Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 235 of 325
Found at i:73650151 original size:44 final size:42
Alignment explanation
Indices: 73650049--73650164 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 42
73650039 GTTCGTATAG
* *
73650049 TGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATTAA
1 TGCC-ACGTCCCAGACATGGTCTTACACGTAATCAAATATCAA
* * * *
73650092 TGCCACTATCCCAGACACGATCTTACACGTAAATCTCAA-ATCAA
1 TGCCAC-GTCCCAGACATGGTCTTACACGT-AATC-AAATATCAA
73650136 TGCCAGCGTCCCAGACATGGTCTTACACG
1 TGCCA-CGTCCCAGACATGGTCTTACACG
73650165 AAGTCACATA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
42 2 0.03
43 23 0.38
44 32 0.53
45 3 0.05
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.24
Consensus pattern (42 bp):
TGCCACGTCCCAGACATGGTCTTACACGTAATCAAATATCAA
Found at i:73652736 original size:40 final size:40
Alignment explanation
Indices: 73652692--73652774 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
73652682 CATAATAAGG
*
73652692 TATGTTACCATCTTTTTAAATCTTATAATATTTTTGCGAC
1 TATGTTACCATCTTTTTAAATCTTATAATATTTTTGCAAC
73652732 TATGTTACCATCTTTTTAAATCTTATAATATTTTTGCAAC
1 TATGTTACCATCTTTTTAAATCTTATAATATTTTTGCAAC
73652772 TAT
1 TAT
73652775 CTTAACTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.06, T:0.51
Consensus pattern (40 bp):
TATGTTACCATCTTTTTAAATCTTATAATATTTTTGCAAC
Found at i:73652776 original size:22 final size:22
Alignment explanation
Indices: 73652711--73652778 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
73652701 ATCTTTTTAA
*
73652711 ATCTTATAATATTTTTGCGACT
1 ATCTTATAATATTTTTGCAACT
* ** *
73652733 ATGTTACCATCTTTTT--AA--
1 ATCTTATAATATTTTTGCAACT
73652751 ATCTTATAATATTTTTGCAACT
1 ATCTTATAATATTTTTGCAACT
73652773 ATCTTA
1 ATCTTA
73652779 ACTATACTTG
Statistics
Matches: 33, Mismatches: 9, Indels: 8
0.66 0.18 0.16
Matches are distributed among these distances:
18 12 0.36
20 3 0.09
22 18 0.55
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (22 bp):
ATCTTATAATATTTTTGCAACT
Found at i:73660745 original size:28 final size:28
Alignment explanation
Indices: 73660703--73660760 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
73660693 AGTGAAGAAA
73660703 GGTCCAAACTATCAAACAAAGAAACAGG
1 GGTCCAAACTATCAAACAAAGAAACAGG
* * **
73660731 GGTCGAAACTGTCAAACAGCGAAACAGG
1 GGTCCAAACTATCAAACAAAGAAACAGG
73660759 GG
1 GG
73660761 AGACTTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.43, C:0.21, G:0.26, T:0.10
Consensus pattern (28 bp):
GGTCCAAACTATCAAACAAAGAAACAGG
Found at i:73663497 original size:59 final size:60
Alignment explanation
Indices: 73663401--73663533 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
73663391 GACAAGATTG
* * *
73663401 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
73663461 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
73663520 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
73663534 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:73663546 original size:29 final size:29
Alignment explanation
Indices: 73663431--73663533 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
73663421 AAAATTGTAC
*
73663431 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73663460 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
73663490 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73663519 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73663534 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:73671026 original size:59 final size:60
Alignment explanation
Indices: 73670930--73671062 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
73670920 GACAAGATTG
* * *
73670930 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
73670990 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
73671049 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
73671063 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:73671075 original size:29 final size:29
Alignment explanation
Indices: 73670960--73671062 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
73670950 AAAATTGTAC
*
73670960 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73670989 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
73671019 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73671048 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73671063 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:73678588 original size:59 final size:58
Alignment explanation
Indices: 73678492--73678623 Score: 246
Period size: 59 Copynumber: 2.3 Consensus size: 58
73678482 AAAATTGTAC
73678492 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
*
73678550 AGCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAACTGAAAA-TATATAGCACTAAGTGTGCGAGCTGAAAATATAT
73678609 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73678624 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 23 0.32
59 49 0.68
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (58 bp):
AGCACTAAGTGTGCGAACTGAAAATATATAGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:73678612 original size:88 final size:89
Alignment explanation
Indices: 73678462--73678623 Score: 263
Period size: 88 Copynumber: 1.8 Consensus size: 89
73678452 GACAAGATTG
* * *
73678462 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
73678527 AAGTGTGCGAGCTGAAAATATATA
66 AAGTGTGCGAGCTGAAAATATATA
* * *
73678551 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
73678615 AAGTGTGCG
66 AAGTGTGCG
73678624 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 52 0.78
89 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (89 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGAGCTGAAAATATATA
Found at i:73678635 original size:29 final size:29
Alignment explanation
Indices: 73678492--73678623 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
73678482 AAAATTGTAC
*
73678492 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73678521 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73678550 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
73678580 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
73678609 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
73678624 GATTCACTAT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:73681477 original size:83 final size:81
Alignment explanation
Indices: 73681333--73681497 Score: 181
Period size: 83 Copynumber: 2.0 Consensus size: 81
73681323 GAAATAACAA
***
73681333 TGAAGATCCCCTTTACCCCTAGTTTCACCCTGGCAAACGCTCAAACGCAGTATGAGATACACACG
1 TGAAGATCCCCTTTACCCCTAGTTTCACCCCAACAAACGCTCAAACGCAG-ATGAGATACACACG
73681398 TAG-AGGCCATCCGTTAC
65 -AGAAGGCCATCCGTTAC
* * * * *
73681415 TGAAGATCCTCTTTACCCCATGGTTTCACCCCAACGAATGCTCAAACGCA-ACTCGAGTTACACA
1 TGAAGATCCCCTTTACCCC-TAGTTTCACCCCAACAAACGCTCAAACGCAGA-T-GAGATACACA
* *
73681479 CGCGAAGGCCGTCCGTTAC
63 CGAGAAGGCCATCCGTTAC
73681498 AATCAAGCCT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
81 1 0.01
82 20 0.29
83 48 0.70
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (81 bp):
TGAAGATCCCCTTTACCCCTAGTTTCACCCCAACAAACGCTCAAACGCAGATGAGATACACACGA
GAAGGCCATCCGTTAC
Found at i:73684588 original size:70 final size:71
Alignment explanation
Indices: 73684505--73684667 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
73684495 CGATTTGTCT
73684505 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
73684569 CTTTCA
66 CTTTCA
*
73684575 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
73684640 CTTTCA
66 CTTTCA
73684646 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
73684668 GATACATCTC
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.34
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:73684705 original size:71 final size:70
Alignment explanation
Indices: 73684505--73684701 Score: 249
Period size: 70 Copynumber: 2.8 Consensus size: 70
73684495 CGATTTGTCT
* * * *
73684505 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACC-AGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
73684569 CTTTCA
65 CTTTCA
* * * *
73684575 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
73684640 CTTTCA
65 CTTTCA
* *
73684646 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
73684702 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 52 0.44
71 43 0.36
ACGTcount: A:0.21, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:73692798 original size:66 final size:66
Alignment explanation
Indices: 73692719--73692886 Score: 221
Period size: 66 Copynumber: 2.5 Consensus size: 66
73692709 TAGAAACTTA
* * * * *
73692719 AGAAGACCCGATATCTTGTTCAGGAGCTTGGGAAGACTCAATATCTTGTTCAGGATCTT-GAGGT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTGGGAAGACTCAATATCGTGTTCAGGAGCTTGGA-AT
73692783 TG
65 TG
* * **
73692785 AGAAGACCTGATATCTCATTCAGGAGCTTGGGAAGGCTTGATATCGTGTTCAGGAGCTTGGAATT
1 AGAAGACCTGATATCTCGTTCAGGAGCTTGGGAAGACTCAATATCGTGTTCAGGAGCTTGGAATT
73692850 G
66 G
* *
73692851 AGAAGACTTGATATCTCGTTCAGGAGCTTGGAAAGA
1 AGAAGACCTGATATCTCGTTCAGGAGCTTGGGAAGA
73692887 TTTGGTATTT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 86 0.98
67 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (66 bp):
