GGTTTCTTTATCTTAGATTTCTTTATTCG
Found at i:65145470 original size:47 final size:47
Alignment explanation
Indices: 65145406--65145526 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
65145396 ATGAATGTCT
* *
65145406 GAACTTGTTGAGTTGAGTCCGAGTT-AGTAAGATGTAACAAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCA-TAAGATGTAACAAGGCATCA
* *
65145453 GAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCATAAGATGTAACAAGGCATCA
*
65145500 GAACTCGTTGAGTTGAGTCTGAGTTCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCA
65145527 CTTATGGATG
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
47 67 0.99
48 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCATAAGATGTAACAAGGCATCA
Found at i:65161657 original size:10 final size:10
Alignment explanation
Indices: 65161638--65161684 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
65161628 TTCCCAATCC
65161638 ATCA-ACCAA
1 ATCATACCAA
65161647 ATCATACCAA
1 ATCATACCAA
*
65161657 ATCTAAACCAAA
1 ATC-ATACC-AA
65161669 ATCATACCAA
1 ATCATACCAA
*
65161679 AGCATA
1 ATCATA
65161685 TGTTTCAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 15 0.47
11 8 0.25
12 5 0.16
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.17
Consensus pattern (10 bp):
ATCATACCAA
Found at i:65162492 original size:42 final size:42
Alignment explanation
Indices: 65162397--65162548 Score: 139
Period size: 43 Copynumber: 3.5 Consensus size: 42
65162387 TACAATTCCA
* *
65162397 ACATCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCC
1 ACATCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCC
** * *
65162439 ACAATCCCAGACAAGGTCTTATACGAAATCAAGTAT-GATGCC
1 AC-ATCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCC
* *
65162481 AGCATCCCAGACGTGGTCTTACACATAAATCATAA-GTCGATGCC
1 A-CATCCCAGACGTGGTCTTACAC-GAAATCA-AATATCGATGCC
**
65162525 AACGCCCCA-ATCGTGGTCTTACAC
1 -ACATCCCAGA-CGTGGTCTTACAC
65162549 AATAACACAT
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
42 27 0.30
43 36 0.40
44 25 0.28
45 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
ACATCCCAGACGTGGTCTTACACGAAATCAAATATCGATGCC
Found at i:65168922 original size:42 final size:43
Alignment explanation
Indices: 65168813--65168985 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
65168803 AGCTTGTACA
* * * *
65168813 ATGCCAACATCCCAGACGTGGTCTTATAGGTAATCAAATATCG
1 ATGCCACCATCCCAGACGTGGTCTTACACGAAATCAAATATCG
** * *
65168856 ATGCCACTGTCCTAGACAG-GGTCTTACACGAAATCAAGTAT-G
1 ATGCCACCATCCCAGAC-GTGGTCTTACACGAAATCAAATATCG
** * *
65168898 ATGCTGCCATCCCAGACGTGGTCTTACACGTAAATCATAA-GTCA
1 ATGCCACCATCCCAGACGTGGTCTTACACG-AAATCA-AATATCG
* * * * *
65168942 ATGCCAACGTCCTAGACATGGTCTTACACGATAA-CACATATCG
1 ATGCCACCATCCCAGACGTGGTCTTACACGA-AATCAAATATCG
65168985 A
1 A
65168986 ATCCTATGTC
Statistics
Matches: 98, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 44 0.45
44 28 0.29
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCACCATCCCAGACGTGGTCTTACACGAAATCAAATATCG
Found at i:65174022 original size:55 final size:55
Alignment explanation
Indices: 65173954--65174075 Score: 235
Period size: 55 Copynumber: 2.2 Consensus size: 55
65173944 AACTCACCAT
65173954 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
65174009 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
*
65174064 TGCCATGTCTTG
1 TGCCATGCCTTG
65174076 ACATGGTCTT
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (55 bp):
TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
Found at i:65174103 original size:55 final size:54
Alignment explanation
Indices: 65173954--65174092 Score: 163
Period size: 55 Copynumber: 2.6 Consensus size: 54
65173944 AACTCACCAT
** * *
65173954 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGACATGGCCTTACA-GCGATCTTTGCCTTATCGTAGTTTATCAA
