Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 322 of 332
Found at i:105771884 original size:131 final size:130
Alignment explanation
Indices: 105771634--105771973 Score: 434
Period size: 131 Copynumber: 2.6 Consensus size: 130
105771624 TAATTATTCA
* * *
105771634 TTTAAAAATTCTTTAAAACGAATGCAATGTTTGATGTTTGGCAATTCGGGGAATCGTGCCCTATT
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * * * *
105771699 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCGAGTATTCCTTTGGAATTTAACTCATGT
66 GTGCTGGGTTTCAATTTCCCGTTTGTTCAAAACAATCGAATATCCCTGTAGAATTTAACTCACGT
*
105771764 CTTTAAAAATTCTTTAAAACGAAGGCAACGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
1 -TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* *
105771829 CGTGCTGGGTTTCAATTTCCCGTTTGTTCAAAACAATTGAATATCCCTGTAGAATTTCACTCACG
65 CGTGCTGGGTTTCAATTTCCCGTTTGTTCAAAACAATCGAATATCCCTGTAGAATTTAACTCACG
105771894 T
130 T
** * * * * * * *
105771895 TTTCTAAATTC--TAAAA-TAAGGCAATGTTCAAAGTTTAGAAATTCAGGGAATCGTGCCCTACC
1 TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* *
105771957 GCGCTGGGTTTCGATTT
66 GTGCTGGGTTTCAATTT
105771974 TTCTTTGGAC
Statistics
Matches: 184, Mismatches: 25, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
127 53 0.29
128 5 0.03
130 9 0.05
131 117 0.64
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (130 bp):
TTTAAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTTCAATTTCCCGTTTGTTCAAAACAATCGAATATCCCTGTAGAATTTAACTCACGT
Found at i:105783535 original size:77 final size:78
Alignment explanation
Indices: 105783439--105783726 Score: 445
Period size: 77 Copynumber: 3.7 Consensus size: 78
105783429 AATAGTAGTA
* *
105783439 GAGCAGATCGAAGAAGCAAGCCTTAACCCCTTAAGTATTAGGGTAACAGGCTGAAGATTGCAGAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
105783504 CTC-TCTCCAGTG
66 CTCGTCTCCAGTG
* *
105783516 GAGTAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACA-GCTGAAGATTGCAAAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
* *
105783580 CTCGTATCCAGCG
66 CTCGTCTCCAGTG
* *
105783593 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAGATTACAGAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
105783658 CTCGTCTCCAGTG
66 CTCGTCTCCAGTG
* * * *
105783671 GAGCAGATCAAAGAAAACAAACCTTAACCCCCTAAGTAGTAGGGTAACAGGTTGAA
1 GAGCAGATCGAAG-AAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAA
105783727 AATTACAAGT
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
76 18 0.09
77 98 0.51
78 37 0.19
79 38 0.20
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (78 bp):
GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
CTCGTCTCCAGTG
Found at i:105786603 original size:131 final size:131
Alignment explanation
Indices: 105786359--105786614 Score: 368
Period size: 131 Copynumber: 2.0 Consensus size: 131
105786349 TAATTATTCA
** * * * * *
105786359 TTTAAAAATTCTTTAAAACGAAGGCAAGGTTCGGTGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAACATTCGATGTTTGACAATTCGGGAAACCATGCCCTATC
* * * * *
105786424 CTGCTGGGTTGCAATTTACCGTTTGTTCAAAATAATCGAGTATTCCTTTGGAATTTCACTCATGT
66 CTGCTGGGTTGCAATTTACCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACTCATGT
105786489 C
131 C
* *
105786490 TTTAAAAATTCTTTATAACGAAGGCAACATTTGATGTTTGACAATTCGGGAAACCATGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAACATTCGATGTTTGACAATTCGGGAAACCATGCCCTATC
* *
105786555 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACT
66 CTGCTGGGTTGCAATTTACCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACT
105786615 AATATTTTCT
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 109 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCAACATTCGATGTTTGACAATTCGGGAAACCATGCCCTATC
CTGCTGGGTTGCAATTTACCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACTCATGT
C
Found at i:105787926 original size:13 final size:13
Alignment explanation
Indices: 105787908--105787933 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
105787898 TAAAAAATCA
105787908 CTCGACACAATAG
1 CTCGACACAATAG
105787921 CTCGACACAATAG
1 CTCGACACAATAG
105787934 ATTTAGTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (13 bp):
CTCGACACAATAG
Found at i:105790923 original size:15 final size:16
Alignment explanation
Indices: 105790903--105790940 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
105790893 CTTTAAATTG
*
105790903 TAATTATTAT-TAAAA
1 TAATTAATATATAAAA
105790918 TAATTAATATATAAAA
1 TAATTAATATATAAAA
*
105790934 TATTTAA
1 TAATTAA
105790941 AAATAGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAATATATAAAA
Found at i:105792130 original size:44 final size:44
Alignment explanation
Indices: 105792082--105792396 Score: 185
Period size: 44 Copynumber: 7.2 Consensus size: 44
105792072 GACAAAAGAT
* *
105792082 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
* * * ** * * * *
105792126 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGGTCGAAGACACAA-AC
* *
105792170 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
* * * ** ** * * * *
105792214 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACAGCGAAGCAGGTCGAAGACACAA-AC
*
105792258 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
* * * ** ** * * * *
105792302 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACAGCGAAGCAGGTCGAAGACACAA-AC
*
105792346 CTTGCCTTCCTGCATTGACAGTGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
105792390 CTTGCCT
1 CTTGCCT
105792397 CTCTCGGTTG
Statistics
Matches: 188, Mismatches: 69, Indels: 28
0.66 0.24 0.10
Matches are distributed among these distances:
43 54 0.29
44 79 0.42
45 55 0.29
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
Found at i:105792186 original size:88 final size:88
Alignment explanation
Indices: 105792026--105792596 Score: 764
Period size: 88 Copynumber: 6.5 Consensus size: 88
105792016 ACAGATCAAT
*
105792026 GAAGTCACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
*
105792091 CTACATTGACAGCGAAGCAGATC
66 CTGCATTGACAGCGAAGCAGATC
* *
105792114 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
105792179 CTGCATTGACAGCGAAGCAGATC
66 CTGCATTGACAGCGAAGCAGATC
* *
105792202 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGATCTTGCCTTC
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
105792267 CTGCATTGACAGCGAAGCAGATC
66 CTGCATTGACAGCGAAGCAGATC
* *
105792290 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGATCTTGCCTTC
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
* *
105792355 CTGCATTGACAGTGAAGCAGGTC
66 CTGCATTGACAGCGAAGCAGATC
* **
105792378 GAAGACACAAACCTTGCCTCTCTCGGTTGT-AGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGA-TGGAGCTGGTTAAAGACAAAAGATCTTGCCTT
* *
105792441 CCTACATTAACAGCGAAGCAGATC
65 CCTGCATTGACAGCGAAGCAGATC
* ** * * * **
105792465 GAA-A-ACAAAGCCTTGCATCCATCGATTG-CAGTGGAGCTAGTTAAAGA-AGCAGATCTTGCCT
1 GAAGACACAAA-CCTTGCCTCTTTCGGTTGTGA-TGGAGCTGGTTAAAGACAAAAGATCTTGCCT
* *
105792526 TCCTGCATTAACAGCAAAGCAGATC
64 TCCTGCATTGACAGCGAAGCAGATC
* * ** *
105792551 -AA-AAACAAAGACTTGCCTCCATCGGTTG-CATTGGAGCTGGTTAAAG
1 GAAGACACAAA-CCTTGCCTCTTTCGGTTGTGA-TGGAGCTGGTTAAAG
105792597 GTTACAGATT
Statistics
Matches: 450, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
85 8 0.02
86 106 0.24
87 37 0.08
88 299 0.66
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.25
Consensus pattern (88 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTTAAAGACAAAAGATCTTGCCTTC
CTGCATTGACAGCGAAGCAGATC
Found at i:105793406 original size:20 final size:20
Alignment explanation
Indices: 105793381--105793420 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
105793371 CATGACGGAA
105793381 GCAGC-AACAGAAACAGAAAC
1 GCAGCAAACAGAAACA-AAAC
*
105793401 GCAGCAAACAGTAACAAAAC
1 GCAGCAAACAGAAACAAAAC
105793421 AACAATAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.55, C:0.25, G:0.17, T:0.03
Consensus pattern (20 bp):
GCAGCAAACAGAAACAAAAC
Found at i:105796073 original size:15 final size:16
Alignment explanation
Indices: 105796053--105796090 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
105796043 GTGTCAACAG
*
105796053 TAATTATTAT-TAAAA
1 TAATTAATATATAAAA
105796068 TAATTAATATATAAAA
1 TAATTAATATATAAAA
*
105796084 TATTTAA
1 TAATTAA
105796091 AAATAGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAATTAATATATAAAA
Found at i:105801766 original size:131 final size:131
Alignment explanation
Indices: 105801573--105801904 Score: 453
Period size: 131 Copynumber: 2.6 Consensus size: 131
105801563 TAATTATTCA
* *
105801573 TTTAAAAATTCTTAAAACAAAGGCAATGTTCGATGTTTGGCAACTCGGGGAATCGTGCCCTATCG
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
* *
105801638 TGCTGGGTTGCAATTTCCAGTTT-GTTCAAAACAATCGAATATCCCTTTGGAATTTTACTCATG-
66 TGCTGGGTTGCAATTTCCAGTTTAG-TCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGT
105801701 TC
130 TC
* *
105801703 TTTAAAAATTCTTCAAAACGAAGGTAATGTTTGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * *
105801768 GTGCTAGGTTGCAATTTCCCGTTTAGTCAAAATAATCGAATATCCCTTTAGAATTTCACTCGTGT
65 GTGCTGGGTTGCAATTTCCAGTTTAGTCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGT
105801833 TC
130 TC
* * * * *
105801835 TCT--AAATTC-TAAAATG-AGGCAATGTTCGATGTTTAGAAATTCGAGGAATCGTGCCCTA-CT
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC-
105801895 GTGCTGGGTT
65 GTGCTGGGTT
105801905 TCAGTTTTTT
Statistics
Matches: 180, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
126 1 0.01
127 46 0.26
128 5 0.03
129 1 0.01
130 19 0.11
131 103 0.57
132 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (131 bp):
TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCG
TGCTGGGTTGCAATTTCCAGTTTAGTCAAAACAATCGAATATCCCTTTAGAATTTCACTCATGTT
C
Found at i:105803930 original size:6 final size:6
Alignment explanation
Indices: 105803919--105803948 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