AGAAGACCTGATATCTCGTTCAGGAGCTTGGGAAGACTCAATATCGTGTTCAGGAGCTTGGAATT
G
Found at i:73692799 original size:36 final size:35
Alignment explanation
Indices: 73692719--73692881 Score: 123
Period size: 36 Copynumber: 4.9 Consensus size: 35
73692709 TAGAAACTTA
** *
73692719 AGAAGACCCGATATCTTGTTCAGGAGCTT--G--G
1 AGAAGACTTGATATCTCGTTCAGGAGCTTGGGTTG
** * *
73692750 -GAAGACTCAATATCTTGTTCAGGATCTTGAGGTTG
1 AGAAGACTTGATATCTCGTTCAGGAGCTTG-GGTTG
* *
73692785 AGAAGACCTGATATCTCATTCAGGAGCTT--G--G
1 AGAAGACTTGATATCTCGTTCAGGAGCTTGGGTTG
* *
73692816 -GAAGGCTTGATATCGT-GTTCAGGAGCTTGGAATTG
1 AGAAGACTTGATATC-TCGTTCAGGAGCTTGG-GTTG
73692851 AGAAGACTTGATATCTCGTTCAGGAGCTTGG
1 AGAAGACTTGATATCTCGTTCAGGAGCTTGG
73692882 AAAGATTTGG
Statistics
Matches: 104, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
30 48 0.46
31 2 0.02
33 2 0.02
35 3 0.03
36 49 0.47
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (35 bp):
AGAAGACTTGATATCTCGTTCAGGAGCTTGGGTTG
Found at i:73692883 original size:36 final size:35
Alignment explanation
Indices: 73692719--73692880 Score: 121
Period size: 30 Copynumber: 4.9 Consensus size: 35
73692709 TAGAAACTTA
** *
73692719 AGAAGACCCGATATCTTGTTCAGGAGCTTG----G
1 AGAAGACTTGATATCTCGTTCAGGAGCTTGAATTG
** * * *
73692750 -GAAGACTCAATATCTTGTTCAGGATCTTGAGGTTG
1 AGAAGACTTGATATCTCGTTCAGGAGCTTGA-ATTG
* *
73692785 AGAAGACCTGATATCTCATTCAGGAGCTTG----G
1 AGAAGACTTGATATCTCGTTCAGGAGCTTGAATTG
*
73692816 -GAAGGCTTGATATCGT-GTTCAGGAGCTTGGAATTG
1 AGAAGACTTGATATC-TCGTTCAGGAGCTT-GAATTG
73692851 AGAAGACTTGATATCTCGTTCAGGAGCTTG
1 AGAAGACTTGATATCTCGTTCAGGAGCTTG
73692881 GAAAGATTTG
Statistics
Matches: 104, Mismatches: 13, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
30 49 0.47
31 3 0.03
35 4 0.04
36 48 0.46
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (35 bp):
AGAAGACTTGATATCTCGTTCAGGAGCTTGAATTG
Found at i:73693548 original size:2 final size:2
Alignment explanation
Indices: 73693541--73693573 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
73693531 AAAATACATG
73693541 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73693574 AAATTCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:73694117 original size:4 final size:4
Alignment explanation
Indices: 73694108--73694149 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
73694098 GAAAATGACT
73694108 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG
73694150 CATACCATCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:73701737 original size:3 final size:3
Alignment explanation
Indices: 73701724--73701754 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
73701714 CCCATTGAGT
73701724 TTA TGTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
73701755 ATTGTGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:73705318 original size:40 final size:40
Alignment explanation
Indices: 73705218--73705319 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
73705208 TCTTGGTATT
* * * **
73705218 GCACACTTAGTGCCACATAAAGCCGAAGCTATTCCAATTT
1 GCACACTAAGTGCCAAATATAGCCGAAGCTATTCCAATAC
* *** *
73705258 GCACACTAACTGCTTTATATAGCCGAAGCTATCTCGAA-AC
1 GCACACTAAGTGCCAAATATAGCCGAAGCTAT-TCCAATAC
73705298 GCACACTAAGTGCCAAATATAG
1 GCACACTAAGTGCCAAATATAG
73705320 TAGATTTGTC
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
40 44 0.92
41 4 0.08
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
GCACACTAAGTGCCAAATATAGCCGAAGCTATTCCAATAC
Found at i:73710060 original size:18 final size:17
Alignment explanation
Indices: 73710027--73710064 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
73710017 TATTTTATTT
*
73710027 TAAAATATAATGTAAAA
1 TAAAATATAATATAAAA
73710044 TAAAATATTAATATAAAA
1 TAAAATA-TAATATAAAA
73710062 TAA
1 TAA
73710065 TTATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAAAATATAATATAAAA
Found at i:73717701 original size:16 final size:17
Alignment explanation
Indices: 73717665--73717703 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
73717655 TTTTAAAAGG
73717665 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
73717682 AAAACAATTGAATCTTA
1 AAAACAAATGAATCTTA
73717699 AAAAC
1 AAAAC
73717704 TTAAGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:73726688 original size:16 final size:17
Alignment explanation
Indices: 73726669--73726707 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
73726659 GCCTCTATTC
73726669 TCTCTGAACTC-TCAAT
1 TCTCTGAACTCTTCAAT
73726685 TCTCTGAACTCTTTCAAT
1 TCTCTGAACTC-TTCAAT
73726703 TCTCT
1 TCTCT
73726708 CAATTTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
18 10 0.48
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.44
Consensus pattern (17 bp):
TCTCTGAACTCTTCAAT
Found at i:73726688 original size:18 final size:19
Alignment explanation
Indices: 73726665--73726708 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 19
73726655 CCCGGCCTCT
73726665 ATTCTCTCTGAACTC-TCA
1 ATTCTCTCTGAACTCTTCA
73726683 A-T-TCTCTGAACTCTTTCA
1 ATTCTCTCTGAACTC-TTCA
73726701 ATTCTCTC
1 ATTCTCTC
73726709 AATTTTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 11 0.50
17 1 0.05
18 5 0.23
19 1 0.05
20 4 0.18
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (19 bp):
ATTCTCTCTGAACTCTTCA
Found at i:73732374 original size:31 final size:31
Alignment explanation
Indices: 73732339--73732402 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
73732329 CGACCATATG
73732339 TTAGCACACATTGTCTGAGATTCCCATGTAT
1 TTAGCACACATTGTCTGAGATTCCCATGTAT
73732370 TTAGCACACATTGTCTGAGATTCCCATGTAT
1 TTAGCACACATTGTCTGAGATTCCCATGTAT
73732401 TT
1 TT
73732403 GATATTATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTAGCACACATTGTCTGAGATTCCCATGTAT
Found at i:73732700 original size:24 final size:24
Alignment explanation
Indices: 73732668--73732714 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
73732658 GGATTGTTTC
73732668 ATGTTTATTTTAAGCTTATGTATG
1 ATGTTTATTTTAAGCTTATGTATG
73732692 ATGTTTATTTTAAGCTTATGTAT
1 ATGTTTATTTTAAGCTTATGTAT
73732715 TGAAATGGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (24 bp):
ATGTTTATTTTAAGCTTATGTATG
Found at i:73732787 original size:25 final size:25
Alignment explanation
Indices: 73732759--73732813 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
73732749 TAATTAGCAT
*
73732759 TATGTGCTTACTTTGTGTCCTTTTC
1 TATGTGCTTACGTTGTGTCCTTTTC
*
73732784 TATGTGCTTACGTTGTGTTCTTTTC
1 TATGTGCTTACGTTGTGTCCTTTTC
73732809 TATGT
1 TATGT
73732814 TTTTTAAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.09, C:0.16, G:0.18, T:0.56
Consensus pattern (25 bp):
TATGTGCTTACGTTGTGTCCTTTTC
Found at i:73737145 original size:40 final size:40
Alignment explanation
Indices: 73737080--73737222 Score: 121
Period size: 40 Copynumber: 3.6 Consensus size: 40
73737070 AAATTGAATG
* * *
73737080 ATATCCGGGCTAAG--CCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
73737118 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ** *
73737158 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTAGAAACT
**
73737198 CGATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
73737223 TTTGTGCACG
Statistics
Matches: 86, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 13 0.15
39 3 0.03
40 70 0.81
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:73737244 original size:40 final size:40
Alignment explanation
Indices: 73737115--73737245 Score: 165
Period size: 40 Copynumber: 3.3 Consensus size: 40
73737105 TATGCTGGAA
* * *
73737115 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * *
73737155 GCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
**
73737195 ATTCGATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
73737235 ATTATATCCGG
1 ATTATATCCGG
73737246 TTATATTCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 74 0.99
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:73745155 original size:40 final size:40
Alignment explanation
Indices: 73745089--73745255 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
73745079 AAATTGAATG
* * *
73745089 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
73745128 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
73745168 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
73745208 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
73745248 ATATCCGG
1 ATATCCGG
73745256 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:73746242 original size:29 final size:29
Alignment explanation
Indices: 73746203--73746282 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
73746193 CTTAATAATC
*
73746203 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
73746233 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
73746262 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
73746283 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:73754126 original size:29 final size:29
Alignment explanation
Indices: 73754087--73754166 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
73754077 CTTAATAATC
*
73754087 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
73754117 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
