Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 272 of 362
Found at i:92043907 original size:26 final size:27
Alignment explanation
Indices: 92043863--92043916 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
92043853 TTTTAATTAG
*
92043863 AAGAAGAAGAACAACACAA-CAATCAT
1 AAGAAGAACAACAACACAATCAATCAT
*
92043889 AAGAAGAACAAC-ACAACAATCATTCAT
1 AAGAAGAACAACAAC-ACAATCAATCAT
92043916 A
1 A
92043917 TTCATAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 15 0.62
27 7 0.29
ACGTcount: A:0.59, C:0.20, G:0.09, T:0.11
Consensus pattern (27 bp):
AAGAAGAACAACAACACAATCAATCAT
Found at i:92046144 original size:28 final size:28
Alignment explanation
Indices: 92046078--92046205 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
92046068 CATGAGATTG
* * **
92046078 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
92046107 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
92046135 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
92046164 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
92046192 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
92046206 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:92046167 original size:57 final size:57
Alignment explanation
Indices: 92046078--92046205 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
92046068 CATGAGATTG
*
92046078 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
92046135 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
92046192 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
92046206 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:92051239 original size:28 final size:28
Alignment explanation
Indices: 92051173--92051300 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
92051163 CATGAGATTG
* * **
92051173 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
92051202 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
92051230 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
92051259 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
92051287 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
92051301 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:92051262 original size:57 final size:57
Alignment explanation
Indices: 92051173--92051300 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
92051163 CATGAGATTG
*
92051173 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
92051230 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
92051287 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
92051301 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:92054902 original size:56 final size:56
Alignment explanation
Indices: 92054836--92054941 Score: 167
Period size: 56 Copynumber: 1.9 Consensus size: 56
92054826 GACCACGACA
* * *
92054836 TCGATATATGTGTGCGAGTAAGACGACGTTTAATACGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATT
* *
92054892 TCGATATATGTGTGCAAGTAAGACCACGTCTAGTATGTTGGCATCGATAT
1 TCGATATATGTGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATAT
92054942 ATGTGGTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (56 bp):
TCGATATATGTGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATT
Found at i:92056401 original size:27 final size:27
Alignment explanation
Indices: 92056371--92056548 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
92056361 ATATTGAGTC
* * * *
92056371 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
92056398 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
92056425 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
92056453 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
92056480 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
92056507 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
92056534 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
92056549 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:92056510 original size:82 final size:81
Alignment explanation
Indices: 92056392--92056547 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
92056382 TGCTATATAA
* *
92056392 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
92056457 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
92056474 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
92056538 CACTTAGTGC
65 CACTTAGTGC
92056548 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:92058761 original size:15 final size:15
Alignment explanation
Indices: 92058741--92058782 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
92058731 AAGTATACGC
**
92058741 ATTTGGTTTATGTGA
1 ATTTGGTTTATGCAA
92058756 ATTTGGTTTATGCAA
1 ATTTGGTTTATGCAA
92058771 ATTTGGTTTATG
1 ATTTGGTTTATG
92058783 GATTTTCGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.21, C:0.02, G:0.24, T:0.52
Consensus pattern (15 bp):
ATTTGGTTTATGCAA
Found at i:92060345 original size:27 final size:27
Alignment explanation
Indices: 92060315--92060374 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
92060305 AAAATTATCA
92060315 AAATACCCTTAG-TTTGTAAAAATACTG
1 AAATACCC-TAGATTTGTAAAAATACTG
* * *
92060342 AAATTCCCTCGATTTGTAAAATTACTG
1 AAATACCCTAGATTTGTAAAAATACTG
92060369 AAATAC
1 AAATAC
92060375 ATTCGACTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
AAATACCCTAGATTTGTAAAAATACTG
Found at i:92060380 original size:27 final size:27
Alignment explanation
Indices: 92060327--92060422 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
92060317 ATACCCTTAG
* * *
92060327 TTTGTAAAAATACTGAAATTCCCTCGA
1 TTTGTAAAATTACTGAAATACACTCGA
*
92060354 TTTGTAAAATTACTGAAATACATTCGA
1 TTTGTAAAATTACTGAAATACACTCGA
* ** * *
92060381 CTTGTAAAATTACCAAAATACCCCCGA
1 TTTGTAAAATTACTGAAATACACTCGA
* *
92060408 TTTATAGAATTACTG
1 TTTGTAAAATTACTG
92060423 TTTTACCCCG
Statistics
Matches: 54, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (27 bp):
TTTGTAAAATTACTGAAATACACTCGA
Found at i:92060429 original size:27 final size:27
Alignment explanation
Indices: 92060399--92060608 Score: 255
Period size: 27 Copynumber: 7.8 Consensus size: 27
92060389 ATTACCAAAA
* *
92060399 TACCCCCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
92060426 TACCC-CGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
92060452 TACCCTCGACTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
**
92060479 TATTCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
92060506 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
92060533 TACCCTTGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
92060560 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
92060587 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
92060609 CAAAATACCT
Statistics
Matches: 164, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
25 1 0.01
26 22 0.13
27 140 0.85
28 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:92060553 original size:81 final size:81
Alignment explanation
Indices: 92060399--92060607 Score: 285
Period size: 81 Copynumber: 2.6 Consensus size: 81
92060389 ATTACCAAAA
* * *
92060399 TACCCCCGATTTATAGAATTACTGTTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGACT
*
92060463 TACAGAATTATCGTTT
66 TACAAAATTATCGTTT
** * * * *
92060479 TATTCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGACT
*
92060544 TACAAAATTATTGTTT
66 TACAAAATTATCGTTT
* * *
92060560 TACCCTCGATTTACAAAATTATTGTTTTACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTA
92060608 CCAAAATACC
Statistics
Matches: 111, Mismatches: 17, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
80 28 0.25
81 83 0.75
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCGACT
TACAAAATTATCGTTT
Found at i:92060617 original size:27 final size:27
Alignment explanation
Indices: 92060560--92060783 Score: 107
Period size: 27 Copynumber: 8.2 Consensus size: 27
92060550 ATTATTGTTT
******
92060560 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
92060587 TACCCTCGATTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* **
92060614 TA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* * *** * *
92060641 TACCCTTGGTTTGTGAAATTATCGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
92060668 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * **
92060695 TACCC-CTAATTTACAAAGTTATAAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* *
92060722 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACCA-AAA
* **
92060751 TACCATC-AGTTTACAAAATTACTGAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
92060778 TACCCT
1 TACCCT
92060784 TGGTTTGTAG
Statistics
Matches: 152, Mismatches: 35, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
26 6 0.04
27 119 0.78
28 12 0.08
29 15 0.10
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:92060645 original size:54 final size:54
Alignment explanation
Indices: 92060587--92060727 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 54
92060577 ATTATTGTTT
* * *
92060587 TACCCTCGATTTACAAAATTACCAAAATA-CCTCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTATCAAAATACCCTC-AATTTATAAAATTACCAAAA
* * *** *
92060641 TACCCTTGGTTTGTGAAATTATCGAAATACCCTCAATTTATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTATCAAAATACCCTCAATTTATAAAATTACCAAAA
* * *
92060695 TACCC-CTAATTTACAAAGTTATAAAAATACCCT
1 TACCCTC-GATTTACAAAATTATCAAAATACCCT
92060728 TGACTTTCTA
Statistics
Matches: 67, Mismatches: 18, Indels: 4
0.75 0.20 0.04
Matches are distributed among these distances:
54 63 0.94
55 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.31
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTATCAAAATACCCTCAATTTATAAAATTACCAAAA