105803909 TTTTTTATAT
105803919 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
105803949 TAAAATGACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:105815558 original size:64 final size:64
Alignment explanation
Indices: 105815452--105815585 Score: 214
Period size: 64 Copynumber: 2.1 Consensus size: 64
105815442 TTAATTCTTG
* *
105815452 GTTTAATATTTCTAGAATATTGATCCATGTTTGATCTACTTAAATCAAAGGTTGAATAGACCCT
1 GTTTAATATTTCTAGAATATTAATCCATGTTTGATCTACTTAAATCAAAGGTTAAATAGACCCT
* * * *
105815516 GTTTAATATTTTTAGAGTATTAATCCATGTTTGATGTGCTTAAATCAAAGGTTAAATAGACCCT
1 GTTTAATATTTCTAGAATATTAATCCATGTTTGATCTACTTAAATCAAAGGTTAAATAGACCCT
105815580 GTTTAA
1 GTTTAA
105815586 GAGTAGATCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (64 bp):
GTTTAATATTTCTAGAATATTAATCCATGTTTGATCTACTTAAATCAAAGGTTAAATAGACCCT
Found at i:105818193 original size:18 final size:19
Alignment explanation
Indices: 105818167--105818206 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
105818157 TCGAATCACC
105818167 TTTGCTTTAATAAAAC-GT
1 TTTGCTTTAATAAAACGGT
* *
105818185 TTTGGTTTATTAAAACGGT
1 TTTGCTTTAATAAAACGGT
105818204 TTT
1 TTT
105818207 TTTGGTCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.50
Consensus pattern (19 bp):
TTTGCTTTAATAAAACGGT
Found at i:105819121 original size:28 final size:28
Alignment explanation
Indices: 105819089--105819164 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 28
105819079 TAGAATATAT
105819089 ATATATATAAGAAATTTTAAAATAAGTA
1 ATATATATAAGAAATTTTAAAATAAGTA
** * *
105819117 ATATAGGT--GAAAGTTTGAAATAAGTA
1 ATATATATAAGAAATTTTAAAATAAGTA
*
105819143 ATATATGAGAA-AAATTTTAAAA
1 ATATAT-ATAAGAAATTTTAAAA
105819165 AAAACAGATG
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
26 21 0.58
28 15 0.42
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (28 bp):
ATATATATAAGAAATTTTAAAATAAGTA
Found at i:105819154 original size:26 final size:26
Alignment explanation
Indices: 105819091--105819154 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
105819081 GAATATATAT
* *
105819091 ATATATAAGAAATTTTAAAATAAGTA
1 ATATATGAGAAAGTTTAAAATAAGTA
* * *
105819117 ATATAGGTGAAAGTTTGAAATAAGTA
1 ATATATGAGAAAGTTTAAAATAAGTA
105819143 ATATATGAGAAA
1 ATATATGAGAAA
105819155 AATTTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (26 bp):
ATATATGAGAAAGTTTAAAATAAGTA
Found at i:105819406 original size:25 final size:25
Alignment explanation
Indices: 105819313--105819413 Score: 75
Period size: 25 Copynumber: 4.0 Consensus size: 25
105819303 AAAAAAATAG
* * *
105819313 ATAATACATATAAAAAATTTGAAATTA
1 ATAATAC--ATAACAAATTTAAAATGA
* * *
105819340 ATAATACGTGAA-AAATTTTAAAGTAA
1 ATAATACAT-AACAAA-TTTAAAATGA
*
105819366 ATAATA-A-AAC-AGTTTAAAATGA
1 ATAATACATAACAAATTTAAAATGA
105819388 ATAATACATAACAAATTTAAAATGA
1 ATAATACATAACAAATTTAAAATGA
105819413 A
1 A
105819414 CAATGTACAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
22 14 0.24
23 4 0.07
24 3 0.05
25 16 0.27
26 15 0.25
27 7 0.12
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (25 bp):
ATAATACATAACAAATTTAAAATGA
Found at i:105828806 original size:28 final size:26
Alignment explanation
Indices: 105828735--105828808 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 26
105828725 AATTTAACCC
* *
105828735 TAGGGGTATT-TCAGTAATTTTGTACC
1 TAGGGGTATTAT-AGTAATTTTATACA
* * *
105828761 TAGGGGTATAACAATAATTTTCCATACA
1 TAGGGGTATTATAGTAATTTT--ATACA
105828789 TAGGGGTATTATAGTAATTT
1 TAGGGGTATTATAGTAATTT
105828809 ATCTATTCTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 17 0.46
28 20 0.54
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (26 bp):
TAGGGGTATTATAGTAATTTTATACA
Found at i:105830286 original size:26 final size:26
Alignment explanation
Indices: 105830255--105830362 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
105830245 TGAAATGCCC
*
105830255 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
105830281 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
105830307 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
105830333 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105830359 ATCA
1 ATCA
105830363 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105839573 original size:78 final size:78
Alignment explanation
Indices: 105839399--105839693 Score: 439
Period size: 78 Copynumber: 3.8 Consensus size: 78
105839389 AATAGTAGTA
* * *
105839399 GAGCAGATCGAAGAAGCAAGCCTTAACCCCTTAAATATTAGGGTAACAGGCTGAAGATTGCAGAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
105839464 CTC-TCTCCAGTG
66 CTCGTCTCCAGTG
* * *
105839476 GAGTAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAAGCTGAAGATTGCAAAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
*
105839541 CTCGTCTCCAGCG
66 CTCGTCTCCAGTG
* *
105839554 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAGATTACAGAT
1 GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
105839619 CTCGTCTCCAGTG
66 CTCGTCTCCAGTG
* * * * **
105839632 GAGCAGATCAAAGAAAACAAACCTTAACCCCCTAAGTAGTAGGGTGACAGGCCAAAGATTGC
1 GAGCAGATCGAAG-AAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGC
105839694 GGATTTTGTC
Statistics
Matches: 195, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
77 62 0.32
78 92 0.47
79 41 0.21
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.19
Consensus pattern (78 bp):
GAGCAGATCGAAGAAGCAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAGATTGCAGAT
CTCGTCTCCAGTG
Found at i:105842656 original size:131 final size:131
Alignment explanation
Indices: 105842412--105842667 Score: 368
Period size: 131 Copynumber: 2.0 Consensus size: 131
105842402 TAATTATTCA
** * * * * *
105842412 TTTAAAAATTCTTTAAAACGAAGGCAAGGTTCGGTGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAACATTCGATGTTTGACAATTCGGGAAACCATGCCCTATC
* * * * *
105842477 CTGCTGGGTTGCAATTTACCGTTTGTTCAAAATAATCGAGTATTCCTTTGGAATTTCACTCATGT
66 CTGCTGGGTTGCAATTTACCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACTCATGT
105842542 C
131 C
* *
105842543 TTTAAAAATTCTTTATAACGAAGGCAACATTTGATGTTTGACAATTCGGGAAACCATGCCCTATC
1 TTTAAAAATTCTTTAAAACGAAGGCAACATTCGATGTTTGACAATTCGGGAAACCATGCCCTATC
* *
105842608 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACT
66 CTGCTGGGTTGCAATTTACCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACT
105842668 AATATTTTCT
Statistics
Matches: 109, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
131 109 1.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (131 bp):
TTTAAAAATTCTTTAAAACGAAGGCAACATTCGATGTTTGACAATTCGGGAAACCATGCCCTATC
CTGCTGGGTTGCAATTTACCGTTTGTTCAAAACAATCAAATATCCCTTTAGAATTTCACTCATGT
C
Found at i:105847535 original size:79 final size:78
Alignment explanation
Indices: 105847400--105847690 Score: 362
Period size: 79 Copynumber: 3.8 Consensus size: 78
105847390 AGACAAAATC
** * * * *
105847400 GCAATCTTTGGCCTGTCACCCTACTACTTAGGGGTTAAGGTTTGTTTTCTTTGATCTGCTCCACT
1 GCAATCTTCAGCCTGTTACCCTACTACTTAGGGGTTAAGGCTTG-CTTCTTCGATCTGCTCCACT
*
105847465 TGAGACGAGATCTT
65 GGAGACGAGATCTT
** * *
105847479 ATAATCTTCAGCCTATTACCCTACTTACTTAGGGGGTTAAGGC-TGCTTCTTCGATCTGCTCCGC
1 GCAATCTTCAGCCTGTTACCCTAC-TACTTA-GGGGTTAAGGCTTGCTTCTTCGATCTGCTCCAC
105847543 TGGAGACGAGAT-TT
64 TGGAGACGAGATCTT
* *
105847557 GCAATCTTCAGCTTGTTACCCTACTACTTA-GGGTTAAGGCTTGCTTCTTCGATCTACTCCACTG
1 GCAATCTTCAGCCTGTTACCCTACTACTTAGGGGTTAAGGCTTGCTTCTTCGATCTGCTCCACTG
105847621 GAGA-GAGATC-T
66 GAGACGAGATCTT
* *
105847632 GCAATCTTCAGCCTGTT-CCCTA-TATTTAAGGGTTAAGGCTTGCTTCTTCGATTCTGCTC
1 GCAATCTTCAGCCTGTTACCCTACTACTTAGGGGTTAAGGCTTGCTTCTTCGA-TCTGCTC
105847691 TACTACTTAT
Statistics
Matches: 186, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
73 5 0.03
74 27 0.15
75 38 0.20
76 25 0.13
77 6 0.03
78 22 0.12
79 45 0.24
80 8 0.04
81 10 0.05
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (78 bp):
GCAATCTTCAGCCTGTTACCCTACTACTTAGGGGTTAAGGCTTGCTTCTTCGATCTGCTCCACTG
GAGACGAGATCTT
Found at i:105931737 original size:26 final size:26
Alignment explanation
Indices: 105931706--105931813 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
105931696 TGAAATGCCC
*
105931706 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
105931732 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
105931758 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
105931784 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105931810 ATCA
1 ATCA
105931814 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105938755 original size:26 final size:26
Alignment explanation
Indices: 105938724--105938831 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
105938714 TGAAATGCCC
*
105938724 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
105938750 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
105938776 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
105938802 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
105938828 ATCA
1 ATCA
105938832 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:105941814 original size:17 final size:18
Alignment explanation
Indices: 105941769--105941814 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
105941759 ATTACTCATC
105941769 TATTTATA-TTTCTTATG
1 TATTTATATTTTCTTATG
105941786 TATTTATATTTTCATTAT-
1 TATTTATATTTTC-TTATG
105941804 TA-TTATATTTT
1 TATTTATATTTT
105941815 AGATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
18 6 0.22
19 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTATATTTTCTTATG
Found at i:105941858 original size:26 final size:26
Alignment explanation
Indices: 105941802--105941859 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
105941792 TATTTTCATT
105941802 ATTA-TTATATTTTAGATATTATATC
1 ATTATTTATATTTTAGATATTATATC
*
105941827 -TATATTTATA-TTTAGGTATTAATATC