** * *
65174009 TGCCATGCCTTGTTATTGCCTTACATGGGATCTTTGCCTTATCGTAGTTTATCAA
1 TGCCATGCCTTGACATGGCCTTACA-GCGATCTTTGCCTTATCGTAGTTTATCAA
* *
65174064 TGCCATGTCTTGACATGGTCTTACA-CGAT
1 TGCCATGCCTTGACATGGCCTTACAGCGAT
65174093 TTTATTGCCT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 3 0.04
55 75 0.96
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.40
Consensus pattern (54 bp):
TGCCATGCCTTGACATGGCCTTACAGCGATCTTTGCCTTATCGTAGTTTATCAA
Found at i:65175870 original size:32 final size:32
Alignment explanation
Indices: 65175834--65175896 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
65175824 CAATCTCTTT
*
65175834 TCTTTTCAAGTTTGCTGATAAACCGTAATTTA
1 TCTTTTCAAGTCTGCTGATAAACCGTAATTTA
*
65175866 TCTTTTCAAGTCTGTTGATAAACCGTAATTT
1 TCTTTTCAAGTCTGCTGATAAACCGTAATTT
65175897 TTACATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (32 bp):
TCTTTTCAAGTCTGCTGATAAACCGTAATTTA
Found at i:65178949 original size:13 final size:13
Alignment explanation
Indices: 65178931--65178957 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
65178921 GAAGTAATCG
65178931 CACACGGGCGTGT
1 CACACGGGCGTGT
65178944 CACACGGGCGTGT
1 CACACGGGCGTGT
65178957 C
1 C
65178958 CCTGATGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:65179213 original size:29 final size:29
Alignment explanation
Indices: 65179171--65179230 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
65179161 CTTTAGGAGT
65179171 TTTGGGTTTTTCTTTATGTTTTGTATTCA
1 TTTGGGTTTTTCTTTATGTTTTGTATTCA
65179200 TTTGGGTTTTTCTTTATGTTTTGTATTCA
1 TTTGGGTTTTTCTTTATGTTTTGTATTCA
65179229 TT
1 TT
65179231 ATTCTTCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.10, C:0.07, G:0.17, T:0.67
Consensus pattern (29 bp):
TTTGGGTTTTTCTTTATGTTTTGTATTCA
Found at i:65185619 original size:79 final size:80
Alignment explanation
Indices: 65185452--65185632 Score: 267
Period size: 79 Copynumber: 2.3 Consensus size: 80
65185442 TACTCGCTCG
* * *
65185452 AATGCCTTCGGGACATAGCCCGGATATAATAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
*
65185517 ATAGTAACTCGCACA
66 ATAGTAACTAGCACA
* *
65185532 AATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA-AAATGCCTTCGGGACTTAGCCC-GAA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
* *
65185595 ACTAGTCACTAGCGCA
66 A-TAGTAACTAGCACA
65185611 AATGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
65185633 ATTATCATCC
Statistics
Matches: 92, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 35 0.38
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
ATAGTAACTAGCACA
Found at i:65185628 original size:119 final size:119
Alignment explanation
Indices: 65185417--65185632 Score: 285
Period size: 119 Copynumber: 1.8 Consensus size: 119
65185407 AAGCCAAGTA
* ** *
65185417 CCTTCGGGATTTAACCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGATATAAT
1 CCTTCGGGACTTAACCGGATATAGCTACTCGCTAAAATGCCTTCGGGACATAGCCCGGAAATAAT
* *
65185482 AACTCGCACCAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
65185536 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGC-AAAATGCCTTCGGGACTTAGCCC-GAAACT
1 CCTTCGGGACTTA-ACCGGATATAGCTA-CTCGCTAAAATGCCTTCGGGACATAGCCCGGAAA-T
* * *
65185598 AGTCACTAGCGCAAATGCCTTCGGGACTTAGCCCG
63 AATAACTAGCACAAATGCCTTCGGGACTTAGCCCG
65185633 ATTATCATCC
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 3 0.04
119 65 0.78
120 15 0.18
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (119 bp):
CCTTCGGGACTTAACCGGATATAGCTACTCGCTAAAATGCCTTCGGGACATAGCCCGGAAATAAT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65185633 original size:40 final size:40
Alignment explanation
Indices: 65185417--65185632 Score: 278
Period size: 40 Copynumber: 5.5 Consensus size: 40