Found at i:92060722 original size:81 final size:83
Alignment explanation
Indices: 92060587--92060782 Score: 225
Period size: 81 Copynumber: 2.4 Consensus size: 83
92060577 ATTATTGTTT
* * * ** * *
92060587 TACCCTCGATTTACAAAATTACCAAAATACCTCTAGTTTGTAAAATTACCAAAATACCCTTG-GT
1 TACCCTCAATTTACAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCTTGACT
* * *
92060651 TTGT-GAAATTATCGAAA
66 TTCTAAAAATTATAGAAA
* * *
92060668 TACCCTCAATTTATAAAATTACCAAAATACCCCTAATTTACAAAGTTATAAAAATACCCTTGACT
1 TACCCTCAATTTACAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCTTGACT
92060733 TTCTAAAAATTATAGAAA
66 TTCTAAAAATTATAGAAA
* * **
92060751 TACCATCAGTTTACAAAATTACTGAAATACCC
1 TACCCTCAATTTACAAAATTACCAAAATACCC
92060783 TTGGTTTGTA
Statistics
Matches: 95, Mismatches: 18, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
81 53 0.56
82 4 0.04
83 38 0.40
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (83 bp):
TACCCTCAATTTACAAAATTACCAAAATACCCCTAATTTACAAAATTACAAAAATACCCTTGACT
TTCTAAAAATTATAGAAA
Found at i:92060789 original size:27 final size:27
Alignment explanation
Indices: 92060533--92060785 Score: 104
Period size: 27 Copynumber: 9.3 Consensus size: 27
92060523 ATTATTGTTT
* ***
92060533 TACCCTTGATTTACAAAATTATTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* * ***
92060560 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTTGATTTACAAAATTACTGAAA
* **
92060587 TACCCTCGATTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* ** **
92060614 TACCTCTAG-TTTGTAAAATTACCAAAA
1 TACC-CTTGATTTACAAAATTACTGAAA
* ***
92060641 TACCCTTGGTTTGTGAAATTA-TCGAAA
1 TACCCTTGATTTACAAAATTACT-GAAA
** * **
92060668 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTGAAA
* * * *
92060695 TACCCCTAATTTACAAAGTTA-TAAAAA
1 TACCCTTGATTTACAAAATTACT-GAAA
92060722 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACT-GAAA
* *
92060751 TA-CCATCAGTTTACAAAATTACTGAAA
1 TACCCTTGA-TTTACAAAATTACTGAAA
92060778 TACCCTTG
1 TACCCTTG
92060786 GTTTGTAGAT
Statistics
Matches: 180, Mismatches: 35, Indels: 21
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.02
27 146 0.81
28 17 0.09
29 14 0.08
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTGAAA
Found at i:92060873 original size:27 final size:28
Alignment explanation
Indices: 92060843--92060901 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
92060833 ACCCCTATTA
*
92060843 GGTAAAAAT-ACCGTAAAGCCCCTGTAG
1 GGTAAAAATGACCGTAAAGCCCCTCTAG
*
92060870 GGT-AAAGTGACCGTAAAGCCCCTCTAG
1 GGTAAAAATGACCGTAAAGCCCCTCTAG
92060897 GGTAA
1 GGTAA
92060902 TGTGACCGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 4 0.14
27 23 0.82
28 1 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (28 bp):
GGTAAAAATGACCGTAAAGCCCCTCTAG
Found at i:92060919 original size:27 final size:27
Alignment explanation
Indices: 92060852--92060912 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
92060842 AGGTAAAAAT
*
92060852 ACCGTAAAGCCCCTGTAGGGTAAAGTG
1 ACCGTAAAGCCCCTCTAGGGTAAAGTG
*
92060879 ACCGTAAAGCCCCTCTAGGGTAATGTG
1 ACCGTAAAGCCCCTCTAGGGTAAAGTG
92060906 ACCGTAA
1 ACCGTAA
92060913 TACCCCTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.20
Consensus pattern (27 bp):
ACCGTAAAGCCCCTCTAGGGTAAAGTG
Found at i:92060927 original size:27 final size:27
Alignment explanation
Indices: 92060852--92060934 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
92060842 AGGTAAAAAT
*
92060852 ACCGTAAAGCCCCTGTAGGGTAAAGTG
1 ACCGTAAAGCCCCTGCAGGGTAAAGTG
*
92060879 ACCGTAAAGCCCCT-CTAGGGTAATGTG
1 ACCGTAAAGCCCCTGC-AGGGTAAAGTG
* *
92060906 ACCGTAATA-CCCCTGCATGGTAAAATG
1 ACCGTAA-AGCCCCTGCAGGGTAAAGTG
92060933 AC
1 AC
92060935 GAATATGCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
27 46 0.96
28 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.20
Consensus pattern (27 bp):
ACCGTAAAGCCCCTGCAGGGTAAAGTG
Found at i:92061719 original size:25 final size:26
Alignment explanation
Indices: 92061648--92061719 Score: 119
Period size: 26 Copynumber: 2.8 Consensus size: 26
92061638 GAGGAAGTGC
**
92061648 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
92061674 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
92061700 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
92061720 ATTAAAGAGG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 10 0.23
26 34 0.77
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:92061955 original size:42 final size:44
Alignment explanation
Indices: 92061864--92061957 Score: 138
Period size: 42 Copynumber: 2.2 Consensus size: 44
92061854 TAGTCTCCCT
* * *
92061864 AAATGGGCTTGCATACATTCATTGGTATATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGTACATTACATGTGATATTG
*
92061908 AAATGGGCTTTCATACATCCATT-G-ACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGGTACATTACATGTGATATTG
92061950 AAATGGGC
1 AAATGGGC
92061958 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 24 0.52
43 1 0.02
44 21 0.46
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (44 bp):
AAATGGGCTTGCATACATCCATTGGTACATTACATGTGATATTG
Found at i:92062019 original size:31 final size:30
Alignment explanation
Indices: 92061981--92062086 Score: 117
Period size: 31 Copynumber: 3.5 Consensus size: 30
92061971 CGTTTACAGT
*
92061981 AAAGGCTTCGGCCCAGTGAAATTATTTATG
1 AAAGGCTTCGGCCCAGTGAAATCATTTATG
* * *
92062011 AAATGGCTTTGGCCCAGTGATATGATTTATG
1 AAA-GGCTTCGGCCCAGTGAAATCATTTATG
* *
92062042 AAAAGGCTTCGGCCTAGT--AATCATTAAATG
1 -AAAGGCTTCGGCCCAGTGAAATCATT-TATG
92062072 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
92062087 ATATATGTCA
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
29 19 0.30
30 6 0.09
31 36 0.56
32 3 0.05
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGAAATCATTTATG
Found at i:92070717 original size:15 final size:15
Alignment explanation
Indices: 92070696--92070740 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
92070686 TTCAAGTATA
92070696 CGAATTTGGTTTATG
1 CGAATTTGGTTTATG
*
92070711 TGAATTTGGTTTATG
1 CGAATTTGGTTTATG
*
92070726 CAAATTTGGTTTATG
1 CGAATTTGGTTTATG
92070741 GATTTTCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.22, C:0.04, G:0.24, T:0.49
Consensus pattern (15 bp):
CGAATTTGGTTTATG
Found at i:92073349 original size:42 final size:42
Alignment explanation
Indices: 92073303--92073399 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
92073293 CTGAGACTAT
*
92073303 GTGTAAGACCATATCT-AGGATATGACATCAATATCAGACTTC
1 GTGTAAGACCATATCTGA-GATATGACATCAATATCAAACTTC
* * * * *
92073345 GTGTAAGACCATATCTGAGATATGGCATCGATATGAAATTTT
1 GTGTAAGACCATATCTGAGATATGACATCAATATCAAACTTC
92073387 GTGTAAGACCATA
1 GTGTAAGACCATA
92073400 GCTGGTGTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 47 0.98
43 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGAGATATGACATCAATATCAAACTTC
Found at i:92075994 original size:48 final size:48
Alignment explanation
Indices: 92075932--92076167 Score: 436
Period size: 48 Copynumber: 4.9 Consensus size: 48
92075922 TACAAGAAAA
*
92075932 ATATATATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
92075980 ATATGTATATGTGGTAAAGCCGAGTGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
92076028 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
92076076 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
92076124 ATATGTATATTTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
92076168 GATGTGTGTA
Statistics
Matches: 183, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 183 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:92076364 original size:37 final size:37
Alignment explanation
Indices: 92076314--92076413 Score: 155
Period size: 37 Copynumber: 2.7 Consensus size: 37
92076304 AATATATTCT
92076314 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
92076351 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* * * *
92076388 GGGTGAGACCCGCTAACTACGAGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
92076414 GGACTATTCG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:92079557 original size:20 final size:20
Alignment explanation
Indices: 92079534--92079571 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
92079524 AAAACATGGT
92079534 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
92079554 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
92079572 CTGTATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:92079693 original size:48 final size:48
Alignment explanation
Indices: 92079622--92079721 Score: 191
Period size: 48 Copynumber: 2.1 Consensus size: 48
92079612 GGAAGAAGTG
*
92079622 AAAAAGGGCTTATGCCCGAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
92079670 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
92079718 AAAA
1 AAAA
92079722 GAGGCTAGGC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (48 bp):
AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:92079738 original size:25 final size:23
Alignment explanation
Indices: 92079624--92079720 Score: 167
Period size: 23 Copynumber: 4.1 Consensus size: 23
92079614 AAGAAGTGAA
*
92079624 AAAGGGCTTATGCCCGAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92079647 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92079670 AAAAAGGGCTTATGCCCCAGTTATT
1 --AAAGGGCTTATGCCCCAGTTATT
92079695 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92079718 AAA
1 AAA
92079721 AGAGGCTAGG
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
23 48 0.68
25 23 0.32
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:92079738 original size:48 final size:48
Alignment explanation