73754146 AGCCCGCACACTTAGTGCCAT
1 AACCCGCACACTTAGTGCCAT
73754167 TCTCTCAACC
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 39 0.87
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:73756599 original size:28 final size:28
Alignment explanation
Indices: 73756567--73756629 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
73756557 ATTTACTAGA
*
73756567 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
73756595 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
73756623 ATACCCC
1 ATACCCC
73756630 CTAGGGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:73756838 original size:29 final size:28
Alignment explanation
Indices: 73756748--73756838 Score: 76
Period size: 27 Copynumber: 3.2 Consensus size: 28
73756738 CTGGTGGCTA
* * * *
73756748 TGCCACAAATTATCTGTTCTGCTGGCCC
1 TGCCACAAAATATCTGTTCTGATGACAC
** * *
73756776 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGATGACAC
*
73756803 TGCCACAAAATATCTGTATCTGATGACTC
1 TGCCACAAAATATCTGT-TCTGATGACAC
*
73756832 TGTCACA
1 TGCCACA
73756839 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 14 0.28
29 14 0.28
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGATGACAC
Found at i:73756846 original size:55 final size:56
Alignment explanation
Indices: 73756738--73756852 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 56
73756728 AGGAAGCGTC
* * * *
73756738 CTGGTGGCTATGCCACAAATTATCTGTTCTGCTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGATGACCCTGCCACATATATCTGTAT
* * *
73756793 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGATGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGATGACCCTGCCACATATATCTGTAT
73756849 CTGG
1 CTGG
73756853 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.60
56 19 0.38
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGATGACCCTGCCACATATATCTGTAT
Found at i:73757947 original size:11 final size:10
Alignment explanation
Indices: 73757919--73757952 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
73757909 AGCCTGTAAG
73757919 TATTCTGAAT
1 TATTCTGAAT
*
73757929 TTTTCTGAAT
1 TATTCTGAAT
73757939 ATATTCTGAAT
1 -TATTCTGAAT
73757950 TAT
1 TAT
73757953 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:73761183 original size:28 final size:27
Alignment explanation
Indices: 73761120--73761189 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
73761110 ATAGTGAGTC
73761120 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
73761147 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
73761175 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73761190 GTACAAGTTT
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:73768918 original size:28 final size:27
Alignment explanation
Indices: 73768855--73768924 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
73768845 ATAGTGAGTC
73768855 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
73768882 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
73768910 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
73768925 GTACAAGTTT
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:73775252 original size:46 final size:45
Alignment explanation
Indices: 73775185--73775359 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 45
73775175 TGTAACCCGC
*
73775185 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
73775231 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * *
73775277 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
* *
73775324 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
73775360 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 66 0.61
47 32 0.30
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:73775305 original size:93 final size:93
Alignment explanation
Indices: 73775193--73775363 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
73775183 GCCCATAAGT
*
73775193 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
73775257 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* * *
73775286 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
73775351 CGAGTTCGGATGC
66 CGAGCTCGGATGC
73775364 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:73775379 original size:46 final size:46
Alignment explanation
Indices: 73775190--73775379 Score: 121
Period size: 46 Copynumber: 4.1 Consensus size: 46
73775180 CCCGCCCATA
* * * *
73775190 AGTGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCAACCATCC-T
*
73775235 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* * * *
73775285 --CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
*
73775329 AGTGAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
73775375 AGTGA
1 AGTGA
73775380 CATGTCACTT
Statistics
Matches: 114, Mismatches: 12, Indels: 36
0.70 0.07 0.22
Matches are distributed among these distances:
44 8 0.07
45 4 0.04
46 62 0.54
47 30 0.26
49 3 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:73777043 original size:12 final size:13
Alignment explanation
Indices: 73777015--73777047 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
73777005 TTATTTCTTT
73777015 TTCTCCATCTACC
1 TTCTCCATCTACC
*
73777028 TTCTCC-TCTTCC
1 TTCTCCATCTACC
73777040 TTCTCCAT
1 TTCTCCAT
73777048 AGCTGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:73778146 original size:28 final size:28
Alignment explanation
Indices: 73778114--73778176 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
73778104 ATTTACTAGA
*
73778114 ATACCCCTATGTATGCAAAATTACAATT
1 ATACCCCTATGTATGCAAAATGACAATT
* **
73778142 ATACCCCTATGTGTGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACAATT
73778170 ATACCCC
1 ATACCCC
73778177 CTAGGGTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACAATT
Found at i:73778343 original size:27 final size:28
Alignment explanation
Indices: 73778285--73778374 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
73778275 AGGAAGCGTC
* *
73778285 CTGGTGGCTA-TGCCAGAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
73778313 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
73778340 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
73778369 CTGGTG
1 CTGGTG
73778375 ACTCTGTCTC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:73783204 original size:46 final size:46
Alignment explanation
Indices: 73783139--73783322 Score: 253
Period size: 46 Copynumber: 4.0 Consensus size: 46
73783129 TTATCTTTGA
* * * * *
73783139 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATT-TCATAT
*
73783185 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* * *
73783231 CACGTTGCCATGGTATCTTTCAACCATGGACTTATTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
* *
73783277 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
73783323 AAGAGAGCAC
Statistics
Matches: 125, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 2 0.02
46 123 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATAT
Found at i:73785124 original size:11 final size:11
Alignment explanation
Indices: 73785108--73785155 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
73785098 CTTTATATAC
73785108 TAATAAAATAA
1 TAATAAAATAA
*
73785119 TAATAAAATATTT
1 TAATAAAATA--A
* *
73785132 TATTAAAATAT
1 TAATAAAATAA
73785143 TAATAAAATAA
1 TAATAAAATAA
73785154 TA
1 TA
73785156 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:73796508 original size:42 final size:43
Alignment explanation
Indices: 73796420--73796517 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 43
73796410 CCTAGACGTC
* * * *
73796420 GTCTTACATGTAATCTCATATCGATGCCACTGTCTCAAACAGG
1 GTCTTACACGTAATCTCATATCAATGCCAATGTCCCAAACAGG
* *
73796463 GTCTTACACG-AA-CTCATATACAATGCCAATGTCCCAGACATG
1 GTCTTACACGTAATCTCATAT-CAATGCCAATGTCCCAAACAGG
73796505 GTCTTACACGTAA
1 GTCTTACACGTAA
73796518 ATCAAAAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
41 7 0.15
42 29 0.62
43 11 0.23
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (43 bp):
GTCTTACACGTAATCTCATATCAATGCCAATGTCCCAAACAGG
Found at i:73801705 original size:15 final size:16
Alignment explanation
Indices: 73801685--73801726 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
73801675 CATACTTCTC
73801685 ATCATTTGATCA-TAA
1 ATCATTTGATCATTAA
* *
73801700 ATCATTTTATCATTCA
1 ATCATTTGATCATTAA
73801716 A-CATTTGATCA
1 ATCATTTGATCA
73801727 ATTTATTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 20 0.87
16 3 0.13
ACGTcount: A:0.36, C:0.17, G:0.05, T:0.43
Consensus pattern (16 bp):
ATCATTTGATCATTAA
Found at i:73804043 original size:10 final size:10
Alignment explanation
Indices: 73804026--73804075 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
73804016 TTAAATTCTA
73804026 AAAGATAAAT
1 AAAGATAAAT
* *
73804036 ACAGATAATT
1 AAAGATAAAT
*
73804046 AAAGATAATT
1 AAAGATAAAT
*
73804056 AAAGACAAAT
1 AAAGATAAAT
*
73804066 AAAAATAAAT
1 AAAGATAAAT
73804076 CCTAAATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.66, C:0.04, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:73804119 original size:12 final size:13
Alignment explanation
Indices: 73804092--73804120 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
73804082 TTTAAATCAA
