Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 217 of 427
Found at i:61195672 original size:42 final size:42
Alignment explanation
Indices: 61195511--61195665 Score: 220
Period size: 42 Copynumber: 3.7 Consensus size: 42
61195501 TACCATACCA
* * *
61195511 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
61195553 ATGCCAATAGCCCAGCTATAGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
61195596 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
61195638 ATGCCATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
61195666 ATAGTCTTAG
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
42 63 0.64
43 36 0.36
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:61200614 original size:47 final size:47
Alignment explanation
Indices: 61200507--61200618 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
61200497 ACAGTAATGC
61200507 AAATAAATTGCCACATAATAAAAATCATGGACAAGCCACCAAAATCTA
1 AAATAAATTGCCA-ATAATAAAAATCATGGACAAGCCACCAAAATCTA
* ** * *
61200555 AAATATATTGCCAATAATCGAAATCATGGACAAGCCATCAAAGTCGT-
1 AAATAAATTGCCAATAATAAAAATCATGGACAAGCCACCAAAATC-TA
* *
61200602 AGATAAACTGCCAATAA
1 AAATAAATTGCCAATAA
61200619 CTTCCAACTT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
47 42 0.76
48 13 0.24
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.21
Consensus pattern (47 bp):
AAATAAATTGCCAATAATAAAAATCATGGACAAGCCACCAAAATCTA
Found at i:61222873 original size:2 final size:2
Alignment explanation
Indices: 61222866--61222897 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
61222856 AACCAAATAC
61222866 AT AT AT AT AT 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
61222898 GGACATATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61228519 original size:13 final size:13
Alignment explanation
Indices: 61228501--61228532 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
61228491 AGAACATGGG
61228501 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
61228514 CGTGTGCCTTGGC
1 CGTGTGCCTTGGC
61228527 CGTGTG
1 CGTGTG
61228533 GATGACGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.41, T:0.31
Consensus pattern (13 bp):
CGTGTGCCTTGGC
Found at i:61230088 original size:21 final size:21
Alignment explanation
Indices: 61230064--61230104 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
61230054 GTCATAATAG
61230064 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
61230085 CCACATGGGCGTGTTGCCCT
1 CCACACGGGCGTGTTGCCCT
61230105 GCTTCAAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.37, G:0.29, T:0.24
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:61231546 original size:50 final size:49
Alignment explanation
Indices: 61231476--61231605 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 49
61231466 AAAATTGTGA
* **
61231476 TCACATGTGTAATACTAAGTGCAGGCTACTACATGTATTAGA-TGGTGAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGG
* * *
61231526 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGG
*
61231575 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
61231606 TGCGTACCAG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 31 0.44
50 39 0.55
51 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGG
Found at i:61231599 original size:49 final size:48
Alignment explanation
Indices: 61231428--61231617 Score: 191
Period size: 49 Copynumber: 3.8 Consensus size: 48
61231418 TGTGAGGTTG
* * * **
61231428 CATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCGAAAATTGTGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATGTTG-G-TCA
* ** ** *
61231479 CATGTGTAATACTAAGTGCAGGCTACTACATGTATTAGATGGTGAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-GT-TGGTCA
* * *
61231529 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TGTTGGTCA
*
61231578 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT
61231618 AGCTTCGGCT
Statistics
Matches: 115, Mismatches: 21, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 40 0.35
50 40 0.35
51 33 0.29
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (48 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGTTGGTCA
Found at i:61233829 original size:40 final size:40
Alignment explanation
Indices: 61233685--61234018 Score: 536
Period size: 40 Copynumber: 8.5 Consensus size: 40
61233675 CGGATGATAA
* *
61233685 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61233724 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61233763 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61233802 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61233842 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61233882 CCGGG-TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61233921 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61233961 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
61234001 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61234019 TACTTGGTTT
Statistics
Matches: 278, Mismatches: 12, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
38 24 0.09
39 114 0.41
40 140 0.50
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61233834 original size:79 final size:80
Alignment explanation
Indices: 61233685--61234018 Score: 536
Period size: 79 Copynumber: 4.2 Consensus size: 80
61233675 CGGATGATAA
* * *
61233685 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
61233748 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
61233763 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
61233827 TGCGAGTTACTATAA
66 TGCGAGTTACTATAT
61233842 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGG-TAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
61233906 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
*
61233921 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
61233986 AGCAAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
61234001 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61234019 TACTTGGTTT
Statistics
Matches: 241, Mismatches: 10, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
77 23 0.10
78 22 0.09
79 132 0.55
80 64 0.27
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:61233897 original size:119 final size:118
Alignment explanation
Indices: 61233685--61234018 Score: 539
Period size: 119 Copynumber: 2.8 Consensus size: 118
61233675 CGGATGATAA
* * **
61233685 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
61233748 TGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTATATCCGGG-TAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
61233802 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
61233867 TGCGAGTTACTATATCCGGGTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTATATCCGGGTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
61233921 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* * * *
61233986 AGCAAG-TAGCTATATCCGGCTAAATTCCGAAGG
66 TGCGAGTTA-CTATATCCGGGT-AAGTCCGAAGG
61234019 TACTTGGTTT
Statistics
Matches: 204, Mismatches: 8, Indels: 8
0.93 0.04 0.04
Matches are distributed among these distances:
117 35 0.17
118 17 0.08
119 149 0.73
120 3 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (118 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATATCCGGGTAAGTCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61241915 original size:40 final size:40
Alignment explanation
Indices: 61241811--61242184 Score: 564
Period size: 40 Copynumber: 9.5 Consensus size: 40
61241801 CGGATGATAA
* *
61241811 CCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
61241850 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
61241889 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61241929 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61241969 CCGGGCTAAGTGCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61242009 CCAGGCTAAGTCCCGAAGGCATTTGTG-GAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61242048 CTGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
61242087 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
61242127 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
61242167 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
61242185 TACTTGGTTT
Statistics
Matches: 309, Mismatches: 20, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
38 15 0.05
39 101 0.33
40 193 0.62
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:61242095 original size:158 final size:158
Alignment explanation
Indices: 61241807--61242184 Score: 586
Period size: 158 Copynumber: 2.4 Consensus size: 158
61241797 TATTCGGATG
* *
61241807 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 ATAACCGGGCTAAGTCCGAAGGCATTTGTGCAAGTTACTATA-TCC-GGCTAAGTCCCGAAGGCA
*
61241870 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
64 TTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
61241935 TAAGTCCCAAAGGCATTTGTGCGAGTTACT
129 TAAGTCCCAAAGGCATTTGTGCGAGTTACT
*
61241965 ATAACCGGGCTAAGTGCCGAAGGCATTTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACTATATCC-GGCTAAGTCCCGAAGGCA
*
61242030 TTTGTG-GAGTTACTATAACTGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
64 TTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
*
61242093 TAAGTCCCGAAGGCATTTGTGCGAGTTACT
129 TAAGTCCCAAAGGCATTTGTGCGAGTTACT
* * *
61242123 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTTA-CTATATCCGGCTAAGTCCCGAAGG
61242185 TACTTGGTTT
Statistics
Matches: 205, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
157 16 0.08
158 118 0.58
159 54 0.26
160 17 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (158 bp):
ATAACCGGGCTAAGTCCGAAGGCATTTGTGCAAGTTACTATATCCGGCTAAGTCCCGAAGGCATT
TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTA
AGTCCCAAAGGCATTTGTGCGAGTTACT
Found at i:61253440 original size:30 final size:30
Alignment explanation
Indices: 61253385--61253544 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
61253375 ATAGTGAATC
61253385 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
61253414 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
61253444 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
61253473 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
61253501 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
61253531 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61253545 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:61253477 original size:59 final size:57
Alignment explanation
Indices: 61253385--61253544 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
61253375 ATAGTGAATC
*
61253385 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
61253444 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
61253501 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