Indices: 92079622--92079738 Score: 175
Period size: 48 Copynumber: 2.4 Consensus size: 48
92079612 GGAAGAAGTG
* *
92079622 AAAAAGGGCTTATGCCCGAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAAGGGCTTAGGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
92079670 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAAAGGGCTTAGGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
92079718 -AAAAGAGGC-TAGGCCTCCAGT
1 AAAAAG-GGCTTAGGCC-CCAGT
92079739 AATATGATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
47 10 0.15
48 55 0.85
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (48 bp):
AAAAAGGGCTTAGGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:92079970 original size:31 final size:31
Alignment explanation
Indices: 92079935--92079998 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
92079925 CGTTTACAGT
92079935 AAAGGCTTCGGCCCAG-GAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTG-ATATGAAATATGA
*
92079966 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTGATATGAAATATGA
92079997 AA
1 AA
92079999 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAAATATGA
Found at i:92085218 original size:25 final size:25
Alignment explanation
Indices: 92085189--92085236 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
92085179 TTATAACATG
* * *
92085189 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
92085214 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
92085237 GTTTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:92085303 original size:20 final size:20
Alignment explanation
Indices: 92085280--92085337 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
92085270 AAAACATGGT
92085280 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
92085300 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
92085320 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
92085338 CTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:92085320 original size:11 final size:11
Alignment explanation
Indices: 92085284--92085337 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
92085274 CATGGTATGT
92085284 ATGATATGCAC
1 ATGATATGCAC
* *
92085295 ATGACATG--T
1 ATGATATGCAC
92085304 ATGATATGCAC
1 ATGATATGCAC
*
92085315 ATGATATG--T
1 ATGATATGCAC
92085324 ATGATATGCAC
1 ATGATATGCAC
92085335 ATG
1 ATG
92085338 CTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:92085422 original size:23 final size:23
Alignment explanation
Indices: 92085390--92085530 Score: 239
Period size: 23 Copynumber: 6.1 Consensus size: 23
92085380 AGGAAGTGAA
* *
92085390 AAAGGCCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92085413 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
92085436 AAAAGGTCTTATG-CCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
92085459 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92085482 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92085505 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
92085528 AAA
1 AAA
92085531 AGAGGCTAGG
Statistics
Matches: 112, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
22 11 0.10
23 90 0.80
24 11 0.10
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:92085783 original size:31 final size:31
Alignment explanation
Indices: 92085745--92085846 Score: 114
Period size: 38 Copynumber: 3.1 Consensus size: 31
92085735 CGTTTACAGT
*
92085745 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
92085776 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AATATGAAATATGA
**
92085814 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
92085845 AA
1 AA
92085847 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 28 0.46
33 2 0.03
36 2 0.03
38 29 0.48
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:92085813 original size:38 final size:38
Alignment explanation
Indices: 92085762--92085869 Score: 191
Period size: 38 Copynumber: 2.8 Consensus size: 38
92085752 TCAGCCCAGT
92085762 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
92085800 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
92085838 AATATGAAATATGAAAAGGGCTAT-GGCCCAGT
1 AATATGAAATATGAAAA-GGCT-TCGGCCCAGT
92085870 ACATGTTGAG
Statistics
Matches: 68, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
38 55 0.81
39 12 0.18
40 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
Found at i:92089193 original size:43 final size:42
Alignment explanation
Indices: 92089133--92089231 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
92089123 AAGATCACAT
* * *
92089133 CTGGGATATGGCATCGATATGAGATTTCACGTACGACCATAA
1 CTGGGATATGGCATCGATACGAGATTACACGTAAGACCATAA
* * *
92089175 CTGGGTTATTGGCATCGATACGAGATTACATGTAAGACCATAT
1 CTGGGATA-TGGCATCGATACGAGATTACACGTAAGACCATAA
*
92089218 CTAGGATATGGCAT
1 CTGGGATATGGCAT
92089232 TGGTATGGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 13 0.27
43 35 0.73
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (42 bp):
CTGGGATATGGCATCGATACGAGATTACACGTAAGACCATAA
Found at i:92097131 original size:18 final size:19
Alignment explanation
Indices: 92097110--92097150 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
92097100 GAGATGAAAA
*
92097110 ATGATTATGAAATG-AGGG
1 ATGATTAAGAAATGTAGGG
*
92097128 ATGATTAAGAGATGTAGGG
1 ATGATTAAGAAATGTAGGG
92097147 ATGA
1 ATGA
92097151 ACTGAAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.27
Consensus pattern (19 bp):
ATGATTAAGAAATGTAGGG
Found at i:92102219 original size:40 final size:40
Alignment explanation
Indices: 92102172--92102316 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 40
92102162 CTCGCACAAG
* * * * *
92102172 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
92102212 GCCTTCGGGACTTAGCCCGGTTTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
92102252 GCCTTC-GGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
92102293 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
92102317 CATTCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 55 0.62
41 27 0.31
42 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:92110186 original size:40 final size:40
Alignment explanation
Indices: 92110140--92110284 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
92110130 CTCACACAAG
* * * *
92110140 GCCTTCGGGTCTTAACCCGGATATAGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
*
92110180 GCCTTCGGGACTTAGCCCGGATTTAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * * *
92110220 GCCTTC-GGATCTTAGTCCGAATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
92110261 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
92110285 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 3 0.03
40 57 0.64
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:92114066 original size:16 final size:16
Alignment explanation
Indices: 92114045--92114081 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
92114035 AATATTTAAG
92114045 ACCCCTGTTAACCAGA
1 ACCCCTGTTAACCAGA
92114061 ACCCCTGTTAACCAGA
1 ACCCCTGTTAACCAGA
92114077 ACCCC
1 ACCCC
92114082 CTTTTCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.43, G:0.11, T:0.16
Consensus pattern (16 bp):
ACCCCTGTTAACCAGA
Found at i:92119863 original size:28 final size:26
Alignment explanation
Indices: 92119808--92119920 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
92119798 AGCATGGCTG
* *
92119808 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
92119834 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
92119862 CCAGAACAGATGTATGTGGCAGAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
* *
92119889 CCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
92119917 CCAG
1 CCAG
92119921 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 6 0.08
27 37 0.49
28 33 0.43
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:92119891 original size:55 final size:54
Alignment explanation
Indices: 92119808--92119920 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
92119798 AGCATGGCTG
*
92119808 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAT-CAGATAATTCGTGGCAGAGCCA
* * * *
92119862 CCAGAACAGATGTATGTGGCAGAGCCACCAGATCAGATAATTTGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
92119917 CCAG
1 CCAG
92119921 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 18 0.35
55 34 0.65
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTCGTGGCAGAGCCA
Found at i:92120065 original size:25 final size:25
Alignment explanation
Indices: 92120024--92120072 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
92120014 CAAAATTAAC
*
92120024 CCTAGGGGCATATTGGTCATTTACA
1 CCTAGGGGCATATTGGTAATTTACA
*
92120049 CCTAGGGGTATCA-TGGTAATTTAC
1 CCTAGGGGCAT-ATTGGTAATTTAC
92120073 CATACATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCATATTGGTAATTTACA
Found at i:92129464 original size:28 final size:27
Alignment explanation
Indices: 92129378--92129467 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
92129368 GTGATAGAGT
*
92129378 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
92129407 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
92129434 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
92129462 CACCAG
1 CACCAG
92129468 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:92129645 original size:28 final size:28
Alignment explanation
Indices: 92129573--92129637 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
92129563 AAATTAACCC
*
92129573 TAGGGGTATAAAGGTTATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
92129601 TAGGGGTATAAAGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