1 AT-TATTTATATTTTAGATATT-ATATC
105941853 ATTATTT
1 ATTATTT
105941860 TACTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTATTTATATTTTAGATATTATATC
Found at i:105941904 original size:18 final size:18
Alignment explanation
Indices: 105941883--105941925 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
105941873 TTTTTCATAC
*
105941883 TATTATTATTATCACTAT
1 TATTATTATTAGCACTAT
*
105941901 TATTACTATTAGCACTAT
1 TATTATTATTAGCACTAT
*
105941919 TTTTATT
1 TATTATT
105941926 TGCTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTAGCACTAT
Found at i:105946980 original size:24 final size:24
Alignment explanation
Indices: 105946952--105947012 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
105946942 AACCGTATTT
* * *
105946952 GCACACATAGTGCTA-ATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
105946976 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
105947000 GCACACATAGTGC
1 GCACACATAGTGC
105947013 ATTGGACTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.34, C:0.30, G:0.16, T:0.20
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:105949350 original size:9 final size:9
Alignment explanation
Indices: 105949336--105949364 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
105949326 CGCTTTTTTA
105949336 CATTCATTG
1 CATTCATTG
105949345 CATTCATTG
1 CATTCATTG
105949354 CATTCA-TG
1 CATTCATTG
105949362 CAT
1 CAT
105949365 CGGCATTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.41
Consensus pattern (9 bp):
CATTCATTG
Found at i:105952205 original size:3 final size:3
Alignment explanation
Indices: 105952199--105952250 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
105952189 ATTATGTTTT
*
105952199 TTA TTA -TA TTA TTA TTA ATA -TA TTA -TA TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105952242 -TA TTA TTA T
1 TTA TTA TTA T
105952251 ATATATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
2 12 0.29
3 30 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:105952210 original size:5 final size:5
Alignment explanation
Indices: 105952200--105952258 Score: 61
Period size: 5 Copynumber: 11.6 Consensus size: 5
105952190 TTATGTTTTT
105952200 TATTA TATTA TTATTA -A-TA TATTA TATTA TATTA TATTA T-TATA TTATTA
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA
105952250 TATATA TAT
1 TAT-TA TAT
105952259 GACAAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
3 2 0.04
4 3 0.06
5 28 0.60
6 13 0.28
7 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:105952212 original size:8 final size:8
Alignment explanation
Indices: 105952199--105952252 Score: 63
Period size: 8 Copynumber: 6.1 Consensus size: 8
105952189 ATTATGTTTT
105952199 TTATTATA
1 TTATTATA
105952207 TTATTATTAA
1 TTATTA-T-A
105952217 TATATTATA
1 T-TATTATA
105952226 TTATATTATA
1 -T-TATTATA
105952236 TTATTATA
1 TTATTATA
105952244 TTATTATA
1 TTATTATA
105952252 T
1 T
105952253 ATATATGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
8 22 0.52
9 3 0.07
10 12 0.29
11 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:105952324 original size:40 final size:40
Alignment explanation
Indices: 105952267--105952362 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
105952257 ATGACAAAGA
105952267 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
105952308 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
105952348 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
105952363 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:105953128 original size:29 final size:30
Alignment explanation
Indices: 105953069--105953126 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
105953059 TCCGAGCCTT
*
105953069 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
105953099 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
105953127 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:105953356 original size:13 final size:13
Alignment explanation
Indices: 105953338--105953369 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
105953328 TTTCCAGCAA
105953338 TTATGAATTTATT
1 TTATGAATTTATT
105953351 TTATGAATTTATT
1 TTATGAATTTATT
*
105953364 TGATGA
1 TTATGA
105953370 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:105953577 original size:50 final size:50
Alignment explanation
Indices: 105953464--105953705 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
105953454 ATTTGGGTAA
* * *
105953464 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
105953520 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
105953570 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
105953620 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
105953670 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
105953706 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:105953653 original size:100 final size:103
Alignment explanation
Indices: 105953464--105953713 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
105953454 ATTTGGGTAA
105953464 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
105953529 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
105953570 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
105953632 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
105953670 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
105953714 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:105956165 original size:13 final size:13
Alignment explanation
Indices: 105956147--105956174 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
105956137 TGATCTCTTC
105956147 TGGGTATTCTATA
1 TGGGTATTCTATA
105956160 TGGGTATTCTATA
1 TGGGTATTCTATA
105956173 TG
1 TG
105956175 CTCTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.25, T:0.46
Consensus pattern (13 bp):
TGGGTATTCTATA
Found at i:105958139 original size:3 final size:3
Alignment explanation
Indices: 105958133--105958184 Score: 53
Period size: 3 Copynumber: 19.3 Consensus size: 3
105958123 TAATTATGTT
*
105958133 TTA TTA -TA TTA TTA TTA ATA -TA TTA -TA TTA -TA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
105958176 -TA TTA TTA T
1 TTA TTA TTA T
105958185 ATATATATGA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
2 12 0.29
3 30 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:105958144 original size:5 final size:5
Alignment explanation
Indices: 105958134--105958192 Score: 61
Period size: 5 Copynumber: 11.6 Consensus size: 5
105958124 AATTATGTTT
105958134 TATTA TATTA TTATTA -A-TA TATTA TATTA TATTA TATTA T-TATA TTATTA
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TAT-TA -TATTA
105958184 TATATA TAT
1 TAT-TA TAT
105958193 GACAAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
3 2 0.04
4 3 0.06
5 28 0.60
6 13 0.28
7 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:105958146 original size:8 final size:8
Alignment explanation
Indices: 105958133--105958186 Score: 63
Period size: 8 Copynumber: 6.1 Consensus size: 8
105958123 TAATTATGTT
105958133 TTATTATA
1 TTATTATA
105958141 TTATTATTAA
1 TTATTA-T-A
105958151 TATATTATA
1 T-TATTATA
105958160 TTATATTATA
1 -T-TATTATA
105958170 TTATTATA
1 TTATTATA
105958178 TTATTATA
1 TTATTATA
105958186 T
1 T
105958187 ATATATGACA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
8 22 0.52
9 3 0.07
10 12 0.29
11 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TTATTATA
Found at i:105958258 original size:40 final size:40
Alignment explanation
Indices: 105958201--105958296 Score: 147
Period size: 40 Copynumber: 2.4 Consensus size: 40
105958191 ATGACAAAGA
105958201 AAGAAAGAAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
1 AAGAAAG-AAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
* *
105958242 GAGAAAGAAAGAAACAGAGAGCAAAACGAAACAGAGAAGG
1 AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
*
105958282 AAGGAAGGAAAGAAA
1 AA-GAAAGAAAGAAA
105958297 GAAAGAAAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 33 0.66
41 17 0.34
ACGTcount: A:0.64, C:0.08, G:0.28, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAGAAACAGAGAGCAAAACAAAACAGAGAAGG
Found at i:105959062 original size:29 final size:30
Alignment explanation
Indices: 105959003--105959060 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
105958993 TCCGAGCCTT
*
105959003 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
105959033 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
105959061 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:105959290 original size:13 final size:13
Alignment explanation
Indices: 105959272--105959303 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
105959262 TTTCCAGCAA
105959272 TTATGAATTTATT
1 TTATGAATTTATT
105959285 TTATGAATTTATT
1 TTATGAATTTATT
*
105959298 TGATGA
1 TTATGA
105959304 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:105959511 original size:50 final size:50
Alignment explanation
Indices: 105959398--105959639 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
105959388 ATTTGGGTAA
* * *
105959398 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
105959454 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
105959504 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
105959554 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
105959604 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
105959640 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:105959587 original size:100 final size:103
Alignment explanation
Indices: 105959398--105959647 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
105959388 ATTTGGGTAA
105959398 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
105959463 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
105959504 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
