Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 182 of 318
Found at i:56801787 original size:14 final size:14
Alignment explanation
Indices: 56801768--56801794 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56801758 ATTTTTAGTT
56801768 TAATTTTTGTTTTC
1 TAATTTTTGTTTTC
56801782 TAATTTTTGTTTT
1 TAATTTTTGTTTT
56801795 ATTTGTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (14 bp):
TAATTTTTGTTTTC
Found at i:56801788 original size:25 final size:24
Alignment explanation
Indices: 56801746--56801798 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
56801736 TAATTTAGTC
*
56801746 ATTTTTATTTTTATTTTTAGTTTA
1 ATTTTTATTTTTAATTTTAGTTTA
* * *
56801770 ATTTTTGTTTTCTAATTTTTGTTTT
1 ATTTTTATTTT-TAATTTTAGTTTA
56801795 ATTT
1 ATTT
56801799 GTTTCTGGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (24 bp):
ATTTTTATTTTTAATTTTAGTTTA
Found at i:56806125 original size:26 final size:26
Alignment explanation
Indices: 56806094--56806153 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
56806084 TAATAATAAA
56806094 TAAAATTAATTATGATTCTAAAGTAT
1 TAAAATTAATTATGATTCTAAAGTAT
56806120 TAAAATTAATTATGATTCTAAAGTAT
1 TAAAATTAATTATGATTCTAAAGTAT
56806146 TAAAATTA
1 TAAAATTA
56806154 TTGAATTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (26 bp):
TAAAATTAATTATGATTCTAAAGTAT
Found at i:56806296 original size:5 final size:5
Alignment explanation
Indices: 56806286--56806310 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
56806276 CAATTGGAAT
56806286 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
56806311 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:56807734 original size:28 final size:29
Alignment explanation
Indices: 56807694--56807808 Score: 130
Period size: 29 Copynumber: 4.0 Consensus size: 29
56807684 TACCTGTATC
*
56807694 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
*
56807722 TGGCCCATTAAGCCCAAATCACCTGT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
56807751 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
56807780 TGGCCCGTT-AGACCC-AGTCACATTCATA
1 TGGCCCATTAAG-CCCAAATCACATTCATA
56807808 T
1 T
56807809 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
28 29 0.39
29 45 0.60
30 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:56809360 original size:16 final size:16
Alignment explanation
Indices: 56809339--56809378 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
56809329 CGGGATTTTA
56809339 GGATTTTTGGGTTTCG
1 GGATTTTTGGGTTTCG
56809355 GGATTTTTGGGTTTCG
1 GGATTTTTGGGTTTCG
*
56809371 AGATTTTT
1 GGATTTTT
56809379 AGGGCGTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.10, C:0.05, G:0.33, T:0.53
Consensus pattern (16 bp):
GGATTTTTGGGTTTCG
Found at i:56818419 original size:40 final size:40
Alignment explanation
Indices: 56818360--56818501 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
56818350 AAATTGAATG
* * *
56818360 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
56818400 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
56818440 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
56818480 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56818502 GCATTTGTGC
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 3 0.04
40 82 0.96
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:56818525 original size:40 final size:39
Alignment explanation
Indices: 56818398--56818527 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
56818388 ATGCTGGAAA
* * *
56818398 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-A-CAGC
* *
56818439 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAG-C
*
56818477 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACA-GC
56818518 TTATATCCGG
1 TTATATCCGG
56818528 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCACAGC
Found at i:56826366 original size:49 final size:48
Alignment explanation
Indices: 56826269--56826617 Score: 483
Period size: 47 Copynumber: 7.3 Consensus size: 48
56826259 GTATGAGATA
* *
56826269 TATATGTGTGATAAGGCCTAATGGCCGATGTGATAAATGTG-AAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
56826316 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
* *
56826365 TATGTATGTGATAAGGCCTAATGGCCGATGTGA-GAATGTTAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
*
56826413 TATATATGTGATAAGGCCTAATGGCCGATGTGACGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG-GTG
*
56826462 TATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTG-AAGGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* *
56826509 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
* * * * * * * *
56826556 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAA-GCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
*
56826603 TATAAATGTGATAAG
1 TATATATGTGATAAG
56826618 TCCCGAAGGG
Statistics
Matches: 279, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 137 0.49
48 54 0.19
49 88 0.32
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (48 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGGTG
Found at i:56844913 original size:44 final size:44
Alignment explanation
Indices: 56844823--56844919 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
56844813 CAATTTTCAG
* *
56844823 TCTGCTCCACTAAAACTTCAGGAAAATAAGGCCTGTATCTTGAA
1 TCTGCTCCACTAAAACTTCAGGAAAATAAGGCCTGTAGCTTAAA
* * * *
56844867 TCTGCTCCACTACAACTTCAGGGAGATAAGG-CTGGTGGCTTAAA
1 TCTGCTCCACTAAAACTTCAGGAAAATAAGGCCT-GTAGCTTAAA
*
56844911 TCTACTCCA
1 TCTGCTCCA
56844920 TGGCCAATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 2 0.04
44 43 0.96
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
TCTGCTCCACTAAAACTTCAGGAAAATAAGGCCTGTAGCTTAAA
Found at i:56845109 original size:177 final size:176
Alignment explanation
Indices: 56844884--56845341 Score: 601
Period size: 177 Copynumber: 2.6 Consensus size: 176
56844874 CACTACAACT
* * * * *
56844884 TCAGGGAGATAAGGCTGGTGGCTTAAATCTACTCCATGGCCAATACATGGAGATAAGATTCACCG
1 TCAGAGAGATAAGTCTGGTGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCC-
* * *
56844949 TCTTCGATCTGCTCCACAACTACTTAGGGAAATAGGATCTTCAATCTTCAGTCTGTTTCTTTGCT
65 TCTTCGATCTGCTCCACAACTACTTAGGGAAATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCT
* * **
56845014 ACCTCATGAAGATAAGACCACAATCTTCAACCTGCTCTCTTGCTACC
130 ACATCAGGAAGATAAGACCACAATCGCCAACCTGCTCTCTTGCTACC
* * * * *
56845061 TCAGAGAGATAAATCTGGTGGCTAAAATCTGCTCCATTGCCGATACATGGAAATAAGACTCGCCA
1 TCAGAGAGATAAGTCTGGTGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCC-
* *
56845126 TCTTCGATCTGCTCCACAACTACTTAGGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGTT
65 TCTTCGATCTGCTCCACAACTACTTAGGGAAATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCT
*
56845191 ACATCAGGAAGATAAGACTACAATCGCCAACCTGCTCTCTTGCTACC
130 ACATCAGGAAGATAAGACCACAATCGCCAACCTGCTCTCTTGCTACC
* * * * * *
56845238 TCAGAAAGATAAGGTCTGGGGGATTAAATCTACCCCATTGCCGATACATAGAGATAAGATCCGCC
1 TCAGAGAGATAA-GTCTGGTGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCC
** * * *
56845303 TCCTTCGATCTGCTTTACTACTGCTTAGGGAGATAAGAT
65 T-CTTCGATCTGCTCCACAACTACTTAGGGAAATAAGAT
56845342 GTGACAGCCC
Statistics
Matches: 243, Mismatches: 36, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
177 168 0.69
178 75 0.31
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (176 bp):
TCAGAGAGATAAGTCTGGTGGCTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCGCCT
CTTCGATCTGCTCCACAACTACTTAGGGAAATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTA
CATCAGGAAGATAAGACCACAATCGCCAACCTGCTCTCTTGCTACC
Found at i:56846987 original size:39 final size:39
Alignment explanation
Indices: 56846933--56847123 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
56846923 AATGTTCGAG
*
56846933 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
56846972 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
56847011 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
56847050 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
56847089 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATACCCGGGCTAAG-CCCGAAGGCAATTGTGCG
56847124 GGTTACCATA
Statistics
Matches: 145, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 128 0.88
40 17 0.12
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.21
Consensus pattern (39 bp):
TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:56848860 original size:177 final size:177
Alignment explanation
Indices: 56848554--56848893 Score: 482
Period size: 177 Copynumber: 1.9 Consensus size: 177
56848544 GGGGTGTTAC
* * ** * * **
56848554 ATAAGATCTTCAGTCTTCAGTTTGTTTCCTTATTACCCCAGGAAGATAAGACCACCATTTTCAAC
1 ATAAGATCTTCAATCTTCAGTCTACTTCCTTACTACACCAGGAAGATAAGACCACCATCGTCAAC
* *
56848619 CTACTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAACCTGCCCCATTGCCGATACATG
66 CTACTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAACCTGCCCCATTGACAATACATG
*
56848684 GAAATAAGATTCGCCATCTTCGATCTGCTCCACAACTACTTAGGGAA
131 GAAATAAGATTCGCCATCTTCGATCTACTCCACAACTACTTAGGGAA
* * * *
56848731 ATAAGATCTTCAATCTTTAGTCTACTTCCTTACTACATCAGGAAGATAAGACTACGATCGTCAAC
1 ATAAGATCTTCAATCTTCAGTCTACTTCCTTACTACACCAGGAAGATAAGACCACCATCGTCAAC
* * *
56848796 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGACAATACATG
66 CTACTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAACCTGCCCCATTGACAATACATG
* ** *
56848861 GAGATAAGATTTTCCATTTTCGATCTACTCCAC
131 GAAATAAGATTCGCCATCTTCGATCTACTCCAC
56848894 TACTGCTTCT
Statistics
Matches: 141, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
177 141 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (177 bp):
ATAAGATCTTCAATCTTCAGTCTACTTCCTTACTACACCAGGAAGATAAGACCACCATCGTCAAC
CTACTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAACCTGCCCCATTGACAATACATG
GAAATAAGATTCGCCATCTTCGATCTACTCCACAACTACTTAGGGAA
Found at i:56851646 original size:40 final size:40
Alignment explanation
Indices: 56851602--56851797 Score: 245
Period size: 40 Copynumber: 4.9 Consensus size: 40
56851592 GGATATAGCT
* *
56851602 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
56851642 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
*
56851682 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* ** * *
56851722 ACTTGCACAAATGCCTTAAGGACTTAGCCAGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
*
56851762 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
56851798 CATCCGAATA
Statistics
Matches: 135, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
40 132 0.98
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:56851723 original size:80 final size:80
Alignment explanation
Indices: 56851602--56851791 Score: 274
Period size: 80 Copynumber: 2.4 Consensus size: 80
56851592 GGATATAGCT
* * * * **
56851602 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTAAGGACTT
* * *
56851667 AGCCCGGATTTGGTA
66 AGCCAGGAATTAGTA
*
56851682 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAACTTGCACAAATGCCTTAAGGACT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTAAGGACT
56851746 TAGCCAGGAATTAGTA
65 TAGCCAGGAATTAGTA
56851762 ACTCGCACAAATGCCTTCGGGACTTAGCCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC
56851792 AGTTATCATC
Statistics
Matches: 99, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 98 0.99
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTAAGGACTT
AGCCAGGAATTAGTA
Found at i:56859166 original size:29 final size:27
Alignment explanation
Indices: 56859132--56859233 Score: 96
Period size: 29 Copynumber: 3.6 Consensus size: 27
56859122 TACTCGATCA
*
56859132 CGCACACTTAGTGCCATGTGATTTAAGCC
1 CGCACACTTAGTGCCAT-T-ATTTAAGCT
* ** *
56859161 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTTAAGCT
*
56859190 CGCACACTTAGTGCCATAATTTCAAGCT
1 CGCACACTTAGTGCCATTATTT-AAGCT
*
56859218 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
56859234 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
27 1 0.02
28 21 0.36
29 37 0.63
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTTAAGCT
Found at i:56860576 original size:17 final size:19
Alignment explanation
Indices: 56860541--56860579 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
56860531 TCCACACACA
56860541 TTTTTTTTTCATCATTTTCT
1 TTTTTTTTTCA-CATTTTCT
56860561 TTTTTTTTTC-CA-TTTCT
1 TTTTTTTTTCACATTTTCT
56860578 TT
1 TT
56860580 ATTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.37
18 2 0.11
20 10 0.53
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTCACATTTTCT
Found at i:56866050 original size:40 final size:39
Alignment explanation
Indices: 56866005--56866134 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
56865995 CGGAATATAA
56866005 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
56866045 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
56866085 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
56866125 CCGGATATAA
1 CCGGATATAA
56866135 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:56866149 original size:40 final size:40
Alignment explanation
Indices: 56866021--56866171 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
56866011 ATAACCATGT
* * *
56866021 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
56866061 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
56866101 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
56866141 GCATAATTGTCTTCGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
56866172 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 14 0.16
40 74 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:56866155 original size:80 final size:79
Alignment explanation
Indices: 56866021--56866169 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
56866011 ATAACCATGT
* *
56866021 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGAT-TTAGCC
56866086 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
56866101 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGATTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGATTTAGC
56866164 CCGGAT
64 CCGGAT
56866170 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGATTTAGCCC
GGATGTAGCCACTA
Found at i:56872179 original size:40 final size:39
Alignment explanation
Indices: 56872015--56872187 Score: 136
Period size: 40 Copynumber: 4.4 Consensus size: 39
56872005 AAATTGATTG
* *
56872015 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56872054 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56872094 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56872134 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
*
56872173 GATATCCGGGTTAAG
1 -ATATCCGGGCTAAG
56872188 TCCGTAGGCC
Statistics
Matches: 105, Mismatches: 23, Indels: 11
0.76 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.14
40 84 0.80
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56876747 original size:39 final size:39
Alignment explanation
Indices: 56876689--56876999 Score: 496
Period size: 39 Copynumber: 8.0 Consensus size: 39
56876679 AAGACACTGA
*
56876689 AAATGTATCCGGGCCAAAGTCTCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
56876728 AAACGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* * * *
56876767 AAATATATCCGGGCTAAAGGCCCGCAGGCTTCATGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
56876806 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCTTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
* *
56876845 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
56876884 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
56876923 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
** *
56876962 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTG
56877000 ATAATATAAT
Statistics
Matches: 253, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 253 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:56888709 original size:21 final size:21
Alignment explanation
Indices: 56888685--56888725 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
56888675 ACATACTTTT
56888685 CTTTAATGGTCTAATTACCAG
1 CTTTAATGGTCTAATTACCAG
56888706 CTTTAATGGTCTAATTACCA
1 CTTTAATGGTCTAATTACCA
56888726 TATAAGGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (21 bp):
CTTTAATGGTCTAATTACCAG
Found at i:56890659 original size:17 final size:17
Alignment explanation
Indices: 56890637--56890674 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
56890627 TATCACCACA
*
56890637 CCTTACTGCCGAACCTT
1 CCTTACTACCGAACCTT
56890654 CCTTACTACCGAACCTT
1 CCTTACTACCGAACCTT
56890671 CCTT
1 CCTT
56890675 GCCATCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.42, G:0.08, T:0.32
Consensus pattern (17 bp):
CCTTACTACCGAACCTT
Found at i:56896598 original size:42 final size:42
Alignment explanation
Indices: 56896539--56896623 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
56896529 TTAAAAACAT
56896539 AGAACACAAAGCAAACATGTTTAAAATAAATGAAAAGAGGAA
1 AGAACACAAAGCAAACATGTTTAAAATAAATGAAAAGAGGAA
56896581 AGAACACAAAGCAAACATGTTTAAAATAAATGAAAAGAGGAA
1 AGAACACAAAGCAAACATGTTTAAAATAAATGAAAAGAGGAA
56896623 A
1 A
56896624 CATTTTGCTC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.60, C:0.09, G:0.16, T:0.14
Consensus pattern (42 bp):
AGAACACAAAGCAAACATGTTTAAAATAAATGAAAAGAGGAA
Found at i:56899337 original size:26 final size:26
Alignment explanation
Indices: 56899301--56899353 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56899291 CACTTGGGAG
56899301 TTGGAAGATATCATGAAGTGTTAGTA
1 TTGGAAGATATCATGAAGTGTTAGTA
56899327 TTGGAAGATATCATGAAGTGTTAGTA
1 TTGGAAGATATCATGAAGTGTTAGTA
56899353 T
1 T
56899354 CCGTATCCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (26 bp):
TTGGAAGATATCATGAAGTGTTAGTA
Found at i:56899887 original size:2 final size:2
Alignment explanation
Indices: 56899880--56899911 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
56899870 GAATTGAGAG
56899880 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
56899912 GTGACAGCCC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:56901715 original size:40 final size:40
Alignment explanation
Indices: 56901612--56901791 Score: 177
Period size: 40 Copynumber: 4.5 Consensus size: 40
56901602 TCGAATGGTG
* * *
56901612 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
56901653 TCCAGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAA
* * *
56901694 T-CGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
56901733 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56901774 -CCGGGCTATGTCCCGAAG
1 TCCGGGCTAAGTCCCGAAG
56901792 ACAATCGAGC
Statistics
Matches: 114, Mismatches: 20, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
39 4 0.04
40 78 0.68
41 32 0.28
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56901753 original size:80 final size:81
Alignment explanation
Indices: 56901614--56901791 Score: 198
Period size: 80 Copynumber: 2.2 Consensus size: 81
56901604 GAATGGTGTC
* * *
56901614 CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCAGGTCAACTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCAGGTCAACTCCCGAAGGCAATTG
56901679 TGCGAGTTACCAAAAT
66 TGCGAGTTACCAAAAT
* * * * * *
56901695 CGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCC-GGGCTAATTCCCGAAGGCAATT
1 CGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCAGGTC-AACTCCCGAAGGCAATT
* * * * *
56901758 GTGCGAATCACTATAAC
65 GTGCGAGTTACCAAAAT
*
56901775 CGGGCTATGTCCCGAAG
1 CGGGCTAAGTCCCGAAG
56901792 ACAATCGAGC
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 3 0.04
80 53 0.66
81 24 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCAGGTCAACTCCCGAAGGCAATTG
TGCGAGTTACCAAAAT
Found at i:56901812 original size:40 final size:40
Alignment explanation
Indices: 56901734--56901817 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
56901724 GTTATTAAAT
* * *
56901734 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
* * *
56901774 CCGGGCT-ATGTCCCGAAGACAATCGAGCGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGCGAATCACTATAA
56901814 CCGG
1 CCGG
56901818 TTAAATTCTG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 35 0.95
ACGTcount: A:0.26, C:0.27, G:0.26, T:0.20
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGCGAATCACTATAA
Found at i:56901816 original size:80 final size:80
Alignment explanation
Indices: 56901647--56901817 Score: 173
Period size: 80 Copynumber: 2.1 Consensus size: 80
56901637 GTGCTAAGTG
* * * * * * *
56901647 ACTAAATCCAGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAATCGGGTTAAGTCCCGAA
1 ACTAAATCCGGGCT-AATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAA
* * * *
56901711 GGCATTCGTGCGAGTT
65 GACAATCGAGCGAGTC
* * * *
56901727 ATTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
56901792 ACAATCGAGCGAGTC
66 ACAATCGAGCGAGTC
* *
56901807 GCTATATCCGG
1 ACTAAATCCGG
56901818 TTAAATTCTG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
80 71 0.99
81 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTAAATCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:56903204 original size:2 final size:2
Alignment explanation
Indices: 56903197--56903235 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
56903187 GGGTGTTACA
56903197 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
56903236 CTTTTGTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:56903919 original size:21 final size:20
Alignment explanation
Indices: 56903891--56903933 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
56903881 TGTGTTTCTT
*
56903891 GTTTCTATTGTTAATTTGTA
1 GTTTCTATTATTAATTTGTA
56903911 GTTTGCTATTATTAATTTGTA
1 GTTT-CTATTATTAATTTGTA
56903932 GT
1 GT