92129629 TAGGGGTAT
1 TAGGGGTAT
92129638 TCTAGTAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.06, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:92130638 original size:17 final size:16
Alignment explanation
Indices: 92130607--92130640 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
92130597 AAGAATAAGC
92130607 TTTTGGGATTTCGGCT
1 TTTTGGGATTTCGGCT
*
92130623 TTTTGTGATGTTCGGCT
1 TTTTGGGAT-TTCGGCT
92130640 T
1 T
92130641 ATAAGGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.12, G:0.29, T:0.53
Consensus pattern (16 bp):
TTTTGGGATTTCGGCT
Found at i:92138514 original size:40 final size:40
Alignment explanation
Indices: 92138416--92138644 Score: 370
Period size: 40 Copynumber: 5.8 Consensus size: 40
92138406 TCCTCGTTCA
* * * ** *
92138416 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
92138455 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
92138495 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
92138535 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
92138575 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
92138615 AATGCCTTCGGGACTTAACCCGGATTTAAC
1 AATGCCTTCGGGACTTAACCCGGATTTAAC
92138645 TCGCACCCTT
Statistics
Matches: 181, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 34 0.19
40 147 0.81
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:92138694 original size:72 final size:75
Alignment explanation
Indices: 92138458--92138710 Score: 246
Period size: 80 Copynumber: 3.3 Consensus size: 75
92138448 CTCACACAAT
* * *
92138458 GCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTT-ATAACTCGCAC--A--CCTTCGGGACTTAACCCGGATATA
* * *
92138523 ACAACTCGCACGAAT
61 ATAACTAGCACGAAA
*
92138538 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTT-ATAACTCGCAC--A--CCTTCGGGACTTAACCCGGATATA
* *
92138603 ATAACTCGCACGAAT
61 ATAACTAGCACGAAA
* * *
92138618 GCCTTCGGGACTTAACCCGGA-TT-TAACTCGCAC-CCTTC-GGATCTTAATCCGGATATATTCA
1 GCCTTCGGGACTTAACCCGGATTTATAACTCGCACACCTTCGGGA-CTTAACCCGGATATAATAA
92138679 CTTAGCAC-AAA
65 C-TAGCACGAAA
*
92138690 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
92138711 CAGCATTCAA
Statistics
Matches: 161, Mismatches: 10, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
71 3 0.02
72 43 0.27
73 5 0.03
77 10 0.06
79 2 0.01
80 98 0.61
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.24
Consensus pattern (75 bp):
GCCTTCGGGACTTAACCCGGATTTATAACTCGCACACCTTCGGGACTTAACCCGGATATAATAAC
TAGCACGAAA
Found at i:92146465 original size:40 final size:40
Alignment explanation
Indices: 92146367--92146559 Score: 300
Period size: 40 Copynumber: 4.9 Consensus size: 40
92146357 TCCTCGTTCA
* * * * *
92146367 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
92146406 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
92146446 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
92146486 AATGCCTTC-GGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
92146525 AATGCCTTCGGGACTTAACCCGGATTTAATAACTC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTC
92146560 TCCTTCGCAC
Statistics
Matches: 145, Mismatches: 7, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
39 72 0.50
40 73 0.50
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:92146468 original size:79 final size:79
Alignment explanation
Indices: 92146367--92146559 Score: 298
Period size: 79 Copynumber: 2.4 Consensus size: 79
92146357 TCCTCGTTCA
* * * *
92146367 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTC-GGACATAACCCGGAT
92146431 TTAACAACTCGCACG
65 TTAACAACTCGCACG
* * *
92146446 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGACATAACCCGGATT
*
92146511 TAATAACTCGCACG
66 TAACAACTCGCACG
92146525 AATGCCTTCGGGACTTAACCCGGATTTAATAACTC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTC
92146560 TCCTTCGCAC
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 95 0.91
80 9 0.09
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACACGAATGCCTTCGGACATAACCCGGATT
TAACAACTCGCACG
Found at i:92146623 original size:86 final size:79
Alignment explanation
Indices: 92146370--92146634 Score: 237
Period size: 79 Copynumber: 3.3 Consensus size: 79
92146360 TCGTTCAAAT
* * * ** * * * *
92146370 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTC-GGACTTAACCCGGATATA
* * *
92146434 ACAACTCGCACGAAT
65 ATAACTAGCACGAAA
* * *
92146449 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGACTTAACCCGGATTTAA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGACTTAACCCGGATATAA
* *
92146514 TAACTCGCACGAAT
66 TAACTAGCACGAAA
* *
92146528 GCCTTCGGGACTTAACCCGGATTTAATAACTCTCCTTCGCACAAAGGCCTTCGGATCTTAATCCG
1 GCCTTCGGGACTTAACCCGGATTTAACAA-----C-TCGCACAAAGGCCTTCGGA-CTTAACCCG
* *
92146593 GATATATTCACTTAGCAC-AAA
59 GATATAATAAC-TAGCACGAAA
*
92146614 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
92146635 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
79 89 0.56
80 9 0.06
84 1 0.01
85 17 0.11
86 38 0.24
87 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGACTTAACCCGGATATAA
TAACTAGCACGAAA
Found at i:92148287 original size:17 final size:18
Alignment explanation
Indices: 92148260--92148295 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
92148250 AATCAAATAT
92148260 ATGCATATTAAATTATTA
1 ATGCATATTAAATTATTA
*
92148278 ATGC-TATTAATTTATTA
1 ATGCATATTAAATTATTA
92148295 A
1 A
92148296 AACAAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (18 bp):
ATGCATATTAAATTATTA
Found at i:92155664 original size:17 final size:18
Alignment explanation
Indices: 92155642--92155675 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92155632 CACATTGAAG
92155642 TGTTTT-AGCGAAAACCA
1 TGTTTTCAGCGAAAACCA
*
92155659 TGTTTTCATCGAAAACC
1 TGTTTTCAGCGAAAACC
92155676 CTTCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (18 bp):
TGTTTTCAGCGAAAACCA
Found at i:92156790 original size:29 final size:28
Alignment explanation
Indices: 92156733--92156818 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
92156723 TGCCTGTATC
* *
92156733 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* *
92156761 TGGCCCATTCGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
92156790 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
92156818 T
1 T
92156819 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.51
29 24 0.49
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:92160722 original size:42 final size:43
Alignment explanation
Indices: 92160630--92160723 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
92160620 ATGCCAACGG
* *
92160630 CCCAGACATAGTCTTACATGTAATCAAATATCGATGTCACTAT
1 CCCAGACATAGTCTTACATGAAATCAAATATCAATGTCACTAT
* *
92160673 CCCAGACA-AGGTCTTACATGAAATTAAATA-CAATGTCGA-TGT
1 CCCAGACATA-GTCTTACATGAAATCAAATATCAATGTC-ACTAT
92160715 CCCAGACAT
1 CCCAGACAT
92160724 GTTCTTATGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
42 17 0.39
43 27 0.61
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (43 bp):
CCCAGACATAGTCTTACATGAAATCAAATATCAATGTCACTAT
Found at i:92161406 original size:47 final size:47
Alignment explanation
Indices: 92161352--92161443 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
92161342 ATTCAAAGAA
* *
92161352 AAAATATACTAACCTAACAGATATCTTTCATTTTCTATCATCTAAAC
1 AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAAAC
92161399 AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAA
1 AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAA
92161444 CTTCATAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.01, T:0.36
Consensus pattern (47 bp):
AAAATATACTAACCCAACACATATCTTTCATTTTCTATCATCTAAAC
Found at i:92166944 original size:27 final size:27
Alignment explanation
Indices: 92166907--92166962 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
92166897 AACATTTCAT
92166907 ATACATCATCCACAATCATAATCAAAC
1 ATACATCATCCACAATCATAATCAAAC
92166934 ATACATCATCCACAATCATAATCAAAC
1 ATACATCATCCACAATCATAATCAAAC
92166961 AT
1 AT
92166963 TACCGTAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (27 bp):
ATACATCATCCACAATCATAATCAAAC
Found at i:92168157 original size:16 final size:16
Alignment explanation
Indices: 92168136--92168166 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92168126 ATACATATCA
*
92168136 TAACTCATTCTTATAG
1 TAACTCATACTTATAG
92168152 TAACTCATACTTATA
1 TAACTCATACTTATA
92168167 TAATATATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (16 bp):
TAACTCATACTTATAG
Found at i:92168456 original size:43 final size:44
Alignment explanation
Indices: 92168355--92168456 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 44
92168345 CCTAGATGTT
*
92168355 GTCTTACATGT-AATAAAATATCGATGCCATTGTCCCAAACAAG
1 GTCTTACATGTAAATCAAATATCGATGCCATTGTCCCAAACAAG
** * *
92168398 GTCTTACA-CAAAATCAAATA-CGATGCCGA-TGTCCCATACATG
1 GTCTTACATGTAAATCAAATATCGATGCC-ATTGTCCCAAACAAG
92168440 GTCTTACATGTAAATCA
1 GTCTTACATGTAAATCA
92168457 TAAGTAGATG
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
42 26 0.53
43 23 0.47
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (44 bp):
GTCTTACATGTAAATCAAATATCGATGCCATTGTCCCAAACAAG
Found at i:92174418 original size:14 final size:14
Alignment explanation
Indices: 92174399--92174429 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
92174389 ATAAATGACT
92174399 TAGGTTATATTTTC
1 TAGGTTATATTTTC
92174413 TAGGTTATATTTTC
1 TAGGTTATATTTTC
92174427 TAG
1 TAG
92174430 ACTATTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (14 bp):
TAGGTTATATTTTC
Found at i:92174453 original size:16 final size:16
Alignment explanation