61253545 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:61261353 original size:30 final size:30
Alignment explanation
Indices: 61261298--61261457 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
61261288 ATAGTGAATC
61261298 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
61261327 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
61261357 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
61261386 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
61261414 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
61261444 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61261458 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:61261390 original size:59 final size:57
Alignment explanation
Indices: 61261298--61261457 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
61261288 ATAGTGAATC
*
61261298 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
61261357 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
61261414 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
61261458 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:61264095 original size:40 final size:40
Alignment explanation
Indices: 61264033--61264137 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
61264023 CATTTGAATG
* * * *
61264033 ATATCCGGGCTAAGTCCTGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TT
* *
61264073 ATGTCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
61264113 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
61264138 ATGGTGCAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 55 0.96
41 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTGTT
Found at i:61264159 original size:40 final size:40
Alignment explanation
Indices: 61264076--61264184 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
61264066 AGTGATTATG
* * *** *
61264076 TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATA
1 TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
*
61264116 TCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACCAAA
1 TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
* ** *
61264156 TCCGGGTTAAGACCAAAAGGCAATTGTGC
1 TCCGGGCTAAGACCCGAAGGCAATCGTGC
61264185 TTGTGGTTGT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.20
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCAATCGTGCAAGTTACCAAA
Found at i:61266863 original size:34 final size:34
Alignment explanation
Indices: 61266825--61266892 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
61266815 TTTCAATGAC
61266825 TATGGGGTTTGTTTCTCTTAAAACCAGACTCAAT
1 TATGGGGTTTGTTTCTCTTAAAACCAGACTCAAT
61266859 TATGGGGTTTGTTTCTCTTAAAACCAGACTCAAT
1 TATGGGGTTTGTTTCTCTTAAAACCAGACTCAAT
61266893 AAGGAATCTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (34 bp):
TATGGGGTTTGTTTCTCTTAAAACCAGACTCAAT
Found at i:61267989 original size:93 final size:93
Alignment explanation
Indices: 61267830--61268000 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
61267820 CCCCTTAAGT
* * *
61267830 GAACTCGGACTCAACTTAACAAGCTCGGGCGTTCACATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
61267895 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * ** *
61267923 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
61267988 CGAGTTCGGATGC
66 CGAGTTCGGATGC
61268001 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCACATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61267990 original size:46 final size:46
Alignment explanation
Indices: 61267825--61267997 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
61267815 TATCCCCCCT
* * * * * *
61267825 TAAGTGAACTCGGACTCAACTTAACAAGCTCGGGCGTTCACATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
* *
61267871 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTACATCCA
* * *
61267919 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
61267964 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61267998 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.55
47 29 0.27
48 2 0.02
49 2 0.02
50 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCA
Found at i:61275838 original size:10 final size:10
Alignment explanation
Indices: 61275823--61275847 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61275813 TCTTAGCCTG
61275823 GCCCGGTGCA
1 GCCCGGTGCA
61275833 GCCCGGTGCA
1 GCCCGGTGCA
61275843 GCCCG
1 GCCCG
61275848 AATATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.44, G:0.40, T:0.08
Consensus pattern (10 bp):
GCCCGGTGCA
Found at i:61277573 original size:27 final size:27
Alignment explanation
Indices: 61277543--61277603 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
61277533 ATCATTGGTC
61277543 AAGAATTGTATCACTTGATTTTTGAAA
1 AAGAATTGTATCACTTGATTTTTGAAA
*
61277570 AAGAATTGTATCACTTGATTTTTTAAA
1 AAGAATTGTATCACTTGATTTTTGAAA
61277597 AAGAATT
1 AAGAATT
61277604 AGATGAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (27 bp):
AAGAATTGTATCACTTGATTTTTGAAA
Found at i:61280052 original size:24 final size:24
Alignment explanation
Indices: 61280024--61280071 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
61280014 GTGTAAGGCT
*
61280024 GTAAAACTATTTTCAAAGTTCCAA
1 GTAAAACTATTGTCAAAGTTCCAA
61280048 GTAAAACTATTGTCAAAGTTCCAA
1 GTAAAACTATTGTCAAAGTTCCAA
61280072 TACCTAAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (24 bp):
GTAAAACTATTGTCAAAGTTCCAA
Found at i:61287017 original size:22 final size:20
Alignment explanation
Indices: 61286975--61287041 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
61286965 ATAAATAAAT
*
61286975 GAAATAAAGATAGAAAAAGA
1 GAAATAAAGAGAGAAAAAGA
*
61286995 GAAAGTAAAGAGACGAAATAGA
1 GAAA-TAAAGAGA-GAAAAAGA
* *
61287017 GAAGA-ATAGGGGAGAAAAAGA
1 GAA-ATA-AAGAGAGAAAAAGA
61287038 GAAA
1 GAAA
61287042 AGAAACAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
20 5 0.13
21 18 0.47
22 14 0.37
23 1 0.03
ACGTcount: A:0.63, C:0.01, G:0.28, T:0.07
Consensus pattern (20 bp):
GAAATAAAGAGAGAAAAAGA
Found at i:61290627 original size:47 final size:45
Alignment explanation
Indices: 61290564--61290840 Score: 254
Period size: 48 Copynumber: 5.8 Consensus size: 45
61290554 TTTGTGTGCT
*
61290564 AGTGAAAGA-CATGTCTGGGACAT-GCATCTGTTACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTATGAGAGCC
* *
61290610 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATT---ATGAGAGCC
* * * *
61290658 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACA-TTAT-GA-GAGCC
* * * *
61290706 AGTGTAAGACCATGTCTGGGATATGGCATCCACACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCAT-C-GAC--AT-TATGAGAGCC
*
61290756 AGTGTAATACCATGTCTGGGACATGGCATCGAC-TTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATT-AT-GA-GAGCC
* *
61290803 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACATTAT
61290841 ACCCTATGTT
Statistics
Matches: 191, Mismatches: 23, Indels: 33
0.77 0.09 0.13
Matches are distributed among these distances:
44 1 0.01
45 6 0.03
46 11 0.06
47 53 0.28
48 82 0.43
49 3 0.02
50 30 0.16
51 2 0.01
52 3 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACATTATGAGAGCC
Found at i:61290659 original size:48 final size:47
Alignment explanation
Indices: 61290603--61290838 Score: 255
Period size: 48 Copynumber: 4.9 Consensus size: 47
61290593 GTTACATTAT
61290603 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
61290650 CGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AGA
1 -GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAGA
* * * ** ** *
61290700 G-GTGTCAGTGTAAGACCATGTCTGGGATATGGCATCCACACGGATATGT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG--A-GA
* * *
61290749 GAGAGCTAGTGTAATACCATGTCTGGGACATGGCATCGAC-TTGATG-
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA
*
61290795 GATGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
1 GA-GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
61290839 ATACCCTATG
Statistics
Matches: 158, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
46 2 0.01
47 37 0.23
48 78 0.49
49 4 0.03
50 36 0.23
51 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:61298576 original size:20 final size:20
Alignment explanation
Indices: 61298551--61298590 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61298541 CTAGTGAATG
*
61298551 TTAGTTGTCATATATTAGAA
1 TTAGTTATCATATATTAGAA
*
61298571 TTAGTTATTATATATTAGAA
1 TTAGTTATCATATATTAGAA
61298591 CAGGAGGGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (20 bp):
TTAGTTATCATATATTAGAA
Found at i:61298945 original size:59 final size:60
Alignment explanation
Indices: 61298845--61298957 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 60
61298835 AAAGGTGACG
** * *
61298845 AAAACAGAAACGATTGAAAACATTATTGTCTGAATTGAAAAT-TTTTATAATTGGTAAAC
1 AAAACAGAAACGATTGAAAACATTAGAGTCTAAATTAAAAATATTTTATAATTGGTAAAC
* ** * *
61298904 AAAACAGAAATGATTGAAAATGTTAGAGTTTAAATTAAAAATATTTTTTAATTG
1 AAAACAGAAACGATTGAAAACATTAGAGTCTAAATTAAAAATATTTTATAATTG
61298958 AATGACCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
59 34 0.77
60 10 0.23
ACGTcount: A:0.47, C:0.05, G:0.13, T:0.35
Consensus pattern (60 bp):
AAAACAGAAACGATTGAAAACATTAGAGTCTAAATTAAAAATATTTTATAATTGGTAAAC
Found at i:61299852 original size:4 final size:4
Alignment explanation
Indices: 61299843--61299867 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
61299833 CATATATTTG
61299843 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
61299868 ATCTTCAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:61303811 original size:82 final size:83
Alignment explanation
Indices: 61303656--61303821 Score: 246
Period size: 82 Copynumber: 2.0 Consensus size: 83
61303646 GTTAACGAAC
* *
61303656 ATGAAACAATGAACGGATACATGAAAGATACTCGGAACATCCTAAATACTGTGCACAAGCACGAA
1 ATGAAACAATGAACGGATACATGAAAAATACTCGGAACATCCTAAATACTGTGCACAAGCACCAA
** *
61303721 GTGAATAGCAGTACTCCA
66 CCGAATAGCAATACTCCA
* *
61303739 ATGAAACAATGACCGGATACATGAAAAATACTC-GAACA-CTCTAAATAGTGTGCACAAGCACCA
1 ATGAAACAATGAACGGATACATGAAAAATACTCGGAACATC-CTAAATACTGTGCACAAGCACCA
61303802 ACCGAATAGCAATACTCCA
65 ACCGAATAGCAATACTCCA
61303821 A
1 A
61303822 AGTAAGATTG
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 1 0.01
82 43 0.57
83 31 0.41
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (83 bp):
ATGAAACAATGAACGGATACATGAAAAATACTCGGAACATCCTAAATACTGTGCACAAGCACCAA
CCGAATAGCAATACTCCA
Found at i:61303981 original size:7 final size:7
Alignment explanation
Indices: 61303971--61304007 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
61303961 TTAATAAATA
61303971 ATATTAT
1 ATATTAT
*
61303978 ATATTTT
1 ATATTAT
61303985 ATATTAT
1 ATATTAT
61303992 ATATTAT
1 ATATTAT
61303999 ATATTAT
1 ATATTAT
61304006 AT
1 AT