73804092 AATAATTATCCTT
1 AATAATTATCCTT
73804105 AATAATTAT-CTT
1 AATAATTATCCTT
73804117 AATA
1 AATA
73804121 TAATAAAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (13 bp):
AATAATTATCCTT
Found at i:73804883 original size:96 final size:95
Alignment explanation
Indices: 73804734--73804906 Score: 283
Period size: 96 Copynumber: 1.8 Consensus size: 95
73804724 TTTTATGTAG
* * **
73804734 GAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGTGAAGCACCCCACCCCGGTTACTCAGC
1 GAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGC
73804799 CCAACATACTTCTAATTTTTATTTGTCTTAA
66 CCAACATA-TTCTAATTTTTATTTGTCTTAA
* *
73804830 GAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCTCACCCCGGTTACTTAGC
1 GAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGC
73804895 CCAACATATTCT
66 CCAACATATTCT
73804907 TAAAAAATAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 4 0.06
96 67 0.94
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (95 bp):
GAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCCCACCCCGGTTACTCAGC
CCAACATATTCTAATTTTTATTTGTCTTAA
Found at i:73805837 original size:21 final size:21
Alignment explanation
Indices: 73805812--73805863 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
73805802 AATAATTAAG
* *
73805812 TAATAAATCATTAAGACAAAA
1 TAATAAATAATTAAAACAAAA
*
73805833 TAATAAATAATTAAAATAAAA
1 TAATAAATAATTAAAACAAAA
*
73805854 TAAAAAATAA
1 TAATAAATAA
73805864 AGAAAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (21 bp):
TAATAAATAATTAAAACAAAA
Found at i:73805861 original size:28 final size:29
Alignment explanation
Indices: 73805829--73805896 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
73805819 TCATTAAGAC
* *
73805829 AAAATAATAAATAATTAAAAT-AAAATAA
1 AAAATAATAAAAAATAAAAATAAAAATAA
73805857 AAAATAA-AGAAAAATAAAAATAAAAATAA
1 AAAATAATA-AAAAATAAAAATAAAAATAA
73805886 AGAAA-AATAAA
1 A-AAATAATAAA
73805897 GAGAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 17 0.50
29 12 0.35
30 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (29 bp):
AAAATAATAAAAAATAAAAATAAAAATAA
Found at i:73805862 original size:12 final size:11
Alignment explanation
Indices: 73805845--73805896 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 11
73805835 ATAAATAATT
73805845 AAAATAAAATAA
1 AAAATAAAA-AA
*
73805857 AAAAT-AAAGA
1 AAAATAAAAAA
73805867 AAAATAAAAATA
1 AAAATAAAAA-A
*
73805879 AAAAT-AAAGA
1 AAAATAAAAAA
73805889 AAAATAAA
1 AAAATAAA
73805897 GAGAAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
10 12 0.35
11 11 0.32
12 11 0.32
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:73805869 original size:10 final size:10
Alignment explanation
Indices: 73805856--73805906 Score: 66
Period size: 10 Copynumber: 4.9 Consensus size: 10
73805846 AAATAAAATA
73805856 AAAAATAAAG
1 AAAAATAAAG
*
73805866 AAAAATAAAAAT
1 AAAAAT--AAAG
73805878 AAAAATAAAG
1 AAAAATAAAG
73805888 AAAAATAAAG
1 AAAAATAAAG
*
73805898 AGAAATAAA
1 AAAAATAAA
73805907 AATTGGGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 27 0.75
12 9 0.25
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (10 bp):
AAAAATAAAG
Found at i:73805869 original size:16 final size:16
Alignment explanation
Indices: 73805856--73805909 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
73805846 AAATAAAATA
*
73805856 AAAAATAAAGAAAAAT
1 AAAAATAAAGAAAAAG
73805872 AAAAATAAA-AATAAAG
1 AAAAATAAAGAA-AAAG
* *
73805888 AAAAATAAAGAGAAAT
1 AAAAATAAAGAAAAAG
73805904 AAAAAT
1 AAAAAT
73805910 TGGGTTGCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.91
17 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAAATAAAGAAAAAG
Found at i:73805873 original size:22 final size:22
Alignment explanation
Indices: 73805845--73805896 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
73805835 ATAAATAATT
73805845 AAAAT-AAAATAAAAAATAAAGA
1 AAAATAAAAAT-AAAAATAAAGA
73805867 AAAATAAAAATAAAAATAAAGA
1 AAAATAAAAATAAAAATAAAGA
73805889 AAAATAAA
1 AAAATAAA
73805897 GAGAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.83, C:0.00, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAATAAAAATAAAAATAAAGA
Found at i:73808876 original size:40 final size:39
Alignment explanation
Indices: 73808839--73809021 Score: 174
Period size: 39 Copynumber: 4.6 Consensus size: 39
73808829 GCTACTCGTT
*
73808839 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGTTATAGTAACTCGCA
* *
73808879 CAAATGCCTTCGGGCTTAGCCCTGATT-TAGTGACTCGCA
1 CAAATGCCTTCGGGCTTAGCCC-GGTTATAGTAACTCGCA
* * *
73808918 CCAATACCTTCGGGCTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGTTA-TAGTAACTCGCA
* * * * * * *
73808957 CAAATGCCTTCGGATCTTAGTCTGGATATAATCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGTTATAGTAAC-TCGCA
73808998 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG
73809022 ACATCATTTG
Statistics
Matches: 116, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
38 1 0.01
39 60 0.52
40 46 0.40
41 9 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGTTATAGTAACTCGCA
Found at i:73824071 original size:10 final size:10
Alignment explanation
Indices: 73824054--73824101 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
73824044 TTAAATTCTA
*
73824054 AAAGATAAGT
1 AAAGATAATT
*
73824064 ACAGATAATT
1 AAAGATAATT
73824074 AAAGATAATT
1 AAAGATAATT
*
73824084 AAAGATAAAT
1 AAAGATAATT
*
73824094 AAAAATAA
1 AAAGATAA
73824102 ATCCTAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (10 bp):
AAAGATAATT
Found at i:73825948 original size:42 final size:42
Alignment explanation
Indices: 73825840--73825949 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
73825830 CATACCAATG
* ****
73825840 CCATATCCTAGATATGGTCTTACATGGGATCTCAAATCGATT
1 CCATATCCCAGATATGGTCTTACACAAAATCTCAAATCGATT
* * *
73825882 CCAATAGCCCAGCTATGGTCTTACACAAAATCTCATATCGATGT
1 CC-ATATCCCAGATATGGTCTTACACAAAATCTCAAATCGAT-T
73825926 -CATATCCCAGATATGGTCTTACAC
1 CCATATCCCAGATATGGTCTTACAC
73825950 GTAAACTCAA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 23 0.41
43 32 0.57
44 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
CCATATCCCAGATATGGTCTTACACAAAATCTCAAATCGATT
Found at i:73831457 original size:40 final size:40
Alignment explanation
Indices: 73831412--73831578 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
73831402 CGGAATATAA
*
73831412 CCGGATGTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
73831452 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
73831492 CCGGACATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
73831532 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
73831571 CCGGATAT
1 CCGGATAT
73831579 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:73832835 original size:55 final size:52
Alignment explanation
Indices: 73832773--73832879 Score: 128
Period size: 55 Copynumber: 2.0 Consensus size: 52
73832763 CCCCCTTTTC
73832773 CCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTCTTTTCTTT
1 CCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTT-TTTTCTTT
***
73832828 CCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTCTTT
1 CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTCTTT
73832880 TTTTTTTTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
52 8 0.17
53 5 0.11
55 30 0.64
56 4 0.09
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
CCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTCTTT
Found at i:73834332 original size:36 final size:36
Alignment explanation
Indices: 73834285--73834358 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
73834275 TAAATCAAGT
73834285 ATGTTATTACAACCATCTTGTGATTGATCTTTGGAC
1 ATGTTATTACAACCATCTTGTGATTGATCTTTGGAC
73834321 ATGTTATTACAACCATCTTGTGATTGATCTTTGGAC
1 ATGTTATTACAACCATCTTGTGATTGATCTTTGGAC
73834357 AT
1 AT
73834359 ACTCTTATAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (36 bp):
ATGTTATTACAACCATCTTGTGATTGATCTTTGGAC
Found at i:73837855 original size:48 final size:48
Alignment explanation
Indices: 73837803--73838037 Score: 337
Period size: 48 Copynumber: 4.9 Consensus size: 48
73837793 CATGTCAAGT
* * * *
73837803 CTGATGCCATGTCCCAGACATGGTCTTACTCTGGCTTTCGTAACATTG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTG
* * * *
73837851 CTGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCTCGTAACATTA
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTG
** *
73837899 CCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTG
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTG
73837947 -TCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTG
1 CT-GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTG
* *
73837995 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAA
1 CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAA
73838038 TGTAACACCC
Statistics
Matches: 171, Mismatches: 14, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
48 171 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.30
Consensus pattern (48 bp):
CTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTG
Found at i:73839627 original size:43 final size:43
Alignment explanation