Indices: 92174432--92174462 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
92174422 TTTTCTAGAC
92174432 TATTATGTTAAAATAT
1 TATTATGTTAAAATAT
92174448 TATTATGTTAAAATA
1 TATTATGTTAAAATA
92174463 AATTCTACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TATTATGTTAAAATAT
Found at i:92181912 original size:40 final size:39
Alignment explanation
Indices: 92181832--92182011 Score: 213
Period size: 39 Copynumber: 4.5 Consensus size: 39
92181822 AATGATGTCC
* *
92181832 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-AATATCCG
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAA-ATCCG
* * *
92181872 GACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCG
1 GGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
92181912 GGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCG
*
92181951 GGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-CCG
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AATCCG
*
92181990 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGT-CCGAAGGCATTTG
92182012 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 69 0.57
40 43 0.35
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCG
Found at i:92190057 original size:40 final size:39
Alignment explanation
Indices: 92189973--92190197 Score: 206
Period size: 40 Copynumber: 5.7 Consensus size: 39
92189963 TTGAATGATG
* * * **
92189973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAAAATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
92190013 TCCGGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
*
92190052 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA
1 -TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
92190091 ACCCGAGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGA-CTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AA
**
92190132 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
92190172 ACCAGG-CTATGTCCCGAAGGCATTTG
1 TCC-GGACTAAGTCCCGAAGGCATTTG
92190198 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 22, Indels: 18
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.02
39 30 0.19
40 107 0.69
41 14 0.09
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:92190113 original size:79 final size:80
Alignment explanation
Indices: 92189973--92190197 Score: 262
Period size: 80 Copynumber: 2.8 Consensus size: 80
92189963 TTGAATGATG
* * ** *
92189973 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAAAATATCC-GGACTAAGAT-CCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCAGG-CTAAG-TCCCGAAGGCA
** *
92190035 TTTGTGTGAGATACTAAT
63 TTTGTGCAAGATACTAAA
* *
92190053 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AACCCGAGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCAG-GCTAAGTCCCGAAGGCATT
*
92190116 TGTGCAAGTTACTAAA
65 TGTGCAAGATACTAAA
* *
92190132 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTT
92190197 G
66 G
92190198 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.03
79 52 0.42
80 64 0.51
81 5 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTT
GTGCAAGATACTAAA
Found at i:92190215 original size:80 final size:80
Alignment explanation
Indices: 92190047--92190230 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 80
92190037 TGTGTGAGAT
* * * *
92190047 ACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGAGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCAGAGCTAAGTCCCGAAG
** *
92190111 GCATTTGTGCAAGTT
66 GCATTTGAACAAGTG
*
92190126 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCAG-GCTATGTCCCGAA
1 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACCAGAGCTAAGTCCCGAA
*
92190190 GGCATTTGAACGAG-G
65 GGCATTTGAACAAGTG
* * *
92190205 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTAAATCCGGGTTAAGTCCCGAAGG
92190231 TACGTGAATT
Statistics
Matches: 90, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 30 0.33
80 55 0.61
81 5 0.06
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCAGAGCTAAGTCCCGAAG
GCATTTGAACAAGTG
Found at i:92190220 original size:119 final size:119
Alignment explanation
Indices: 92189980--92190203 Score: 267
Period size: 119 Copynumber: 1.9 Consensus size: 119
92189970 ATGTCCGGGC
*
92189980 TAAGTCCCGAAGGCTTTGTGCTAAGTGAAAATATCCGGACTAAGATCCGAAGGCATTTGTGTGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGAAAATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
* * ** *
92190045 ATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAACCCGAGT
66 ATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAACCCGAGT
* * **
92190099 TAAGTCCCGAAGGCATTTGTGC-AAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGCATTTGTGC
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGA-AAATATCCGGACTAAGAT-CCGAAGGCATTTGTGC
* *
92190161 GAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG
63 GAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAG
92190204 GAGCTATATC
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 59 0.66
120 27 0.30
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGAAAATATCCGGACTAAGATCCGAAGGCATTTGTGCGAG
ATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAACCCGAGT
Found at i:92194918 original size:10 final size:10
Alignment explanation
Indices: 92194903--92194927 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
92194893 TTTCCTTTAT
92194903 TTTTTTTAGG
1 TTTTTTTAGG
92194913 TTTTTTTAGG
1 TTTTTTTAGG
92194923 TTTTT
1 TTTTT
92194928 AGTTTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.16, T:0.76
Consensus pattern (10 bp):
TTTTTTTAGG
Found at i:92197140 original size:23 final size:23
Alignment explanation
Indices: 92197092--92197140 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
92197082 TCATTTATTC
* *
92197092 TTTTCTCTCCTTTTGCCTTTCCA
1 TTTTCTCTCCTTTTCCCTTTCAA
*
92197115 TTTTCTCTTC-TTTCCCTTGTCAA
1 TTTTCTCTCCTTTTCCCTT-TCAA
92197138 TTT
1 TTT
92197141 CCCCTCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.06, C:0.31, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTTCTCTCCTTTTCCCTTTCAA
Found at i:92203927 original size:43 final size:44
Alignment explanation
Indices: 92203878--92204028 Score: 218
Period size: 43 Copynumber: 3.5 Consensus size: 44
92203868 GATTGCCGAG
* *
92203878 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGTATTGTAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
92203922 -TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * *
92203964 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
92204007 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
92204029 ACTTGGGATA
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.01
43 95 0.99
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:92206598 original size:19 final size:20
Alignment explanation
Indices: 92206574--92206618 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
92206564 ATCCAAACAC
*
92206574 CAGAAAAGCAAATTA-TTTT
1 CAGAAAAGCAAATCATTTTT
*
92206593 CAGAAAAGTAAATCATTTTT
1 CAGAAAAGCAAATCATTTTT
92206613 CAGAAA
1 CAGAAA
92206619 TTATTTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (20 bp):
CAGAAAAGCAAATCATTTTT
Found at i:92208896 original size:28 final size:28
Alignment explanation
Indices: 92208865--92208990 Score: 121
Period size: 29 Copynumber: 4.4 Consensus size: 28
92208855 ACATACATGC
*
92208865 ATATGGCCCA-CTAAACCCAATCTCATTT
1 ATATGGCCCATC-AAGCCCAATCTCATTT
*
92208893 ATATGGCCCATCCAGCCCAAT-TCACGTTT
1 ATATGGCCCATCAAGCCCAATCTCA--TTT
* * * *
92208922 ATATGACCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCAAGCCCAA-TCTCATTT
* *
92208951 ATATGGCCCATTAGGCCCAATCTCATTT
1 ATATGGCCCATCAAGCCCAATCTCATTT
*
92208979 ATATGACCCATC
1 ATATGGCCCATC
92208991 TGGCCCAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 10
0.78 0.13 0.10
Matches are distributed among these distances:
27 3 0.04
28 33 0.41
29 41 0.51
30 1 0.01
31 2 0.03
ACGTcount: A:0.29, C:0.33, G:0.11, T:0.28
Consensus pattern (28 bp):
ATATGGCCCATCAAGCCCAATCTCATTT
Found at i:92208931 original size:29 final size:28
Alignment explanation
Indices: 92208880--92209008 Score: 129
Period size: 29 Copynumber: 4.5 Consensus size: 28
92208870 GCCCACTAAA
*
92208880 CCCAATCTCA-TTTATATGGCCCATCCA-G
1 CCCAAT-TCACTTTATATGACCCAT-CAGG
92208908 CCCAATTCACGTTTATATGACCCATCAGG
1 CCCAATTCAC-TTTATATGACCCATCAGG
* * *
92208937 CCCAATTCACATTCATATGGCCCATTAGG
1 CCCAATTCAC-TTTATATGACCCATCAGG
*
92208966 CCCAATCTCA-TTTATATGACCCATCTGG
1 CCCAAT-TCACTTTATATGACCCATCAGG
* *
92208994 CCCAAATCACATTAT
1 CCCAATTCACTTTAT
92209009 GTTCGTGCTC
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
27 6 0.07
28 31 0.36
29 45 0.53
30 3 0.04
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.29
Consensus pattern (28 bp):
CCCAATTCACTTTATATGACCCATCAGG
Found at i:92208982 original size:57 final size:56
Alignment explanation
Indices: 92208880--92209006 Score: 159
Period size: 57 Copynumber: 2.2 Consensus size: 56
92208870 GCCCACTAAA
* *
92208880 CCCAATCTCATTTATATGGCCCATCCAGCCCAATTCACGTTTATATGACCCATCAGG
1 CCCAATCACATTCATATGGCCCATCCAGCCCAATTCAC-TTTATATGACCCATCAGG
* *
92208937 CCCAATTCACATTCATATGGCCCAT-TAGGCCCAATCTCA-TTTATATGACCCATCTGG
1 CCCAA-TCACATTCATATGGCCCATCCA-GCCCAAT-TCACTTTATATGACCCATCAGG
92208994 CCCAAATCACATT
1 CCC-AATCACATT
92209007 ATGTTCGTGC
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
57 33 0.53
58 26 0.42
59 3 0.05
ACGTcount: A:0.28, C:0.33, G:0.11, T:0.28
Consensus pattern (56 bp):
CCCAATCACATTCATATGGCCCATCCAGCCCAATTCACTTTATATGACCCATCAGG
Found at i:92209093 original size:17 final size:18
Alignment explanation