105959566 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
105959604 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
105959648 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:105968785 original size:3 final size:3
Alignment explanation
Indices: 105968777--105968805 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
105968767 ATCTACTCAC
105968777 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
105968806 ATCTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:105969402 original size:17 final size:18
Alignment explanation
Indices: 105969357--105969402 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
105969347 ATTACTCATC
105969357 TATTTATA-TTTCTTATG
1 TATTTATATTTTCTTATG
105969374 TATTTATATTTTCATTAT-
1 TATTTATATTTTC-TTATG
105969392 TA-TTATATTTT
1 TATTTATATTTT
105969403 AGATATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 17 0.63
18 6 0.22
19 4 0.15
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTTATATTTTCTTATG
Found at i:105969446 original size:26 final size:26
Alignment explanation
Indices: 105969390--105969447 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
105969380 TATTTTCATT
105969390 ATTA-TTATATTTTAGATATTATATC
1 ATTATTTATATTTTAGATATTATATC
*
105969415 -TATATTTATA-TTTAGGTATTAATATC
1 AT-TATTTATATTTTAGATATT-ATATC
105969441 ATTATTT
1 ATTATTT
105969448 TACTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTATTTATATTTTAGATATTATATC
Found at i:105969492 original size:18 final size:18
Alignment explanation
Indices: 105969471--105969513 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
105969461 TTTTTCATAC
*
105969471 TATTATTATTATCACTAT
1 TATTATTATTAGCACTAT
*
105969489 TATTACTATTAGCACTAT
1 TATTATTATTAGCACTAT
*
105969507 TTTTATT
1 TATTATT
105969514 TGCTATTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTATTAGCACTAT
Found at i:105980503 original size:26 final size:26
Alignment explanation
Indices: 105980461--105980531 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
105980451 TTTTTAGTAC
*
105980461 TTTTGCTATTATTATTATTATTAT-A
1 TTTTACTATTATTATTATTATTATCA
*
105980486 TTATTATTATTATTATTATTATTATCA
1 TT-TTACTATTATTATTATTATTATCA
*
105980513 TTTTACTATTATTAGTATT
1 TTTTACTATTATTATTATT
105980532 GGTATTATTG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.05
26 35 0.88
27 3 0.08
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTTACTATTATTATTATTATTATCA
Found at i:105980540 original size:3 final size:3
Alignment explanation
Indices: 105980467--105980531 Score: 89
Period size: 3 Copynumber: 22.3 Consensus size: 3
105980457 GTACTTTTGC
*
105980467 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
105980514 T-T TAC TAT TAT TAG TAT T
1 TAT TAT TAT TAT TAT TAT T
105980532 GGTATTATTG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
2 4 0.07
3 50 0.93
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:105993627 original size:218 final size:218
Alignment explanation
Indices: 105993280--105993850 Score: 940
Period size: 218 Copynumber: 2.6 Consensus size: 218
105993270 AAAGAATTTC
* * * *
105993280 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGAT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGAAG-T
*
105993344 TACAATGGAGCGG-----ATTAAAGGATCTTATCT-CCTGAAGTTACAGTAGAGAAGATCACATC
64 TACAGTGGAGCGGATTAAATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGAAGATCACATC
105993403 AGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGG
129 AGGTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGG
105993468 TTACAGTGGAGCAGATTGAAGCCAG
194 TTACAGTGGAGCAGATTGAAGCCAG
105993493 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
105993558 CAGTGGAGCGGATTAAATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGAAGATCACATCAG
66 CAGTGGAGCGGATTAAATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGAAGATCACATCAG
*
105993623 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCTTGAGGTT
131 GTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTT
*
105993688 ACAGTGGGGCAGATTGAAGCCAG
196 ACAGTGGAGCAGATTGAAGCCAG
*
105993711 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
* * * * ** *
105993776 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTGGATCACATCAA
66 CAGTGGAGCGGATTAAATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGAAGATCACATCAG
105993841 GTCTTATCTC
131 GTCTTATCTC
105993851 TCTAAGCAAT
Statistics
Matches: 336, Mismatches: 15, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
212 26 0.08
213 44 0.13
217 17 0.05
218 249 0.74
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (218 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGAAGATCACATCAG
GTCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGAATTTCGGATCTTATCTCCCTGAGGTT
ACAGTGGAGCAGATTGAAGCCAG
Found at i:105993764 original size:87 final size:87
Alignment explanation
Indices: 105993281--105993822 Score: 309
Period size: 87 Copynumber: 6.3 Consensus size: 87
105993271 AAGAATTTCA
* * * * *
105993281 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGT-AATCCTATCTCCTTG-AGAT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGACA-TCGATCTTATCTCCCTGAAG-T
* *
105993344 TACAATGGAGCGGATT--A-A-AG
64 TACAGTGGAGCAGATTGAAGACAG
* * *
105993364 GATCTTATCT-CCTGA-AGTTACAGTAGAGAAGATC----ACATCAGGTCTTATCTCCCTG-AGA
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAAGACATC-GATCTTATCTCCCTGAAG-
** ***
105993422 TTACAGTGGAATAGACCAAAGA-ATTTCG
63 TTACAGTGGAGCAGATTGAAGACA----G
* ** * **
105993450 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATT
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGACATCGATCTTATCTCCCTGAAG-TT
* * *
105993514 ACAGCGGAGCAGATCGAAGACAC
65 ACAGTGGAGCAGATTGAAGACAG
* * * * * **
105993537 TATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAATTA-AAGGATCTTATCTCCCTGAAGT
1 GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCAAA-GACATCGATCTTATCTCCCTGAAGT
* * * *
105993600 TACAGTAGAGAAGA-TCACA-TCAG
64 TACAGTGGAGCAGATTGA-AGACAG
** * * *
105993623 G-TCTTATCTCCCTGAGATTACAGTGGAATAGACCAAAGA-ATTTCGGATCTTATCTCCTTGAGG
1 GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGACA--TC-GATCTTATCTCCCTGAAG
* *
105993686 TTACAGTGGGGCAGATTGAAGCCAG
63 TTACAGTGGAGCAGATTGAAGACAG
* * *
105993711 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA-CTATCCTATCTCCCTGAAGTT
1 -GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGACATCGATCTTATCTCCCTGAAGTT
* * * *
105993775 ACAGTGGAGCGGATTAAAATAAAG
65 ACAGTGGAGCAGATT-GAAGACAG
* *
105993799 GATCTTATCTCTCTGAGGTTACAG
1 GATCTTATCTCCCTGAGATTACAG
105993823 CAGAGTGGAT
Statistics
Matches: 351, Mismatches: 77, Indels: 58
0.72 0.16 0.12
Matches are distributed among these distances:
77 1 0.00
78 2 0.01
79 25 0.07
81 2 0.01
82 21 0.06
83 10 0.03
84 2 0.01
85 28 0.08
86 15 0.04
87 160 0.46
88 12 0.03
89 1 0.00
90 68 0.19
91 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (87 bp):
GATCTTATCTCCCTGAGATTACAGTGGAGCAGATCAAAGACATCGATCTTATCTCCCTGAAGTTA
CAGTGGAGCAGATTGAAGACAG
Found at i:105993821 original size:44 final size:44
Alignment explanation
Indices: 105993232--105993822 Score: 294
Period size: 44 Copynumber: 13.6 Consensus size: 44
105993222 GGTTTATTAT
* * **
105993232 ACAGG-TCTTATCTCCCTGAGATTACAGTGGAACAGA-CCAAAG
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * *
105993274 AATTTCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAAG
1 -A---CAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * * * * * *
105993320 ATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT---A-
1 ACAG-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * * * *
105993361 A-AGGATCTTATCT-CCTGAAGTTACAGTAGAGAAGA-TCACA-
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * ** **
105993401 TCAGG-TCTTATCTCCCTGAGATTACAGTGGAATAGA-CCAAAG
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
*
105993443 A-ATTTCGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATT-GAAG
1 ACA----GGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * * **
105993489 CCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCGAAG
1 ACAG-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
** * * * **
105993533 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAATT
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * * * * *
105993577 AAAGGATCTTATCTCCCTGAAGTTACAGTAGAGAAGA-TCACA-
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * ** **
105993619 TCAGG-TCTTATCTCCCTGAGATTACAGTGGAATAGA-CCAAAG
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * *
105993661 A-ATTTCGGATCTTATCTCCTTGAGGTTACAGTGGGGCAGATT-GAAG
1 ACA----GGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* * **
105993707 CCAGAGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TCGAAG
1 ACAG-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
** * * * *
105993751 ACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAT
1 ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
* *
105993795 AAAGGATCTTATCTCTCTGAGGTTACAG
1 ACAGGATCTTATCTCCCTGAGGTTACAG
105993823 CAGAGTGGAT
Statistics
Matches: 419, Mismatches: 95, Indels: 67
0.72 0.16 0.12
Matches are distributed among these distances:
37 1 0.00
38 15 0.04
39 8 0.02
40 11 0.03
41 55 0.13
42 5 0.01
43 62 0.15
44 157 0.37
45 7 0.02
46 96 0.23
47 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
ACAGGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTAAAAG
Found at i:105994689 original size:12 final size:12
Alignment explanation
Indices: 105994672--105994699 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
105994662 GGAGCAACGC
105994672 CGGCACGACGGA
1 CGGCACGACGGA
105994684 CGGCACGACGGA
1 CGGCACGACGGA
105994696 CGGC
1 CGGC
105994700 GACTGGAGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.43, T:0.00
Consensus pattern (12 bp):
CGGCACGACGGA