61304008 GTATTAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATTAT
Found at i:61305339 original size:29 final size:29
Alignment explanation
Indices: 61305297--61305354 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
61305287 ATAGTCTATT
61305297 CCTCTTGTATTGAATTCAAATTTTCGACA
1 CCTCTTGTATTGAATTCAAATTTTCGACA
61305326 CCTCTTGTATTGAATTCAAATTTTCGACA
1 CCTCTTGTATTGAATTCAAATTTTCGACA
61305355 TAGTGAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (29 bp):
CCTCTTGTATTGAATTCAAATTTTCGACA
Found at i:61308643 original size:26 final size:26
Alignment explanation
Indices: 61308613--61308694 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
61308603 TGAAATTCCC
61308613 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
61308639 ATCATGGAACACTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61308665 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61308691 ATCA
1 ATCA
61308695 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61312201 original size:40 final size:40
Alignment explanation
Indices: 61312127--61312272 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
61312117 CCGCACCAAG
* * * * * *
61312127 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * *
61312167 GCCTTCGGATCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
61312207 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
61312247 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
61312273 TTTTCAGCAT
Statistics
Matches: 88, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 88 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:61314451 original size:40 final size:40
Alignment explanation
Indices: 61314392--61314656 Score: 334
Period size: 40 Copynumber: 6.6 Consensus size: 40
61314382 TATTCGGATG
61314392 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
61314432 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
61314472 ATATCCGGGCAAAGTCCCGAAGGCATTTGTACGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
61314515 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * * *
61314555 ATTTCCGGGCTAAGACTCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
61314595 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
61314635 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
61314657 TACTTGGTTT
Statistics
Matches: 194, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 14 0.07
40 144 0.74
41 1 0.01
43 35 0.18
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:61314615 original size:123 final size:120
Alignment explanation
Indices: 61314391--61314656 Score: 363
Period size: 123 Copynumber: 2.2 Consensus size: 120
61314381 TTATTCGGAT
* * *
61314391 GATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATACCCGGGCTAAGTCCCGAAGGC
1 GATACCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATACCCGGGCTAAGACCCGAAGGC
*
61314456 ATTTGTGCAAGTTACTATATCCGGGCAAAGTCCCGAAGGCATTTGTACGAGTAGTTGC
66 ATGTGTGCAAGTTACTATATCCGGGCAAAGTCCCGAAGGCATTTGT--GAG-AGTTGC
* * ** *
61314514 TATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACTCGAAGGC
1 GATACCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATACCCGGGCTAAGACCCGAAGGC
* ** *
61314579 ATGTGTGCGAGTTACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTGC
66 ATGTGTGCAAGTTACTATATCCGGGCAAAGTCCCGAAGGCATTTGTGAGAGTTGC
* *
61314634 GATATCC-GGCTAAATCCCGAAGG
1 GATACCCGGGCTAAGTCCCGAAGG
61314657 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
119 15 0.12
120 11 0.09
121 2 0.02
123 99 0.78
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (120 bp):
GATACCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATACCCGGGCTAAGACCCGAAGGC
ATGTGTGCAAGTTACTATATCCGGGCAAAGTCCCGAAGGCATTTGTGAGAGTTGC
Found at i:61318840 original size:40 final size:40
Alignment explanation
Indices: 61318781--61318922 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
61318771 AAATTGAATG
* * *
61318781 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
61318821 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
61318861 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
61318901 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
61318923 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:61318923 original size:40 final size:39
Alignment explanation
Indices: 61318820--61318948 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
61318810 TGCTGGAAAT
* * *
61318820 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
61318860 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
61318900 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
61318940 TATATCCGG
1 TATATCCGG
61318949 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:61330361 original size:22 final size:22
Alignment explanation
Indices: 61330331--61330372 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
61330321 CATGATTCTA
*
61330331 AACTCTAAATCATCAAGAAACT
1 AACTCTAAAACATCAAGAAACT
*
61330353 AACTTTAAAACATCAAGAAA
1 AACTCTAAAACATCAAGAAA
61330373 TCAATAGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.55, C:0.19, G:0.05, T:0.21
Consensus pattern (22 bp):
AACTCTAAAACATCAAGAAACT
Found at i:61339995 original size:15 final size:15
Alignment explanation
Indices: 61339975--61340005 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61339965 AATGTGATAA
61339975 TAGATATGCAATTTG
1 TAGATATGCAATTTG
61339990 TAGATATGCAATTTG
1 TAGATATGCAATTTG
61340005 T
1 T
61340006 TAATTTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (15 bp):
TAGATATGCAATTTG
Found at i:61344961 original size:40 final size:40
Alignment explanation
Indices: 61344887--61345028 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
61344877 AACCTAAGTA
* *
61344887 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
61344926 CCTTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
61344966 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
61345006 CCTTCGGGACCTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
61345029 CATTCAAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 11 0.12
40 82 0.87
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:61351734 original size:26 final size:26
Alignment explanation
Indices: 61351678--61351734 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
61351668 ATGCATGATA
61351678 AAATAAAACATATATAACATCGACAT
1 AAATAAAACATATATAACATCGACAT
* *
61351704 TAATAAATCATAATATTAACAT-G-CAT
1 AAATAAAACAT-ATA-TAACATCGACAT
61351730 AAATA
1 AAATA
61351735 GTAATAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 16 0.62
27 4 0.15
28 6 0.23
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (26 bp):
AAATAAAACATATATAACATCGACAT
Found at i:61351775 original size:3 final size:3
Alignment explanation
Indices: 61351767--61351792 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
61351757 TAATACAAAT
61351767 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
61351793 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:61351797 original size:3 final size:3
Alignment explanation
Indices: 61351791--61351936 Score: 140
Period size: 3 Copynumber: 48.0 Consensus size: 3
61351781 CAACAACAAC
61351791 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* ** *
61351839 AAT AAT AAT -CT AAAT TTT GAA- ATT ACAT AA- AAGT AAT AA- ACA-
1 AAT AAT AAT AAT -AAT AAT -AAT AAT A-AT AAT AA-T AAT AAT A-AT
* *
61351881 AAT AAAT AAT AAC AAA AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
61351928 AAT AAT AAT
1 AAT AAT AAT
61351937 CTAAATTTTG
Statistics
Matches: 121, Mismatches: 11, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.05
3 104 0.86
4 11 0.09
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61352117 original size:12 final size:12
Alignment explanation
Indices: 61352089--61352138 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
61352079 AAAATTGAAC
61352089 TTAAAT-AAATAA
1 TTAAATAAAAT-A
*
61352101 ATAAATAAAATA
1 TTAAATAAAATA
**
61352113 TTAAATGTAATA
1 TTAAATAAAATA
61352125 TTAAATAAAATA
1 TTAAATAAAATA
61352137 TT
1 TT
61352139 TTTTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
12 27 0.87
13 4 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (12 bp):
TTAAATAAAATA
Found at i:61358444 original size:31 final size:31
Alignment explanation
Indices: 61358403--61358474 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
61358393 TAATCTAAAT
* *
61358403 TTCATATATAACATTGC-ATATTAGTTCAAAG
1 TTCATGTATAACATT-CAACATTAGTTCAAAG
61358434 TTCATGTATAACATTCAACATTAGTTCAAAG
1 TTCATGTATAACATTCAACATTAGTTCAAAG
61358465 TTCATGTATA
1 TTCATGTATA
61358475 GTTTTAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 1 0.03
31 37 0.97
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.39
Consensus pattern (31 bp):
TTCATGTATAACATTCAACATTAGTTCAAAG
Found at i:61359184 original size:129 final size:127
Alignment explanation
Indices: 61358956--61359195 Score: 363
Period size: 129 Copynumber: 1.9 Consensus size: 127
61358946 AGATTCTTTT
* * * * *
61358956 ATTGTTTTAGATTGAAGAAAAAGTGTAAAAAGGTGAGGCCTTTGGCTCGATAGAATGCATCGCAG
1 ATTGTTTTAGATTGAAGAAAAAATATAAAAAGGTGAGGCCTTTGACTCGATAGAATGCACCACAG
* *
61359021 TCAGGAGTGTTGAAGTTAATGTTGATGCCTCTAGTGCAAAAATGTTGGCAATTAGTTCTCTA
66 TCACGAGTGTTGAAGTTAATGTCGATGCCTCTAGTGCAAAAATGTTGGCAATTAGTTCTCTA
* *
61359083 ATTGTTTTAGATTGAAGAAAAAAATATAAAAAGGGTGAGGCCTTTGACTCGATGGAGTGCACCAC
1 ATTGTTTTAGATTGAAG-AAAAAATATAAAAA-GGTGAGGCCTTTGACTCGATAGAATGCACCAC
* *
61359148 AGTTACGAGTGTTGAAGTTAATGTCGATGCCTCTAGTGCAAAAGTGTT
64 AGTCACGAGTGTTGAAGTTAATGTCGATGCCTCTAGTGCAAAAATGTT
61359196 AGCGATTAAG
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
127 17 0.17
128 12 0.12
129 71 0.71
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (127 bp):
ATTGTTTTAGATTGAAGAAAAAATATAAAAAGGTGAGGCCTTTGACTCGATAGAATGCACCACAG
TCACGAGTGTTGAAGTTAATGTCGATGCCTCTAGTGCAAAAATGTTGGCAATTAGTTCTCTA
Found at i:61362270 original size:40 final size:40
Alignment explanation
Indices: 61362225--61362391 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
61362215 CGGAATATAA
61362225 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
61362265 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
61362305 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
61362345 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
61362384 CCGGATAT
1 CCGGATAT
61362392 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:61364134 original size:40 final size:39
Alignment explanation
Indices: 61364089--61364218 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
61364079 CGGAATATAA
61364089 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
61364129 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