Indices: 92209071--92209120 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
92209061 GGCCTGTTAT
92209071 GGGCCCA-ATAGCCCATC
1 GGGCCCATATAGCCCATC
*
92209088 GGGCCCATTTAGCCCATTC
1 GGGCCCATATAGCCCA-TC
* *
92209107 TGGCCCATTTAGCC
1 GGGCCCATATAGCC
92209121 TATTCACAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.24
18 7 0.24
19 15 0.52
ACGTcount: A:0.18, C:0.38, G:0.22, T:0.22
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:92209113 original size:19 final size:19
Alignment explanation
Indices: 92209079--92209125 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
92209069 ATGGGCCCAA
92209079 TAGCCCA-TCGGGCCCATT
1 TAGCCCATTCGGGCCCATT
*
92209097 TAGCCCATTCTGGCCCATT
1 TAGCCCATTCGGGCCCATT
*
92209116 TAGCCTATTC
1 TAGCCCATTC
92209126 ACAACCCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.17, C:0.36, G:0.17, T:0.30
Consensus pattern (19 bp):
TAGCCCATTCGGGCCCATT
Found at i:92209262 original size:16 final size:16
Alignment explanation
Indices: 92209222--92209264 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
92209212 ATAGCCAAAC
92209222 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
*
92209238 TTTTGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
*
92209254 TTTCAGCTTTT
1 TTTCGGCTTTT
92209265 GCTGATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.21, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:92217283 original size:42 final size:42
Alignment explanation
Indices: 92217171--92217293 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
92217161 AGAAAGCTCG
* ***
92217171 TACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAA
* * * *
92217213 TATCGATGCC-ACTATCCCAGAAAGGGTCTTACACAAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGACATGGTCTTACACAAAATCAAA
92217256 TACAATGCCAACGTCCCAGACATGGTCTTACACGAAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACAC-AAAA
92217294 CACATATCGG
Statistics
Matches: 65, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
42 28 0.43
43 37 0.57
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.21
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAA
Found at i:92219468 original size:28 final size:28
Alignment explanation
Indices: 92219403--92219553 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
92219393 GAGATTGGCG
* * * *
92219403 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
92219432 CTAAGTGTGCAAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
92219460 CTAAATGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
92219488 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
92219516 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
92219543 CTGAGTGTGCG
1 CTAAGTGTGCG
92219554 GACTTAATAT
Statistics
Matches: 111, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 24 0.22
28 73 0.66
29 14 0.13
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:92237009 original size:43 final size:43
Alignment explanation
Indices: 92236919--92237015 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
92236909 TGAAATTATG
* ** *
92236919 TGTAAGACCATGTCTGGGACATTGGCATCATTAATTGATTTCG
1 TGTAAGACCATGTCTGGGACAGTGGCATCATTAATTGATAACA
92236962 TGTAAGA-CACTGTCTGGGACAGTGGCATCGA-T-ATGTGATAACA
1 TGTAAGACCA-TGTCTGGGACAGTGGCATC-ATTAAT-TGATAACA
92237005 TGTAAGACCAT
1 TGTAAGACCAT
92237016 ATTTGGGATA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
42 4 0.09
43 39 0.85
44 3 0.07
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCATTAATTGATAACA
Found at i:92238506 original size:4 final size:4
Alignment explanation
Indices: 92238497--92238561 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
92238487 AGATGTTAAT
92238497 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
92238545 TATG TATG TATG TATG T
1 TATG TATG TATG TATG T
92238562 GAAATGTGTG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:92238976 original size:54 final size:54
Alignment explanation
Indices: 92238884--92238986 Score: 152
Period size: 54 Copynumber: 1.9 Consensus size: 54
92238874 AAAAATTGAG
* * *
92238884 GCCATGTAAGCTGGAGTCACACAGACGTGTATCTAAACCATATAACTCATTAAA
1 GCCATATAAGCTGGAGTCACACAGACGTGAATCCAAACCATATAACTCATTAAA
* * *
92238938 GCCATATAAGCTGGAGTCATACGGTCGTGAATCCAAACCATATAACTCA
1 GCCATATAAGCTGGAGTCACACAGACGTGAATCCAAACCATATAACTCA
92238987 CTGAGGATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (54 bp):
GCCATATAAGCTGGAGTCACACAGACGTGAATCCAAACCATATAACTCATTAAA
Found at i:92244619 original size:27 final size:27
Alignment explanation
Indices: 92244581--92244633 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
92244571 TTACTAACTA
92244581 ATACTAATCTAATACTAATAGAATAGG
1 ATACTAATCTAATACTAATAGAATAGG
92244608 ATACTAATCTAATACTAATAGAATAG
1 ATACTAATCTAATACTAATAGAATAG
92244634 AAAAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.30
Consensus pattern (27 bp):
ATACTAATCTAATACTAATAGAATAGG
Found at i:92244644 original size:15 final size:15
Alignment explanation
Indices: 92244624--92244652 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
92244614 ATCTAATACT
92244624 AATAGAATAGAAAAA
1 AATAGAATAGAAAAA
92244639 AATAGAATAGAAAA
1 AATAGAATAGAAAA
92244653 TACTAATATA
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:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AATAGAATAGAAAAA
Found at i:92246745 original size:23 final size:23
Alignment explanation
Indices: 92246703--92246756 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
92246693 AAATTATATC
*
92246703 ATATTATTAAATTTACATTTTAAA
1 ATATTATAAAATTTACA-TTTAAA
92246727 ATATTATAAAATTTA-ATTTAAA
1 ATATTATAAAATTTACATTTAAA
92246749 ATTATTAT
1 A-TATTAT
92246757 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 7 0.25
23 7 0.25
24 14 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTATAAAATTTACATTTAAA
Found at i:92246817 original size:17 final size:17
Alignment explanation
Indices: 92246789--92246832 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
92246779 ATTTTAGGAC
92246789 AATTATACATTTAA-AAA
1 AATTATA-ATTTAATAAA
92246806 TAATTATAATTTAATAAA
1 -AATTATAATTTAATAAA
*
92246824 CATTATAAT
1 AATTATAAT
92246833 AGTTACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTATAATTTAATAAA
Found at i:92247725 original size:10 final size:10
Alignment explanation
Indices: 92247702--92247762 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
92247692 TAAAAGATCA
*
92247702 TTTTTATTATT
1 TTTTTA-TAAT
92247713 TTTTTATAAT
1 TTTTTATAAT
92247723 TTTTTATAAT
1 TTTTTATAAT
* * *
92247733 TTGTAATCAT
1 TTTTTATAAT
* *
92247743 TCTTAATAAT
1 TTTTTATAAT
*
92247753 TTCTTATAAT
1 TTTTTATAAT
92247763 GATTAATAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
10 34 0.85
11 6 0.15
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTTATAAT
Found at i:92253583 original size:25 final size:25
Alignment explanation
Indices: 92253555--92253602 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
92253545 AAAGAGTTCA
92253555 CCACAAAGGCTTCACAGAGCATTTT
1 CCACAAAGGCTTCACAGAGCATTTT
* *
92253580 CCACAAAGGCTTTATAGAGCATT
1 CCACAAAGGCTTCACAGAGCATT
92253603 CATTACAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
CCACAAAGGCTTCACAGAGCATTTT
Found at i:92253610 original size:25 final size:24
Alignment explanation
Indices: 92253556--92253619 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
92253546 AAGAGTTCAC
92253556 CACAAAGGCTTCACAGAGCATTTT
1 CACAAAGGCTTCACAGAGCATTTT
* *
92253580 CCACAAAGGCTTTATAGAGCATTCATT
1 -CACAAAGGCTTCACAGAGCATT--TT
*
92253607 -ACAAAGGATTCAC
1 CACAAAGGCTTCAC
92253620 TAAAGAATTC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 30 0.94
27 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (24 bp):
CACAAAGGCTTCACAGAGCATTTT
Found at i:92253611 original size:50 final size:50
Alignment explanation
Indices: 92253519--92253642 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 50
92253509 AAAGTCTTTT
* * *
92253519 CAGAGAATTTGCCACAAAGTCTTTATAAAGAGTTCACCACAAAGGCTTCA
1 CAGAGAATTTACCACAAAGGCTTTATAAAGAGTTCACCACAAAGGATTCA
* * * **
92253569 CAGAGCATTTTCCACAAAGGCTTTATAGAGCA-TTCATTACAAAGGATTCA
1 CAGAGAATTTACCACAAAGGCTTTATAAAG-AGTTCACCACAAAGGATTCA
* *
92253619 CTAAAGAATTCACCACAAAGGCTT
1 C-AGAGAATTTACCACAAAGGCTT
92253643 GATTTGGTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
50 42 0.69
51 19 0.31
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (50 bp):
CAGAGAATTTACCACAAAGGCTTTATAAAGAGTTCACCACAAAGGATTCA
Found at i:92254538 original size:153 final size:153
Alignment explanation
Indices: 92254255--92254561 Score: 553
Period size: 153 Copynumber: 2.0 Consensus size: 153
92254245 GATAGGTCTA
* *
92254255 GAGAGTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGTTCGTCCTGATCCAACAACAACA
1 GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGTCCGTCCTGATCCAACAACAACA
* *
92254320 ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCCATTATAGATAGTTTACTATCGTTCCAA
66 ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCCATTACAGATAGTTTACTATCATTCCAA
92254385 TCATATAGCTCCCCTAAGCAGGG
131 TCATATAGCTCCCCTAAGCAGGG
92254408 GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATT-TCCCGTCCTGATCCAACAACAAC
1 GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGT-CCGTCCTGATCCAACAACAAC
*
92254472 AACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCTATTACAGATAGTTTACTATCATTCCA
65 AACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCCATTACAGATAGTTTACTATCATTCCA
92254537 ATCATATAGCTCCCCTAAGCAGGG
130 ATCATATAGCTCCCCTAAGCAGGG
92254561 G
1 G
92254562 CTTCCCAATC
Statistics