65185407 AAGCCAAGTA
* * * *
65185417 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
65185456 CCTTCGGGACATAGCCCGGATATAATAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65185496 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
65185536 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
65185575 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
65185615 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
65185633 ATTATCATCC
Statistics
Matches: 157, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
38 3 0.02
39 42 0.27
40 112 0.71
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65196370 original size:53 final size:54
Alignment explanation
Indices: 65196285--65196491 Score: 200
Period size: 53 Copynumber: 3.8 Consensus size: 54
65196275 TTCTTTTTTA
* * *
65196285 AACTTACCATTGCCATGTCTTGCCATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
65196338 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTACCTTATCG
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * ** * * * *
65196392 TAGTTTATCAGTGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
65196447 AACTTACCAATGCCATGCCTTGGCACGGTCTTACTTGGTATCCTT
1 AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
65196492 AAACCCTAAT
Statistics
Matches: 118, Mismatches: 34, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 45 0.38
54 35 0.30
55 38 0.32
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (54 bp):
AACTTACCATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:65198877 original size:31 final size:31
Alignment explanation
Indices: 65198840--65198914 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
65198830 CTTTGGGAGT
*
65198840 CACACGCTCGTGTGGGTAAGCCGTGTGATTA
1 CACACGCCCGTGTGGGTAAGCCGTGTGATTA
65198871 CACACGCCCGTGTGGGTAAGCCGTGTGATTA
1 CACACGCCCGTGTGGGTAAGCCGTGTGATTA
65198902 CACACGCCCGTGT
1 CACACGCCCGTGT
65198915 CCTCAGCCCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.19, C:0.28, G:0.31, T:0.23
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTAAGCCGTGTGATTA
Found at i:65198883 original size:18 final size:18
Alignment explanation
Indices: 65198860--65198914 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
65198850 TGTGGGTAAG
65198860 CCGTGTGATTACACACGC
1 CCGTGTGATTACACACGC
**
65198878 CCGTGTGGGT--A-A-G-
1 CCGTGTGATTACACACGC
65198891 CCGTGTGATTACACACGC
1 CCGTGTGATTACACACGC
65198909 CCGTGT
1 CCGTGT
65198915 CCTCAGCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
13 8 0.29
14 1 0.04
15 2 0.07
16 2 0.07
17 1 0.04
18 14 0.50
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.24
Consensus pattern (18 bp):
CCGTGTGATTACACACGC
Found at i:65204047 original size:11 final size:11
Alignment explanation
Indices: 65204015--65204056 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
65204005 ATTTAGCCAT
65204015 TTTTTATTTTA
1 TTTTTATTTTA
**
65204026 -TTGCATTTTA
1 TTTTTATTTTA
*
65204036 TTTTTGTTTTA
1 TTTTTATTTTA
65204047 TTTTTATTTT
1 TTTTTATTTT
65204057 TAATTACTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:65207066 original size:16 final size:16
Alignment explanation
Indices: 65207045--65207082 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
65207035 AATTTTTATT
65207045 TTCTTTTCTAATTTTC
1 TTCTTTTCTAATTTTC
65207061 TTCTTTTCTAATTTTC
1 TTCTTTTCTAATTTTC
65207077 TT-TTTT
1 TTCTTTT
65207083 ATTCGCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTTCTAATTTTC
Found at i:65212518 original size:56 final size:57
Alignment explanation
Indices: 65212449--65212557 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
65212439 TATATATATT
* * * *
65212449 GCCCACTAGGCCC-AATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATGTG
1 GCCCACTAGGCCCAAATCACATTCATATGG-CCACTAGGCCCAAATCACATTTATGTG
*
65212505 GCCCATTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
1 GCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
65212558 CAATTGTGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 22 0.48
57 24 0.52
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.27
Consensus pattern (57 bp):
GCCCACTAGGCCCAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTATGTG
Found at i:65212553 original size:28 final size:28
Alignment explanation
Indices: 65212444--65212555 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
65212434 ACCTATATAT
* * *
65212444 ATATTGCCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
65212472 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* *
65212500 ATGTGGCCCATTAGGCCCAAATCACATTC
1 ATATGGCCCACTAGGCCC-AATCACATTC
65212529 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
65212556 TACAATTGTG
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 59 0.82
29 13 0.18
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:65212822 original size:16 final size:16
Alignment explanation
Indices: 65212779--65212816 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
65212769 ACTTTCACCT
* *
65212779 TTTTCGGTATTTTGGC
1 TTTTCGGCATTTCGGC
65212795 TTTTCGGCATTTCGGC
1 TTTTCGGCATTTCGGC
65212811 TTTTCG
1 TTTTCG
65212817 AGATTTACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.05, C:0.18, G:0.24, T:0.53
Consensus pattern (16 bp):
TTTTCGGCATTTCGGC
Found at i:65215147 original size:26 final size:26
Alignment explanation
Indices: 65215099--65215157 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
65215089 CACTTTTATC
*
65215099 TTTA-TTTATCTTCTTTAAGTACTTT
1 TTTATTTTATCTTCTTTAAGTACTAT
*
65215124 TTTATTTTATTTTCATTTAA-TACTAT
1 TTTATTTTATCTTC-TTTAAGTACTAT
*
65215150 TTCATTTT
1 TTTATTTT
65215158 TAGGTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 20 0.69
27 5 0.17
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATTTTATCTTCTTTAAGTACTAT
Found at i:65219506 original size:55 final size:54
Alignment explanation
Indices: 65219371--65219575 Score: 245
Period size: 55 Copynumber: 3.8 Consensus size: 54
65219361 ATCATTTTGA
* * * * *
65219371 AACTTACCATTTCCATGTCTCGACATGGTCTTACATGGTATCCTTGCTTTAT-G
1 AACTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAG
* * *
65219424 AACTTACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTACCTTATAG
1 AACTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTT-CCTTATAG
* * *
65219478 TAACTTATCAATTCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTAGA-
1 -AACTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAG
*
65219532 AACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATC
1 AA-CTTACCAA-TTCCATGCCTTGACATGGTCTTACATGGTATC
65219576 TTTAAACCCT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 8 0.06
55 71 0.55
56 5 0.04
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (54 bp):
AACTTACCAATTCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTATAG
Found at i:65219512 original size:108 final size:110
Alignment explanation
Indices: 65219371--65219571 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
65219361 ATCATTTTGA
* *
65219371 AACTTACCATTTCCATGTCTCGACATGGTCTTACATGGTATCCTTGCTTTATG-AA-CTTACCAA
1 AACTTACCAATTCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAA
65219434 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
* * *
65219479 AACTTATCAATTCCATGTCTTGACATGGTCTTACATGGTATCCTTTCCTTAGAAACCTTACCAAT
1 AACTTACCAATTCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
*
65219544 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
65219572 TATCTTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 8 0.10