61364169 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
61364209 CCGGATATAA
1 CCGGATATAA
61364219 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:61364233 original size:40 final size:40
Alignment explanation
Indices: 61364105--61364256 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
61364095 ATAACCATGT
* * *
61364105 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
61364145 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
61364185 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
61364225 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
61364257 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:61364239 original size:80 final size:80
Alignment explanation
Indices: 61364105--61364254 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
61364095 ATAACCATGT
*
61364105 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
61364169 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
61364185 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
61364248 CCCGGAT
64 CCCGGAT
61364255 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:61367314 original size:23 final size:23
Alignment explanation
Indices: 61367270--61367322 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
61367260 ATAAAATAAT
* *
61367270 TAATGAGGTAATAATAATATATA
1 TAATGAGGTAATAAAAACATATA
61367293 TAATG-GGTTAATAAAAACATAT-
1 TAATGAGG-TAATAAAAACATATA
*
61367315 TAGTGAGG
1 TAATGAGG
61367323 ATTAAATTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (23 bp):
TAATGAGGTAATAAAAACATATA
Found at i:61370972 original size:53 final size:53
Alignment explanation
Indices: 61370790--61370996 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
61370780 ATTAGGGTTT
* * * * * *
61370790 AAGGATATCAAGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * *
61370844 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAA-TCTACGATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGT-T-C-ATAAGGC
* * * * * *
61370899 AAAGATCCCATGTAAGACCATGCCAAGGCATGGTAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
61370952 AAGGATACCACGTAAGACCATATCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
61370997 TAAAAGGTAC
Statistics
Matches: 125, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
52 1 0.01
53 45 0.36
54 39 0.31
55 39 0.31
56 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:61375595 original size:40 final size:39
Alignment explanation
Indices: 61375537--61375718 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
61375527 GTTCAAAACA
* * ** * *
61375537 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
61375577 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
61375617 CCTTCGGGCTTAGCCCGGGTATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
61375656 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
61375695 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
61375719 CTCGAACATT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.22, C:0.31, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:61375648 original size:39 final size:39
Alignment explanation
Indices: 61375567--61375718 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
61375557 TATGGTAACC
* * * *
61375567 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
61375607 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
61375646 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
61375685 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
61375719 CTCGAACATT
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:61380587 original size:40 final size:40
Alignment explanation
Indices: 61380538--61380659 Score: 140
Period size: 39 Copynumber: 3.1 Consensus size: 40
61380528 TTGCTAAGTG
* *
61380538 ACTAAATCCGGACTAAGATCCGACGGCATACGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTT
* * * *
61380578 ACTAAATCC-GACTAAGATCCGAAGGCTTTCGAGCAAGCT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTT
** *
61380617 ACTAAATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTT
61380657 ACT
1 ACT
61380660 GTAACCGGGC
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
39 34 0.51
40 33 0.49
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.22
Consensus pattern (40 bp):
ACTAAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTT
Found at i:61387274 original size:40 final size:40
Alignment explanation
Indices: 61387195--61387349 Score: 149
Period size: 40 Copynumber: 4.0 Consensus size: 40
61387185 TTCGAATGAT
* * *
61387195 ATCCGGGCTAAG-TCCGAAGGC-TT--TGCTAAGTGACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGC-GAGTTACTAA
* *
61387232 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
61387272 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
61387312 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
61387350 GTAACCGGGC
Statistics
Matches: 95, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
37 11 0.12
38 8 0.08
39 2 0.02
40 71 0.75
41 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:61395322 original size:40 final size:40
Alignment explanation
Indices: 61395243--61395400 Score: 151
Period size: 40 Copynumber: 4.0 Consensus size: 40
61395233 TTCGAATGAT
* * * *
61395243 ATCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAA
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGC-GAGTTACTAA
* *
61395283 ATCCGGACTAAGATCCGACGGCATACGTGCGAGTTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
* * * *
61395323 ATCCGGACTAAGATCCGAAGGCTTTCGAGCAAGCTACTAA
1 ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
** *
61395363 ATCCGGGTTGAG-TCCCGAAGGCATTCGTGCGAGTTACT
1 ATCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACT
61395401 GTAACCGGGC
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 89 0.93
41 6 0.06
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTTACTAA
Found at i:61395421 original size:80 final size:80
Alignment explanation
Indices: 61395243--61395430 Score: 206
Period size: 80 Copynumber: 2.3 Consensus size: 80
61395233 TTCGAATGAT
* *
61395243 ATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGACGGCATA
1 ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
61395308 CGTGCGAGTTACTAA
66 CGTGCGAGTTACTAA
* ** *
61395323 ATCCGGACTAAGAT-CCGAAGGCTTTCGAGC-AAGCT-ACTAAATCCGGGTTGAG-TCCCGAAGG
1 ATCCGGGCTAAG-TCCCGAAGGCTTT-GAGCTAAG-TGACTAAATCCGGACTAAGAT-CCGAAGG
* *
61395384 CATTCGTGCGAGTTACTGTA
62 CATACGTGCGAGTTACT-AA
*
61395404 A-CCGGGCTATGTCCCGAAGGCATTTGA
1 ATCCGGGCTAAGTCCCGAAGGC-TTTGA
61395431 ATGTGTAGCC
Statistics
Matches: 91, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 79 0.87
81 10 0.11
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCTTTGAGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATA
CGTGCGAGTTACTAA
Found at i:61398019 original size:13 final size:13
Alignment explanation
Indices: 61398001--61398028 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61397991 ACAAAATTGG
61398001 AAAGATGAAAAAT
1 AAAGATGAAAAAT
61398014 AAAGATGAAAAAT
1 AAAGATGAAAAAT
61398027 AA
1 AA
61398029 TAAAAAGATG
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:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:61399436 original size:50 final size:50
Alignment explanation
Indices: 61399376--61399475 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
61399366 AGCCATACAT
* * *
61399376 AGTTCTTGATATGTATATTAAATATATGAGTAATAAAGGTGATGAGGATA
1 AGTTCCTGATATGTATATGAAATATATGACTAATAAAGGTGATGAGGATA
*
61399426 AGTTCCTGATATTTATATGAAATATATGACTAATAAAGGTGATGAGGATA
1 AGTTCCTGATATGTATATGAAATATATGACTAATAAAGGTGATGAGGATA
61399476 TGTGTTAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (50 bp):
AGTTCCTGATATGTATATGAAATATATGACTAATAAAGGTGATGAGGATA
Found at i:61402627 original size:13 final size:13
Alignment explanation
Indices: 61402609--61402652 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
61402599 CGAAGTAAGT
61402609 TTGTATAATTAAA
1 TTGTATAATTAAA
*
61402622 TTGTATATTTAAA
1 TTGTATAATTAAA
61402635 -TGT-TAAATTAAA
1 TTGTAT-AATTAAA
61402647 TTGTAT
1 TTGTAT
61402653 GTATGTGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 1 0.04
12 9 0.35
13 15 0.58
14 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (13 bp):
TTGTATAATTAAA
Found at i:61403102 original size:25 final size:25
Alignment explanation
Indices: 61403058--61403127 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
61403048 CCCAATTATG
* *
61403058 ATGAGCTTTCCATTACATGGCTCAC
1 ATGAGCTTCCCATTACATGGCTCAA
* *
61403083 ATGAGCTTCCCGTTATATGGCTCAA
1 ATGAGCTTCCCATTACATGGCTCAA
* *
61403108 ACGAGCTTTCCATTTACATG
1 ATGAGCTTCCCA-TTACATG
61403128 TTTGCATGAG
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
25 30 0.83
26 6 0.17
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCATTACATGGCTCAA
Found at i:61420313 original size:46 final size:46
Alignment explanation
Indices: 61420170--61420313 Score: 104
Period size: 46 Copynumber: 3.1 Consensus size: 46
61420160 CCCGCCCATA
* *
61420170 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTC-A---ACCATC-CT
* * * * *
61420219 --CGAACTCGGACTCAACTCAATGAGTTCAGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAATGAGTTC-G-GATGCT-CAACCATCCT
61420263 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCT
61420309 AGTGA
1 AGTGA
61420314 CATGTCACTT
Statistics
Matches: 73, Mismatches: 12, Indels: 23
0.68 0.11 0.21
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 31 0.42
47 27 0.37
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCT
Found at i:61422245 original size:15 final size:15
Alignment explanation
Indices: 61422216--61422265 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
61422206 CAAAGATAAC
*
61422216 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
61422230 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
61422245 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
61422260 AAGAAA
1 AAGAAA
61422266 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:61422274 original size:15 final size:15
Alignment explanation
Indices: 61422227--61422274 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
61422217 AGAAAACCGA
61422227 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
61422241 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
61422257 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
61422272 ATA
1 ATA
61422275 CGATACTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:61425295 original size:46 final size:45
Alignment explanation
Indices: 61425173--61425302 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 45
61425163 TGTAACCCGC
*
61425173 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-GCCTAGAT