Matches: 148, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
152 1 0.01
153 147 0.99
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.30
Consensus pattern (153 bp):
GAGACTCACCTTTACCTCTATCCAAAGCTTCTATTTCGATTGTCCGTCCTGATCCAACAACAACA
ACTACTTAAAAGATCATAAAATTTCCATTAGAATCCCCATTACAGATAGTTTACTATCATTCCAA
TCATATAGCTCCCCTAAGCAGGG
Found at i:92262975 original size:64 final size:64
Alignment explanation
Indices: 92262895--92263079 Score: 187
Period size: 67 Copynumber: 2.9 Consensus size: 64
92262885 AGACATTATG
* * *
92262895 ATGTAGCTAGGTCGCATGGGTGAG-ACTATGTGTACACCATGTGGACAAGAGAGCTAGGGGATAT
1 ATGTAGCTAGGTCGCATGGGTG-GTACTATGTGTACACCATGTGGACAAGAGAGCTACGAGATAA
* * * * * *
92262959 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGG-TACTA-TG-TGTACACCATGTGGACAAGAGAGCTACGAGAT
92263024 AA
63 AA
* * * *
92263026 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGCT
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTGGACAAGAGAGCT
92263080 GAACTATATG
Statistics
Matches: 97, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
63 21 0.22
64 22 0.23
65 5 0.05
66 18 0.19
67 29 0.30
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTGGACAAGAGAGCTACGAGATAA
Found at i:92269939 original size:41 final size:40
Alignment explanation
Indices: 92269894--92270024 Score: 111
Period size: 42 Copynumber: 3.1 Consensus size: 40
92269884 GCTTTAAGCT
*
92269894 GGTGAATATTATCGAGCTCCGAGCCTAGCAGGCGTAATGCC
1 GGTGAATATTATCG-GCTCCGAGCCTAGCAGGCATAATGCC
* *** * * * *
92269935 GGTGAAATAATATCGGACTTAAAGGTCTAGCAAGCTTTAA-GCT
1 GGTG-AATATTATCGG-CTCCGA-GCCTAGCAGGC-ATAATGCC
92269978 GGTGAATATTATCGGGCTCCGAGCCTAGCAGGCATAATGCC
1 GGTGAATATTATC-GGCTCCGAGCCTAGCAGGCATAATGCC
*
92270019 GATGAA
1 GGTGAA
92270025 ATGATATTGA
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
40 3 0.04
41 21 0.31
42 23 0.34
43 17 0.25
44 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (40 bp):
GGTGAATATTATCGGCTCCGAGCCTAGCAGGCATAATGCC
Found at i:92269951 original size:84 final size:84
Alignment explanation
Indices: 92269834--92270055 Score: 354
Period size: 84 Copynumber: 2.6 Consensus size: 84
92269824 GGCTTTGAGT
** *
92269834 CTAGCAGGCGTAATGCTAGTGAAATGATATCGGACTTAAAGGTCTGGCAAGCTTTAAGCTGGTGA
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
92269899 ATATTATCGAGCTCCGAGC
66 ATATTATCGAGCTCCGAGC
*
92269918 CTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
*
92269983 ATATTATCGGGCTCCGAGC
66 ATATTATCGAGCTCCGAGC
* * * * *
92270002 CTAGCAGGCATAATGCCGATGAAATGATATTGAACTTAAAGGTCTAGCAGGCTT
1 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTT
92270056 ATTGCCGGTG
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 127 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (84 bp):
CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAGCTGGTGA
ATATTATCGAGCTCCGAGC
Found at i:92269966 original size:43 final size:43
Alignment explanation
Indices: 92269832--92270066 Score: 151
Period size: 43 Copynumber: 5.6 Consensus size: 43
92269822 CGGGCTTTGA
* ** *
92269832 GTCTAGCAGGCGTAATGCTAGTGAAATGATATCGGACTTAAAG
1 GTCTAGCAGGCTTAATGCCGGTGAAATAATATCGGACTTAAAG
* * * * ***
92269875 GTCTGGCAAGCTTTAA-GCTGGTG-AATATTATC-GAGCTCCGA-
1 GTCTAGCAGGC-TTAATGCCGGTGAAATAATATCGGA-CTTAAAG
* *
92269916 GCCTAGCAGGCGTAATGCCGGTGAAATAATATCGGACTTAAAG
1 GTCTAGCAGGCTTAATGCCGGTGAAATAATATCGGACTTAAAG
* * * * ***
92269959 GTCTAGCAAGCTTTAA-GCTGGTG-AATATTATCGGGCTCCGA-
1 GTCTAGCAGGC-TTAATGCCGGTGAAATAATATCGGACTTAAAG
* * * * * *
92270000 GCCTAGCAGGCATAATGCCGATGAAATGATATTGAACTTAAAG
1 GTCTAGCAGGCTTAATGCCGGTGAAATAATATCGGACTTAAAG
*
92270043 GTCTAGCAGGCTTATTGCCGGTGA
1 GTCTAGCAGGCTTAATGCCGGTGA
92270067 TGAAACCAGG
Statistics
Matches: 138, Mismatches: 44, Indels: 20
0.68 0.22 0.10
Matches are distributed among these distances:
40 6 0.04
41 30 0.22
42 44 0.32
43 52 0.38
44 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (43 bp):
GTCTAGCAGGCTTAATGCCGGTGAAATAATATCGGACTTAAAG
Found at i:92280675 original size:25 final size:27
Alignment explanation
Indices: 92280646--92280698 Score: 76
Period size: 25 Copynumber: 2.0 Consensus size: 27
92280636 GGACTCAAAT
92280646 TTTCTC-AGTTTGGAATTT-TT-CGGGC
1 TTTCTCAAGTTT-GAATTTATTACGGGC
92280671 TTTCTCAAGTTTGAATTTATTACGGGC
1 TTTCTCAAGTTTGAATTTATTACGGGC
92280698 T
1 T
92280699 CAGGCTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 12 0.48
26 7 0.28
27 6 0.24
ACGTcount: A:0.17, C:0.15, G:0.21, T:0.47
Consensus pattern (27 bp):
TTTCTCAAGTTTGAATTTATTACGGGC
Found at i:92281837 original size:258 final size:252
Alignment explanation
Indices: 92281483--92282135 Score: 716
Period size: 254 Copynumber: 2.6 Consensus size: 252
92281473 TATATTAACT
* * *
92281483 ATTATCATATATTATTG--TTTATTATACTGGTTGAAATATGCTT-TAAGTCCCAATACTTTTCC
1 ATTATTATATATTATTGTTTTTATTATACTGATTGAAATATG-TTCTAAGT-CC-ATA-TTTTCG
* * *
92281545 TACATTTGAAAGTTAATCCTCCTACTACATTATATAATATTATATCGTATCATATAGTATATAAT
62 TACATTTGAAAGTTACT-CTCCTTCTATATTATATAATATTATATC-TATCATATA-TATATAAT
* *
92281610 ATATAAATAGTTTATATA-CATATATATACATCAATTATTAAACATTATAATATCAAGTAATACT
124 ATATAAATAGTTTATATAGCATATATATACATCAATGATTAAACATTATAATATCAAGCAATACT
** * *
92281674 ATATCTTTTACTATGTTCTATAATATAATAATAGTTATATATAATAATAGTACATTACGTATTA
189 ATATCTTTTACTATAATCTATAATATAATAATAGTTATATATAATAATAGTAAATTACATATTA
*
92281738 ATTATTATATATTATTGTTTGTTATTATATTGATTGAAATATGTTCTAAGCTCCTATATTTTTCG
1 ATTATTATATATTATTGTTT-TTATTATACTGATTGAAATATGTTCTAAG-TCC-ATA-TTTTCG
** * * *
92281803 TACATTTGAAAGTTAGCTCTCCTTCTATATTATATAATGCTATATCTATCATAT-CATGTAGTAT
62 TACATTTGAAAGTTA-CTCTCCTTCTATATTATATAATATTATATCTATCATATATATATAATAT
** * * *
92281867 ATAACATA--TTA-ATAGTTTATATATGCATTAATGATTAAACATTATAATATCATGCAATACTA
126 ATAA-ATAGTTTATATAGCATATATATACATCAATGATTAAACATTATAATATCAAGCAATACTA
** * *
92281929 TATCTTTTTTTATAATCTATAATATAATAATAGTTATATATAATAGTAGTAAATTATATATTA
190 TATCTTTTACTATAATCTATAATATAATAATAGTTATATATAATAATAGTAAATTACATATTA
* * * * * *
92281992 ATTATTATATATT-GTGTTTCTTATTATACT-AGTTGAATTATGGTCTAAGTCCCTATCTTCGTG
1 ATTATTATATATTATTGTTT-TTATTATACTGA-TTGAAATATGTTCTAAGTCCATATTTTCGTA
* * *
92282055 CATTTGAAAGCTAACCCTCCTAT-TATACTATATAATATTATATCATATCATATAATATATAATA
64 CATTTGAAAG-TTACTCTCCT-TCTATATTATATAATATTATATC-TATCATAT-ATATATAATA
* *
92282119 TATTAATAGTTCATATA
125 TATAAATAGTTTATATA
92282136 TATGCACATT
Statistics
Matches: 334, Mismatches: 47, Indels: 34
0.80 0.11 0.08
Matches are distributed among these distances:
250 40 0.12
251 13 0.04
252 7 0.02
253 42 0.13
254 113 0.34
255 30 0.09
256 3 0.01
257 11 0.03
258 73 0.22
259 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.45
Consensus pattern (252 bp):
ATTATTATATATTATTGTTTTTATTATACTGATTGAAATATGTTCTAAGTCCATATTTTCGTACA
TTTGAAAGTTACTCTCCTTCTATATTATATAATATTATATCTATCATATATATATAATATATAAA
TAGTTTATATAGCATATATATACATCAATGATTAAACATTATAATATCAAGCAATACTATATCTT
TTACTATAATCTATAATATAATAATAGTTATATATAATAATAGTAAATTACATATTA
Found at i:92282306 original size:9 final size:9
Alignment explanation
Indices: 92282277--92282313 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
92282267 GAGTTTTTTG
92282277 AATTCGAAT
1 AATTCGAAT
*
92282286 AACTCGAAT
1 AATTCGAAT
92282295 AATTCGAAT
1 AATTCGAAT
*
92282304 AATTAGAAT
1 AATTCGAAT
92282313 A
1 A
92282314 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:92283248 original size:5 final size:5
Alignment explanation
Indices: 92283238--92283263 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
92283228 GAACAAATAT
92283238 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
92283264 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:92288407 original size:18 final size:18
Alignment explanation
Indices: 92288386--92288420 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92288376 AGTAGTACAT
92288386 TATATATTACTTATTATA
1 TATATATTACTTATTATA
*
92288404 TATATATTATTTATTAT
1 TATATATTACTTATTAT
92288421 TTGTAACGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATATTACTTATTATA
Found at i:92289409 original size:63 final size:62
Alignment explanation
Indices: 92289342--92289520 Score: 193
Period size: 63 Copynumber: 2.8 Consensus size: 62
92289332 AAATACGAGC
*
92289342 CACACGGGCAAGAGACACAGGTGTGTGTTCAGGCCGTGTGACTCATTGTTTGTAATTAGAGAG
1 CACACGGGCAAGAGACACAGG-GTGTGTCCAGGCCGTGTGACTCATTGTTTGTAATTAGAGAG
* * * * *
92289405 CACACAGGCTAA-AGACACAGGCGTGTGTCCAGACCGTGTGACTCACTGTTTGTGATTAGAGGG
1 CACACGGGC-AAGAGACACAGG-GTGTGTCCAGGCCGTGTGACTCATTGTTTGTAATTAGAGAG
* * * *
92289468 TACACGGGTC-AGAGACAC-GGGCGTATACCTAGGCTGTGTGACTCATTGTTTGT
1 CACACGGG-CAAGAGACACAGGGTGTGT-CC-AGGCCGTGTGACTCATTGTTTGT
92289521 GATTTAGGAC
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
61 4 0.04
62 5 0.05
63 85 0.88
64 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (62 bp):
CACACGGGCAAGAGACACAGGGTGTGTCCAGGCCGTGTGACTCATTGTTTGTAATTAGAGAG
Found at i:92290698 original size:30 final size:28
Alignment explanation
Indices: 92290637--92290717 Score: 76
Period size: 30 Copynumber: 2.9 Consensus size: 28
92290627 ATCATATATT
* *
92290637 TTAT-TATAATTTATATTATAATAATAC
1 TTATATATTATTTATATTATAATAATAA
* *
92290664 TTATATATGTATTTATATTTTTAGTAATAA
1 TTATATAT-TATTTATA-TTATAATAATAA
*
92290694 TTATATATTATATTAT-TAATAATA
1 TTATATATTAT-TTATATTATAATA
92290718 TATTAGTAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
27 4 0.09
28 8 0.19
29 10 0.23
30 21 0.49
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (28 bp):
TTATATATTATTTATATTATAATAATAA
Found at i:92290718 original size:19 final size:18
Alignment explanation
Indices: 92290690--92290744 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