56903934 GCATACTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.21, C:0.05, G:0.16, T:0.58
Consensus pattern (20 bp):
GTTTCTATTATTAATTTGTA
Found at i:56904775 original size:22 final size:22
Alignment explanation
Indices: 56904747--56904802 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
56904737 TGTATTATGT
56904747 CAATATAATTGATTGATTGTGC
1 CAATATAATTGATTGATTGTGC
56904769 CAATATAATTGATTGATTGTGC
1 CAATATAATTGATTGATTGTGC
56904791 CAATATAATTGA
1 CAATATAATTGA
56904803 ATGTTTATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
CAATATAATTGATTGATTGTGC
Found at i:56908025 original size:40 final size:40
Alignment explanation
Indices: 56907969--56908149 Score: 256
Period size: 40 Copynumber: 4.5 Consensus size: 40
56907959 TGAATGATAC
* * * *
56907969 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
*
56908009 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
56908049 CCAGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
56908089 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
56908129 CCGGGTTAAGACCCGAAGGCA
1 CCGGGCTAAGACCCGAAGGCA
56908150 AGTGCTTGTG
Statistics
Matches: 126, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 124 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:56908113 original size:80 final size:80
Alignment explanation
Indices: 56907965--56908149 Score: 282
Period size: 80 Copynumber: 2.3 Consensus size: 80
56907955 CATTTGAATG
* * * * *
56907965 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGATCCGAAGGCA
1 ATACCCAGGTTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
56908030 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* *
56908045 ATATCCAGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCAGGTTAAGACCCGAAGGCATTTATGCGAG-TGATTATATCCGGGCTAAGACCCGAAGGC
56908109 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
*
56908125 ATACCCGGGTTAAGACCCGAAGGCA
1 ATACCCAGGTTAAGACCCGAAGGCA
56908150 AGTGCTTGTG
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
80 93 0.98
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
ATACCCAGGTTAAGACCCGAAGGCATTTATGCGAGTGATTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:56914573 original size:39 final size:39
Alignment explanation
Indices: 56914409--56914591 Score: 210
Period size: 40 Copynumber: 4.6 Consensus size: 39
56914399 TCGAATGATG
* * * *
56914409 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* *
56914449 TCCGGACTAAGAT-CCGAAGGCATTCGTGTGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATT-GTGCGAGTTACTAAA
*
56914489 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
*
56914529 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
*
56914569 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56914592 TGAACGAGTA
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
39 37 0.29
40 84 0.66
41 6 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56914600 original size:79 final size:80
Alignment explanation
Indices: 56914409--56914626 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 80
56914399 TCGAATGATG
* * **
56914409 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
*
56914473 CGTGTGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
56914489 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
56914552 T-GTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
56914569 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
56914627 TACGTGATTC
Statistics
Matches: 118, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
78 16 0.14
79 46 0.39
80 48 0.41
81 8 0.07
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:56921737 original size:40 final size:40
Alignment explanation
Indices: 56921684--56921833 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
56921674 GTGCTAAGTG
*
56921684 ACTATATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTT
* * *
56921724 ACTAAATCTGGACTAAGATCCGAAGGCATTTGTGCAAGTT
1 ACTAAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTT
**
56921764 ACTAAATCCGGGTTAAG-TCCCGAAGGCA-TCTGTGCGAGTT
1 ACTAAATCCGGACTAAGAT-CCGAAGGCATTC-GTGCGAGTT
* *
56921804 ACTATAA-CCGGGCTATG-TCCCGAAGGCATT
1 ACTA-AATCCGGACTAAGAT-CCGAAGGCATT
56921834 TGAACGTGTA
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.02
40 90 0.95
41 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (40 bp):
ACTAAATCCGGACTAAGATCCGAAGGCATTCGTGCGAGTT
Found at i:56921827 original size:80 final size:81
Alignment explanation
Indices: 56921652--56921835 Score: 227
Period size: 80 Copynumber: 2.3 Consensus size: 81
56921642 CGAATGATGT
*
56921652 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTCG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCG
56921716 TGCGAGTTACTAAATC
66 TGCGAGTTACTAAATC
* * * **
56921732 TGGACTAAGAT-CCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA-T
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
56921793 CTGTGCGAGTTACTATAA-C
64 C-GTGCGAGTTACTA-AATC
*
56921812 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
56921836 AACGTGTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
79 4 0.04
80 75 0.84
81 10 0.11
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTCG
TGCGAGTTACTAAATC
Found at i:56921853 original size:80 final size:80
Alignment explanation
Indices: 56921652--56921868 Score: 220
Period size: 80 Copynumber: 2.7 Consensus size: 80
56921642 CGAATGATGT
* **
56921652 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTG-ACTATATCCGGACTAAGATCCGAAGGCATTCG
1 CGGGCTAAGTCCCGAAGGCATTGTGC-AAGTGTACTATATCCGGGTTAAGATCCGAAGGCATTCG
56921716 TGCGAGTTACTAAATC
65 TGCGAGTTACTAAATC
* * *
56921732 TGGACTAAGAT-CCGAAGGCATTTGTGCAAGT-TACTAAATCCGGGTTAAG-TCCCGAAGGCA-T
1 CGGGCTAAG-TCCCGAAGGCA-TTGTGCAAGTGTACTATATCCGGGTTAAGAT-CCGAAGGCATT
56921793 CTGTGCGAGTTACTATAA-C
63 C-GTGCGAGTTACTA-AATC
*
56921812 CGGGCTATGTCCCGAAGGCATT-TG-AACGTGTAGCTATATCC-GGTTAA-ACTCCGAAGG
1 CGGGCTAAGTCCCGAAGGCATTGTGCAA-GTGTA-CTATATCCGGGTTAAGA-TCCGAAGG
56921869 TACGTGATTC
Statistics
Matches: 115, Mismatches: 10, Indels: 25
0.77 0.07 0.17
Matches are distributed among these distances:
77 2 0.02
78 4 0.03
79 21 0.18
80 79 0.69
81 9 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTGTGCAAGTGTACTATATCCGGGTTAAGATCCGAAGGCATTCGT
GCGAGTTACTAAATC
Found at i:56933042 original size:43 final size:42
Alignment explanation
Indices: 56932989--56933118 Score: 147
Period size: 43 Copynumber: 3.1 Consensus size: 42
56932979 CTACTTAAGA
* *
56932989 CTTAGTTTTCTCGATTGCAATCTTATTTCAGTTCATTTCTTTC
1 CTTAGGTTTCTC-ATTGCAATTTTATTTCAGTTCATTTCTTTC
** *
56933032 CTTAGGTTTCTCAGTTGGGATTTTATTTCAGTTCAATTCATTT-
1 CTTAGGTTTCTCA-TTGCAATTTTATTTCAGTTCATTTC-TTTC
* * *
56933075 TTTAGGTTTC-AATTGCAATTTTATTTCAGTTGATTTCTTTC
1 CTTAGGTTTCTCATTGCAATTTTATTTCAGTTCATTTCTTTC
56933116 CTT
1 CTT
56933119 TCTAGAATAG
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
40 3 0.04
41 23 0.32
42 2 0.03
43 41 0.57
44 3 0.04
ACGTcount: A:0.18, C:0.16, G:0.12, T:0.54
Consensus pattern (42 bp):
CTTAGGTTTCTCATTGCAATTTTATTTCAGTTCATTTCTTTC
Found at i:56938661 original size:16 final size:18
Alignment explanation
Indices: 56938640--56938675 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
56938630 ATTTTGATCA
56938640 TTTAA-TTA-TTAATTTT
1 TTTAATTTATTTAATTTT
56938656 TTTAATTTATTTAATTTT
1 TTTAATTTATTTAATTTT
56938674 TT
1 TT
56938676 AAAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 3 0.17
18 10 0.56
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTAATTTATTTAATTTT
Found at i:56939289 original size:27 final size:27
Alignment explanation
Indices: 56939259--56939315 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
56939249 AGGCTATCCC
*
56939259 TTCATGATT-CGCTACAAAGGCATTCCT
1 TTCAT-ATTGCGCCACAAAGGCATTCCT
*
56939286 TTCATATTGCGCCACATAGGCATTCCT
1 TTCATATTGCGCCACAAAGGCATTCCT
56939313 TTC
1 TTC
56939316 TTGACGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.23, C:0.28, G:0.14, T:0.35
Consensus pattern (27 bp):
TTCATATTGCGCCACAAAGGCATTCCT
Found at i:56948141 original size:180 final size:180
Alignment explanation
Indices: 56947869--56948225 Score: 502
Period size: 180 Copynumber: 2.0 Consensus size: 180
56947859 GAGCTATGGA
*
56947869 ACTCCAAATTAAGATCTATTAATTTTCCTAGAAACTAGACTCACATATATTCTTACCATAAAATT
1 ACTCCAAATTAAGAACTATTAATTTTCCTAGAAACTAGACTCACATATATTCTTACCATAAAATT
* * * ** *
56947934 TTCAGAATTTTTGGTTTAGCCAATTAGTACAGTTTATTCATTAAATTTATCCCTATTTCACTGTC
66 TTCAGAATTTTTGATTTAGCAAATTAGTACAATTTATTCATTAAAGATACCCCTATTTCACTGTC
* *
56947999 CAACAGTTCCGACCTCTCTTTACTAAAAATTATTTATCTCATTGTACGGG
131 CAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACGGG
* *
56948049 ACTCCAAATTAAGAACTGA-TAATTTTTCC-AGAAACTGGACTCACATATATTCTTATCATAAAA
1 ACTCCAAATTAAGAACT-ATTAA-TTTTCCTAGAAACTAGACTCACATATATTCTTACCATAAAA
* *
56948112 TTTTTAGAATTTTTTATTTAGCAAATTAGTACAATTTATTCATTAAAGATACCCCTATTTCACTG
64 TTTTCAGAATTTTTGATTTAGCAAATTAGTACAATTTATTCATTAAAGATACCCCTATTTCACTG
** * ** * *
56948177 TCTGATAGTTTTGATCTTTCTTCACTAAAAATTATTTATCTCATGGTAC
129 TCCAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTAC
56948226 AGATCTCAGA
Statistics
Matches: 155, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
180 148 0.95
181 7 0.05
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (180 bp):
ACTCCAAATTAAGAACTATTAATTTTCCTAGAAACTAGACTCACATATATTCTTACCATAAAATT
TTCAGAATTTTTGATTTAGCAAATTAGTACAATTTATTCATTAAAGATACCCCTATTTCACTGTC
CAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACGGG
Found at i:56948833 original size:50 final size:50
Alignment explanation
Indices: 56948791--56949127 Score: 422
Period size: 50 Copynumber: 6.7 Consensus size: 50
56948781 CTGGCACGCA
* * *
56948791 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * *
56948841 TAGTAGCCTGCACTTAGTACTACACACGTGACTTATCCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * *
56948891 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * **
56948941 TAGTAGTCTGCACTTAGTACTACACACATGACCTAACCATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * ** * * * *
56948991 TAGTAGTCTTCACTTAGTACTACACACGTGATCGAAACTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCTGGTACACG
* * * *
56949042 TAGTAGCCTGTACTTAGTACTACACATGCGACCTAACAATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
56949092 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
56949128 ATTTGTCTTA
Statistics
Matches: 243, Mismatches: 43, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
50 206 0.85
51 37 0.15
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:56957186 original size:48 final size:48
Alignment explanation
Indices: 56957115--56957592 Score: 467
Period size: 48 Copynumber: 9.9 Consensus size: 48
56957105 ATACTAGGGT
*
56957115 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* * * * * **