Indices: 73839517--73839628 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 43
73839507 AATGACAACA
* * * *
73839517 TCCCAGACGTGGTCTTACAGT-AATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACAATAAATCAAATATCGATACCAATG
* * *
73839559 TCCTAGATAGGGTCTTACACA-AAATCAAATA-CGATACCAAT-
1 TCCCAGACATGGTCTTACA-ATAAATCAAATATCGATACCAATG
73839600 TCCCCAGACATGGTCTTACATATAAATCA
1 T-CCCAGACATGGTCTTACA-ATAAATCA
73839629 TAAATTAACG
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.02
42 39 0.71
43 15 0.27
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACAATAAATCAAATATCGATACCAATG
Found at i:73840075 original size:17 final size:17
Alignment explanation
Indices: 73840053--73840091 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
73840043 CTTAATTCAA
73840053 AAAATCACAAAAGACAC
1 AAAATCACAAAAGACAC
*
73840070 AAAATCACAAAATACAC
1 AAAATCACAAAAGACAC
73840087 AAAAT
1 AAAAT
73840092 TTCTATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.67, C:0.21, G:0.03, T:0.10
Consensus pattern (17 bp):
AAAATCACAAAAGACAC
Found at i:73840091 original size:9 final size:8
Alignment explanation
Indices: 73840053--73840091 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 8
73840043 CTTAATTCAA
73840053 AAAATCAC
1 AAAATCAC
*
73840061 AAAAGACAC
1 AAAA-TCAC
73840070 AAAATCAC
1 AAAATCAC
73840078 AAAATACAC
1 AAAAT-CAC
73840087 AAAAT
1 AAAAT
73840092 TTCTATATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.67, C:0.21, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAATCAC
Found at i:73852184 original size:14 final size:14
Alignment explanation
Indices: 73852165--73852191 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73852155 ATATTTAACT
73852165 TGTTCTTAATTATG
1 TGTTCTTAATTATG
73852179 TGTTCTTAATTAT
1 TGTTCTTAATTAT
73852192 TATTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:73859831 original size:28 final size:28
Alignment explanation
Indices: 73859749--73859837 Score: 133
Period size: 28 Copynumber: 3.2 Consensus size: 28
73859739 GAAGTGGTTA
73859749 GGCCTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* *
73859777 AGCTTGATGGGCCATATGAATGTGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
* * *
73859805 GGCCTGATGGGCCATGTGAACGAGATTG
1 GGCCTGATGGGCCATATGAATGTGATTG
73859833 GGCCT
1 GGCCT
73859838 AAAGGGGCCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.21, C:0.16, G:0.36, T:0.27
Consensus pattern (28 bp):
GGCCTGATGGGCCATATGAATGTGATTG
Found at i:73860196 original size:27 final size:28
Alignment explanation
Indices: 73860154--73860574 Score: 269
Period size: 27 Copynumber: 15.6 Consensus size: 28
73860144 TAATAAAGAT
**
73860154 AAATTATATAAATACCCCTAG-TTTGTA
1 AAATTATCGAAATACCCCTAGATTTGTA
* * *
73860181 AAATTATCGAAGTA-CCCTCGATTTATA
1 AAATTATCGAAATACCCCTAGATTTGTA
* *
73860208 AAATTATTGAAATA-CCCTA-AGTTTGAA
1 AAATTATCGAAATACCCCTAGA-TTTGTA
* *
73860235 AAATTATCGAAATA-CTCTCGATTTGTA
1 AAATTATCGAAATACCCCTAGATTTGTA
* * * *
73860262 AAATTACCAAAATACCCTTA-A-TTCTA
1 AAATTATCGAAATACCCCTAGATTTGTA
*
73860288 AATTTA-CTGAAATA-CCCTCA-ATTTGTA
1 AAATTATC-GAAATACCCCT-AGATTTGTA
* * *
73860315 AAATTA-CTAAAATACCCGTA-ATTTGTG
1 AAATTATC-GAAATACCCCTAGATTTGTA
* *
73860342 AAATTATCGAAACA-CCCTCGATTTGTA
1 AAATTATCGAAATACCCCTAGATTTGTA
*
73860369 AAATTA-CTGAAACA-CCCTCA-ATTTGTA
1 AAATTATC-GAAATACCCCT-AGATTTGTA
* * *
73860396 AAATTATCGAAACA-CCCTCGCTTTGTA
1 AAATTATCGAAATACCCCTAGATTTGTA
* *
73860423 AAATTA-CTGAAATA-CCCTCGATTTATA
1 AAATTATC-GAAATACCCCTAGATTTGTA
* * *
73860450 AAATTATCAAAACACCGCT-GATTTGTA
1 AAATTATCGAAATACCCCTAGATTTGTA
* *
73860477 AAATTATCGAAATA-CCCTTG-TAGTGTA
1 AAATTATCGAAATACCCCTAGAT-TTGTA
* *
73860504 AAATTATCGAAACA-CCCTGGATTTGTA
1 AAATTATCGAAATACCCCTAGATTTGTA
** * *
73860531 AAATTATCGAAATACCTTTATA-GTGTA
1 AAATTATCGAAATACCCCTAGATTTGTA
*
73860558 AAATTATAGAAATACCC
1 AAATTATCGAAATACCC
73860575 TTGTAGTGTA
Statistics
Matches: 315, Mismatches: 58, Indels: 42
0.76 0.14 0.10
Matches are distributed among these distances:
25 4 0.01
26 31 0.10
27 264 0.84
28 16 0.05
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.33
Consensus pattern (28 bp):
AAATTATCGAAATACCCCTAGATTTGTA
Found at i:73860238 original size:54 final size:54
Alignment explanation
Indices: 73860163--73860546 Score: 394
Period size: 54 Copynumber: 7.1 Consensus size: 54
73860153 TAAATTATAT
** * *
73860163 AAATACCCCT-AGTTTGTAAAATTATCGAAGTACCCTCGATTTATAAAATTATTG
1 AAATA-CCCTAAGTTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTG
* * * **
73860217 AAATACCCTAAGTTTGAAAAATTATCGAAATACTCTCGATTTGTAAAATTACCA
1 AAATACCCTAAGTTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTG
* * * * *
73860271 AAATACCCTTAA--TTCTAAATTTA-CTGAAATACCCTCAATTTGTAAAATTACTA
1 AAATACCC-TAAGTTTGTAAAATTATC-GAAACACCCTCGATTTGTAAAATTACTG
*
73860324 AAATACCCGTAA-TTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTACTG
1 AAATACCC-TAAGTTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTG
* *
73860378 AAACACCCTCAA-TTTGTAAAATTATCGAAACACCCTCGCTTTGTAAAATTACTG
1 AAATACCCT-AAGTTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTG
* * *
73860432 AAATACCCT-CGATTTATAAAATTATCAAAACACCGCT-GATTTGTAAAATTA-TCG
1 AAATACCCTAAG-TTTGTAAAATTATCGAAACACC-CTCGATTTGTAAAATTACT-G
* * *
73860486 AAATACCCT-TGTAGTGTAAAATTATCGAAACACCCTGGATTTGTAAAATTA-TCG
1 AAATACCCTAAGT-TTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACT-G
73860540 AAATACC
1 AAATACC
73860547 TTTATAGTGT
Statistics
Matches: 286, Mismatches: 32, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.00
53 53 0.19
54 226 0.79
55 6 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
AAATACCCTAAGTTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTACTG
Found at i:73860400 original size:81 final size:79
Alignment explanation
Indices: 73860154--73860601 Score: 356
Period size: 81 Copynumber: 5.5 Consensus size: 79
73860144 TAATAAAGAT
** * * *
73860154 AAATTATATAAATACCCCTAGTTTGTAAAATTATCGAAGTACCCTCGATTTATAAAATTATTGAA
1 AAATTATCGAAATACCCGTA-TTTGTAAAATTATCGAAATACCCTCGATTTATAAAATTACTGAA
* *
73860219 ATACCCTAAGTTTGAA
65 ACACCCTAA-TTTGTA
* * * * * *
73860235 AAATTATCGAAATACTCTCG-ATTTGTAAAATTACCAAAATACCCT-TAATTCTAAATTTACTGA
1 AAATTATCGAAATAC-C-CGTATTTGTAAAATTATCGAAATACCCTCGATTTATAAAATTACTGA
*
73860298 AATACCCTCAATTTGTA
64 AACACCCT-AATTTGTA
* * * *
73860315 AAATTA-CTAAAATACCCGTAATTTGTGAAATTATCGAAACACCCTCGATTTGTAAAATTACTGA
1 AAATTATC-GAAATACCCGT-ATTTGTAAAATTATCGAAATACCCTCGATTTATAAAATTACTGA
73860379 AACACCCTCAATTTGTA
64 AACACCCT-AATTTGTA
* *
73860396 AAATTATCGAAACACCC-TCGCTTTGTAAAATTA-CTGAAATACCCTCGATTTATAAAATTA-TC
1 AAATTATCGAAATACCCGT--ATTTGTAAAATTATC-GAAATACCCTCGATTTATAAAATTACT-
* *
73860458 AAAACACCGCTGATTTGTA
62 GAAACACC-CTAATTTGTA
* * * *
73860477 AAATTATCGAAATACCCTTGTA-GTGTAAAATTATCGAAACACCCTGGATTTGTAAAATTA-TCG
1 AAATTATCGAAATACCC--GTATTTGTAAAATTATCGAAATACCCTCGATTTATAAAATTACT-G
* * * *
73860540 AAATACCTTTATAGTGTA
63 AAACACCCTAAT-TTGTA
* * * *
73860558 AAATTATAGAAATACCCTTGTA-GTGTAAAATGATCGACATACCC
1 AAATTATCGAAATACCC--GTATTTGTAAAATTATCGAAATACCC
73860602 CTGTAGGATA
Statistics
Matches: 304, Mismatches: 46, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
78 2 0.01
79 2 0.01
80 65 0.21
81 227 0.75
82 6 0.02
83 1 0.00
84 1 0.00
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (79 bp):
AAATTATCGAAATACCCGTATTTGTAAAATTATCGAAATACCCTCGATTTATAAAATTACTGAAA
CACCCTAATTTGTA
Found at i:73860581 original size:27 final size:27
Alignment explanation
Indices: 73860392--73860615 Score: 174
Period size: 27 Copynumber: 8.3 Consensus size: 27
73860382 ACCCTCAATT
* * *
73860392 TGTAAAATTATCGAAACACCCTCGCT-T
1 TGTAAAATTATCGAAATACCCTTG-TAG
* *
73860419 TGTAAAATTA-CTGAAATACCCTCG-ATT
1 TGTAAAATTATC-GAAATACCCTTGTA-G
* * * *
73860446 TATAAAATTATCAAAACACCGC-TG-ATT
1 TGTAAAATTATCGAAATACC-CTTGTA-G
73860473 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * *
73860500 TGTAAAATTATCGAAACACCC-TGGATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
* *
73860527 TGTAAAATTATCGAAATACCTTTATAG
1 TGTAAAATTATCGAAATACCCTTGTAG
*
73860554 TGTAAAATTATAGAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * *
73860581 TGTAAAATGATCGACATACCCCTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
73860608 -GATAAAAT
1 TG-TAAAAT
73860616 GACTGTTTTA
Statistics
Matches: 163, Mismatches: 24, Indels: 20
0.79 0.12 0.10
Matches are distributed among these distances:
26 6 0.04
27 152 0.93
28 5 0.03
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:73860614 original size:54 final size:54
Alignment explanation
Indices: 73860342--73860615 Score: 204
Period size: 54 Copynumber: 5.1 Consensus size: 54
73860332 GTAATTTGTG
* * * * ** *
73860342 AAATTATCGAAACACCCTCGATTTGTAAAATTA-CTGAAACACCC-TCAATTTGTA
1 AAATTATAGAAACACCCTGGATGTGTAAAATTATC-GAAATACCCTTGTA-GTGTA
* * * * * * *
73860396 AAATTATCGAAACACCCTCGCTTTGTAAAATTA-CTGAAATACCCTCG-ATTTATA
1 AAATTATAGAAACACCCTGGATGTGTAAAATTATC-GAAATACCCTTGTA-GTGTA
*
73860450 AAATTATCA-AAACACCGCT-GATTTGTAAAATTATCGAAATACCCTTGTAGTGTA
1 AAATTAT-AGAAACACC-CTGGATGTGTAAAATTATCGAAATACCCTTGTAGTGTA
* * * *
73860504 AAATTATCGAAACACCCTGGATTTGTAAAATTATCGAAATACCTTTATAGTGTA