Found at i:105995250 original size:3 final size:3
Alignment explanation
Indices: 105995181--105995241 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
105995171 GTACTTTTGC
* * *
105995181 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TTT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
105995229 TAT TAT TAG TAT T
1 TAT TAT TAT TAT T
105995242 GGTATTATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:105997853 original size:3 final size:3
Alignment explanation
Indices: 105997845--105997933 Score: 67
Period size: 3 Copynumber: 30.0 Consensus size: 3
105997835 GGACAAAAAT
* * * *
105997845 ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATG ATA ATA ATA A-A GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
105997891 ATAA ATC ATA ATG ATA ATA GTA ATA CTA AT- ATA AGTA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA
105997934 TAAGTAAATA
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 5 0.07
3 56 0.84
4 6 0.09
ACGTcount: A:0.57, C:0.02, G:0.08, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:105998284 original size:20 final size:21
Alignment explanation
Indices: 105998232--105998286 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
105998222 TAATGAAGTA
105998232 GAATATAAGAATAATAATAAT
1 GAATATAAGAATAATAATAAT
* *
105998253 GCATTAGTAAGAATAATAATAGT
1 G-AATA-TAAGAATAATAATAAT
105998276 GAATA-AAGAAT
1 GAATATAAGAAT
105998287 GAAAGTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 1 0.03
22 6 0.21
23 16 0.55
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (21 bp):
GAATATAAGAATAATAATAAT
Found at i:106000014 original size:21 final size:21
Alignment explanation
Indices: 105999988--106000057 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
105999978 AAGACACGTG
105999988 ACTTCAATCAATCTCACTGAA
1 ACTTCAATCAATCTCACTGAA
** *
106000009 ACTTCAAGGAGATCT-ACTGTA
1 ACTTCAATCA-ATCTCACTGAA
* *
106000030 GCTTCGATCAAT-TCCACTGAA
1 ACTTCAATCAATCT-CACTGAA
106000051 ACTTCAA
1 ACTTCAA
106000058 GGATATCTGC
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 1 0.03
20 2 0.06
21 29 0.81
22 4 0.11
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (21 bp):
ACTTCAATCAATCTCACTGAA
Found at i:106000048 original size:42 final size:42
Alignment explanation
Indices: 105999989--106000075 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
105999979 AGACACGTGA
105999989 CTTCAATCAATCTCACTGAAACTTCAAGGAGATCTACTGTAG
1 CTTCAATCAATCTCACTGAAACTTCAAGGAGATCTACTGTAG
* * * *
106000031 CTTCGATCAAT-TCCACTGAAACTTCAAGGATATCTGCTGTGG
1 CTTCAATCAATCT-CACTGAAACTTCAAGGAGATCTACTGTAG
106000073 CTT
1 CTT
106000076 TTAGCTGCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 1 0.03
42 39 0.98
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
CTTCAATCAATCTCACTGAAACTTCAAGGAGATCTACTGTAG
Found at i:106000685 original size:43 final size:44
Alignment explanation
Indices: 106000599--106000686 Score: 124
Period size: 43 Copynumber: 2.0 Consensus size: 44
106000589 CTGTACATTT
* *
106000599 AGTCTGCTCCACTGCGACTTCAAGGAGATGAGACTTGTAACTTC
1 AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
* * *
106000643 AGTCTGCTCCACTGC-ACTTCAGGGAGATAAGGCTAGTGACTTC
1 AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
106000686 A
1 A
106000687 ATCTACTTCG
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 24 0.62
44 15 0.38
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (44 bp):
AGTCTGCTCCACTGCGACTTCAAGGAGATAAGACTAGTAACTTC
Found at i:106008867 original size:9 final size:9
Alignment explanation
Indices: 106008849--106008880 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
106008839 TGCAATGCCG
106008849 ATGC-ATGA
1 ATGCAATGA
106008857 ATGCAATGA
1 ATGCAATGA
106008866 ATGCAATGA
1 ATGCAATGA
106008875 ATGCAA
1 ATGCAA
106008881 AAAAAAACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (9 bp):
ATGCAATGA
Found at i:106012821 original size:3 final size:3
Alignment explanation
Indices: 106012813--106012916 Score: 97
Period size: 3 Copynumber: 35.0 Consensus size: 3
106012803 GGACAAAAAT
* * *
106012813 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
106012860 ATA ATA ATA A-A GTA ATAA ATC ATA ATG ATA ATA GTA ATA CTA AT-
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
106012904 ATA AGTA ATA ATA
1 ATA A-TA ATA ATA
106012917 TAAGTAAATA
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
2 5 0.06
3 71 0.87
4 6 0.07
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:106013266 original size:20 final size:21
Alignment explanation
Indices: 106013214--106013268 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
106013204 TAATGAAGTA
106013214 GAATATAAGAATAATAATAAT
1 GAATATAAGAATAATAATAAT
* *
106013235 GCATTAGTAAGAATAATAATAGT
1 G-AATA-TAAGAATAATAATAAT
106013258 GAATA-AAGAAT
1 GAATATAAGAAT
106013269 GAAAGTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 1 0.03
22 6 0.21
23 16 0.55
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (21 bp):
GAATATAAGAATAATAATAAT
Found at i:106019312 original size:26 final size:25
Alignment explanation
Indices: 106019281--106019372 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 25
106019271 TAAACCTTCC
106019281 ATATATTATTTATCTCAAAATATTAT
1 ATATATTATTTAT-TCAAAATATTAT
* * * *
106019307 ATATATATAAATTATTTTAGATTATT-T
1 ATATAT-T-ATTTA-TTCAAAATATTAT
* *
106019334 CATATATTATCTATTCAAAATTTTTAT
1 -ATATATTATTTATTCAAAA-TATTAT
106019361 ATATATTATTTA
1 ATATATTATTTA
106019373 ACCCAAACTG
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
25 4 0.08
26 23 0.47
27 4 0.08
28 17 0.35
29 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (25 bp):
ATATATTATTTATTCAAAATATTAT
Found at i:106022164 original size:3 final size:3
Alignment explanation
Indices: 106021990--106022148 Score: 62
Period size: 3 Copynumber: 53.0 Consensus size: 3
106021980 AGATAGCAAA
* * * * **
106021990 AAT AGT AAT AAT AAG AAA AAT AAC AAT AAT AAT AAT AAAT AAT GCT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * *
106022036 AA- ATT AATT AAT AAT AA- AAT AAT AAGT AGAT AA- ACT CAAA AAG AA-
1 AAT AAT AA-T AAT AAT AAT AAT AAT AA-T A-AT AAT AAT -AAT AAT AAT
* ** *
106022081 ATAT AAT CAT AAT AA- AAT AAT AGC CAT AAT AAT AAT AAT AGA- AAT
1 A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* *
106022126 AAT AGT AAT AA- AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT
106022149 GGTATTAGAA
Statistics
Matches: 114, Mismatches: 28, Indels: 28
0.67 0.16 0.16
Matches are distributed among these distances:
2 10 0.09
3 90 0.79
4 13 0.11
5 1 0.01
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:106023265 original size:22 final size:22
Alignment explanation
Indices: 106023240--106023290 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
106023230 TATTCTCGCT
106023240 GTCTCTGCTTTGCGTGTTTCTG
1 GTCTCTGCTTTGCGTGTTTCTG
106023262 GTCTCTGCTTTGCGTGTTTCTG
1 GTCTCTGCTTTGCGTGTTTCTG
*
106023284 CTCTCTG
1 GTCTCTG
106023291 TCTTGCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.00, C:0.25, G:0.25, T:0.49
Consensus pattern (22 bp):
GTCTCTGCTTTGCGTGTTTCTG
Found at i:106023804 original size:26 final size:26
Alignment explanation
Indices: 106023775--106023934 Score: 293
Period size: 26 Copynumber: 6.2 Consensus size: 26
106023765 TGATACAAAT
*
106023775 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
106023801 TGATAATGGATTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
106023827 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
106023853 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
106023879 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
106023905 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
106023931 TGAT
1 TGAT
106023935 TGGAATTTCA
Statistics
Matches: 130, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:106025447 original size:25 final size:25
Alignment explanation
Indices: 106025418--106025466 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
106025408 ATAGTTTTAC
106025418 CCCTAGGAGATAAATT-ACCGAAATA
1 CCCTAGG-GATAAATTGACCGAAATA
* *
106025443 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
106025467 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGGATAAATTGACCGAAATA
Found at i:106031111 original size:26 final size:26
Alignment explanation
Indices: 106031082--106031189 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
106031072 TGATACAAAT
106031082 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106031108 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106031134 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
106031160 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
106031186 TGAT
1 TGAT
106031190 TGGAACTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:106036903 original size:7 final size:7
Alignment explanation
Indices: 106036891--106036917 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
106036881 TACTTTATAG
106036891 ATAATAT
1 ATAATAT
106036898 ATAATAT
1 ATAATAT
106036905 ATAATAT
1 ATAATAT
106036912 ATAATA
1 ATAATA
106036918 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATAATAT
Found at i:106041691 original size:24 final size:23
Alignment explanation
Indices: 106041663--106041712 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
106041653 AAATGACTTA
*
106041663 ATTTACTTTTTTTTTACATTTTAC
1 ATTTACTTTTCTTTTAC-TTTTAC
*
106041687 ATTTACTTTTCTTTTACTTTTTC
1 ATTTACTTTTCTTTTACTTTTAC
106041710 ATT
1 ATT
106041713 GTAAATTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTACTTTTCTTTTACTTTTAC
Found at i:106041702 original size:11 final size:11
Alignment explanation
Indices: 106041664--106041707 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
106041654 AATGACTTAA
*
106041664 TTTACTTTTTT