56957163 TATGAGAGCTAGTGCAAGACCATGTCTGGGACATGGCATTGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* * * * * *
56957211 CATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGTATCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAT--TTA
* * **
56957261 TATGAGAGCCAGTGTAAGACTATGTTTGGAACATGGCATCAACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* **
56957309 TATGAGAGCTAGTGTAAGACCATGTTTAGG-ACATGGCATCGAC-TCGA
1 TATGAGAGCTAGTGTAAGACCATGTTT-GGAACATGGCATCGGCATTTA
* * * * **
56957356 CATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTA
* * *
56957406 TATGAGAGCCAGTGTAAGATCATGTTTGGAACATAGCATCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
* * *
56957454 TATGAGAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTTGA
1 TATGAGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCATTTA
* * * * **
56957502 CATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACACCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTA
* * * * *
56957552 TATGAGAGCCAGTTTAAGACCATGTCTGGGATATGGCATCG
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCG
56957593 ACATCTTACC
Statistics
Matches: 348, Mismatches: 71, Indels: 20
0.79 0.16 0.05
Matches are distributed among these distances:
46 2 0.01
47 42 0.12
48 188 0.54
49 5 0.01
50 111 0.32
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
Found at i:56957570 original size:146 final size:146
Alignment explanation
Indices: 56957115--56957592 Score: 780
Period size: 146 Copynumber: 3.3 Consensus size: 146
56957105 ATACTAGGGT
*
56957115 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGCAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* *
56957180 GACCATGTCTGGGACATGGCATTGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
66 GACCATGTCTAGGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
* *
56957245 GGCATC-AGTATCGATA
131 GGCATCGA-CACCGATA
* **
56957261 TATGAGAGCCAGTGTAAGACTATGTTTGGAACATGGCATCAACATTTATATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* *
56957326 GACCATGTTTAGGACATGGCATC-GACTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
66 GACCATGTCTAGGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
56957390 GGCATCGACACCGATA
131 GGCATCGACACCGATA
* *
56957406 TATGAGAGCCAGTGTAAGATCATGTTTGGAACATAGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
*
56957471 GACCATGTCTAGGACATGGCATCGGCCTTGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
66 GACCATGTCTAGGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
56957536 GGCATCGACACCGATA
131 GGCATCGACACCGATA
* * * *
56957552 TATGAGAGCCAGTTTAAGACCATGTCTGGGATATGGCATCG
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
56957593 ACATCTTACC
Statistics
Matches: 306, Mismatches: 24, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
145 134 0.44
146 172 0.56
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (146 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACCATGTCTAGGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
GGCATCGACACCGATA
Found at i:56959694 original size:16 final size:16
Alignment explanation
Indices: 56959675--56959706 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56959665 AATTGTTTTA
56959675 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
56959691 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
56959707 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:56960183 original size:151 final size:151
Alignment explanation
Indices: 56959909--56960301 Score: 599
Period size: 151 Copynumber: 2.6 Consensus size: 151
56959899 GAAGCTCTTT
* * * *
56959909 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCTATCAATCTGGTACGCATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
* * * *
56959974 CTACACTGAGTACTACACACGTGACGTAACCATCTGATACACATAGTAGCTTGCACTTAGTACTA
66 CTACACTTAGTACTACACATGTGACTTAACCATCTAATACACATAGTAGCTTGCACTTAGTACTA
56960039 CACACGTGATCAAAGTTAACG
131 CACACGTGATCAAAGTTAACG
* * **
56960060 GGTACGTATAGTAGCCTGCACTTAGAACTACACATGCGACTTATCAATCTGGTACATGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
* * *
56960125 CTGCACTTAGTACTATACATGTGACTTAACCATCTAATACACGTAGTAGCTTGCACTTAGTACTA
66 CTACACTTAGTACTACACATGTGACTTAACCATCTAATACACATAGTAGCTTGCACTTAGTACTA
*
56960190 CACACGTGATCGAAGTTAACG
131 CACACGTGATCAAAGTTAACG
* *
56960211 GGTACGCATAGTAGCCTGCACTTA-ATACTACATATGTGACCTATCAATCTGGTACACATAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGA-ACTACACATGCGACCTATCAATCTGGTACACATAGTAG
*
56960275 CATACACTTAGTACTACACATGTGACT
65 CCTACACTTAGTACTACACATGTGACT
56960302 CACAACGGAT
Statistics
Matches: 216, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
150 1 0.00
151 215 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGAACTACACATGCGACCTATCAATCTGGTACACATAGTAGC
CTACACTTAGTACTACACATGTGACTTAACCATCTAATACACATAGTAGCTTGCACTTAGTACTA
CACACGTGATCAAAGTTAACG
Found at i:56960223 original size:101 final size:101
Alignment explanation
Indices: 56959909--56960299 Score: 256
Period size: 101 Copynumber: 3.9 Consensus size: 101
56959899 GAAGCTCTTT
* *** * ** *
56959909 GGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCTATCAATCTGGTACGCATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGTGACCTAACAATCTAATACACATAGTAGC
* * ** * *
56959974 CTACACTGAGTACTACACACGTGA-CGTAA-CCATCT
66 ATACACTTAGTACTACACACGTGATCG-AAGTTAACG
* * * * * * * **
56960009 GATACACATAGTAGCTTGCACTTAGTACTACACACGTGATC-AA-AGT-TAACGGGTACGTATAG
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGTGACCTAACAATCTAA----TACACATAG
* * * * * ** * *
56960071 TAGCCTGCACTTAGAACTACACATGCGA-CTTA-TCAATCT
62 TAGCATACACTTAGTACTACACACGTGATCGAAGTTAA-CG
*** * * * * *
56960110 GGTACATGTAGTAGCCTGCACTTAGTACTATACATGTGACTTAACCATCTAATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGTGACCTAACAATCTAATACACATAGTAGC
* *
56960175 TTGCACTTAGTACTACACACGTGATCGAAGTTAACG
66 ATACACTTAGTACTACACACGTGATCGAAGTTAACG
* * **
56960211 GGTACGCATAGTAGCCTGCACTTAATACTACATATGTGACCTATCAATCTGGTACACATAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAATACTACACATGTGACCTAACAATCTAATACACATAGTAGC
*
56960276 ATACACTTAGTACTACACATGTGA
66 ATACACTTAGTACTACACACGTGA
56960300 CTCACAACGG
Statistics
Matches: 223, Mismatches: 58, Indels: 19
0.74 0.19 0.06
Matches are distributed among these distances:
97 1 0.00
98 2 0.01
99 1 0.00
100 66 0.30
101 144 0.65
102 5 0.02
103 1 0.00
104 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTGCACTTAATACTACACATGTGACCTAACAATCTAATACACATAGTAGC
ATACACTTAGTACTACACACGTGATCGAAGTTAACG
Found at i:56960298 original size:50 final size:50
Alignment explanation
Indices: 56959908--56960300 Score: 349
Period size: 50 Copynumber: 7.8 Consensus size: 50
56959898 AGAAGCTCTT
* ***
56959908 TGGTACGCATAGTAGCCTGCACTTAGTACTACACATACAACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * * * * * *
56959958 TGGTACGCATAGTAGCCTACACTGAGTACTACACACGTGACGTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* * * ** *
56960008 TGATACACATAGTAGCTTGCACTTAGTACTACACACGTGATCAAAGTTAA-C
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATC
* ** * * *
56960059 GGGTACGTATAGTAGCCTGCACTTAGAACTACACATGCGACTTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
** * * * *
56960109 TGGTACATGTAGTAGCCTGCACTTAGTACTATACATGTGACTTAACCATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
** * * * ** *
56960159 TAATACACGTAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTAA-C
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCTA-TCAATC
* * * *
56960210 GGGTACGCATAGTAGCCTGCACTTAATACTACATATGTGACCTATCAATC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
* *
56960260 TGGTACACATAGTAGCATACACTTAGTACTACACATGTGAC
1 TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGAC
56960301 TCACAACGGA
Statistics
Matches: 270, Mismatches: 67, Indels: 12
0.77 0.19 0.03
Matches are distributed among these distances:
49 6 0.02
50 193 0.71
51 69 0.26
52 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (50 bp):
TGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATC
Found at i:56968112 original size:39 final size:39
Alignment explanation
Indices: 56968031--56968193 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
56968021 TATGGTAACC
* *
56968031 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56968071 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56968110 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56968149 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
56968188 CGCACA
1 CGCACA
56968194 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56975993 original size:39 final size:39
Alignment explanation
Indices: 56975912--56976074 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
56975902 TATGGTAACC
* *
56975912 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
56975952 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56975991 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56976030 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
56976069 CGCACA
1 CGCACA
56976075 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56979148 original size:12 final size:12
Alignment explanation
Indices: 56979131--56979155 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56979121 TATTTTGCAA
56979131 TATGGTTGCGAG
1 TATGGTTGCGAG
56979143 TATGGTTGCGAG
1 TATGGTTGCGAG
56979155 T
1 T
56979156 TTAGGGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.40, T:0.36
Consensus pattern (12 bp):
TATGGTTGCGAG
Found at i:56979844 original size:48 final size:48
Alignment explanation
Indices: 56979782--56980259 Score: 434
Period size: 48 Copynumber: 9.9 Consensus size: 48
56979772 ATACTAGGGT
* * *
56979782 TATGAGGGCCAGTGTAGGACCATGTTTGGAACATGGCATCGACATTCA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTCA
* *
56979830 TATGAGAGCTAGTGTAAGACCATGTTT-GAGACATGGCATCGGC-CTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGACATTC-A
* * * **
56979878 CATGTAG-GCTAGTGTAAGACCATATTTAGAACATGGCATCGACACTGAAA
1 TATG-AGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACA-T-TCA
* * *
56979928 TATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTCA
* * * *
56979976 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGTC-CTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTC-A
* * * * * *
56980024 CATGTGGGCTACTGTAAGACCATGTTTGGAACATGGCATCAACA-CCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTC---A
* * * *
56980074 TATGAGAGCCAGTGTAATACCATGTCTGGAACATGGCA-CGACATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTCA
* * *
56980121 TATGAGAGCTAGTGTAAGACCATGTCT-GAGACATGGCATTGGC-TTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGA-ACATGGCATCGACATTC-A
* * * *
56980169 CATGTGGGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCACCAAT-A
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC-G-A-CATTCA