1 AAATTATAGAAACACCCTGGATGTGTAAAATTATCGAAATACCCTTGTAGTGTA
* * * * *
73860558 AAATTATAGAAATACCCTTG-TAGTGTAAAATGATCGACATACCCCTGTAG-GATA
1 AAATTATAGAAACACCCTGGAT-GTGTAAAATTATCGAAATACCCTTGTAGTG-TA
73860612 AAAT
1 AAAT
73860616 GACTGTTTTA
Statistics
Matches: 189, Mismatches: 22, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
53 4 0.02
54 181 0.96
55 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (54 bp):
AAATTATAGAAACACCCTGGATGTGTAAAATTATCGAAATACCCTTGTAGTGTA
Found at i:73861711 original size:13 final size:13
Alignment explanation
Indices: 73861693--73861717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73861683 TTTTCAATGA
73861693 GAACATGGTTTTT
1 GAACATGGTTTTT
73861706 GAACATGGTTTT
1 GAACATGGTTTT
73861718 CAATGAGGGT
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:0.24, C:0.08, G:0.24, T:0.44
Consensus pattern (13 bp):
GAACATGGTTTTT
Found at i:73863937 original size:40 final size:41
Alignment explanation
Indices: 73863825--73864027 Score: 242
Period size: 40 Copynumber: 5.1 Consensus size: 41
73863815 CGGATGATAA
* *
73863825 CCGGGCTAAGTCCCGAAGGCATT-TGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCTGTGCGAGTTACTATA-T
* * *
73863865 CCGGGCTAAG-CCCGAAGGCAATC-GTGCAAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCTGTGCGAGTTACTATAT
73863904 CCGGGCTAAGTCCCGAAGGCATTCT-TGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCTGTGCGAGTTACTATAT
* *
73863944 CCGGGCTAAGTCCCGAAGGCATT-TGTGCGAGTTCCTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCTGTGCGAGTTACTATAT
* * *
73863984 CTGGGCTATGTCCCGAAGGCATTC-GAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCTGTGCGAGTTA-CTATAT
73864024 CCGG
1 CCGG
73864028 TTGAATTCCG
Statistics
Matches: 141, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
39 34 0.24
40 107 0.76
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTCTGTGCGAGTTACTATAT
Found at i:73868339 original size:5 final size:5
Alignment explanation
Indices: 73868321--73868356 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
73868311 TTTCTTTTAT
73868321 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
73868357 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:73870716 original size:29 final size:29
Alignment explanation
Indices: 73870677--73870755 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
73870667 CTTAATAATC
73870677 AACCACGCACACTTAGTGCCATGTAC-TTT-A
1 AACC-CGCACACTTAGTGCCA--TACATTTCA
*
73870707 AACTCGCACACTTAGTGCCATACATTTCA
1 AACCCGCACACTTAGTGCCATACATTTCA
*
73870736 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
73870756 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 3 0.07
28 3 0.07
29 35 0.80
30 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACATTTCA
Found at i:73871420 original size:2 final size:2
Alignment explanation
Indices: 73871396--73871437 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
73871386 TGATGGCCGA
* * *
73871396 AT AT GT AT AT CT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73871438 CAACTATACT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:73874342 original size:42 final size:43
Alignment explanation
Indices: 73874230--73874393 Score: 108
Period size: 43 Copynumber: 3.8 Consensus size: 43
73874220 GTTTGTTATG
* * *
73874230 TGATTTCATGTAAGACCAC-GTCTGGGACATTGGCATCGACTTC
1 TGATTTCATGTAAGACC-CTGTCTGGGACATCGGCAACGACTTA
* * *
73874273 TG-TTTTATGTGTAAGACCATGTTTGGGACATCGGCAAC-A-TATA
1 TGATTTCA--TGTAAGACCCTGTCTGGGACATCGGCAACGACT-TA
* * *
73874316 TGATTTCATGTAAGACCCTGTCTGGGATAGT-GGCATCGA-TGTT
1 TGATTTCATGTAAGACCCTGTCTGGGACA-TCGGCAACGACT-TA
* * *
73874359 TGATTACATTTAAGACCAC-GTCTGGGACATTGGCA
1 TGATTTCATGTAAGACC-CTGTCTGGGACATCGGCA
73874394 TTGTATATGT
Statistics
Matches: 96, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
42 29 0.30
43 38 0.40
44 29 0.30
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATCGGCAACGACTTA
Found at i:73880022 original size:17 final size:17
Alignment explanation
Indices: 73879997--73880030 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
73879987 AGTATGGTGA
*
73879997 GAAAGGGTTGTGAAGCT
1 GAAAAGGTTGTGAAGCT
73880014 GAAAAGGTTGTGAAGCT
1 GAAAAGGTTGTGAAGCT
73880031 TATTTTACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.38, T:0.24
Consensus pattern (17 bp):
GAAAAGGTTGTGAAGCT
Found at i:73885086 original size:43 final size:41
Alignment explanation
Indices: 73885036--73885129 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 41
73885026 TCCCAGATGT
*
73885036 GGTCTTACATGTAATCAAATATCGATGAC-ACTGTCCCAGACAG
1 GGTCTTACATGAAATCAAATAT-GAT-ACGA-TGTCCCAGACAG
*
73885079 GGTCTTACATGAAATCAAATATGATACTGATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATATGATAC-GATGTCCCAGACAG
73885121 GGTCTTACA
1 GGTCTTACA
73885130 CATAAATCAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
41 2 0.04
42 23 0.49
43 22 0.47
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (41 bp):
GGTCTTACATGAAATCAAATATGATACGATGTCCCAGACAG
Found at i:73885126 original size:42 final size:43
Alignment explanation
Indices: 73885025--73885129 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
73885015 CAATGCCAAC
** *
73885025 GTCCCAGATGTGGTCTTACATGTAATCAAATATCGATGACACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGACACT
*
73885068 GTCCCAGACAGGGTCTTACATGAAATCAAATAT-GAT-ACTGA-T
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGAC--ACT
73885110 GTCCCAGACATGGTCTTACA
1 GTCCCAGACATGGTCTTACA
73885130 CATAAATCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
41 2 0.04
42 23 0.42
43 30 0.55
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGACACT
Found at i:73885137 original size:43 final size:44
Alignment explanation
Indices: 73885025--73885174 Score: 118
Period size: 43 Copynumber: 3.5 Consensus size: 44
73885015 CAATGCCAAC
** **
73885025 GTCCCAGATGTGGTCTTACATGT-AATCAAATATCGATGACACT
1 GTCCCAGACATGGTCTTACACATAAATCAAATATCGATGACACT
*
73885068 GTCCCAGACAGGGTCTT--ACATGAAATCAAATAT-GAT-ACTGA-T
1 GTCCCAGACATGGTCTTACACAT-AAATCAAATATCGATGAC--ACT
*
73885110 GTCCCAGACATGGTCTTACACATAAATCATAA-ATCGATGCCAACT
1 GTCCCAGACATGGTCTTACACATAAATCA-AATATCGATGAC-ACT
* **
73885155 -TCCCCGATGTGGTCTTACAC
1 GTCCCAGACATGGTCTTACAC
73885175 GAAAACACTT
Statistics
Matches: 86, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
41 4 0.05
42 20 0.23
43 33 0.38
44 27 0.31
45 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACATAAATCAAATATCGATGACACT
Found at i:73888465 original size:40 final size:39
Alignment explanation
Indices: 73888362--73888542 Score: 211
Period size: 40 Copynumber: 4.5 Consensus size: 39
73888352 ACAAAGCATG
* * * *
73888362 CGGGACTTTAAGCCCGGATATAATAACTATGCAC-AAAGCCTA
1 CGGGAC-TT-AGCCCGGATATAA-CACCA-GCACGAATGCCTT
*
73888404 CGGGACTTTAGCCCAGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
73888444 CGGGACTTAGACCGGATTATAACAGCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGA-TATAACACCAGCACGAATGCCTT
*
73888484 CGGGACTTCGCCCGGATATAACACCAGCAACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGC-ACGAATGCCTT
*
73888524 CGGGACTTAGCCCAGATAT
1 CGGGACTTAGCCCGGATAT
73888543 TGTGACAGCC
Statistics
Matches: 123, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
39 23 0.19
40 79 0.64
41 12 0.10
42 9 0.07
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:73890293 original size:40 final size:40
Alignment explanation
Indices: 73890205--73890356 Score: 168
Period size: 39 Copynumber: 3.9 Consensus size: 40
73890195 CTGGGTTAAG
* *
73890205 ACCCGAAGGCAATTGTGCTAGT-GACTT-TATCC-GGCTAAT
1 ACCCGAAGGCATTTGTGCGAGTCG--TTATATCCGGGCTAAT
* *
73890244 ACCCGAAGGCATTTGTGCAAGTTGTTATATCCGGGCTAAT
1 ACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAT
* * *
73890284 ACCCTAAGGCATTTGTGCGAGTCGTTATAT-CGGGTTAAG
1 ACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAT
* * *
73890323 ACCCGAAGGCATTCGTGCGTGTGGTTATATCCGG
1 ACCCGAAGGCATTTGTGCGAGTCGTTATATCCGG
73890357 TTGTATTCCG
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.02
39 58 0.59
40 38 0.39
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
ACCCGAAGGCATTTGTGCGAGTCGTTATATCCGGGCTAAT
Found at i:73901767 original size:27 final size:28
Alignment explanation
Indices: 73901711--73901779 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
73901701 AAATTTGTAC
73901711 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
73901739 AGCACTACGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
73901766 AGCACTAA-TGTGCG
1 AGCACTAAGTGTGCG
73901780 GACTCACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 6 0.15
27 17 0.44
28 16 0.41
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:73904643 original size:27 final size:27
Alignment explanation
Indices: 73904613--73904891 Score: 351
Period size: 27 Copynumber: 10.3 Consensus size: 27
73904603 CCTTGGTTAA
* * *
73904613 TAAAATTATCGTAATACCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
*
73904640 TAAAATGACCGTAATGCCCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* * *
73904667 TAAAATGACTGTAATACCCCTGTAGGT
1 TAAAATGACCGTAATACCCCTATAGGG