* *** * * *
61425219 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCGGA-CATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGAGC-CTAG-AT
61425266 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61425303 TGCTCAACCA
Statistics
Matches: 68, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 34 0.50
47 33 0.49
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCCTAGAT
Found at i:61425321 original size:46 final size:46
Alignment explanation
Indices: 61425178--61425321 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 46
61425168 CCCGCCCATA
* *
61425178 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGATACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A-A-CCATC-CT
* * * * *
61425227 --CGAACTTGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
61425271 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
61425317 AGTGA
1 AGTGA
61425322 CATGTCACTT
Statistics
Matches: 74, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 32 0.43
47 29 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:61430536 original size:40 final size:40
Alignment explanation
Indices: 61430462--61430639 Score: 182
Period size: 40 Copynumber: 4.5 Consensus size: 40
61430452 GAGTCACGTA
** *
61430462 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGGATATAATAACTAGCACAATTG
* * * *
61430501 CCTTCGGGCCTTAACCCGGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
61430541 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCAC-AATTG
* * * *
61430581 CCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
* *
61430621 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
61430640 GTATCATTCA
Statistics
Matches: 117, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
39 14 0.12
40 101 0.86
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGATATAATAACTAGCACAATTG
Found at i:61431762 original size:12 final size:11
Alignment explanation
Indices: 61431743--61431772 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
61431733 ACAAGTATGG
61431743 CCAAACCTCTT
1 CCAAACCTCTT
61431754 CCTAAACCTCTT
1 CC-AAACCTCTT
61431766 CCAAACC
1 CCAAACC
61431773 AACATGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.30, C:0.47, G:0.00, T:0.23
Consensus pattern (11 bp):
CCAAACCTCTT
Found at i:61433970 original size:13 final size:14
Alignment explanation
Indices: 61433944--61433976 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
61433934 ATAAAATATA
61433944 AATTTATATTTAAT
1 AATTTATATTTAAT
61433958 AATTTAT-TTTAAT
1 AATTTATATTTAAT
61433971 ATATTT
1 A-ATTT
61433977 CATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTATATTTAAT
Found at i:61437349 original size:48 final size:48
Alignment explanation
Indices: 61437278--61437574 Score: 253
Period size: 48 Copynumber: 6.1 Consensus size: 48
61437268 TATGTGTGCT
61437278 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-TATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATATATGAGAGCC
* * * * * * *
61437326 AGTGTAATACCATGTTTGGGACATGGCATCAGCA-TTGATATGTGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATATGAGAGCC
* * * *
61437374 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCACAT-TCTGAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CACATATATGAGAGCC
* * ** * *
61437422 AGTGTAAGACCATGTCTGGGATATGGCATCAGCATTTATATGCGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATATGAGAGCC
* * * * * * *
61437470 AGTGTAAGACCATGTTTGGAACATGGCATTGGCA-TTGTTAT-ATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAT-ATATGA-GAGCC
* *
61437518 AGTGTAAGACCATGTCTGGGACATGGAATCGGCACCGATGTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA-C-ATATATGAGAGCC
*
61437568 ACTGTAA
1 AGTGTAA
61437575 ACATGGCATC
Statistics
Matches: 197, Mismatches: 41, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
46 1 0.01
47 7 0.04
48 172 0.87
49 2 0.01
50 13 0.07
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACATATATGAGAGCC
Found at i:61437428 original size:96 final size:96
Alignment explanation
Indices: 61437264--61437543 Score: 375
Period size: 96 Copynumber: 2.9 Consensus size: 96
61437254 AGACATTTGG
* *
61437264 TTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGT
1 TTGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAAAGCCAGT
* *
61437329 GTAATACCATGTTTGGGACATGGCATCAGCA
66 GTAAGACCATGTCTGGGACATGGCATCAGCA
* *
61437360 TTGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTCTGAAAGCTAGT
1 TTGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAAAGCCAGT
*
61437425 GTAAGACCATGTCTGGGATATGGCATCAGCA
66 GTAAGACCATGTCTGGGACATGGCATCAGCA
* * * * * ** ** *
61437456 TTTATATGCGAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGG-CATTGTTAT-ATGTGTCA
1 TTGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CATTATGA-AAGCCA
61437519 GTGTAAGACCATGTCTGGGACATGG
64 GTGTAAGACCATGTCTGGGACATGG
61437544 AATCGGCACC
Statistics
Matches: 162, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
95 3 0.02
96 159 0.98
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (96 bp):
TTGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAAAGCCAGT
GTAAGACCATGTCTGGGACATGGCATCAGCA
Found at i:61437538 original size:144 final size:144
Alignment explanation
Indices: 61437275--61437550 Score: 396
Period size: 144 Copynumber: 1.9 Consensus size: 144
61437265 TGATATGTGT
* *
61437275 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCCAGTGTAATACCATG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATG
* * *
61437340 TTTGGGACATGGCATCAGCATTGATATGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCG
66 TTTGGAACATGGCATCAGCATTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGAATCG
61437405 GCCACATTCTGAAA
131 GCCACATTCTGAAA
* ** * *
61437419 GCTAGTGTAAGACCATGTCTGGGATATGGCATCAG-CATTTATATGCGAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACAT-TATGAGAGCCAGTGTAAGACCAT
**
61437483 GTTTGGAACATGGCATTGGCATTGTTATATGTGT-C-AGTGTAAGACCATGTCTGGGACATGGAA
65 GTTTGGAACATGGCATCAGCATTG--ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGAA
61437546 TCGGC
128 TCGGC
61437551 ACCGATGTAT
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
143 3 0.03
144 105 0.90
145 1 0.01
146 8 0.07
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (144 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATG
TTTGGAACATGGCATCAGCATTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGAATCG
GCCACATTCTGAAA
Found at i:61440284 original size:3 final size:3
Alignment explanation
Indices: 61440276--61440396 Score: 81
Period size: 3 Copynumber: 39.7 Consensus size: 3
61440266 TATTTATTTC
*
61440276 TAT TAT TAT TA- TAT ATAT AAAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT -TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * *
61440321 TTT TAA CCT TAT TTT TA- TAT TAT ATAT AAT TAT T-T TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT
61440366 TACT TA- TAT TAT TAT TATT TAT TAT ATAT TA
1 TA-T TAT TAT TAT TAT TA-T TAT TAT -TAT TA
61440397 CTTTTCACAA
Statistics
Matches: 93, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
2 10 0.11
3 62 0.67
4 21 0.23
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:61440289 original size:25 final size:24
Alignment explanation
Indices: 61440261--61440395 Score: 89
Period size: 25 Copynumber: 5.4 Consensus size: 24
61440251 AAATCTAACC
61440261 ATATATATTTATTTCTATTATTATT
1 ATATATATTTATTT-TATTATTATT
**
61440286 ATATATATAAATTATTATTATTATT
1 ATATATATTTATT-TTATTATTATT
*
61440311 AT-TAT-TTTATTTTTAACCTTATTTTT
1 ATATATATTTA-TTTT-A--TTATTATT
* *
61440337 ATAT-TATATATAATTATT-TTATT
1 ATATATATTTAT-TTTATTATTATT
* *
61440360 ATATATTACTTATATTATTATTATTT
1 ATATA-TATTTATTTTATTATTA-TT
61440386 ATTATATATT
1 A-TATATATT
61440396 ACTTTTCACA
Statistics
Matches: 86, Mismatches: 11, Indels: 25
0.70 0.09 0.20
Matches are distributed among these distances:
23 12 0.14
24 14 0.16
25 31 0.36
26 19 0.22
27 10 0.12
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATATATTTATTTTATTATTATT
Found at i:61440372 original size:29 final size:29
Alignment explanation
Indices: 61440340--61440399 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
61440330 TATTTTTATA
61440340 TTATA-TATAATTATTTTATTATATATTAC
1 TTATATTATAATTA-TTTATTATATATTAC
*
61440369 TTATATTATTATTATTTATTATATATTAC
1 TTATATTATAATTATTTATTATATATTAC
61440398 TT
1 TT
61440400 TTCACAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATATTATAATTATTTATTATATATTAC
Found at i:61440480 original size:11 final size:12
Alignment explanation
Indices: 61440425--61440499 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 12
61440415 TATTTTACAT
61440425 TATTATTTATATA
1 TATTATTTAT-TA
61440438 TCATTATTATATT-
1 T-ATTATT-TATTA
61440451 T-TTACTTGTATTA
1 TATTA-TT-TATTA
61440464 TA-TATTTATTA
1 TATTATTTATTA
61440475 -ATTATTTATATA
1 TATTATTTAT-TA
*
61440487 TATTATATATTA
1 TATTATTTATTA
61440499 T
1 T
61440500 TTTTACATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
10 1 0.02
11 15 0.29
12 13 0.25
13 13 0.25
14 7 0.13
15 3 0.06
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:61440558 original size:21 final size:20
Alignment explanation
Indices: 61440534--61440589 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
61440524 TATATTATAC
*
61440534 TTATTTTATATTATGTTATTT
1 TTATTTTATATTATATT-TTT
**
61440555 TTATACTAT-TATATATTTTT
1 TTATTTTATAT-TATATTTTT
61440575 TTATTTATATATTAT
1 TTATTT-TATATTAT
61440590 TATCATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
20 8 0.30
21 18 0.67
22 1 0.04
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTTTATATTATATTTTT
Found at i:61440571 original size:26 final size:26
Alignment explanation
Indices: 61440528--61440592 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
61440518 ATATCATATA
*
61440528 TTATACTTATTTTATATTATGTTATTT
1 TTATAC-TATTATATATTATGTTATTT
* *
61440555 TTATACTATTATATATTTTTTTATTT
1 TTATACTATTATATATTATGTTATTT
* *
61440581 ATATATTATTAT
1 TTATACTATTAT
61440593 CATTAAAGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (26 bp):
TTATACTATTATATATTATGTTATTT
Found at i:61440862 original size:18 final size:19
Alignment explanation
Indices: 61440841--61440905 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
61440831 TTTAAAACCA
61440841 ATATATTTT-TTATTTTAT
1 ATATATTTTATTATTTTAT
*
61440859 ATATAATTATTATTCTTTTAT
1 ATAT-ATT-TTATTATTTTAT
* * *
61440880 AAAT-TTTTGTTATTATAT
1 ATATATTTTATTATTTTAT
61440898 ATTATATT
1 A-TATATT
61440906 GTATATTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.39
19 7 0.19
20 4 0.11
21 11 0.31
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
ATATATTTTATTATTTTAT