* * *
56980219 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCG
56980260 GCATCTTACC
Statistics
Matches: 346, Mismatches: 63, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
46 2 0.01
47 41 0.12
48 182 0.53
49 15 0.04
50 104 0.30
51 1 0.00
52 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGACATTCA
Found at i:56979962 original size:98 final size:98
Alignment explanation
Indices: 56979792--56980261 Score: 465
Period size: 98 Copynumber: 4.8 Consensus size: 98
56979782 TATGAGGGCC
* **
56979792 AGTGTAGGACCATGTTTGGAACATGGCATCGACA-TTCATATGAGAGCTAGTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACACTAAATATGAGAGCTAGTGTAAGACCATGTT
56979856 T-GAGACATGGCATCGGCCTCGACATGTAG-GCT
66 TGGA-ACATGGCATCGGCCTCGACATGTAGAGCT
* * * *
56979888 AGTGTAAGACCATATTTAGAACATGGCATCGACACTGAAATATGAGAGCCAATGTAAGACCATGT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACACT-AAATATGAGAGCTAGTGTAAGACCATGT
* * ** *
56979953 TTGGAACATGGCATCGACATTTATATG-AGAGCT
65 TTGGAACATGGCATCGGCCTCGACATGTAGAGCT
* * * ** * * * *
56979986 AGTGTAAGACCATGTCTGGGACATGGCATCGTC-CTCGACATGTGGGCTACTGTAAGACCATGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACACTAAATATGAGAGCTAGTGTAAGACCATGTT
** * * *
56980050 TGGAACATGGCATCAACAC-CGATATATGAGAGCC
66 TGGAACATGGCATCGGC-CTCGACATGT-AGAGCT
* * ** *
56980084 AGTGTAATACCATGTCTGGAACATGGCA-CGACA-TTTATATGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACACTAAATATGAGAGCTAGTGTAAGACCATGTT
* * *
56980147 T-GAGACATGGCATTGGCTTCGACATGT-GGGCT
66 TGGA-ACATGGCATCGGCCTCGACATGTAGAGCT
* * *
56980179 AGTGTAAGACCATGTTTGGAACATGGCATCGGCACCAATATATGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACACTAA-ATATGAGAGCTAGTGTAAGACCATGT
* *
56980244 CTGGGACATGGCATCGGC
65 TTGGAACATGGCATCGGC
56980262 ATCTTACCCT
Statistics
Matches: 303, Mismatches: 57, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
95 29 0.10
96 79 0.26
97 48 0.16
98 144 0.48
99 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (98 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGACACTAAATATGAGAGCTAGTGTAAGACCATGTT
TGGAACATGGCATCGGCCTCGACATGTAGAGCT
Found at i:56980046 original size:146 final size:145
Alignment explanation
Indices: 56979782--56980259 Score: 733
Period size: 146 Copynumber: 3.3 Consensus size: 145
56979772 ATACTAGGGT
* * * *
56979782 TATGAGGGCCAGTGTAGGACCATGTTTGGAACATGGCATCGACATTCATATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
* * * *
56979847 GACCATGTTTGAGACATGGCATCGGCCTCGACATGTAGGCTAGTGTAAGACCATATTTAGAACAT
66 GACCATGTCTGAGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
56979912 GGCATCGACACTGAAA
131 GGCATCGACAC-GAAA
* *
56979928 TATGAGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
* * *
56979993 GACCATGTCTGGGACATGGCATCGTCCTCGACATGTGGGCTACTGTAAGACCATGTTTGGAACAT
66 GACCATGTCTGAGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
* *
56980058 GGCATCAACACCGATA
131 GGCATCGACA-CGAAA
*
56980074 TATGAGAGCCAGTGTAATACCATGTCTGGAACATGGCA-CGACATTTATATGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
* *
56980138 GACCATGTCTGAGACATGGCATTGGCTTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
66 GACCATGTCTGAGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
* *
56980203 GGCATCGGCACCAATA
131 GGCATCGACACGAA-A
*
56980219 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCG
56980260 GCATCTTACC
Statistics
Matches: 302, Mismatches: 27, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
144 2 0.01
145 131 0.43
146 168 0.56
147 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (145 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
GACCATGTCTGAGACATGGCATCGGCCTCGACATGTGGGCTAGTGTAAGACCATGTTTGGAACAT
GGCATCGACACGAAA
Found at i:56980909 original size:21 final size:24
Alignment explanation
Indices: 56980883--56980925 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
56980873 ATAGGAAATA
56980883 GCTTAGG-ATT-GTTG-TATGGAT
1 GCTTAGGTATTGGTTGATATGGAT
56980904 GCTTAGGTATTGGTTGATATGG
1 GCTTAGGTATTGGTTGATATGG
56980926 TCATGTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 4 0.21
24 5 0.26
ACGTcount: A:0.19, C:0.05, G:0.35, T:0.42
Consensus pattern (24 bp):
GCTTAGGTATTGGTTGATATGGAT
Found at i:56988180 original size:13 final size:13
Alignment explanation
Indices: 56988162--56988186 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56988152 TCAAAATAAG
56988162 AATTAAGAACAAT
1 AATTAAGAACAAT
56988175 AATTAAGAACAA
1 AATTAAGAACAA
56988187 GTTAAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.20
Consensus pattern (13 bp):
AATTAAGAACAAT
Found at i:56988369 original size:25 final size:25
Alignment explanation
Indices: 56988331--56988381 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
56988321 AAAAAAACCC
56988331 AAAACTCCTAAAGGGGAAATTGAGG
1 AAAACTCCTAAAGGGGAAATTGAGG
*
56988356 AAAACTCCTGAAGGGGAAATTGAGG
1 AAAACTCCTAAAGGGGAAATTGAGG
56988381 A
1 A
56988382 GAGATCTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.29, T:0.16
Consensus pattern (25 bp):
AAAACTCCTAAAGGGGAAATTGAGG
Found at i:56997742 original size:44 final size:44
Alignment explanation
Indices: 56997652--56997743 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
56997642 CCGAAATATC
*
56997652 AGTAACAGTACGACACATAAAGTGCCTCATCAACACAAAGTTGA
1 AGTAACAGTACGACACATAAAGTGCCTCATCAACACAAAGTCGA
* * * * *
56997696 AGTAACGGTACGACAC-TATTAGTGCCTCATCGACTCAAGGTCGA
1 AGTAACAGTACGACACATA-AAGTGCCTCATCAACACAAAGTCGA
56997740 AGTA
1 AGTA
56997744 TCCCTGTACA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 2 0.05
44 39 0.95
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (44 bp):
AGTAACAGTACGACACATAAAGTGCCTCATCAACACAAAGTCGA
Found at i:56999260 original size:5 final size:5
Alignment explanation
Indices: 56999250--56999321 Score: 144
Period size: 5 Copynumber: 14.4 Consensus size: 5
56999240 ATGTTAAGTA
56999250 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
56999300 TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TA
56999322 CAATAACTAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 67 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:56999417 original size:12 final size:12
Alignment explanation
Indices: 56999390--56999425 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
56999380 CAGAGAAGAA
56999390 AGAAAGAAAAAG
1 AGAAAGAAAAAG
56999402 -GAAAGAAAAAG
1 AGAAAGAAAAAG
*
56999413 AGAAAGAAGAAG
1 AGAAAGAAAAAG
56999425 A
1 A
56999426 ATTAGGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
AGAAAGAAAAAG
Found at i:56999423 original size:30 final size:33
Alignment explanation
Indices: 56999355--56999416 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 33
56999345 ATGAAATAGA
* *
56999355 AAAGAAAGAAACAATAGGAACGAAACAGAGAAG
1 AAAGAAAGAAACAATAGGAAAGAAAAAGAGAAG
56999388 AAAGAAAG-AA-AA-AGGAAAGAAAAAGAGAA
1 AAAGAAAGAAACAATAGGAAAGAAAAAGAGAA
56999417 AGAAGAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 15 0.56
31 2 0.07
32 2 0.07
33 8 0.30
ACGTcount: A:0.69, C:0.05, G:0.24, T:0.02
Consensus pattern (33 bp):
AAAGAAAGAAACAATAGGAAAGAAAAAGAGAAG
Found at i:57000361 original size:40 final size:40
Alignment explanation
Indices: 57000238--57000372 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
57000228 TGACCTCGAG
* *
57000238 TCGATGAGACACTAGGTGTCAA-TCTATTACTTCGGATTAAT
1 TCGATGAGACACTGGGTGTCAACT-TATTACTTCGAATT-AT
* * * * * *
57000279 TCGATGAGGCACTGGGTG-C-CCAT-TTACTTTGATTTAG
1 TCGATGAGACACTGGGTGTCAACTTATTACTTCGAATTAT
*
57000316 CCGATGAGACACTGGGTGTCAACTTATTACTTCGAATTAT
1 TCGATGAGACACTGGGTGTCAACTTATTACTTCGAATTAT
**
57000356 TCGATGAGGTACTGGGT
1 TCGATGAGACACTGGGT
57000373 ACCAAACTGG
Statistics
Matches: 72, Mismatches: 18, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
37 17 0.24
38 10 0.14
39 3 0.04
40 26 0.36
41 16 0.22
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (40 bp):
TCGATGAGACACTGGGTGTCAACTTATTACTTCGAATTAT
Found at i:57000566 original size:14 final size:15
Alignment explanation
Indices: 57000539--57000569 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
57000529 AATGATAAGA
57000539 AATGAATATGTTATG
1 AATGAATATGTTATG
57000554 AATGAAT-TGTTATG
1 AATGAATATGTTATG
57000568 AA
1 AA
57000570 CTGATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (15 bp):
AATGAATATGTTATG
Found at i:57003438 original size:27 final size:27
Alignment explanation
Indices: 57003400--57003526 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
57003390 GAGGAAGCGT
*
57003400 TCTGGTGGCTTTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
57003427 TCTGGTGGCTTTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
57003454 TCTGGTGGCTCTGCCATATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * * *
57003481 TCTAGTGGCCCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* *
57003509 TCTGGTGACTCTGTCACA
1 TCTGGTGGCTCTGCCACA
57003527 TTATTTGTTC
Statistics
Matches: 83, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
27 70 0.84
28 13 0.16
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:57005692 original size:47 final size:47
Alignment explanation
Indices: 57005634--57005801 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
57005624 TCCATAAGTG
57005634 AACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACA
1 AACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACA
* * *
57005681 AACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATC-CATAA
1 AACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTCA-CA
* * *
57005724 GTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCACG
1 ---AACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACA
57005774 AACTCGAACTCAACTCAACGAGTTCGGA
1 AACTCGAACTCAACTCAACGAGTTCGGA
57005802 CATTCGCATC
Statistics
Matches: 101, Mismatches: 9, Indels: 22
0.77 0.07 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
46 27 0.27
47 53 0.52
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (47 bp):
AACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCACA
Found at i:57005715 original size:93 final size:93
Alignment explanation
Indices: 57005588--57005850 Score: 445
Period size: 93 Copynumber: 2.8 Consensus size: 93
57005578 CCCATAAGTG
* * * * *
57005588 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
57005653 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
57005681 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
* *
57005746 GAGCTCGGATGCCTAGTTACATCTCACG
66 GAGTTCGGATGCCTAGTTACATCTCACA
* *
57005774 AACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
57005839 GAGTTCGGATGC
66 GAGTTCGGATGC
57005851 TCAACCATCC
Statistics
Matches: 160, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 160 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:57005847 original size:46 final size:46