73904694 TAAAATGACCGTAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
*
73904721 TAAAATGACCATAATACCCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* * *
73904748 TAAAATGACTGTAATGCTCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* *** * *
73904775 TAAAATAATATTAATGCCCCTATAGGA
1 TAAAATGACCGTAATACCCCTATAGGG
* *
73904802 TAAAATGTCCGTAATGCCCCTATAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
*
73904829 TAAAATGACCGTAATACCCCTGTAGGG
1 TAAAATGACCGTAATACCCCTATAGGG
* * *
73904856 TAAAATGATCGTAATACCCCTGTATGG
1 TAAAATGACCGTAATACCCCTATAGGG
73904883 TAAAATGAC
1 TAAAATGAC
73904892 AATTATGCCC
Statistics
Matches: 218, Mismatches: 34, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 218 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
TAAAATGACCGTAATACCCCTATAGGG
Found at i:73904708 original size:81 final size:81
Alignment explanation
Indices: 73904613--73904891 Score: 396
Period size: 81 Copynumber: 3.4 Consensus size: 81
73904603 CCTTGGTTAA
* *
73904613 TAAAATTATCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTG
1 TAAAATGATCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTG
*
73904678 TAATACCCCTGTAGGT
66 TAATACCCCTGTAGGG
* * *
73904694 TAAAATGACCGTAATACCCCTATAGGGTAAAATGACCATAATACCCCTATAGGGTAAAATGACTG
1 TAAAATGATCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTG
* * *
73904759 TAATGCTCCTATAGGG
66 TAATACCCCTGTAGGG
* ** * * * *
73904775 TAAAATAATATTAATGCCCCTATAGGATAAAATGTCCGTAATGCCCCTATAGGGTAAAATGACCG
1 TAAAATGATCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTG
73904840 TAATACCCCTGTAGGG
66 TAATACCCCTGTAGGG
* *
73904856 TAAAATGATCGTAATACCCCTGTATGGTAAAATGAC
1 TAAAATGATCGTAATACCCCTATAGGGTAAAATGAC
73904892 AATTATGCCC
Statistics
Matches: 168, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 168 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (81 bp):
TAAAATGATCGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCCTATAGGGTAAAATGACTG
TAATACCCCTGTAGGG
Found at i:73910434 original size:42 final size:42
Alignment explanation
Indices: 73910324--73910478 Score: 136
Period size: 42 Copynumber: 3.7 Consensus size: 42
73910314 AGCTCGTACA
* * ** * *
73910324 ATGCAAATGTCCCAGACGTGGGATTACATGTAATTAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATA-CG
* * *
73910367 ATGCCACTGTCCCAGATA-GGTTCTTACATGAAATCATATACG
1 ATGCCAATGTCCCAGACATGG-TCTTACATGAAATCAAATACG
*
73910409 ATGCCAATGTCCCAGACATGGTCTTACA-CAAATCGCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAAT--CAAATACG
** *
73910451 ATGCCAACATCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
73910479 CGATAACAGA
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
41 4 0.04
42 54 0.59
43 34 0.37
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCAAATACG
Found at i:73916383 original size:27 final size:27
Alignment explanation
Indices: 73916321--73916433 Score: 106
Period size: 27 Copynumber: 4.2 Consensus size: 27
73916311 AGCATGGCTG
* * * *
73916321 CCAGAACAGATAA-TGTGACAGGGTCA
1 CCAGGACAGATAATTGTGGCAGAGCCA
* *
73916347 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAG-GACAGATAATTGTGGCAGAGCCA
73916375 CCAGGACAGA-AATATGTGGCAGAGCCA
1 CCAGGACAGATAAT-TGTGGCAGAGCCA
* *
73916402 CCA-GATTAGATAATTGTGGCATAGCCA
1 CCAGGA-CAGATAATTGTGGCAGAGCCA
73916429 CCAGG
1 CCAGG
73916434 CCGCTTCCTC
Statistics
Matches: 72, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
26 9 0.12
27 46 0.64
28 17 0.24
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (27 bp):
CCAGGACAGATAATTGTGGCAGAGCCA
Found at i:73917698 original size:22 final size:22
Alignment explanation
Indices: 73917671--73917713 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
73917661 ACAGAAGAAG
* *
73917671 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
73917693 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
73917714 GAAGAGTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:73920292 original size:5 final size:5
Alignment explanation
Indices: 73920282--73920343 Score: 78
Period size: 5 Copynumber: 13.0 Consensus size: 5
73920272 AATAATTAAG
*
73920282 TATAT TATA- T-TAT TATAT TATAT TATA- T-TCT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
73920328 TATAT TATTAT TATAT
1 TATAT TA-TAT TATAT
73920344 ATAAAAGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
3 3 0.06
4 4 0.08
5 38 0.76
6 5 0.10
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:73920300 original size:13 final size:13
Alignment explanation
Indices: 73920282--73920338 Score: 71
Period size: 13 Copynumber: 4.2 Consensus size: 13
73920272 AATAATTAAG
73920282 TATATTATATTAT
1 TATATTATATTAT
73920295 TATATTATATTA-
1 TATATTATATTAT
*
73920307 TATTCTTATATTATAT
1 TA-TATTATA-T-TAT
73920323 TATATTATATTAT
1 TATATTATATTAT
73920336 TAT
1 TAT
73920339 TATATATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
12 2 0.05
13 24 0.63
14 2 0.05
15 8 0.21
16 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:73920344 original size:13 final size:14
Alignment explanation
Indices: 73920284--73920346 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 14
73920274 TAATTAAGTA
73920284 TATTATAT-TAT-T
1 TATTATATATATAT
73920296 ATATTATAT-TATAT
1 -TATTATATATATAT
*
73920310 TCTTATAT-TATAT
1 TATTATATATATAT
73920323 TA-TAT-TATATTAT
1 TATTATATATA-TAT
73920336 TATTATATATA
1 TATTATATATA
73920347 AAAGAAACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
11 1 0.02
12 5 0.12
13 29 0.67
14 4 0.09
15 4 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATATATATAT
Found at i:73920345 original size:18 final size:18
Alignment explanation
Indices: 73920282--73920330 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
73920272 AATAATTAAG
73920282 TATATTATATTATTATAT
1 TATATTATATTATTATAT
*
73920300 TATATTATATTCTTATAT
1 TATATTATATTATTATAT
73920318 TATATTATATTAT
1 TATATTATATTAT
73920331 ATTATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (18 bp):
TATATTATATTATTATAT
Found at i:73921562 original size:26 final size:25
Alignment explanation
Indices: 73921473--73921580 Score: 123
Period size: 25 Copynumber: 4.4 Consensus size: 25
73921463 CTAGAGGCTT
*
73921473 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
73921497 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
73921522 AGCCCTTTTAATAAACTAGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* * *
73921547 AGCCCCTTTCGGTAAACTGGGGC-AT
1 AG-CCCTTTTGATAAACTGGGGCAAA
73921572 AGCCCTTTT
1 AGCCCTTTT
73921581 TGCACTTCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.10
24 19 0.26
25 30 0.42
26 16 0.22
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:73921651 original size:20 final size:20
Alignment explanation
Indices: 73921628--73921674 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
73921618 TTATGAATAC
73921628 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
*
73921647 TATCATATGCATATCATATCA
1 -ATCATGTGCATATCATATCA
73921668 ATCATGT
1 ATCATGT
73921675 ATATCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:73921653 original size:5 final size:5
Alignment explanation
Indices: 73921636--73921672 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
73921626 ACATCATGTG
73921636 CATAT CATA- CATAT CATAT GCATAT CATAT CA-AT CAT
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CAT
73921673 GTATATCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 8 0.28
5 16 0.55
6 5 0.17
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (5 bp):
CATAT
Found at i:73921659 original size:11 final size:11
Alignment explanation
Indices: 73921628--73921665 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
73921618 TTATGAATAC
*
73921628 ATCATGTGCAT
1 ATCATATGCAT
73921639 ATCATA--CAT
1 ATCATATGCAT
73921648 ATCATATGCAT
1 ATCATATGCAT
73921659 ATCATAT
1 ATCATAT
73921666 CAATCATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 9 0.38
11 15 0.62
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (11 bp):
ATCATATGCAT
Found at i:73921671 original size:9 final size:10
Alignment explanation
Indices: 73921636--73921672 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
73921626 ACATCATGTG
73921636 CATATCATA-
1 CATATCATAT
73921645 CATATCATAT
1 CATATCATAT
73921655 GCATATCATAT
1 -CATATCATAT
73921666 CA-ATCAT
1 CATATCAT
73921673 GTATATCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 14 0.54
10 2 0.08
11 10 0.38
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.35
Consensus pattern (10 bp):
CATATCATAT
Found at i:73921680 original size:18 final size:16
Alignment explanation
Indices: 73921636--73921667 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
73921626 ACATCATGTG
73921636 CATAT-CATA-CATAT
1 CATATGCATATCATAT
73921650 CATATGCATATCATAT
1 CATATGCATATCATAT
73921666 CA
1 CA
73921668 ATCATGTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 4 0.25
16 7 0.44
ACGTcount: A:0.41, C:0.22, G:0.03, T:0.34
Consensus pattern (16 bp):
CATATGCATATCATAT
Found at i:73927196 original size:45 final size:45
Alignment explanation
Indices: 73927145--73927243 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
73927135 TTACTACTGT