110 27 0.32
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (110 bp):
AACTTACCAATTCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAGAAACCTTACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTACCTTATAGT
Found at i:65222386 original size:22 final size:20
Alignment explanation
Indices: 65222328--65222379 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
65222318 ATCACCCCAA
*
65222328 TTTTATTTTATTTTATTTAT
1 TTTTATTTTATATTATTTAT
65222348 TTTTAATTCTTATATTATTTAT
1 TTTT-ATT-TTATATTATTTAT
65222370 TTTTATTTTA
1 TTTTATTTTA
65222380 CTAATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 7 0.24
21 6 0.21
22 16 0.55
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTATTTTATATTATTTAT
Found at i:65222431 original size:8 final size:7
Alignment explanation
Indices: 65222416--65222479 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 7
65222406 TTATACTTAT
65222416 ATTTTTA
1 ATTTTTA
65222423 ATATTTTA
1 AT-TTTTA
65222431 ATTTTTTA
1 A-TTTTTA
65222439 ATTTTT-
1 ATTTTTA
*
65222445 A--TATA
1 ATTTTTA
*
65222450 ATTTTTT
1 ATTTTTA
65222457 ATTTTT-
1 ATTTTTA
65222463 ATTTTT-
1 ATTTTTA
65222469 ATTTTT-
1 ATTTTTA
65222475 ATTTT
1 ATTTT
65222480 GCTGTCTATT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
4 2 0.04
5 1 0.02
6 18 0.37
7 15 0.31
8 12 0.24
9 1 0.02
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
ATTTTTA
Found at i:65222436 original size:15 final size:15
Alignment explanation
Indices: 65222417--65222479 Score: 53
Period size: 16 Copynumber: 4.2 Consensus size: 15
65222407 TATACTTATA
65222417 TTTTTAATATTTTAAT
1 TTTTTAAT-TTTTAAT
65222433 TTTTTAATTTTTATAT
1 TTTTTAATTTTTA-AT
*
65222449 AATTTTTTATTTTT-A-
1 --TTTTTAATTTTTAAT
65222464 TTTTT-ATTTTT-AT
1 TTTTTAATTTTTAAT
65222477 TTT
1 TTT
65222480 GCTGTCTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
12 7 0.17
13 8 0.19
15 5 0.12
16 11 0.26
18 11 0.26
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTAATTTTTAAT
Found at i:65222460 original size:18 final size:19
Alignment explanation
Indices: 65222429--65222464 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
65222419 TTTAATATTT
65222429 TAATTTTTTAATTTTTATA
1 TAATTTTTTAATTTTTATA
65222448 TAATTTTTT-ATTTTTAT
1 TAATTTTTTAATTTTTAT
65222465 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TAATTTTTTAATTTTTATA
Found at i:65222461 original size:6 final size:6
Alignment explanation
Indices: 65222452--65222479 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
65222442 TTTATATAAT
65222452 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT
65222480 GCTGTCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:65222500 original size:21 final size:20
Alignment explanation
Indices: 65222470--65222520 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
65222460 TTTATTTTTA
65222470 TTTTTA-TTTTGCTGTCTATT
1 TTTTTATTTTTGCTGTC-ATT
* * *
65222490 TTTTTCTTTTTTCTTTCATT
1 TTTTTATTTTTGCTGTCATT
65222510 TTTTTATTTTT
1 TTTTTATTTTT
65222521 ACTATCATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTATTTTTGCTGTCATT
Found at i:65222574 original size:3 final size:3
Alignment explanation
Indices: 65222568--65222660 Score: 72
Period size: 3 Copynumber: 31.7 Consensus size: 3
65222558 ATTATTGAGT
65222568 TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA TT- TTA TTA TTTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA
* * * *
65222612 TTC TTT TTAA TT- TTG TT- TTA GTTG TT- TTA TTA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
65222656 TTA TT
1 TTA TT
65222661 TCTCTTCAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
2 11 0.14
3 58 0.75
4 8 0.10
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Done.