Alignment explanation
Indices: 57005579--57005847 Score: 259
Period size: 46 Copynumber: 5.8 Consensus size: 46
57005569 TGTAACCCGC
* * * *
57005579 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57005625 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57005675 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57005718 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
57005768 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57005811 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
57005848 TGCTCAACCA
Statistics
Matches: 182, Mismatches: 21, Indels: 40
0.75 0.09 0.16
Matches are distributed among these distances:
42 6 0.03
43 10 0.05
44 3 0.02
45 1 0.01
46 88 0.48
47 54 0.30
48 2 0.01
49 3 0.02
50 9 0.05
51 6 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57012838 original size:47 final size:43
Alignment explanation
Indices: 57012732--57012941 Score: 194
Period size: 45 Copynumber: 4.7 Consensus size: 43
57012722 CGCCCATAAG
* * *
57012732 CGAACTCGGACTCAACTCAACGAGCTCGG-C-GTTCGCATCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACAGTT-ACAT-C-TCA
* *
57012776 GTGAACTCGGACTCAACTAAACGAGTTCGGATGCCTAGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGA---C-AGTTACATCTCA
* * *
57012824 CGAACTCGGACTCAACTCAACGAGTTCGGACA-TTCGCACCCATAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACAGTT-ACA-TC-TCA
* *
57012869 GTGAACTCGGACTCAACTCAACGAGCTCGGA-AGTTACATCTCA
1 -CGAACTCGGACTCAACTCAACGAGTTCGGACAGTTACATCTCA
57012912 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
57012942 TGCTCAACCA
Statistics
Matches: 137, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
42 30 0.22
43 5 0.04
44 3 0.02
45 31 0.23
46 30 0.22
47 28 0.20
48 2 0.01
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (43 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACAGTTACATCTCA
Found at i:57012892 original size:93 final size:88
Alignment explanation
Indices: 57012732--57012941 Score: 323
Period size: 88 Copynumber: 2.3 Consensus size: 88
57012722 CGCCCATAAG
* * *
57012732 CGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTAA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTAA
*
57012796 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGA-----AGTTACATCTCA
*
57012824 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTAA
57012889 ACGAGCTCGGAAGTTACATCTCA
66 ACGAGCTCGGAAGTTACATCTCA
57012912 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGTTCGGA
57012942 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
88 42 0.38
92 28 0.25
93 42 0.38
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (88 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCACCCATAAGTGAACTCGGACTCAACTAA
ACGAGCTCGGAAGTTACATCTCA
Found at i:57012899 original size:20 final size:20
Alignment explanation
Indices: 57012874--57012941 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
57012864 CATAAGTGAA
57012874 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
* * *
57012894 CTCGGAAGTTACATCTC-ACGAA
1 CTCGG-A-CT-CAACTCAACGAG
57012916 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
*
57012936 TTCGGA
1 CTCGGA
57012942 TGCTCAACCA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
19 5 0.14
20 15 0.41
21 2 0.05
22 10 0.27
23 5 0.14
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:57015004 original size:37 final size:37
Alignment explanation
Indices: 57014946--57015016 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
57014936 TAGCTCGAAT
*
57014946 AATCCCCACACGTAGTTATCGGGTCTTACCCGGACAA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
57014983 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCCCCACACGTAGTCATCGGGTCTTACCCGGA
57015017 ATATATTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
AATCCCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:57015209 original size:48 final size:48
Alignment explanation
Indices: 57015149--57015445 Score: 497
Period size: 48 Copynumber: 6.2 Consensus size: 48
57015139 CGGCCACAAT
*
57015149 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
57015197 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
57015245 ATATATATATCTCATACATATTTCATGTTAGCCATTCGGCTTTACC-C
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
57015292 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
57015340 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
57015388 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
57015436 ACATATATAT
1 ATATACATAT
57015446 ATTTATCTTG
Statistics
Matches: 232, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 44 0.19
48 188 0.81
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:57015311 original size:143 final size:143
Alignment explanation
Indices: 57015149--57015433 Score: 498
Period size: 143 Copynumber: 2.0 Consensus size: 143
57015139 CGGCCACAAT
57015149 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* ***
57015214 ATATTTCACATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATGTTAGCCA
66 ATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACACTAGCCA
57015279 TTCGGCTTTACCC
131 TTCGGCTTTACCC
* *
57015292 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATAC
1 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* *
57015357 ATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
66 ATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACACTAGCCA
57015422 TTCGGCTTTACC
131 TTCGGCTTTACC
57015434 ACACATATAT
Statistics
Matches: 134, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 134 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (143 bp):
ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
ATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCC
Found at i:57018956 original size:58 final size:57
Alignment explanation
Indices: 57018845--57019031 Score: 249
Period size: 58 Copynumber: 3.3 Consensus size: 57
57018835 CCACTGACCG
* * *
57018845 ATCTCGCACACATAGTGCTCGGTTGAA-GAACTCGCACACACAGTGCCTCAATTACC
1 ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACC
*
57018901 AATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACTG
1 -ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTAC-C
* * *
57018960 ATCTCGCACACATAGTGCTCGGTTAACGGAATTTGCACACACAGTGCCTCTAA-T--C
1 ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTC-AATTACC
57019015 AT-TCGCACACATAATGC
1 ATCTCGCACACATAATGC
57019032 CCATATTCAT
Statistics
Matches: 118, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
54 14 0.12
55 2 0.02
57 25 0.21
58 75 0.64
59 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (57 bp):
ATCTCGCACACATAATGCTCGGTTAAAGGAATTCGCACACACAGTGCCTCAATTACC
Found at i:57018997 original size:29 final size:29
Alignment explanation
Indices: 57018848--57019006 Score: 114
Period size: 29 Copynumber: 5.5 Consensus size: 29
57018838 CTGACCGATC
* *
57018848 TCGCACACATAGTGCTCGGTTGAA--GAAC
1 TCGCACACACAGTGCTCGGTT-AACGGAAT
** *
57018876 TCGCACACACAGTGCCTCAATT-AC-CAAT
1 TCGCACACACAGTG-CTCGGTTAACGGAAT
* * *
57018904 CTCGCACACATAATGCTCGGTTAAAGGAAT
1 -TCGCACACACAGTGCTCGGTTAACGGAAT
** *
57018934 TCGCACACACAGTGCCTCAATT-ACTG-AT
1 TCGCACACACAGTG-CTCGGTTAACGGAAT
*
57018962 CTCGCACACATAGTGCTCGGTTAACGGAAT
1 -TCGCACACACAGTGCTCGGTTAACGGAAT
*
57018992 TTGCACACACAGTGC
1 TCGCACACACAGTGC
57019007 CTCTAATCAT
Statistics
Matches: 99, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
27 1 0.01
28 27 0.27
29 61 0.62
30 10 0.10
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.23
Consensus pattern (29 bp):
TCGCACACACAGTGCTCGGTTAACGGAAT
Found at i:57019224 original size:43 final size:43
Alignment explanation
Indices: 57019175--57019384 Score: 384
Period size: 43 Copynumber: 4.9 Consensus size: 43
57019165 CACCAGCATT
*
57019175 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
*
57019218 AAGCCTGCTAGGCACGAAGGCCCGAAAACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
* *
57019261 AAACCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
57019304 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
57019347 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCG
57019385 AGTTTCATGC
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 160 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.11
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACG
Found at i:57021155 original size:37 final size:37
Alignment explanation
Indices: 57021078--57021220 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
57021068 TAGCTCGAAT
* *
57021078 AATCCCCACACGTAGTTATC-GGTCTTA-CCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
57021113 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
*
57021150 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
57021187 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
57021221 ATATATTTCC
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
35 18 0.17
36 7 0.07
37 78 0.76
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAA
Found at i:57021413 original size:48 final size:48
Alignment explanation
Indices: 57021353--57021649 Score: 497
Period size: 48 Copynumber: 6.2 Consensus size: 48
57021343 CGGCCACAAT
*
57021353 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
57021401 ATATACATATCTCATACATATTTCACATTAGCCATTCGGATTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* **
57021449 ATATATATATCTCATACATATTTCATGTTAGCCATTCGG-TTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
57021496 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
57021544 ATATATATATCTCATACATATTTCATATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
57021592 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
57021640 ACATATATAT
1 ATATACATAT
57021650 ATTTATCTTG
Statistics
Matches: 233, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 44 0.19
48 189 0.81
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:57021511 original size:143 final size:144
Alignment explanation
Indices: 57021353--57021649 Score: 497
Period size: 143 Copynumber: 2.1 Consensus size: 144
57021343 CGGCCACAAT
*
57021353 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* ***
57021418 ATATTTCACATTAGCCATTCGGATTTACCACATATATATATCTCATACATATTTCATGTTAGCCA
66 ATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACACTAGCCA
57021483 TTCGG-TTTACCAC
131 TTCGGCTTTACCAC
*
57021496 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCATAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
* *
57021561 ATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
66 ATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACACTAGCCA
57021626 TTCGGCTTTACCAC
131 TTCGGCTTTACCAC
* *
57021640 ACATATATAT
1 ATATACATAT
57021650 ATTTATCTTG
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
