Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 91 of 163
Found at i:29295469 original size:127 final size:128
Alignment explanation
Indices: 29295286--29295657 Score: 408
Period size: 127 Copynumber: 2.9 Consensus size: 128
29295276 TTATGATTGT
* * *
29295286 AACTCCAAACAGCTCATTAATTTATGATCACAACTGATCTTATTAAGACTCGCTGATTTACGATC
1 AACTCCAAACAGCTCATTGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATC
* * *
29295351 ACAACCTAAGTTCATTTATTTACAATTATAAATAATCTTTTTGAGTTAGCTA-ATATGATCA-C
66 ACAACCTAAGTTCATTGATTTACAATTATAAATAATCTTTCTGAGTTAGCTAGATACGAT-AGC
* * * * * * * *
29295413 AACTCCAAACAGCTCATTGATTTACGATCATAGTTAATATTATTAAGTCTCACTGATTTACAATA
1 AACTCCAAACAGCTCATTGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATC
* * ** * * * ** *
29295478 ACATCCTAAGTTAATTGATTTATGATCATGAATAATATTTCTGAGTTTTCTAGTTTACGATAGC
66 ACAACCTAAGTTCATTGATTTACAATTATAAATAATCTTTCTGAGTTAGCTAG-ATACGATAGC
** * * * *
29295542 AACTTTAAATAGCTCGTTGATTCATGATCACAATTGATATTATTAAGACTCGCTAATTTACGATC
1 AACTCCAAACAGCTCATTGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATC
* *
29295607 ACAACCTAAGTTCATTGATTTGCAATTATGAAA-AATCTTTCTAAGTTAGCT
66 ACAACCTAAGTTCATTGATTTACAATTAT-AAATAATCTTTCTGAGTTAGCT
29295658 GATTTACGAT
Statistics
Matches: 192, Mismatches: 49, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
127 95 0.49
128 1 0.01
129 94 0.49
130 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (128 bp):
AACTCCAAACAGCTCATTGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATC
ACAACCTAAGTTCATTGATTTACAATTATAAATAATCTTTCTGAGTTAGCTAGATACGATAGC
Found at i:29295661 original size:35 final size:36
Alignment explanation
Indices: 29295622--29295699 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 36
29295612 CTAAGTTCAT
* * *
29295622 TGATTTGCAATTATGAAAAATCTT-TCTAAGTTAGC
1 TGATTTACAATCATGAAAAATCTTCCCTAAGTTAGC
* * *
29295657 TGATTTACGATCATGAACAATCTTCCCTGAGTTAGC
1 TGATTTACAATCATGAAAAATCTTCCCTAAGTTAGC
*
29295693 TTATTTA
1 TGATTTA
29295700 TGATCGCAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (36 bp):
TGATTTACAATCATGAAAAATCTTCCCTAAGTTAGC
Found at i:29295664 original size:129 final size:128
Alignment explanation
Indices: 29295236--29295667 Score: 429
Period size: 129 Copynumber: 3.4 Consensus size: 128
29295226 TAAGGCTTAC
* * * * * *
29295236 TGATTTACAATCATGAATAACCTTTTCTAAGTTAGATGATTTATGATTGTAACTCCAAACAGCTC
1 TGATTTACAATCATGAAAAATC-TTTCTAAGTTAGCT-ATTTACGATAGCAACTCCAAACAGCTC
* * *
29295301 ATTAATTTATGATCACAACTGATCTTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
64 ATTGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
* * * * * *
29295366 TTATTTACAATTAT-AAATAATCTTTTTGAGTTAGCTA-ATATGATCA-CAACTCCAAACAGCTC
1 TGATTTACAATCATGAAA-AATCTTTCTAAGTTAGCTATTTACGAT-AGCAACTCCAAACAGCTC
* * * * * * * * * *
29295428 ATTGATTTACGATCATAGTTAATATTATTAAGTCTCACTGATTTACAATAACATCCTAAGTTAAT
64 ATTGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
** * * * ** ** * *
29295493 TGATTTATGATCATGAATAATATTTCTGAGTTTTCTAGTTTACGATAGCAACTTTAAATAGCTCG
1 TGATTTACAATCATGAAAAATCTTTCTAAGTTAGCTA-TTTACGATAGCAACTCCAAACAGCTCA
* *
29295558 TTGATTCATGATCACAATTGATATTATTAAGACTCGCTAATTTACGATCACAACCTAAGTTCAT
65 TTGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
* *
29295622 TGATTTGCAATTATGAAAAATCTTTCTAAGTTAGCTGATTTACGAT
1 TGATTTACAATCATGAAAAATCTTTCTAAGTTAGCT-ATTTACGAT
29295668 CATGAACAAT
Statistics
Matches: 236, Mismatches: 59, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
127 98 0.42
128 4 0.02
129 118 0.50
130 16 0.07
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (128 bp):
TGATTTACAATCATGAAAAATCTTTCTAAGTTAGCTATTTACGATAGCAACTCCAAACAGCTCAT
TGATTTATGATCACAATTGATATTATTAAGACTCGCTGATTTACGATCACAACCTAAGTTCAT
Found at i:29295829 original size:130 final size:130
Alignment explanation
Indices: 29295660--29295937 Score: 405