1 TTTACTTTTCT
*
106041675 TTTACATTTTACA
1 TTTAC-TTTT-CT
106041688 TTTACTTTTCT
1 TTTACTTTTCT
106041699 TTTACTTTT
1 TTTACTTTT
106041708 TCATTGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 8 0.29
13 5 0.18
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTACTTTTCT
Found at i:106044758 original size:17 final size:17
Alignment explanation
Indices: 106044736--106044777 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
106044726 ACAATAATAT
106044736 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
106044753 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
106044770 ATAATATA
1 AAAATATA
106044778 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:106045566 original size:16 final size:16
Alignment explanation
Indices: 106045547--106045585 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
106045537 TTTGTTGTTT
106045547 TTTTTTTGCTGGAA-AA
1 TTTTTTTGCT-GAATAA
106045563 TTTTTTTGCTGAATAA
1 TTTTTTTGCTGAATAA
106045579 TTTTTTT
1 TTTTTTT
106045586 TTTGCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (16 bp):
TTTTTTTGCTGAATAA
Found at i:106045568 original size:19 final size:19
Alignment explanation
Indices: 106045544--106045591 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
106045534 TTTTTTGTTG
106045544 TTTTTTTTTTGCTGGAA-AA
1 TTTTTTTTTTGCT-GAATAA
106045563 ---TTTTTTTGCTGAATAA
1 TTTTTTTTTTGCTGAATAA
106045579 TTTTTTTTTTGCT
1 TTTTTTTTTTGCT
106045592 CTTTTTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.12
16 12 0.48
19 10 0.40
ACGTcount: A:0.17, C:0.06, G:0.12, T:0.65
Consensus pattern (19 bp):
TTTTTTTTTTGCTGAATAA
Found at i:106045868 original size:30 final size:30
Alignment explanation
Indices: 106045813--106045927 Score: 110
Period size: 30 Copynumber: 3.9 Consensus size: 30
106045803 GTAATTTTTA
* * *
106045813 GAAAATTTA-GGGTTAAAATGTAATTTAAG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* ** *
106045842 GAAATTTTAGGGGTTTAAGTGAAATTTAA-
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
* *
106045871 AAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAGGGGTCAAAATGAAATTTAAG
*
106045900 GAAAAGTTTAGGGGTCAAAATGCAATTT
1 G-AAAGTTTAGGGGTCAAAATGAAATTT
106045928 TTATTTTTTG
Statistics
Matches: 70, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 29 0.41
30 40 0.57
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.32
Consensus pattern (30 bp):
GAAAGTTTAGGGGTCAAAATGAAATTTAAG
Found at i:106045952 original size:24 final size:24
Alignment explanation
Indices: 106045924--106045969 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
106045914 TCAAAATGCA
*
106045924 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTAAAAATTTTTT
106045948 ATTTTTATTTTTTAAAAATTTT
1 ATTTTTATTTTTTAAAAATTTT
106045970 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTTTATTTTTTAAAAATTTTTT
Found at i:106046240 original size:78 final size:76
Alignment explanation
Indices: 106046156--106046438 Score: 290
Period size: 78 Copynumber: 3.7 Consensus size: 76
106046146 GACCCGAAGT
*
106046156 TCAACTCACCTCTCG-AATTATGAGTTGA-TCTTTTGAAAAAGCAAAAAATTGAAAATACCTCAG
1 TCAACTCACCTCTCGCAA-TATGAGTTGATTTTTTTGAAAAA--AAAAAATTGAAAATACCTCAG
106046219 CGTGTGACCTGAGGC
63 CGTGTG-CCTGAGGC
* * * * **
106046234 TTAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGATAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAAATTGAAAATACCTCAGCGT
*
106046299 GT-CTTGAGGC
66 GTGCCTGAGGC
** * * *
106046309 TCAACTCATTTCTCGCAATATGAGATGACTTTTTTTTAAAAAAAAAGGAATTGAAATTACCTCAG
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAAAAAA--AATTGAAAATACCTCAG
*
106046374 CGTAT-CCTGAGGC
63 CGTGTGCCTGAGGC
* * * * *
106046387 TCAACTCACATCTCGTAATATGAATTGA--TTTTTGAAAAACATAAATTGAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAAATTGAAAA
106046439 ACGGAAATCG
Statistics
Matches: 170, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
73 8 0.05
75 43 0.25
76 13 0.08
77 22 0.13
78 72 0.42
79 12 0.07
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (76 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAAAAAAATTGAAAATACCTCAGCGT
GTGCCTGAGGC
Found at i:106046494 original size:87 final size:87
Alignment explanation
Indices: 106046348--106046755 Score: 511
Period size: 87 Copynumber: 4.7 Consensus size: 87
106046338 TTTTTTTTAA
* * * * * *
106046348 AAAAAAAGGAATTGAAATTACCTCAGCGTATCCTGAGGCTCAACTCACATCTCGTAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
106046413 GATTTTTGAAAAACATAAATTG
66 GATTTTTGAAAAACATAAATTG
* * * * *
106046435 AAAAACGGAAATCGAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
* * *
106046500 GATTTTTGAAAAATATAGATCGG
66 GATTTTTGAAAAACATAAAT-TG
* * *
106046523 AAAAAATAGAAATTGAAAATACCTCGGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 -AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAAT
*
106046588 TGA--TTT-AAAAACAGT-CATT-
65 TGATTTTTGAAAAACA-TAAATTG
* * * * *
106046607 AAGAATAGAAATTAAAAATACCTCAGCGTGTCCTGAGACTCAACTCACCTCTTGCAATATGAATT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
* *
106046672 GATTTTTGCAAAATATAAATTG
66 GATTTTTGAAAAACATAAATTG
* *
106046694 AAAAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
106046756 GTCGACTTTT
Statistics
Matches: 274, Mismatches: 39, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
83 61 0.22
85 4 0.01
86 16 0.06
87 131 0.48
88 1 0.00
89 61 0.22
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (87 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATT
GATTTTTGAAAAACATAAATTG
Found at i:106046703 original size:14 final size:14
Alignment explanation
Indices: 106046681--106046710 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
106046671 TGATTTTTGC
*
106046681 AAAATATAAATTGA
1 AAAACATAAATTGA
106046695 AAAACATAAATTGA
1 AAAACATAAATTGA
106046709 AA
1 AA
106046711 TTACCTCAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (14 bp):
AAAACATAAATTGA
Found at i:106059815 original size:14 final size:15
Alignment explanation
Indices: 106059796--106059831 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
106059786 TTTTTGTTGT
106059796 TTTTTTTG-TGAAAA
1 TTTTTTTGCTGAAAA
*
106059810 TTTTTTTGCTGACAA
1 TTTTTTTGCTGAAAA
106059825 TTTTTTT
1 TTTTTTT
106059832 TTGTTGCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGAAAA
Found at i:106059815 original size:15 final size:16
Alignment explanation
Indices: 106059795--106059832 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
106059785 CTTTTTGTTG
106059795 TTTTTTTTG-TGAAAA
1 TTTTTTTTGCTGAAAA
*
106059810 -TTTTTTTGCTGACAA
1 TTTTTTTTGCTGAAAA
106059825 TTTTTTTT
1 TTTTTTTT
106059833 TGTTGCCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.18, C:0.05, G:0.11, T:0.66
Consensus pattern (16 bp):
TTTTTTTTGCTGAAAA
Found at i:106060090 original size:28 final size:28
Alignment explanation
Indices: 106060046--106060100 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
106060036 AAATGAGCAA
* *
106060046 AAAATTTTGGGGCTAAATGTAATTTTAG
1 AAAATTTTAGGGCTAAATGCAATTTTAG
*
106060074 AAAATTTTAGGGTTAAATGCAATTTTA
1 AAAATTTTAGGGCTAAATGCAATTTTA
106060101 ATGGAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (28 bp):
AAAATTTTAGGGCTAAATGCAATTTTAG
Found at i:106069194 original size:17 final size:17
Alignment explanation
Indices: 106069172--106069232 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
106069162 ACAATAATAT
106069172 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
106069189 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
106069206 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
106069220 AAAATATATATAT
1 AAAATATATATAT
106069233 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:106070012 original size:16 final size:16
Alignment explanation
Indices: 106069991--106070029 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
106069981 TTTTGTTGTT
106069991 TTTTTTTGCTGGAA-AA
1 TTTTTTTGCT-GAATAA
106070007 TTTTTTTGCTGAATAA
1 TTTTTTTGCTGAATAA
106070023 TTTTTTT
1 TTTTTTT
106070030 TTTGCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.21, C:0.05, G:0.13, T:0.62
Consensus pattern (16 bp):
TTTTTTTGCTGAATAA
Found at i:106070314 original size:30 final size:30
Alignment explanation
Indices: 106070257--106070372 Score: 112
Period size: 30 Copynumber: 3.9 Consensus size: 30
106070247 GTAATTTTTA
* * *
106070257 GAAAATTTAA-GGTTAAAATGCAATTTAAG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* * *
106070286 GAAAGTTT-AGGAGTCTAAGTGAAATTTAAA
1 GAAAGTTTAAGG-GTCAAAATGAAATTTAAG
106070316 GAAAGTTTAAGGGTCAAAATGAAATTT-AG
1 GAAAGTTTAAGGGTCAAAATGAAATTTAAG
* * *
106070345 GAAAAATTTAGGGGTCAAAATGTAATTT
1 G-AAAGTTTAAGGGTCAAAATGAAATTT
106070373 TTATTTTTTG
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.01
29 10 0.14
30 57 0.80
31 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.22, T:0.30
Consensus pattern (30 bp):
GAAAGTTTAAGGGTCAAAATGAAATTTAAG
Found at i:106071235 original size:21 final size:21
Alignment explanation
Indices: 106071211--106071253 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
106071201 AACATAGAAC
106071211 GGCGCCGTATAGGGAGTAAGG
1 GGCGCCGTATAGGGAGTAAGG
106071232 GGCGCCGTATAGGGAGTAAGG
1 GGCGCCGTATAGGGAGTAAGG
106071253 G
1 G
106071254 AACCCGCGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.14, G:0.49, T:0.14
Consensus pattern (21 bp):
GGCGCCGTATAGGGAGTAAGG
Found at i:106071892 original size:23 final size:23
Alignment explanation
Indices: 106071851--106071901 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
106071841 TACGTTAAAC
* * *
106071851 TATTTTTTTAAATCTATGTGTAT
1 TATTTATTTAAATCTATGTATAG
106071874 TATTTATTTAAA-CTAATGTATAG
1 TATTTATTTAAATCT-ATGTATAG
106071897 TATTT
1 TATTT
106071902 CGTATATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (23 bp):