143 127 0.89
144 16 0.11
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.36
Consensus pattern (144 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC
ATATTTCACATTAGCCATTCGGATTTACCACATATACATATCTCATACATATTTCACACTAGCCA
TTCGGCTTTACCAC
Found at i:57022847 original size:2 final size:2
Alignment explanation
Indices: 57022812--57022838 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57022802 TACATAAGGC
57022812 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
57022839 CCTATATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:57027577 original size:40 final size:40
Alignment explanation
Indices: 57027532--57027699 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
57027522 CGGAATATAA
*
57027532 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCCTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
57027572 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
57027612 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
57027652 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
57027692 CCGGATAT
1 CCGGATAT
57027700 CATTCAATTT
Statistics
Matches: 106, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 105 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:57028520 original size:61 final size:61
Alignment explanation
Indices: 57028448--57028569 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
57028438 CATATATATA
57028448 CAATATGAGCATGGCCGAATTTCAAGGTGTCCATAGCCATCCAAAAATACAAATTTTAACT
1 CAATATGAGCATGGCCGAATTTCAAGGTGTCCATAGCCATCCAAAAATACAAATTTTAACT
57028509 CAATATGAGCATGGCCGAATTTCAAGGTGTCCATAGCCATCCAAAAATACAAATTTTAACT
1 CAATATGAGCATGGCCGAATTTCAAGGTGTCCATAGCCATCCAAAAATACAAATTTTAACT
57028570 AACATGCAAG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (61 bp):
CAATATGAGCATGGCCGAATTTCAAGGTGTCCATAGCCATCCAAAAATACAAATTTTAACT
Found at i:57042335 original size:13 final size:13
Alignment explanation
Indices: 57042317--57042343 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57042307 GGAGTAATCG
57042317 CACACGGGCGTGT
1 CACACGGGCGTGT
57042330 CACACGGGCGTGT
1 CACACGGGCGTGT
57042343 C
1 C
57042344 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:57051119 original size:39 final size:40
Alignment explanation
Indices: 57051025--57051133 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 40
57051015 TAGTGATTAT
* ** *
57051025 ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTAT
1 ATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGACAA
57051065 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTT-ACAA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGACAA
*
57051104 ATCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
57051134 TTGTGGTTAT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
39 30 0.48
40 30 0.48
41 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGACAA
Found at i:57051163 original size:39 final size:40
Alignment explanation
Indices: 57050987--57051149 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
57050977 TGAATGATAC
* * * * *
57050987 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
* *
57051027 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATAT
* * *
57051067 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT--TACAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGT-TATAT
* *
57051106 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
57051146 CCGG
1 CCGG
57051150 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 64 0.62
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATAT
Found at i:57058061 original size:40 final size:40
Alignment explanation
Indices: 57057976--57058126 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
57057966 AATTGAATGA
* * *
57057976 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
57058016 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
57058057 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
57058096 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57058127 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:57058140 original size:40 final size:40
Alignment explanation
Indices: 57058013--57058142 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
57058003 ATGCTGGAAA
* * * *
57058013 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
57058053 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
57058093 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
57058133 TTATATCCGG
1 TTATATCCGG
57058143 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:57062358 original size:40 final size:40
Alignment explanation
Indices: 57062301--57062464 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
57062291 TGAATGATAC
* * * *
57062301 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
57062341 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
57062381 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
57062421 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
57062461 CCGG
1 CCGG
57062465 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:57068381 original size:40 final size:40
Alignment explanation
Indices: 57068279--57068462 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
57068269 AAATTGAATG
* * * * *
57068279 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
57068319 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
57068359 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
57068399 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
57068439 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
57068463 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:57076492 original size:40 final size:40
Alignment explanation
Indices: 57076390--57076573 Score: 174
Period size: 40 Copynumber: 4.6 Consensus size: 40
57076380 AAATTGAATG
* * * * *
57076390 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGTT
* *
57076430 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
57076470 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
57076510 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
57076550 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
57076574 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:57081875 original size:40 final size:40
Alignment explanation
Indices: 57081818--57081981 Score: 181
Period size: 40 Copynumber: 4.1 Consensus size: 40
57081808 TGAATGATAC
* * * *
57081818 CCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
57081858 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * *
57081898 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* *
57081938 CCGGGTTAAGACCCGAAGGCAATTGTGCTTA-TGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGC-TAGTGATTATAT
57081978 CCGG
1 CCGG
57081982 TTAAATCCCG
Statistics
Matches: 104, Mismatches: 15, Indels: 10
0.81 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 95 0.91
41 6 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:57089519 original size:47 final size:47
Alignment explanation
Indices: 57089465--57089658 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
57089455 TTAGGATTTT
** * * *
57089465 ATGTGATGAATGTGAATGTGTATAAATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
57089512 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
57089559 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
57089606 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
57089653 ATGTGA
1 ATGTGA
57089659 AATATGTATG
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:57089565 original size:22 final size:22
Alignment explanation
Indices: 57089489--57089565 Score: 59
Period size: 22 Copynumber: 3.4 Consensus size: 22
57089479 AATGTGTATA
*
57089489 AATGAGATAAGGCCGAATGGCC
1 AATGTGATAAGGCCGAATGGCC
* * *
57089511 AATGTGATGAATG-TGAACAT-GCAT
1 AATGTGAT-AAGGCCG-A-ATGGC-C
57089535 ATATGTGATAAGGCCGAATGGCC
1 A-ATGTGATAAGGCCGAATGGCC
57089558 AATGTGAT
1 AATGTGAT
57089566 GAATGTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
22 15 0.37
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (22 bp):
AATGTGATAAGGCCGAATGGCC
Found at i:57089614 original size:25 final size:25
Alignment explanation
Indices: 57089539--57089614 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
57089529 ATGCATATAT
57089539 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
57089564 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
57089586 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
57089611 GTGA
1 GTGA
57089615 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:57089743 original size:52 final size:52
Alignment explanation
Indices: 57089628--57089762 Score: 192
Period size: 52 Copynumber: 2.7 Consensus size: 52
57089618 TGAACATGCA
*
57089628 TATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATG
*
57089676 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATATGAGATATG
*
57089728 TATATGTGGTAAAGCC-AATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
57089763 GTAGGCGATG
Statistics
Matches: 77, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
47 1 0.01
48 27 0.35
50 1 0.01
51 17 0.22
52 31 0.40
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (52 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATATGAGATATG
Found at i:57090019 original size:37 final size:37
Alignment explanation
Indices: 57089911--57090001 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
57089901 GGAAATATAT
*
57089911 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
57089948 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
57089985 TCCGGGTAAGACCCGAT
1 TCCGGGTAAGACCCGAT
57090002 AACTTCGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:57092046 original size:25 final size:24
Alignment explanation
Indices: 57092013--57092209 Score: 139
Period size: 25 Copynumber: 7.9 Consensus size: 24
57092003 GATTACCTGA
57092013 AAAGCCTTTGTGGCAATTTCTCTGG
1 AAAGCCTTTGTGGCAA-TTCTCTGG
* *
57092038 AAAGCCTTTATTGCGAATTCTCTGG
1 AAAGCCTTTGTGGC-AATTCTCTGG
* * *
57092063 AAAGCTTTTGTGGAGAATTCTCTAG
1 AAAGCCTTTGTGG-CAATTCTCTGG
* *
57092088 AAAGCCTTT-TAGTG-AACTATCTGG
1 AAAGCCTTTGT-G-GCAATTCTCTGG
*
57092112 AAAGCCTTTGTAGTG-AATTCTTTGG
1 AAAGCCTTTGT-G-GCAATTCTCTGG
* * *
57092137 AAAGCCTTTGTGGAAAACTCTCTAG
1 AAAGCCTTTGTGG-CAATTCTCTGG
** *
57092162 AAAGCCTTTGTGGCAAGCCCTTTGG
1 AAAGCCTTTGTGGCAA-TTCTCTGG
* *
57092187 AAAACCATTGTGGCAAATTCTCT
1 AAAGCCTTTGTGGC-AATTCTCT
57092210 AAAAAGGTTT
Statistics
Matches: 137, Mismatches: 26, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
23 1 0.01
24 20 0.15
25 111 0.81
26 5 0.04
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (24 bp):
AAAGCCTTTGTGGCAATTCTCTGG
Found at i:57092138 original size:74 final size:74
Alignment explanation