Found at i:61443554 original size:46 final size:45
Alignment explanation
Indices: 61443444--61443657 Score: 191
Period size: 46 Copynumber: 4.6 Consensus size: 45
61443434 GTCAGGTGCT
** * * *
61443444 GATGCCATGTCCCAGACATGGTCTTACACTAAC-ACATCTCATA-GCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCGTCTC-TAGGCC
61443490 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCTAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCTAGGCC
* * * * * * *
61443536 GATGCATGTCCCAAACATGTCTTACATTAGCACTCGTCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TTCGTCTCTAGGCC
* * *
61443582 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGT-CTCTAGGCC
61443630 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
61443658 AGCTCACACA
Statistics
Matches: 138, Mismatches: 22, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
44 11 0.08
45 16 0.12
46 62 0.45
47 28 0.20
48 20 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCTAGGCC
Found at i:61443630 original size:94 final size:92
Alignment explanation
Indices: 61443444--61443665 Score: 274
Period size: 94 Copynumber: 2.4 Consensus size: 92
61443434 GTCAGGTGCT
61443444 GATGCCATGTCCCAGACATGGTCTTACACTA--ACACATCTCATAGCTGATGCATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCTGATGCATGTCCCAGACA
* *
61443507 TGTCTTACACTGGCTTACGTCTCTAGGCC
64 TGTCTTACACTGGCTTACATATCTAGGCC
* * * *
61443536 GATGCATGTCCCAAACATGTCTTACATTAGCACTCGTCTCA-ATGCTGATGCCATGTCCCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATA-GCTGATG-CATGTCCCAGACA
*
61443600 TGGTCTTACACTGGCTCT-CATAATGT-GGCC
64 T-GTCTTACACTGGCT-TACAT-ATCTAGGCC
*
61443630 GATGCATGTCCCAGACATGTCTTACACTAGCTCACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCACACA
61443666 CAAGTGACCC
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
90 10 0.09
91 14 0.13
92 19 0.17
93 14 0.13
94 51 0.46
95 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (92 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCTGATGCATGTCCCAGACATG
TCTTACACTGGCTTACATATCTAGGCC
Found at i:61445110 original size:28 final size:28
Alignment explanation
Indices: 61445056--61445111 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
61445046 CCATAATAGT
* **
61445056 ACAGTCTGGGCCTAAGCCCTAGGCAGTA
1 ACAGTCTGGGCCTAAGCCCAAAACAGTA
* *
61445084 ACAGTGTGGGCCTATGCCCAAAACAGTA
1 ACAGTCTGGGCCTAAGCCCAAAACAGTA
61445112 CAACCACAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCAAAACAGTA
Found at i:61453235 original size:46 final size:47
Alignment explanation
Indices: 61453080--61453252 Score: 160
Period size: 46 Copynumber: 3.7 Consensus size: 47
61453070 TTACTTGCGT
* * *
61453080 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTA--TAA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GACGT-A
* * *
61453126 GAGCCAGTGTAATACCATGTCTGGGACATGGCATC-GACATTGAGACG-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCTCGAGACGTA
* * * * *
61453174 GTGCTAATGTCAGACATGTTTGGGACATGCATCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTA
61453221 -AGCCAGTGTAAGACATGTCTGGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
61453253 GGCTAAACGT
Statistics
Matches: 100, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
46 52 0.52
47 30 0.30
48 17 0.17
49 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTA
Found at i:61460415 original size:25 final size:25
Alignment explanation
Indices: 61460387--61460480 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
61460377 CTCTTTTAAT
*
61460387 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
61460412 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
61460437 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
61460462 AACT-GGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
61460481 AGCACTTCCT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 14 0.21
25 53 0.79
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:61460417 original size:50 final size:50
Alignment explanation
Indices: 61460374--61460480 Score: 157
Period size: 50 Copynumber: 2.2 Consensus size: 50
61460364 CTGGAGGCCT
*
61460374 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
* *
61460423 AGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCGATAAACT-GGGCAT
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
61460472 AGCCCTTTT
1 AGCCCTTTT
61460481 AGCACTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
48 5 0.09
49 20 0.38
50 28 0.53
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCCTTTTCGATAAACTGGGGCAA
Found at i:61460715 original size:27 final size:27
Alignment explanation
Indices: 61460685--61460929 Score: 228
Period size: 27 Copynumber: 9.1 Consensus size: 27
61460675 GGCAAAATGG
* * *
61460685 TAATTTTACCCCACAAGGGTATCTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
*
61460712 TAATTCTACCCTACAGGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
*
61460738 GTATTTCTACCCTACAAGGGTATTTCGA
1 -TAATTCTACCCTACAAGGGTATTTCGA
* * *
61460766 TAATTCTACCTTATAGGGGTATTTC-A
1 TAATTCTACCCTACAAGGGTATTTCGA
* * *
61460792 GTAATTCTACCCTATAGGGGTATTTCGG
1 -TAATTCTACCCTACAAGGGTATTTCGA
*
61460820 TAATTCTACCCTAC-AGGGTTATTT-TA
1 TAATTCTACCCTACAAGGG-TATTTCGA
* *
61460846 GTAATTCTACCCTACAAGGGCATTTCGG
1 -TAATTCTACCCTACAAGGGTATTTCGA
* * * *
61460874 TAATTTTACCCTATAGGGGTATTTCGG
1 TAATTCTACCCTACAAGGGTATTTCGA
* * * *
61460901 TAATTCTATCTTATAGGGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGA
61460928 TA
1 TA
61460930 TTTTACAAAT
Statistics
Matches: 183, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.03
27 173 0.95
28 5 0.03
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
TAATTCTACCCTACAAGGGTATTTCGA
Found at i:61460730 original size:54 final size:54
Alignment explanation
Indices: 61460684--61460929 Score: 287
Period size: 54 Copynumber: 4.6 Consensus size: 54
61460674 GGGCAAAATG
* *
61460684 GTAATTTTACCCCACAAGGGTATCTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* *
61460738 GT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCTTATAGGGGTATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * * * * *
61460792 GTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * * * * *
61460846 GTAATTCTACCCTACAAGGGCATTTCGGTAATTTTACCCTATAGGGGTATTTCG
1 GTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
* * * * *
61460900 GTAATTCTATCTTATAGGGGTATTTCGATA
1 GTAATTTTACCCTACAAGGGTATTTCGATA
61460930 TTTTACAAAT
Statistics
Matches: 164, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
53 4 0.02
54 157 0.96
55 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTTTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
Found at i:61460827 original size:81 final size:81
Alignment explanation
Indices: 61460685--61460929 Score: 280
Period size: 81 Copynumber: 3.0 Consensus size: 81
61460675 GGCAAAATGG
* * * * * * *
61460685 TAATTTTACCCCACAAGGGTATCTC-GATAATTCTACCCTACAGGGGTATTTCAGTATTTCTACC
1 TAATTCTACCCTACAAGGGCATTTCAG-TAATTCTACCCTATAGGGGTATTTCGGTAATTCTACC
61460749 CTACAAGGGTATTTCGA
65 CTACAAGGGTATTTCGA
* * * *
61460766 TAATTCTACCTTATAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAAGGGCATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCC
*
61460831 TAC-AGGGTTATTT-TA
66 TACAAGGG-TATTTCGA
* * *
61460846 GTAATTCTACCCTACAAGGGCATTTCGGTAATTTTACCCTATAGGGGTATTTCGGTAATTCTATC
1 -TAATTCTACCCTACAAGGGCATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACC
* * *
61460911 TTATAGGGGTATTTCGA
65 CTACAAGGGTATTTCGA
61460928 TA
1 TA
61460930 TTTTACAAAT
Statistics
Matches: 138, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
80 5 0.04
81 128 0.93
82 5 0.04
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGCATTTCAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCC
TACAAGGGTATTTCGA
Found at i:61461000 original size:27 final size:27
Alignment explanation
Indices: 61460915--61461122 Score: 170
Period size: 27 Copynumber: 7.7 Consensus size: 27
61460905 TCTATCTTAT
* * *
61460915 AGGGGTATTTCGAT-ATTTTACAAATC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * * * *
61460941 -GAGAGTATTTTGATAATTTCAGAAATC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* * *
61460968 AAGGGTATTTTGGTATTTTTACAAGCC
1 AGGGGTATTTTGGTAATTTTACAAACC
*
61460995 AGGGGTATTTCGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACC
* * *
61461022 AAGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACC
** *
61461049 AGGGGTATTTTGGTAATTTTACTGA-T
1 AGGGGTATTTTGGTAATTTTACAAACC
* **
61461075 TGAGGGTATTTTGGTAATTTTGTAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACC
* *
61461103 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
61461123 GTAAATCGAG
Statistics
Matches: 144, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
25 1 0.01
26 12 0.08
27 131 0.91
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACC
Found at i:61461039 original size:81 final size:80
Alignment explanation
Indices: 61460915--61461121 Score: 222
Period size: 81 Copynumber: 2.6 Consensus size: 80
61460905 TCTATCTTAT
* * * * *
61460915 AGGGGTATTTCGAT-ATTTTACAAATCGAGAGTATTTT-GATAATTTCAGAAA-TCAAGGGTATT
1 AGGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTCACAAACT-AAGGGTATT
* *
61460977 TTGGTATTTTTACAAGCC
64 TTGGTAATTTTAC-AGAC
* *
61460995 AGGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTT
1 AGGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACTAAGGGTATTTT
* *
61461060 GGTAATTTTACTGAT
66 GGTAATTTTACAGAC
* * **
61461075 TGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTT
1 AG-GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTT
61461122 TGTAAATCGA
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
80 15 0.14
81 91 0.84
82 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACTAAGGGTATTTT
GGTAATTTTACAGAC
Found at i:61461144 original size:27 final size:27
Alignment explanation
Indices: 61461115--61461458 Score: 490
Period size: 27 Copynumber: 12.7 Consensus size: 27
61461105 GGGTATTTTA
* * *
61461115 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
61461142 GTAATTCTATAAATCGAGGGTAACACG
1 GTAATTCTATAAATCGAGGGTAAAACG
** **
61461169 GTAATTCTATAAATTAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
*
61461196 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
61461223 GTAATTCTATAAATTGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
61461250 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
**
61461277 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
61461304 GTAATTCTGTAAATCGAGGGTAACATG
1 GTAATTCTATAAATCGAGGGTAAAACG
61461331 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
61461358 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
61461385 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
61461412 GTAATTCTGTAAATCGAAGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
61461439 GTAATTTTACAAATTGAGGG
1 GTAATTCTATAAATCGAGGG
61461459 CATTTCAGTA
Statistics
Matches: 285, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 285 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:61461146 original size:81 final size:81
Alignment explanation
Indices: 61460997--61461147 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
61460987 TACAAGCCAG
* *****
61460997 GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAACAG
61461062 TAATTTTACTGATTGA
66 TAATTTTACTGATTGA
* ** **
61461078 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGA-GGGTAAAACA
1 GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-CGAGGGGTAAAACA
61461142 GTAATT
65 GTAATT
61461148 CTATAAATCG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 56 0.97
82 2 0.03
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (81 bp):
GGGTATTTCGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGGGTAAAACAG
TAATTTTACTGATTGA
Found at i:61463700 original size:46 final size:45
Alignment explanation
Indices: 61463643--61463818 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 45
61463633 TCACTCGTGT
* *
61463643 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGA-GA
*
61463689 GAGCCAGTGTAAGACCATGTCTGGGACCTGGCATCGG-CAT-TGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATGAGA
* * * *
61463734 CGAGTGCTAGTGTAAGACACGTCTGGGACATGCATCAGCC-TCAAGACGTA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATGA-G-A
61463784 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
61463819 TAAACGTTGT
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
45 2 0.02
46 55 0.50
47 29 0.27
48 21 0.19
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.22
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGAGA
Found at i:61463893 original size:50 final size:49
Alignment explanation
Indices: 61463833--61463959 Score: 150
Period size: 50 Copynumber: 2.6 Consensus size: 49
61463823 CGTTGTGTTT
* *
61463833 GTATAAGACCATGTCTGGGATATGGCATC-GACACAGAT-ATGTGAGAGCTA
1 GTATAAGACCATGTCTGGGACATGGCATCAGACAC-GATGATG-G-GAGCCA
* * * *
61463883 GTATAAGACCATGTTTGGGACATGGCATCAGCCTCGATGATGGTAGCCA
1 GTATAAGACCATGTCTGGGACATGGCATCAGACACGATGATGGGAGCCA
*
61463932 GTGTAAGACCATGTCTGGGACATGGCAT
1 GTATAAGACCATGTCTGGGACATGGCAT
61463960 GGGCATCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
49 30 0.45
50 31 0.46
51 6 0.09
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (49 bp):
GTATAAGACCATGTCTGGGACATGGCATCAGACACGATGATGGGAGCCA
Found at i:61466023 original size:10 final size:10
Alignment explanation
Indices: 61466008--61466072 Score: 51
Period size: 10 Copynumber: 6.2 Consensus size: 10
61465998 GAAAACTCTA
*
61466008 AAAGAAAGCT
1 AAAGAAAACT
61466018 AAAGAAAACT
1 AAAGAAAACT
61466028 AAAGTAAAAACT
1 AAAG--AAAACT
***
61466040 -AATCTAACT
1 AAAGAAAACT
61466049 AAAGAAAACT
1 AAAGAAAACT
61466059 AAAGTAAAAACT
1 AAAG--AAAACT
61466071 AA
1 AA
61466073 TCTAACTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
9 4 0.09
10 23 0.53
11 2 0.05
12 14 0.33
ACGTcount: A:0.65, C:0.11, G:0.09, T:0.15
Consensus pattern (10 bp):
AAAGAAAACT
Found at i:61466054 original size:31 final size:31
Alignment explanation
Indices: 61466016--61466079 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
61466006 TAAAAGAAAG
61466016 CTAAAGAAAACTAAAGTAAAAACTAATCTAA
1 CTAAAGAAAACTAAAGTAAAAACTAATCTAA
61466047 CTAAAGAAAACTAAAGTAAAAACTAATCTAA
1 CTAAAGAAAACTAAAGTAAAAACTAATCTAA
61466078 CT
1 CT
61466080 TGGCCTTCTT
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:0.59, C:0.14, G:0.06, T:0.20
Consensus pattern (31 bp):
CTAAAGAAAACTAAAGTAAAAACTAATCTAA
Found at i:61467092 original size:35 final size:35
Alignment explanation
Indices: 61467053--61467158 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
61467043 CACCTGCCTC
61467053 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
61467088 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
61467123 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
61467158 T
1 T
61467159 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:61467604 original size:33 final size:32
Alignment explanation
Indices: 61467559--61467636 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 32
61467549 AAAGAGGGGA
*
61467559 AGCAAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
**
61467590 AGCACCAAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA--AAAAAAAAAAATCCAGAAAAAAATTTCC
61467624 AGCAAAAAAAAAA
1 AGCAAAAAAAAAA
61467637 CCAAAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
31 4 0.10
32 9 0.22
33 20 0.49
34 8 0.20
ACGTcount: A:0.64, C:0.18, G:0.06, T:0.12
Consensus pattern (32 bp):
AGCAAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:61468483 original size:22 final size:23
Alignment explanation
Indices: 61468451--61468502 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
61468441 ATTTCTAATA
61468451 TGTATATATATATATATATTATG
1 TGTATATATATATATATATTATG
61468474 TGTAT-TATATATATATATTATG
1 TGTATATATATATATATATTATG
*
61468496 TATATAT
1 TGTATAT
61468503 GCCATTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TGTATATATATATATATATTATG
Found at i:61468518 original size:2 final size:2
Alignment explanation
Indices: 61468448--61468502 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
61468438 ATCATTTCTA
* * *
61468448 AT AT GT AT AT AT AT AT AT AT AT -T AT GT GT AT -T 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
*
61468488 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
61468503 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:61473441 original size:36 final size:35
Alignment explanation
Indices: 61473389--61473458 Score: 131
Period size: 36 Copynumber: 2.0 Consensus size: 35
61473379 TCGAAGACTT
61473389 GTCAGCATTTGCGAGCAGTACAAGCATGTATCGGC
1 GTCAGCATTTGCGAGCAGTACAAGCATGTATCGGC
61473424 GTCAGCATTTTGCGAGCAGTACAAGCATGTATCGG
1 GTCAGCA-TTTGCGAGCAGTACAAGCATGTATCGG
61473459 ATATGGTGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 7 0.21
36 27 0.79
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (35 bp):
GTCAGCATTTGCGAGCAGTACAAGCATGTATCGGC
Found at i:61479039 original size:70 final size:70
Alignment explanation
Indices: 61478952--61479540 Score: 971
Period size: 70 Copynumber: 8.2 Consensus size: 70
61478942 CAAGTGACAG
* *
61478952 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
61479017 GTTTC
66 GTTTC
61479022 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
61479087 GTTTC
66 GTTTC
*
61479092 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
61479157 GTTTC
66 GTTTC
*
61479162 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
61479227 AATTTATGTTTC
59 AATTTATGTTTC
*
61479239 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
61479304 GTTTC
66 GTTTC
*
61479309 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
61479374 GTTTC
66 GTTTC
*
61479379 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
61479444 AATTTATGTTTC
59 AATTTATGTTTC
*
61479456 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
61479521 GTTTC
66 GTTTC
61479526 AAAAATCAACTCATA
1 -AAAATCAACTCATA
61479541 GGTGAGTTGA
Statistics
Matches: 491, Mismatches: 13, Indels: 29
0.92 0.02 0.05
Matches are distributed among these distances:
70 335 0.68
71 18 0.04
72 2 0.00
75 2 0.00
76 4 0.01
77 130 0.26
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTC
Found at i:61479238 original size:77 final size:77
Alignment explanation
Indices: 61479146--61479518 Score: 603
Period size: 77 Copynumber: 5.0 Consensus size: 77
61479136 GTTGAGGTAA
*
61479146 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
61479211 GGTAATTTCAAT
66 GGTAATTTCAAT
*
61479223 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
61479288 GG-----T-AA-
66 GGTAATTTCAAT
*
61479293 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
61479358 GG-----T-AA-
66 GGTAATTTCAAT
*
61479363 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
61479428 GGTAATTTCAAT
66 GGTAATTTCAAT
*
61479440 TTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
61479505 GGTAATTTCAAT
66 GGTAATTTCAAT
61479517 TT
1 TT
61479519 ATGTTTCAAA
Statistics
Matches: 281, Mismatches: 8, Indels: 14
0.93 0.03 0.05
Matches are distributed among these distances:
70 133 0.47
71 2 0.01
72 1 0.00
75 1 0.00
76 2 0.01
77 142 0.51
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (77 bp):
TTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTAATTTCAAT
Found at i:61479308 original size:147 final size:140
Alignment explanation
Indices: 61478952--61479540 Score: 971
Period size: 147 Copynumber: 4.1 Consensus size: 140
61478942 CAAGTGACAG
* *
61478952 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
61479017 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
61479082 TTTATGTTTC
131 TTTATGTTTC
*
61479092 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
61479157 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA
61479222 TTTTCAATTTATGTTTC
125 -TTTCAATTTATGTTTC
*
61479239 AAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
*
61479304 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTGAGGTAATTTCAA
66 GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
61479369 TTTATGTTTC
131 TTTATGTTTC
*
61479379 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGG-----T-AA-TTTC
*
61479444 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
59 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
61479509 ATTTCAATTTATGTTTC
124 ATTTCAATTTATGTTTC
61479526 AAAAATCAACTCATA
1 -AAAATCAACTCATA
61479541 GGTGAGTTGA
Statistics
Matches: 422, Mismatches: 12, Indels: 22
0.93 0.03 0.05
Matches are distributed among these distances:
140 182 0.43
141 2 0.00
142 1 0.00
145 2 0.00
146 4 0.01
147 217 0.51
148 14 0.03
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (140 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
GTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTATGTTTC
Found at i:61479320 original size:217 final size:217
Alignment explanation
Indices: 61478952--61479540 Score: 1084
Period size: 217 Copynumber: 2.7 Consensus size: 217
61478942 CAAGTGACAG
* * *
61478952 AAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTAAGG-----T-AA-TTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
*
61479010 AATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
61479075 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
61479140 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
61479162 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