92290680 ATTTTTAGTA
*
92290690 ATAATTATATATTATATT
1 ATAATAATATATTATATT
*
92290708 ATTAATAATATATTAGTAAT
1 A-TAATAATATATTA-TATT
* *
92290728 ATACTAATTTATTATAT
1 ATAATAATATATTATAT
92290745 CAATTTAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.10
19 23 0.77
20 4 0.13
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAATAATATATTATATT
Found at i:92294468 original size:30 final size:30
Alignment explanation
Indices: 92294401--92294521 Score: 131
Period size: 30 Copynumber: 4.0 Consensus size: 30
92294391 AATCATGAAT
92294401 AAATTTTGATTTAATATTTAATT-TGATATAT-
1 AAATTTTGATTT-A-ATTTAATTAT-ATATATG
*
92294432 AAATTTTGATTTAATGTAATTATATATATG
1 AAATTTTGATTTAATTTAATTATATATATG
* * *
92294462 AAATTTTGATTTTATTTAAATATATACATG
1 AAATTTTGATTTAATTTAATTATATATATG
*
92294492 AAACTTTT-ATTTTAATTCAATTATATATAT
1 AAA-TTTTGA-TTTAATTTAATTATATATAT
92294522 TTAAAGATGT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
29 13 0.17
30 32 0.42
31 32 0.42
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.52
Consensus pattern (30 bp):
AAATTTTGATTTAATTTAATTATATATATG
Found at i:92299654 original size:21 final size:21
Alignment explanation
Indices: 92299628--92299668 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
92299618 TTATTGTTGT
*
92299628 TGCACTCGCATTTGTAATTGC
1 TGCACTCGAATTTGTAATTGC
92299649 TGCACTCGAATTTGTAATTG
1 TGCACTCGAATTTGTAATTG
92299669 TTCCCATAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (21 bp):
TGCACTCGAATTTGTAATTGC
Found at i:92301118 original size:21 final size:20
Alignment explanation
Indices: 92301080--92301118 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
92301070 TAAAATTAGT
*
92301080 TATTATAGCATGAGATTAAA
1 TATTATAGAATGAGATTAAA
*
92301100 TATTATAGTAATGATATTA
1 TATTATAG-AATGAGATTA
92301119 CAATCAGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.13, T:0.41
Consensus pattern (20 bp):
TATTATAGAATGAGATTAAA
Found at i:92301351 original size:19 final size:19
Alignment explanation
Indices: 92301310--92301352 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
92301300 ATGATATTTT
* *
92301310 TTATTATTGATGTAATTAT
1 TTATTATTGATGTAAATAA
* *
92301329 TTATTATTTATTTAAATAA
1 TTATTATTGATGTAAATAA
92301348 TTATT
1 TTATT
92301353 TTCTTTAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TTATTATTGATGTAAATAA
Found at i:92315095 original size:17 final size:17
Alignment explanation
Indices: 92315073--92315106 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
92315063 ATAAAACAAG
92315073 ACCAAAATTTTGTCATA
1 ACCAAAATTTTGTCATA
92315090 ACCAAAATTTTGTCATA
1 ACCAAAATTTTGTCATA
92315107 TTCATTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (17 bp):
ACCAAAATTTTGTCATA
Found at i:92315344 original size:21 final size:21
Alignment explanation
Indices: 92315320--92315366 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
92315310 GTTGAAACTT
* *
92315320 TAGATTTTAAATGTTTAATGA
1 TAGATTATAAAGGTTTAATGA
*
92315341 TAGATTATGAAGGTTTAATGA
1 TAGATTATAAAGGTTTAATGA
92315362 TAGAT
1 TAGAT
92315367 ATACAAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (21 bp):
TAGATTATAAAGGTTTAATGA
Found at i:92316087 original size:22 final size:22
Alignment explanation
Indices: 92316028--92316161 Score: 112
Period size: 22 Copynumber: 6.0 Consensus size: 22
92316018 TACTATTTTT
* * *
92316028 AGCTCATTGGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACTG-TTC
*
92316051 AGCTCGTATA-A-CTTACTGTTC
1 AGCTC-AATAGAGCTTACTGTTC
*
92316072 AGCTTAATAGAGCTTACTGTTC
1 AGCTCAATAGAGCTTACTGTTC
* *
92316094 AGCTC-GTATGAGCTTACTATTC
1 AGCTCAATA-GAGCTTACTGTTC
* *
92316116 AGCTCGATAGAGCTTACTGTTTT
1 AGCTCAATAGAGCTTACTG-TTC
* *
92316139 AGCTCATTAGAGCTTACTATTC
1 AGCTCAATAGAGCTTACTGTTC
92316161 A
1 A
92316162 TTAGCTCAGG
Statistics
Matches: 89, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
20 3 0.03
21 10 0.11
22 49 0.55
23 26 0.29
24 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (22 bp):
AGCTCAATAGAGCTTACTGTTC
Found at i:92316110 original size:44 final size:43
Alignment explanation
Indices: 92316002--92316136 Score: 137
Period size: 44 Copynumber: 3.0 Consensus size: 43
92315992 TACCGATATA
* * * *
92316002 TCAGCTCGTA-AGAGCTTACTATTTTTAGCTCATTGGAGCTTACCGTT
1 TCAGCTCGTATA-A-CTTACTA--TTCAGCTCAATAGAGCTTACTG-T
* *
92316049 TCAGCTCGTATAACTTACTGTTCAGCTTAATAGAGCTTACTGT
1 TCAGCTCGTATAACTTACTATTCAGCTCAATAGAGCTTACTGT
* *
92316092 TCAGCTCGTATGAGCTTACTATTCAGCTCGATAGAGCTTACTGT
1 TCAGCTCGTAT-AACTTACTATTCAGCTCAATAGAGCTTACTGT
92316136 T
1 T
92316137 TTAGCTCATT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
43 12 0.16
44 46 0.61
46 6 0.08
47 11 0.14
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (43 bp):
TCAGCTCGTATAACTTACTATTCAGCTCAATAGAGCTTACTGT
Found at i:92316460 original size:105 final size:105
Alignment explanation
Indices: 92316278--92316489 Score: 424
Period size: 105 Copynumber: 2.0 Consensus size: 105
92316268 TTCAACGGGC
92316278 TTAAATACTGTTATTACAGATAAGTTATGGGTTATAAGTGTTATTGATGTTATATGTATGATATG
1 TTAAATACTGTTATTACAGATAAGTTATGGGTTATAAGTGTTATTGATGTTATATGTATGATATG
92316343 TGAGTTTGGAATGATACATAGTATTATATTAATAGATGGT
66 TGAGTTTGGAATGATACATAGTATTATATTAATAGATGGT
92316383 TTAAATACTGTTATTACAGATAAGTTATGGGTTATAAGTGTTATTGATGTTATATGTATGATATG
1 TTAAATACTGTTATTACAGATAAGTTATGGGTTATAAGTGTTATTGATGTTATATGTATGATATG
92316448 TGAGTTTGGAATGATACATAGTATTATATTAATAGATGGT
66 TGAGTTTGGAATGATACATAGTATTATATTAATAGATGGT
92316488 TT
1 TT
92316490 CATAACATGT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 107 1.00
ACGTcount: A:0.33, C:0.03, G:0.21, T:0.43
Consensus pattern (105 bp):
TTAAATACTGTTATTACAGATAAGTTATGGGTTATAAGTGTTATTGATGTTATATGTATGATATG
TGAGTTTGGAATGATACATAGTATTATATTAATAGATGGT
Found at i:92323027 original size:21 final size:21
Alignment explanation
Indices: 92323003--92323042 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
92322993 CTTGAGCTTT
*
92323003 TGAATGTTTAATGATAGATTA
1 TGAAGGTTTAATGATAGATTA
92323024 TGAAGGTTTAATGATAGAT
1 TGAAGGTTTAATGATAGAT
92323043 ATACAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (21 bp):
TGAAGGTTTAATGATAGATTA
Found at i:92323115 original size:15 final size:14
Alignment explanation
Indices: 92323090--92323133 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
92323080 TCAAATAGGG
*
92323090 ATTAAATTGTGAAA
1 ATTAAAATGTGAAA
92323104 ATGTAAAATGTGAAA
1 AT-TAAAATGTGAAA
*
92323119 GTTAAAAGTGTGAAA
1 ATTAAAA-TGTGAAA
92323134 TAATGAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 7 0.27
15 19 0.73
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (14 bp):
ATTAAAATGTGAAA
Found at i:92323788 original size:22 final size:23
Alignment explanation
Indices: 92323702--92323778 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
92323692 AGTTTACTGT
*
92323702 TTTCAGCTC-ATTGGAGCTTACCG
1 TTTCAGCTCGA-TAGAGCTTACCG
*
92323725 TTTCAGCTCGATAGAGCTTACTG
1 TTTCAGCTCGATAGAGCTTACCG
92323748 -TTCAGCTCGATAGAGCTTACCG
1 TTTCAGCTCGATAGAGCTTACCG
*
92323770 TTTTAGCTC
1 TTTCAGCTC
92323779 ATTAGACTTA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.44
23 26 0.54
24 1 0.02
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (23 bp):
TTTCAGCTCGATAGAGCTTACCG
Found at i:92327230 original size:48 final size:48
Alignment explanation
Indices: 92327167--92327296 Score: 188
Period size: 48 Copynumber: 2.7 Consensus size: 48
92327157 ACATTACGGG
**
92327167 AGCCAGTGTAAGACATGTCTGGGACATGCATTGACCTCGAGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
*
92327215 AGCCAGTGAAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
** * *
92327263 AGCTGGTGTAAGACCTATCTGGGACATGGCATCA
1 AGCCAGTGTAAGACATGTCTGGGACAT-GCATCA
92327297 GCTTGTTGTG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 67 0.92
49 6 0.08
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAACCTCGAGATATACA
Found at i:92327375 original size:49 final size:49
Alignment explanation
Indices: 92327166--92327388 Score: 149
Period size: 48 Copynumber: 4.7 Consensus size: 49
92327156 CACATTACGG
* ** ** *
92327166 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATTGACCTCGAGATATAC
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACAGCGAGAGATAC
* * * ** *
92327214 AAGCCAGTGAAAGACATGTCTGGGACAT-GCATCAACCTCGAGATATAC
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACAGCGAGAGATAC
* ** * ** *
92327262 AAGCTGGTGTAAGACCTATCTGGGACATGGCAT---CAGCTTGTTG-T--
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACAGCGAG-AGATAC
* * *
92327306 GCGTCAGTGTAAGACCTGTCTGGGACATGGCATCAACAGCGATAGATGA-
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACAGCGAGAGAT-AC
* *
92327355 GAGCCAGTGTAAGACCTGTCTAGGACATGACATC
1 GAGCCAGTGTAAGACCTGTCTGGGACATGGCATC
92327389 GACTTTGATG
Statistics
Matches: 138, Mismatches: 29, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
44 27 0.20
46 5 0.04
47 5 0.04
48 67 0.49
49 34 0.25
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCTGTCTGGGACATGGCATCAACAGCGAGAGATAC
Found at i:92330059 original size:37 final size:37
Alignment explanation
Indices: 92330009--92330155 Score: 249
Period size: 37 Copynumber: 4.0 Consensus size: 37
92329999 CTTTAGCTCA
* *
92330009 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
92330046 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
92330083 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
92330120 GACATAATCTCCACACGTAGTCATCGGGTCTTACCC
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
92330156 CAATATATTT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Done.