Indices: 57092033--57092170 Score: 213
Period size: 74 Copynumber: 1.9 Consensus size: 74
57092023 TGGCAATTTC
* * * *
57092033 TCTGGAAAGCCTTTATTGCGAATTCTCTGGAAAGCTTTTGTGGAGAATTCTCTAGAAAGCCTTTT
1 TCTGGAAAGCCTTTATAGCGAATTCTCTGGAAAGCCTTTGTGGAAAACTCTCTAGAAAGCCTTTT
57092098 AGTGAACTA
66 AGTGAACTA
* * *
57092107 TCTGGAAAGCCTTTGTAGTGAATTCTTTGGAAAGCCTTTGTGGAAAACTCTCTAGAAAGCCTTT
1 TCTGGAAAGCCTTTATAGCGAATTCTCTGGAAAGCCTTTGTGGAAAACTCTCTAGAAAGCCTTT
57092171 GTGGCAAGCC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 57 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (74 bp):
TCTGGAAAGCCTTTATAGCGAATTCTCTGGAAAGCCTTTGTGGAAAACTCTCTAGAAAGCCTTTT
AGTGAACTA
Found at i:57092559 original size:15 final size:15
Alignment explanation
Indices: 57092539--57092567 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57092529 CCCTAACCAA
57092539 GAATAAATGCAACAG
1 GAATAAATGCAACAG
57092554 GAATAAATGCAACA
1 GAATAAATGCAACA
57092568 CATTTACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
GAATAAATGCAACAG
Found at i:57094560 original size:15 final size:16
Alignment explanation
Indices: 57094540--57094578 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
57094530 CCCTTTTCTT
*
57094540 TTTCTTTCCT-TTTTC
1 TTTCTTTCCTATTTAC
*
57094555 TTTCTTTCCTATTTAG
1 TTTCTTTCCTATTTAC
57094571 TTTCTTTC
1 TTTCTTTC
57094579 TCTGTTCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.05, C:0.23, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTCTTTCCTATTTAC
Found at i:57094647 original size:16 final size:16
Alignment explanation
Indices: 57094628--57094684 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
57094618 TTTATTTTAG
57094628 TTATTATATTATTAAA
1 TTATTATATTATTAAA
* * *
57094644 TTATTATAATAATATA
1 TTATTATATTATTAAA
57094660 TTA-TATA-TATTAAA
1 TTATTATATTATTAAA
*
57094674 TATCTTATATT
1 T-TATTATATT
57094685 TAAAATATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 6 0.19
15 5 0.16
16 20 0.62
17 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATTATATTATTAAA
Found at i:57096220 original size:40 final size:39
Alignment explanation
Indices: 57096176--57096301 Score: 139
Period size: 40 Copynumber: 3.2 Consensus size: 39
57096166 GGGACTCAAC
*
57096176 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * * *
57096216 CCGGATTTAGTAACTCGCACGTATGCCATCGGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCCTTCGGATCTTAGT
*
57096256 CCGGATTTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
57096296 CCGGAT
1 CCGGAT
57096302 ATCATTCGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
40 64 0.89
41 8 0.11
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:57096260 original size:80 final size:80
Alignment explanation
Indices: 57096115--57096301 Score: 204
Period size: 80 Copynumber: 2.3 Consensus size: 80
57096105 GCTACACATT
* * *
57096115 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCATCGGGACTCAACCCG
*
57096179 GATTTAGT-AGCTT-GCT
64 GATTTAGTCA-CTTAGCA
* * * **
57096195 CGAAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCATC-GGATCTTAGTCC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCATCGGGA-CTCAACCC
57096258 GGATTTAGTCACTTAGCA
63 GGATTTAGTCACTTAGCA
57096276 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
57096302 ATCATTCGAA
Statistics
Matches: 90, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 6 0.07
80 72 0.80
81 12 0.13
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCATCGGGACTCAACCCGGA
TTTAGTCACTTAGCA
Found at i:57102318 original size:6 final size:6
Alignment explanation
Indices: 57102309--57102377 Score: 79
Period size: 6 Copynumber: 11.8 Consensus size: 6
57102299 TAATAAATTG
* * *
57102309 AAATGA AAATAA AAATCA AAAGAA AAATAA AAAT-A AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
* *
57102356 AAATAA AACTAA ATA-AA AAATA
1 AAATAA AAATAA AAATAA AAATA
57102378 GGAGGATTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
5 9 0.17
6 43 0.83
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:57102340 original size:17 final size:17
Alignment explanation
Indices: 57102314--57102363 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
57102304 AATTGAAATG
57102314 AAAATAAAAATCAAAAGA
1 AAAATAAAAAT-AAAAGA
*
57102332 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAAGA
57102349 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
57102364 CTAAATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 20 0.65
18 11 0.35
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAAGA
Found at i:57102374 original size:11 final size:10
Alignment explanation
Indices: 57102292--57102374 Score: 53
Period size: 12 Copynumber: 7.9 Consensus size: 10
57102282 CTGTCTTTCA
57102292 AAATAAATAAT
1 AAATAAA-AAT
**
57102303 AAATTGAAAT
1 AAATAAAAAT
57102313 GAAAATAAAAAT
1 --AAATAAAAAT
* *
57102325 CAA-AAGAA-
1 AAATAAAAAT
57102333 AAATAAAAAT
1 AAATAAAAAT
57102343 AAAATAAAAAT
1 -AAATAAAAAT
*
57102354 AAAAATAAAACT
1 --AAATAAAAAT
57102366 AAATAAAAA
1 AAATAAAAA
57102375 ATAGGAGGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
8 2 0.04
9 8 0.14
10 13 0.23
11 15 0.27
12 18 0.32
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:57102374 original size:17 final size:16
Alignment explanation
Indices: 57102291--57102377 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 16
57102281 TCTGTCTTTC
*
57102291 AAAATAAATAATAAATT
1 AAAATAAATAA-AAAAT
*
57102308 GAAATGAAA-ATAAAAAT
1 AAAAT-AAATA-AAAAAT
* *
57102325 CAAAAGAAAAATAAAAAT
1 -AAAATAAATA-AAAAAT
*
57102343 AAAATAAAAATAAAAAT
1 AAAATAAATA-AAAAAT
57102360 AAAACTAAATAAAAAAT
1 AAAA-TAAATAAAAAAT
57102377 A
1 A
57102378 GGAGGATTCA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
17 39 0.66
18 20 0.34
ACGTcount: A:0.76, C:0.02, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAATAAATAAAAAAT
Found at i:57102377 original size:23 final size:23
Alignment explanation
Indices: 57102291--57102374 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
57102281 TCTGTCTTTC
** *
57102291 AAAAT-AAATAATAAATTGAAATG
1 AAAATAAAATAA-AAATAAAAATA
* *
57102314 AAAATAAAAATCAAAAGAAAAATA
1 AAAAT-AAAATAAAAATAAAAATA
57102338 AAAATAAAATAAAAATAAAAATA
1 AAAATAAAATAAAAATAAAAATA
*
57102361 AAACT-AAATAAAAA
1 AAAATAAAATAAAAA
57102375 ATAGGAGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 9 0.18
23 25 0.49
24 12 0.24
25 5 0.10
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (23 bp):
AAAATAAAATAAAAATAAAAATA
Found at i:57105275 original size:27 final size:27
Alignment explanation
Indices: 57105237--57105291 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
57105227 TTGCGTGCTT
57105237 GGAGTGTTACTGCGTCGTCACCTGCAC
1 GGAGTGTTACTGCGTCGTCACCTGCAC
57105264 GGAGTGTTACTGCGTCGTCACCTGCAC
1 GGAGTGTTACTGCGTCGTCACCTGCAC
57105291 G
1 G
57105292 AAGTTTTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.31, T:0.25
Consensus pattern (27 bp):
GGAGTGTTACTGCGTCGTCACCTGCAC
Found at i:57112592 original size:46 final size:46
Alignment explanation
Indices: 57112542--57112717 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
57112532 TGGTTGAGCA
57112542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57112588 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57112633 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57112681 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57112718 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57112698 original size:93 final size:93
Alignment explanation
Indices: 57112539--57112709 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57112529 GGATGGTTGA
* *
57112539 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57112604 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57112632 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57112697 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57112710 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57115703 original size:15 final size:15
Alignment explanation
Indices: 57115664--57115743 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
57115654 GTATCTTGGG
*
57115664 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
57115679 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
57115694 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
57115709 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
57115724 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
57115738 TTTCTT
1 TTTCTT
57115744 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:57115733 original size:30 final size:30
Alignment explanation
Indices: 57115655--57115742 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
57115645 CATAGTATCG
* * *
57115655 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
57115685 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
57115715 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
57115743 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:57117712 original size:46 final size:46
Alignment explanation
Indices: 57117662--57117837 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
57117652 TGGTTGAGCA
57117662 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
57117708 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
57117753 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
57117801 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57117838 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:57117818 original size:93 final size:93
Alignment explanation
Indices: 57117659--57117829 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
57117649 GGATGGTTGA
* *
57117659 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57117724 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
57117752 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
57117817 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
57117830 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:57126110 original size:49 final size:49
Alignment explanation
Indices: 57125973--57126110 Score: 116
Period size: 49 Copynumber: 2.8 Consensus size: 49
57125963 AATGCCAGGT
* * ** ** * *
57125973 TGGTTAGTAACTAACATGCCTTACCAGTAACCCAACACATACGCTATTT
1 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCAACTTATACACTATTC
* *** * * * *
57126022 TGGTTAGCAACTAACATGACCTATTTGAGGCCTATCTTATTCACTCA-TC
1 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCAACTTATACACT-ATTC
57126071 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCAACTTAT
1 TGGTTAGCAACTAACATGCCCTACCAGTGGCCCAACTTAT
57126111 CCAAATACCA
Statistics
Matches: 65, Mismatches: 23, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
49 64 0.98
50 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (49 bp):
TGGTTAGCAACTAACATGCCCTACCAGTGGCCCAACTTATACACTATTC
Done.