61479227 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
61479292 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
131 ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
61479357 AGGTAATTTCAATTTATGTTTC
196 AGGTAATTTCAATTTATGTTTC
61479379 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
61479444 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
61479509 ATTTCAATTTATGTTTCAAAAATCAACTCATA
131 ATTTCAATTTATGTTTC-AAAATCAACTCATA
61479541 GGTGAGTTGA
Statistics
Matches: 367, Mismatches: 4, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 48 0.13
215 1 0.00
216 2 0.01
217 302 0.82
218 14 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (217 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGTTGAGGTAATTTCAATTTTC
AATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
ATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGTTG
AGGTAATTTCAATTTATGTTTC
Found at i:61479594 original size:147 final size:142
Alignment explanation
Indices: 61479004--61479641 Score: 682
Period size: 147 Copynumber: 4.4 Consensus size: 142
61478994 ACGTTAAGGT
61479004 AATTT-CAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 AATTTCCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
* *
61479068 TGAGGTAATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGA
66 TGAGGTAATTTCAATTTATGTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAA
*
61479133 CACGTTGAGG-----T-
126 CACGCTGAGGTAATTTC
*
61479144 AATTT-CAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAACACGT
1 AATTTCCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
*
61479208 TGAGGTAATTTCAATTTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGC
66 TGAGG-----T-AA-TTTCAATTTATGTTTCAAAATCAACTCA-AT----TGAGGTGAGTTGAGC
* *
61479273 CTCAAGACACGTTGAGG-----T-
119 CTCAAAACACGCTGAGGTAATTTC
*
61479291 AATTT-CAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGT
1 AATTTCCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
61479355 TGAGGTAATTTCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAAA
66 TGAGGTAATTTCAATTTATGTTTCAAAATCAACTCA-ATT----GAGGTGAGTTGAGCCTCAAAA
*
61479420 CACGTTGAGGTAATTTC
126 CACGCTGAGGTAATTTC
* *
61479437 AATTTTCAATTTATGTTTCAAAATCAACTCATATGGCGAGAGGTGAGTTGAGCCTCAAGACACGT
1 AATTTCCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
****
61479502 TGAGGTAATTTCAATTTATGTTTCAAAAATCAACTC-A-T-AGGTGAGTTGAGCCTCGGGGCACG
66 TGAGGTAATTTCAATTTATGTTTC-AAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAAACACG
*
61479564 CTGAGGTATTTTC
130 CTGAGGTAATTTC
* * *
61479577 AGTCTCTACTTTCCAATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCT
1 A------A-TTTCCAATT--TATGTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
61479642 GTTAATTTCT
Statistics
Matches: 445, Mismatches: 20, Indels: 56
0.85 0.04 0.11
Matches are distributed among these distances:
140 161 0.36
141 2 0.00
142 1 0.00
145 3 0.01
146 9 0.02
147 218 0.49
148 11 0.02
149 6 0.01
150 34 0.08
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (142 bp):
AATTTCCAATTTATGTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGT
TGAGGTAATTTCAATTTATGTTTCAAAATCAACTCAATTGAGGTGAGTTGAGCCTCAAAACACGC
TGAGGTAATTTC
Found at i:61479683 original size:54 final size:52
Alignment explanation
Indices: 61479591--61479745 Score: 194
Period size: 54 Copynumber: 3.0 Consensus size: 52
61479581 TCTACTTTCC
* *
61479591 AATTCCTGTTTTTCAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTGTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC--TT
* *
61479645 AATTTCTGTCTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CC-T
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTT
**
61479696 --TTT-TGTTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTT
1 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
61479745 A
1 A
61479746 GGTCATATGT
Statistics
Matches: 89, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
47 1 0.01
48 38 0.43
49 4 0.04
51 1 0.01
54 44 0.49
55 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
Found at i:61480497 original size:35 final size:35
Alignment explanation
Indices: 61480451--61480556 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
61480441 CCATTGCCTC
61480451 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
61480486 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
61480521 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
61480556 T
1 T
61480557 CACACACCCC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:61481000 original size:19 final size:17
Alignment explanation
Indices: 61480958--61481019 Score: 60
Period size: 19 Copynumber: 3.8 Consensus size: 17
61480948 AAAGAGGGGA
*
61480958 AGCAAAAAAAAAAATCC
1 AGCAAAAAAAAAATTCC
61480975 AGC----AAAAAATTCC
1 AGCAAAAAAAAAATTCC
*
61480988 AGCACCAAAAAAAATTTCC
1 AGCA--AAAAAAAAATTCC
61481007 AGCAAAAAAAAAA
1 AGCAAAAAAAAAA
61481020 ACAATAGAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 12 0.33
17 11 0.31
19 13 0.36
ACGTcount: A:0.65, C:0.19, G:0.06, T:0.10
Consensus pattern (17 bp):
AGCAAAAAAAAAATTCC
Found at i:61481837 original size:22 final size:23
Alignment explanation
Indices: 61481819--61481870 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
61481809 CTAATATGTA
61481819 TATATATATATATATATATTATG
1 TATATATATATATATATATTATG
*
61481842 TGTAT-TATATATATATATTATG
1 TATATATATATATATATATTATG
61481864 TATATAT
1 TATATAT
61481871 GCCATTAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (23 bp):
TATATATATATATATATATTATG
Found at i:61481886 original size:2 final size:2
Alignment explanation
Indices: 61481812--61481870 Score: 61
Period size: 2 Copynumber: 31.0 Consensus size: 2
61481802 ATCATTTCTA
* * *
61481812 AT AT GT AT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
61481852 AT AT AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
61481871 GCCATTAGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 45 0.94
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:61483448 original size:30 final size:30
Alignment explanation
Indices: 61483412--61483472 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
61483402 TCTCAAGGAA
61483412 AAGCTAACTAAAAGGGAATGGGGAGATGGG
1 AAGCTAACTAAAAGGGAATGGGGAGATGGG
61483442 AAGCTAACTAAAAGGGAATGGGGAGATGGG
1 AAGCTAACTAAAAGGGAATGGGGAGATGGG
61483472 A
1 A
61483473 TGTTTTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.07, G:0.39, T:0.13
Consensus pattern (30 bp):
AAGCTAACTAAAAGGGAATGGGGAGATGGG
Found at i:61490590 original size:46 final size:46
Alignment explanation
Indices: 61490538--61490795 Score: 156
Period size: 46 Copynumber: 5.6 Consensus size: 46
61490528 TTGAGTATCC
*
61490538 GAACTCGTTGAGTTGAGTCCTAGTTCATTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCT
* * * *
61490584 GAACTCGTTGAGTTGAATCCGAGTTC-GTGA--GATG-TAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-T--G--TCT
* * *
61490631 GAGCTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACAT-TC-
1 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCG-A-ATGTCT
* ** * * *
61490677 AAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAG-GCA--TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCAT-TTATG-GA-T-GCGAATGTCT
* * * * *
61490724 GAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCT
* **
61490770 GATCTTATTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
61490796 GCTTATGGGC
Statistics
Matches: 164, Mismatches: 29, Indels: 38
0.71 0.13 0.16
Matches are distributed among these distances:
42 2 0.01
43 6 0.04
44 3 0.02
45 4 0.02
46 79 0.48
47 57 0.35
48 3 0.02
49 2 0.01
50 5 0.03
52 2 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGTCT
Found at i:61490744 original size:47 final size:47
Alignment explanation
Indices: 61490584--61490750 Score: 169
Period size: 47 Copynumber: 3.6 Consensus size: 47
61490574 GCGAATGTCT
* * * *
61490584 GAACTCGTTGAGTTGAATCCGAGTTCGTGAGATGTAACTAGGCATCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCC
* * * * * * * *
61490631 GAGCTCGTTGACTTGAGTCCGAGTTCACT--TATGGATGCGA-ACATTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCA-TGAAATGTA-ACTAGGCATCC
*
61490677 AAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCC
*
61490724 GAACTTGTTGAGTTGAGTCCGAGTTCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCA
61490751 CTTATGGATG
Statistics
Matches: 93, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.01
46 33 0.35
47 58 0.62
48 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (47 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCATGAAATGTAACTAGGCATCC
Found at i:61490781 original size:93 final size:93
Alignment explanation
Indices: 61490534--61490795 Score: 362
Period size: 93 Copynumber: 2.8 Consensus size: 93
61490524 ATATTTGAGT
* * * *
61490534 ATCCGAACTCGTTGAGTTGAGTCCTAGTTCATTTATGGATGCGAATGTCTGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
* * *
61490599 AATCCGAGTTCGTGAGATGTAACTAGGC
66 AGTCCGAGTTCATGAAATGTAACTAGGC
* * * * * *
61490627 ATCTGAGCTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACATTCAAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
61490692 AGTCCGAGTTCATGAAATGTAACTAGGC
66 AGTCCGAGTTCATGAAATGTAACTAGGC
* * * **
61490720 ATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGATCTTATTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
61490785 AGTCCGAGTTC
66 AGTCCGAGTTC
61490796 GCTTATGGGC
Statistics
Matches: 145, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 145 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTTG
AGTCCGAGTTCATGAAATGTAACTAGGC
Found at i:61492685 original size:15 final size:15
Alignment explanation
Indices: 61492662--61492721 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
61492652 GTATCGTATC
*
61492662 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
61492677 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * ** *
61492692 CTGGGTTTCTCAATC
1 TTGGATTTCTTTATT
61492707 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
61492722 CAATTTTCTT
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.12, C:0.12, G:0.17, T:0.60
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:61492699 original size:30 final size:30
Alignment explanation
Indices: 61492663--61492722 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
61492653 TATCGTATCT
** *
61492663 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTCAATCTTGGATTTCTTTATTC
61492693 TGGGTTTCTCAATCTTGGATTTCTTTATTC
1 TGGGTTTCTCAATCTTGGATTTCTTTATTC
61492723 AATTTTCTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.12, C:0.13, G:0.17, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCAATCTTGGATTTCTTTATTC
Done.