73927145 TACTGTTACCGTTACTATTATC-GATTC-GACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTATTA-CAGATTCAG-CACTTTGTGTGTCGAA
* * *
73927190 TACTGTTACCGTTATTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTATTACAGATTCAGCACTTTGTGTGTCGAA
73927235 TACTGTTAC
1 TACTGTTAC
73927244 TATTACTGTA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
44 1 0.02
45 47 0.96
46 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTATTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:73932859 original size:5 final size:5
Alignment explanation
Indices: 73932849--73932913 Score: 98
Period size: 5 Copynumber: 13.0 Consensus size: 5
73932839 AATAATTAAG
73932849 TATAT TATAT TATTAT TATAT TATAT TATAT TATAT TATAT TATA- T-TAT
1 TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
73932898 TATAT TATTAT TATAT
1 TATAT TA-TAT TATAT
73932914 ATAAAAGAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.04
4 2 0.04
5 42 0.75
6 10 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:73932862 original size:3 final size:3
Alignment explanation
Indices: 73932851--73932911 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
73932841 TAATTAAGTA
73932851 TAT TA- TAT TAT TAT TA- TAT TA- TAT TA- TAT TA- TAT TA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
73932892 TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
73932912 ATATAAAAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
2 16 0.32
3 34 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:73932864 original size:8 final size:9
Alignment explanation
Indices: 73932849--73932915 Score: 79
Period size: 8 Copynumber: 7.6 Consensus size: 9
73932839 AATAATTAAG
73932849 TATATTATA
1 TATATTATA
73932858 T-TATTAT-
1 TATATTATA
73932865 TATATTATA
1 TATATTATA
73932874 TTATATTATA
1 -TATATTATA
73932884 TTATATTATA
1 -TATATTATA
73932894 T-TATTATA
1 TATATTATA
73932902 T-TATTATTA
1 TATATTA-TA
73932911 TATAT
1 TATAT
73932916 AAAAGAAACA
Statistics
Matches: 53, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
7 1 0.02
8 25 0.47
9 5 0.09
10 22 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
TATATTATA
Found at i:73933771 original size:40 final size:40
Alignment explanation
Indices: 73933691--73933771 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
73933681 AATTATGGGA
* ** *
73933691 TACTGAATATTGTTTTGAATACTGAATTGAACTATGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTATAAAAT
* * *
73933731 TACTGAATAATGTTACGTATACTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTATAAAAT
73933771 T
1 T
73933772 TCTAATGAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACTATAAAAT
Found at i:73937212 original size:28 final size:28
Alignment explanation
Indices: 73937170--73937272 Score: 161
Period size: 28 Copynumber: 3.7 Consensus size: 28
73937160 GTGTTACATT
* *
73937170 AGGCCCAATCTCATTCATATAGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
73937198 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
73937226 GGGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
73937254 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
73937273 GTCATGCAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 68 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:73937510 original size:16 final size:16
Alignment explanation
Indices: 73937489--73937519 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
73937479 CAAACTTCTG
73937489 GCTTTTCAGCATTTCA
1 GCTTTTCAGCATTTCA
73937505 GCTTTTCAGCATTTC
1 GCTTTTCAGCATTTC
73937520 GAGATTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.13, T:0.45
Consensus pattern (16 bp):
GCTTTTCAGCATTTCA
Found at i:73937681 original size:54 final size:54
Alignment explanation
Indices: 73937617--73937725 Score: 182
Period size: 54 Copynumber: 2.0 Consensus size: 54
73937607 GATACTCAAC
73937617 GATTAATCACACACTTATCAAATACGATCACCAAAAACCAAAAATCTGACCTTT
1 GATTAATCACACACTTATCAAATACGATCACCAAAAACCAAAAATCTGACCTTT
* ** *
73937671 GATTAATCACACACTTATCAAATACGATCACCAAAAGCTGAAAATTTGACCTTT
1 GATTAATCACACACTTATCAAATACGATCACCAAAAACCAAAAATCTGACCTTT
73937725 G
1 G
73937726 TCTTACCTTG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (54 bp):
GATTAATCACACACTTATCAAATACGATCACCAAAAACCAAAAATCTGACCTTT
Found at i:73937852 original size:21 final size:21
Alignment explanation
Indices: 73937823--73937862 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
73937813 AACTAAACAC
*
73937823 AAGTGACTCACAAATCATCTT
1 AAGTCACTCACAAATCATCTT
**
73937844 AAGTCACTCTTAAATCATC
1 AAGTCACTCACAAATCATC
73937863 CATGACCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (21 bp):
AAGTCACTCACAAATCATCTT
Found at i:73940028 original size:40 final size:40
Alignment explanation
Indices: 73939979--73940186 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
73939969 TCTTCGGAAT
* * *
73939979 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
73940018 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
73940058 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGAGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* **
73940098 TTAGCCCGGATATAACAACTCGCATGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
73940138 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
73940178 TTAGCCCGG
1 TTAGCCCGG
73940187 GTATCAATCA
Statistics
Matches: 145, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
39 3 0.02
40 141 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:73949978 original size:17 final size:18
Alignment explanation
Indices: 73949956--73949989 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
73949946 CATATTGAAG
73949956 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
73949973 TGTTTTCATCGAAAACC
1 TGTTTTCATCGAAAACC
73949990 CTCCTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:73951278 original size:28 final size:28
Alignment explanation
Indices: 73951234--73951366 Score: 212
Period size: 28 Copynumber: 4.8 Consensus size: 28
73951224 GTCAACCCCT
* *
73951234 TTAGGCCCAATCTCATTCATATGGCCCG
1 TTAGGCCCAATCACATTCATATGGCCCA
*
73951262 TTAGGCCCAATCACATTCATCTGGCCCA
1 TTAGGCCCAATCACATTCATATGGCCCA
*
73951290 TTAGGCCCAATCACATTCATATGGCCTA
1 TTAGGCCCAATCACATTCATATGGCCCA
* *
73951318 TTAGGCCCAATCACTTTCATATGGCCCG
1 TTAGGCCCAATCACATTCATATGGCCCA
73951346 TTAGGCCCAATCACATTCATA
1 TTAGGCCCAATCACATTCATA
73951367 CTCATGCAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 96 1.00
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.28
Consensus pattern (28 bp):
TTAGGCCCAATCACATTCATATGGCCCA
Found at i:73951604 original size:16 final size:16
Alignment explanation
Indices: 73951583--73951614 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
73951573 CCAAACTTCT
*
73951583 GGCTTTTCGGCATTTC
1 GGCTTTTCGACATTTC
73951599 GGCTTTTCGACATTTC
1 GGCTTTTCGACATTTC
73951615 AGGATTTGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.44
Consensus pattern (16 bp):
GGCTTTTCGACATTTC
Found at i:73957818 original size:79 final size:81
Alignment explanation
Indices: 73957682--73957864 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
73957672 TCGAATGATG
* *
73957682 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
73957746 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
73957761 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
73957823 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
73957841 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
73957865 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:73957880 original size:40 final size:40
Alignment explanation
Indices: 73957683--73957866 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
73957673 CGAATGATGT
* * * *
73957683 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
73957723 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
73957763 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73957801 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
73957842 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
73957867 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:73957888 original size:79 final size:79
Alignment explanation
Indices: 73957735--73957889 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
73957725 GGACTAAGAT
* **
73957735 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
73957800 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
73957814 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
73957877 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
73957890 ATTCTGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:73968514 original size:40 final size:40
Alignment explanation
Indices: 73968469--73968635 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
73968459 CGGAATATAA
73968469 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
73968509 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
73968549 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
73968589 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
73968628 CCGGATAT
1 CCGGATAT
73968636 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Done.