TATTTATTTAAATCTATGTATAG
Found at i:106072560 original size:28 final size:28
Alignment explanation
Indices: 106072529--106072600 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
106072519 TTGTTGATCT
106072529 TCTATTGTTTTATATATTTTCC-TTTAAA
1 TCTATT-TTTTATATATTTTCCTTTTAAA
* *
106072557 TCTATTTCATTGTATA-TTTCCTTTTAAA
1 TCTATTT-TTTATATATTTTCCTTTTAAA
* *
106072585 TCAATTTTTCATATAT
1 TCTATTTTTTATATAT
106072601 ATATATATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
27 11 0.31
28 24 0.69
ACGTcount: A:0.26, C:0.12, G:0.03, T:0.58
Consensus pattern (28 bp):
TCTATTTTTTATATATTTTCCTTTTAAA
Found at i:106073492 original size:131 final size:130
Alignment explanation
Indices: 106073259--106073575 Score: 394
Period size: 131 Copynumber: 2.4 Consensus size: 130
106073249 CAATTATTCA
** * *
106073259 TTTAAAAATTCTTTAAAACGAAGGCAATACTCGATGTTTGGCAATTCGAGAATCGTGCCTTATCG
1 TTTAAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCG
* * * * *
106073324 TGTTGGGTTGCGATTTTCCATTTGTTCAAAACAATCGAATACTCCTTTGGAATTTCGCTTATG-T
65 TGCTGGGTTGCGATTTTCCATTTGTTCAAAACAATCGAATACTCCTTTAGAATTCCACTCATGCT
106073388 C
130 C
*
106073389 TTTAAAAATTCTTCAAAACGAAGGTAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATC
* *
106073454 GTGCTGGGTTGCGA-TTTCCTGTTTGTTCAAAACAATCGAATATTCCTTTAGAATTCCACTCATG
64 GTGCTGGGTTGCGATTTTCC-ATTTGTTCAAAACAATCGAATACTCCTTTAGAATTCCACTCATG
106073518 CTC
128 CTC
* * * * *
106073521 TCT--AAATTC-TAAAAC-AAGACAATGTCCGATGTTTGGAAATTCAAGGAATCGTGCC
1 TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCC
106073576 TACTGTACTG
Statistics
Matches: 164, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
127 34 0.21
128 5 0.03
129 3 0.02
130 52 0.32
131 66 0.40
132 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (130 bp):
TTTAAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGT
GCTGGGTTGCGATTTTCCATTTGTTCAAAACAATCGAATACTCCTTTAGAATTCCACTCATGCTC
Found at i:106075491 original size:36 final size:36
Alignment explanation
Indices: 106075444--106075517 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
106075434 ATATATATTT
* *
106075444 TTCTTTTACATTAATGTATACTGTTAACTAATAAGA
1 TTCTTTTACATTAATATATACTGTTAACCAATAAGA
106075480 TTCTTTTACATTAATATATACTGTTAACCAATAAGA
1 TTCTTTTACATTAATATATACTGTTAACCAATAAGA
106075516 TT
1 TT
106075518 AATAAGGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.45
Consensus pattern (36 bp):
TTCTTTTACATTAATATATACTGTTAACCAATAAGA
Found at i:106076297 original size:18 final size:17
Alignment explanation
Indices: 106076274--106076308 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
106076264 GTTGAATTTT
*
106076274 ATAATTTAAATAAGTAGA
1 ATAATTCAAATAA-TAGA
106076292 ATAATTCAAATAATAGA
1 ATAATTCAAATAATAGA
106076309 TTAGTGTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (17 bp):
ATAATTCAAATAATAGA
Found at i:106081065 original size:17 final size:17
Alignment explanation
Indices: 106081043--106081084 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
106081033 ACAATAATAT
106081043 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
106081060 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
106081077 ATAATATA
1 AAAATATA
106081085 GTTATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:106081873 original size:16 final size:14
Alignment explanation
Indices: 106081852--106081888 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
106081842 TTTGTTGTTT
106081852 TTTTTTTGCTGGAAAA
1 TTTTTTTGCT-G-AAA
106081868 TTTTTTTGCTGAAA
1 TTTTTTTGCTGAAA
106081882 TTTTTTT
1 TTTTTTT
106081889 TTTGCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 1 0.05
16 10 0.48
ACGTcount: A:0.19, C:0.05, G:0.14, T:0.62
Consensus pattern (14 bp):
TTTTTTTGCTGAAA
Found at i:106081889 original size:15 final size:16
Alignment explanation
Indices: 106081851--106081889 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
106081841 TTTTGTTGTT
106081851 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
*
106081867 ATTTTTTTGCT-GAAA
1 TTTTTTTTGCTGGAAA
106081882 TTTTTTTT
1 TTTTTTTT
106081890 TTGCTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.18, C:0.05, G:0.13, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:106081889 original size:16 final size:17
Alignment explanation
Indices: 106081850--106081890 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
106081840 TTTTTGTTGT
106081850 TTTTTTTTTGCTGGAAA
1 TTTTTTTTTGCTGGAAA
*
106081867 -ATTTTTTTGCT-GAAA
1 TTTTTTTTTGCTGGAAA
106081882 TTTTTTTTT
1 TTTTTTTTT
106081891 TGCTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (17 bp):
TTTTTTTTTGCTGGAAA
Found at i:106082174 original size:30 final size:30
Alignment explanation
Indices: 106082125--106082232 Score: 128
Period size: 30 Copynumber: 3.6 Consensus size: 30
106082115 TAGAAAATGT
* *
106082125 AGGGTTAAAATGCAATTTAAGGAAAGTTTA
1 AGGGTCAAAATGAAATTTAAGGAAAGTTTA
* * * *
106082155 GGGGTCTAAGTGAAATTTAAAGAAAGTTTA
1 AGGGTCAAAATGAAATTTAAGGAAAGTTTA
106082185 AGGGTCAAAATGAAATTT-AGGAAAAGTTTA
1 AGGGTCAAAATGAAATTTAAGG-AAAGTTTA
* *
106082215 AGGGTAAAAATGCAATTT
1 AGGGTCAAAATGAAATTT
106082233 TTATTTTTTG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 2 0.03
30 63 0.97
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.29
Consensus pattern (30 bp):
AGGGTCAAAATGAAATTTAAGGAAAGTTTA
Found at i:106082260 original size:24 final size:24
Alignment explanation
Indices: 106082229--106082274 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
106082219 TAAAAATGCA
*
106082229 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTAAAAATTTTTT
106082253 ATTTTTATTTTTTAAAAATTTT
1 ATTTTTATTTTTTAAAAATTTT
106082275 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTTTATTTTTTAAAAATTTTTT
Found at i:106082637 original size:75 final size:76
Alignment explanation
Indices: 106082461--106082660 Score: 201
Period size: 75 Copynumber: 2.6 Consensus size: 76
106082451 GACCCGAAGT
*
106082461 TCAACTCACCTCTCGA-ATTATGAGTTGATCTTTTGAAAAAGAAAAAAATTGAAAATACCTCAGC
1 TCAACTCACCTCTC-ACAATATGAGTTGATCTTTTG-AAAAGAAAAAAATTGAAAATACCTCA-C
*
106082525 GTATGACCTGAGGC
63 ATATGACCTGAGGC
* * * * *
106082539 TTAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAGACAGAAATTGAAAATACCTCA-AT
1 TCAACTCACCTCTCACAATATGAGTTGA-TCTTTTGAAAAGAAAAAAATTGAAAATACCTCACAT
* * *
106082602 GTGTCTTGAGGC
65 ATGACCTGAGGC
** * *
106082614 TCAACTCATTTCTCACAATATGAGTTGACCTTTTTTAAAA-AAAAAAA
1 TCAACTCACCTCTCACAATATGAGTTGATC-TTTTGAAAAGAAAAAAA
106082661 CAGGAATTGA
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
75 43 0.43
76 3 0.03
77 23 0.23
78 24 0.24
79 6 0.06
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.31
Consensus pattern (76 bp):
TCAACTCACCTCTCACAATATGAGTTGATCTTTTGAAAAGAAAAAAATTGAAAATACCTCACATA
TGACCTGAGGC
Found at i:106082956 original size:83 final size:86
Alignment explanation
Indices: 106082572--106082978 Score: 413
Period size: 87 Copynumber: 4.8 Consensus size: 86
106082562 GTTGATTTTT
* * ** * ** *
106082572 TTGAAAGACAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCACAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
**
106082637 GTTGACCTTTT--TTAA-A-AAA
66 GTTGA--TTTTGAAAAACATAAA
* * * ** * *
106082656 ---AAAAACAGGAATTGAAATTACCTCAGCGTGTCCCAAGGCTCAACTCACATCTCGTAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
106082718 ATTGATTTTTGAAAAACATAAA
66 GTTGA-TTTTGAAAAACATAAA
* * * *
106082740 TTGAAAAACGGAAATCAAAAATACCTCAACGTGTCCTGAGGCTCAATTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
106082805 GTTGATTTTTGAAAAATATAGA
66 GTTGA-TTTTGAAAAACATAAA
* *
106082827 TTGGAAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGATGCTCAACTCACCTCTCGTAATAT
1 TT-G-AAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
*
106082892 GAGTTGA-TTT-AAAAACAGT-CA
64 GAGTTGATTTTGAAAAACA-TAAA
* *
106082913 TT-AAGAACAGAAATTAAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
106082977 GT
66 GT
106082979 CGACTTTTTT
Statistics
Matches: 271, Mismatches: 42, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
80 4 0.01
81 54 0.20
82 2 0.01
83 61 0.23
84 3 0.01
86 9 0.03
87 76 0.28
88 1 0.00
89 61 0.23
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (86 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTGAAAAACATAAA
Found at i:106095051 original size:17 final size:17
Alignment explanation
Indices: 106095029--106095089 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
106095019 ACAATAATAT
106095029 AAAATA-ATGATATGTAC
1 AAAATATAT-ATATGTAC
106095046 AAAATATATATATGTAC
1 AAAATATATATATGTAC
*
106095063 ATAATATAGT-TA--TA-
1 AAAATATA-TATATGTAC
106095077 AAAATATATATAT
1 AAAATATATATAT
106095090 TAAATTCGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 1 0.03
14 9 0.24
15 2 0.05
17 23 0.61
18 3 0.08
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (17 bp):
AAAATATATATATGTAC
Found at i:106095887 original size:16 final size:17
Alignment explanation
Indices: 106095849--106095890 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
106095839 TTTTTGTTGT
106095849 TTTTTTTTTTGCTGGAA
1 TTTTTTTTTTGCTGGAA
**
106095866 -AATTTTTTTGCT-GAA
1 TTTTTTTTTTGCTGGAA
106095881 TTTTTTTTTT
1 TTTTTTTTTT
106095891 TGCTCTTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.14, C:0.05, G:0.12, T:0.69
Consensus pattern (17 bp):
TTTTTTTTTTGCTGGAA
Found at i:106096175 original size:30 final size:30
Alignment explanation
Indices: 106096139--106096226 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
106096129 GTTAAAATGC
* *
106096139 AATTTAAGGAAAGTTTAGGGGTCTAAGTAA
1 AATTTAAGGAAAGTTTAGGGGTCAAAATAA
* * *
106096169 AATTTAAAGAAAGTTTAAGGGTCAAAATGA
1 AATTTAAGGAAAGTTTAGGGGTCAAAATAA
106096199 AATTT-AGGAAAAGTTTAGGGGTCAAAAT
1 AATTTAAGG-AAAGTTTAGGGGTCAAAAT
106096227 GCAATTTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.04
30 48 0.96
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.28
Consensus pattern (30 bp):
AATTTAAGGAAAGTTTAGGGGTCAAAATAA
Found at i:106096227 original size:30 final size:30
Alignment explanation
Indices: 106096132--106096233 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
106096122 ATTTAAGGTT
*
106096132 AAAATGCAATTTAAGG-AAAGTTTAGGGGTC
1 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
* * * * *
106096162 TAAGTAAAATTTA-AAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAGGA-AAAGTTTAGGGGTC
106096192 AAAATGAAATTTAGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAGGAAAAGTTTAGGGGTC
*
106096222 AAAATGCAATTT
1 AAAATGAAATTT
106096234 TTATTTTTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
29 1 0.02
30 55 0.96
31 1 0.02
ACGTcount: A:0.44, C:0.05, G:0.23, T:0.28
Consensus pattern (30 bp):
AAAATGAAATTTAGGAAAAGTTTAGGGGTC
Found at i:106096258 original size:24 final size:24
Alignment explanation
Indices: 106096230--106096275 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
106096220 TCAAAATGCA
*
106096230 ATTTTTATTTTTTGAAAATTTTTT
1 ATTTTTATTTTTTAAAAATTTTTT
106096254 ATTTTTATTTTTTAAAAATTTT
1 ATTTTTATTTTTTAAAAATTTT
106096276 GAAAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (24 bp):
ATTTTTATTTTTTAAAAATTTTTT
Found at i:106101367 original size:5 final size:5
Alignment explanation
Indices: 106101357--106101430 Score: 55
Period size: 5 Copynumber: 14.2 Consensus size: 5
106101347 TTCTTATCAT
*
106101357 TATTA TATTA TATTA TTATTA TATTA TATTTA GTATTA TCGTTAA TATTA
1 TATTA TATTA TATTA -TATTA TATTA TA-TTA -TATTA T-ATT-A TATTA
*
106101407 TATT- T-CTA TTATTA TATT- TATTA T
1 TATTA TATTA -TATTA TATTA TATTA T
106101431 TATCTATTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
3 1 0.02
4 5 0.09
5 29 0.52
6 17 0.30
7 4 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:106101373 original size:3 final size:3
Alignment explanation
Indices: 106101336--106101464 Score: 62
Period size: 3 Copynumber: 45.0 Consensus size: 3
106101326 TGCTTTAACG
* * *
106101336 TTA TTA CTA TT- TTC TTA TCA TTA TTA -TA TTA -TA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
106101380 TTA -TA TTTA GTA TTA TCG TTA ATA TTA -TA TT- TCTA TTA TTA -TA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * *
106101423 TTTA TTA TTA TCTA TTA CT- TTA TTT TTA TT- TTA ATA TTA TTA
1 -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
106101465 CATTATATTC
Statistics
Matches: 93, Mismatches: 19, Indels: 28
0.66 0.14 0.20
Matches are distributed among these distances:
2 18 0.19
3 67 0.72
4 8 0.09
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:106101431 original size:26 final size:26
Alignment explanation
Indices: 106101357--106101433 Score: 68
Period size: 29 Copynumber: 2.8 Consensus size: 26
106101347 TTCTTATCAT
106101357 TATTATATTATA-TTATTATTATATTA
1 TATT-TATTATATTTATTATTATATTA
* *
106101383 TATTTAGTATTATCGTTAATATTATATT-
1 TATTTATTA-TAT--TTATTATTATATTA
*
106101411 TCTATTATTATATTTATTATTAT
1 TAT-TTATTATATTTATTATTAT
106101434 CTATTACTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
25 4 0.10
26 15 0.37
28 5 0.12
29 17 0.41
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (26 bp):
TATTTATTATATTTATTATTATATTA
Found at i:106101877 original size:47 final size:48
Alignment explanation
Indices: 106101818--106101937 Score: 124
Period size: 50 Copynumber: 2.5 Consensus size: 48
106101808 TTTAAATACC
*
106101818 ATATTA-TATACATATATTTT-A-TATCTAT-TCTTATATATTATTATTTT
1 ATATTATTATACATATATTTTCACTAT-TATCACTTAT-TATT-TTATTTT
*
106101865 -TGTTATTATACATATTATTTTCACTATTATCACTTATTATTTTATTTT
1 ATATTATTATACATA-TATTTTCACTATTATCACTTATTATTTTATTTT
*
106101913 AATATTATTATATATATATTCTTCA
1 -ATATTATTATACATATATT-TTCA
106101938 TATATGTTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
46 4 0.07
47 8 0.13
48 13 0.21
49 12 0.20
50 24 0.39
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (48 bp):
ATATTATTATACATATATTTTCACTATTATCACTTATTATTTTATTTT
Found at i:106102014 original size:19 final size:20
Alignment explanation
Indices: 106101974--106102029 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
106101964 AATATCTATT
* *
106101974 TTATATATATA-TGTATATA
1 TTATATATATATTTTATACA
106101993 TTATATATATATTTTA-ACA
1 TTATATATATATTTTATACA
106102012 TTACTAGTTATATATTTT
1 TTA-TA--TATATATTTT
106102030 TACTATCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 16 0.52
20 5 0.16
22 10 0.32
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
TTATATATATATTTTATACA
Found at i:106112427 original size:30 final size:30
Alignment explanation
Indices: 106112393--106112454 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
106112383 CTTAACAAGT
106112393 AAATG-CCTCTAAAATAATAACAAAATTAAC
1 AAATGTCCT-TAAAATAATAACAAAATTAAC
106112423 AAATGTCCTTAAAATAATAACAAAATTAAC
1 AAATGTCCTTAAAATAATAACAAAATTAAC
106112453 AA
1 AA
106112455 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.90
31 3 0.10
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.24
Consensus pattern (30 bp):
AAATGTCCTTAAAATAATAACAAAATTAAC
Found at i:106115220 original size:2 final size:2
Alignment explanation
Indices: 106115215--106115297 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
106115205 ATACATACAG
106115215 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
106115257 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
106115298 TATATAAAAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:106115816 original size:21 final size:21
Alignment explanation
Indices: 106115749--106115817 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
106115739 AAGCTCGAAG
*
106115749 GCTGAACAGAAG-TACATAAGT
1 GCTGAACAGAAGCT-CATAAGA
* * *
106115770 GCT-AACGGAAAC-CAGTAAGG
1 GCTGAACAGAAGCTCA-TAAGA
*
106115790 GTTGAACAGAAGCTCATAAGA
1 GCTGAACAGAAGCTCATAAGA
106115811 GCTGAAC
1 GCTGAAC
106115818 GAAAACCCAG
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
19 2 0.06
20 12 0.33
21 20 0.56
22 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (21 bp):
GCTGAACAGAAGCTCATAAGA
Found at i:106115848 original size:42 final size:40
Alignment explanation
Indices: 106115763--106115890 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 40
106115753 AACAGAAGTA
* * *
106115763 CATAAGTGCT-AACGGAAA-CCAGTAAGGGTTGAACAGAAGCT
1 CATAAGAGCTGAAC-GAAACCCAGT-AGGGTT-AACTGAAACT
106115804 CATAAGAGCTGAACGAAAACCCAGTAGGGTTAAACTGAAACT
1 CATAAGAGCTGAACG-AAACCCAGTAGGGTT-AACTGAAACT
** *
106115846 CATAAGAATTGAACTGAAACCCATTAGGGTTAACTGAAACT
1 CATAAGAGCTGAAC-GAAACCCAGTAGGGTTAACTGAAACT
106115887 CATA
1 CATA
106115891 TGAGTTAACT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
41 24 0.32
42 46 0.61
43 6 0.08
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (40 bp):
CATAAGAGCTGAACGAAACCCAGTAGGGTTAACTGAAACT
Found at i:106115860 original size:21 final size:20
Alignment explanation
Indices: 106115836--106115909 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
106115826 AGTAGGGTTA
*
106115836 AACTGAAACTCATAAGAATT
1 AACTGAAACTCATAAGAGTT
* * *
106115856 GAACTGAAACCCATTAGGGTT
1 -AACTGAAACTCATAAGAGTT
*
106115877 AACTGAAACTCATATGAGTT
1 AACTGAAACTCATAAGAGTT
*
106115897 AACTGAAGCTCAT
1 AACTGAAACTCAT
106115910 GAAAGCTAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
AACTGAAACTCATAAGAGTT
Found at i:106115882 original size:20 final size:21
Alignment explanation
Indices: 106115820--106115903 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 21
106115810 AGCTGAACGA
* *
106115820 AAACCCAGTAGGGTTAAACTG
1 AAACCCATTAGAGTTAAACTG
* * * *
106115841 AAACTCATAAGAATTGAACTG
1 AAACCCATTAGAGTTAAACTG
*
106115862 AAACCCATTAGGGTT-AACTG
1 AAACCCATTAGAGTTAAACTG
*
106115882 AAACTCA-TATGAGTT-AACTG
1 AAACCCATTA-GAGTTAAACTG
106115902 AA
1 AA
106115904 GCTCATGAAA
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
19 2 0.04
20 22 0.44
21 26 0.52
ACGTcount: A:0.42, C:0.17, G:0.18, T:0.24
Consensus pattern (21 bp):
AAACCCATTAGAGTTAAACTG
Found at i:106119014 original size:85 final size:85
Alignment explanation
Indices: 106118860--106119063 Score: 284
Period size: 85 Copynumber: 2.4 Consensus size: 85
106118850 CCAAAAACAT
* * * * *
106118860 TGTGGTTCGTTCACGAACCAAGTGGCAGTTTTTTTTAAAATACAAATATGTTGTGCACGCACAAC
1 TGTGGTTAGATCACGAACCAAGTGGCAG-TTTGTTTAAAATACAAATATGTTGTGCACCCACAAA
*
106118925 AAGTGGCAGTAACTGCAAATA
65 AAGTGGCAGTAACTACAAATA
* *
106118946 TGTGGTTAGATCACGAACCAAGTGGCAGTTTGTTTAATATGCAAATATGTTGTGCACCCACAAAA
1 TGTGGTTAGATCACGAACCAAGTGGCAGTTTGTTTAAAATACAAATATGTTGTGCACCCACAAAA
106119011 AGTGGCAGTAACTACAAATA
66 AGTGGCAGTAACTACAAATA
* * *
106119031 TGTGGTTCA-ATCACAAACTAAGTGGCAGCTTGT
1 TGTGGTT-AGATCACGAACCAAGTGGCAGTTTGT
106119064 CTAGAAATCT
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
85 79 0.75
86 27 0.25
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (85 bp):
TGTGGTTAGATCACGAACCAAGTGGCAGTTTGTTTAAAATACAAATATGTTGTGCACCCACAAAA
AGTGGCAGTAACTACAAATA
Found at i:106121508 original size:24 final size:24
Alignment explanation
Indices: 106121476--106121528 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
106121466 CATAGTGTGT
106121476 ATAATGTCACTGGAACAAAATATC
1 ATAATGTCACTGGAACAAAATATC
106121500 ATAATGTCACTGGAACAAAATATC
1 ATAATGTCACTGGAACAAAATATC
106121524 ATAAT
1 ATAAT
106121529 AAAAAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (24 bp):
ATAATGTCACTGGAACAAAATATC
Found at i:106122791 original size:2 final size:2
Alignment explanation
Indices: 106122784--106122820 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
106122774 TTTATAAGTA
106122784 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
106122821 AAGAAAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.