Period size: 130 Copynumber: 2.1 Consensus size: 130
29295650 AGTTAGCTGA
* * * * *
29295660 TTTACGATCATGAACAATCTTCCCTGAGTTAGCTTATTTATGATCGCAACTCCTAATAGCTCGCT
1 TTTACGATCATGAACAATCTTCCCTGAATTAGCTAATTTATGATCGCAACTCCAAATAGCTCACA
* * * *
29295725 GATTTACGATCACAGCTGATATTATTAAGGCTCGCTGATTTATGATCACAGC-CAGAGTTTATTG
66 GATTTACGATCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAACTCA-AGTTCATTG
*
29295789 T
130 C
* *
29295790 TTTACGATCATGAACAATCTTCCTTGAATTATCTAATTTATGATCGCAACTCCAAATAGCTCACA
1 TTTACGATCATGAACAATCTTCCCTGAATTAGCTAATTTATGATCGCAACTCCAAATAGCTCACA
* * *
29295855 GATTTACGATCACAACTGATATTGTTAAGGCTTGCTGATTTACGATCACAACTTAAGTTCATTGC
66 GATTTACGATCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAACTCAAGTTCATTGC
29295920 TTTACGATCATGAACAAT
1 TTTACGATCATGAACAAT
29295938 TTTTACCGAG
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
130 131 0.99
131 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (130 bp):
TTTACGATCATGAACAATCTTCCCTGAATTAGCTAATTTATGATCGCAACTCCAAATAGCTCACA
GATTTACGATCACAACTGATATTATTAAGGCTCGCTGATTTACGATCACAACTCAAGTTCATTGC
Found at i:29300547 original size:5 final size:6
Alignment explanation
Indices: 29300533--29300582 Score: 57
Period size: 6 Copynumber: 8.0 Consensus size: 6
29300523 TTGTATATCC
*
29300533 TTTTCT TTTTCT TTTTCT TTTTCCCT CTTTCTT TTTTCT TTTT-T TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTT--CT TTTTC-T TTTTCT TTTTCT TTTTCT
29300583 ATCGTAGCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 5 0.13
6 23 0.61
7 5 0.13
8 5 0.13
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:29306819 original size:12 final size:12
Alignment explanation
Indices: 29306802--29306829 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29306792 TATATTTATA
29306802 TATTTTTATTTC
1 TATTTTTATTTC
29306814 TATTTTTATTTC
1 TATTTTTATTTC
29306826 TATT
1 TATT
29306830 GTTCGTATAC
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:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (12 bp):
TATTTTTATTTC
Found at i:29308181 original size:17 final size:17
Alignment explanation
Indices: 29308136--29308194 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
29308126 TGTATATTTC
*
29308136 ATTTTTTTATTTTTAATA
1 ATTTTTTTATTTTTAA-G
* **
29308154 ATTATAGTATTTTTAAG
1 ATTTTTTTATTTTTAAG
*
29308171 ATTTTTTTATTTTAAAG
1 ATTTTTTTATTTTTAAG
29308188 ATTTTTT
1 ATTTTTT
29308195 AAATTATATA
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
17 20 0.61
18 13 0.39
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
ATTTTTTTATTTTTAAG
Found at i:29323220 original size:21 final size:21
Alignment explanation
Indices: 29323178--29323220 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
29323168 TATTTTCATT
* *
29323178 ATTTTACATATTAAATATTTA
1 ATTTTACATATTAAAAAATTA
29323199 ATTTTACATCA-TAAAAAATTA
1 ATTTTACAT-ATTAAAAAATTA
29323220 A
1 A
29323221 AATTAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
ATTTTACATATTAAAAAATTA
Found at i:29339986 original size:16 final size:15
Alignment explanation
Indices: 29339960--29340018 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 15
29339950 CGGAAAAAAA
29339960 TTTC-ATTTTCTATC
1 TTTCAATTTTCTATC
* *
29339974 TTTCTATTTTTCTACCC
1 TTTC-AATTTTCTA-TC
*
29339991 TTTCAATTTTCCATC
1 TTTCAATTTTCTATC
29340006 TTTCCAATTTTCT
1 TTT-CAATTTTCT
29340019 TTCCACTCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 4 0.11
15 4 0.11
16 22 0.63
17 5 0.14
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTCAATTTTCTATC
Found at i:29340340 original size:52 final size:52
Alignment explanation
Indices: 29340262--29340365 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
29340252 GGAAAGAGAC
29340262 TGGGAAGAAGTTCTCGTTTGGCAACAAAGACAGTATGAGAATGAAATTGTAA
1 TGGGAAGAAGTTCTCGTTTGGCAACAAAGACAGTATGAGAATGAAATTGTAA
29340314 TGGGAAGAAGTTCTCGTTTGGCAACAAAGACAGTATGAGAATGAAATTGTAA
1 TGGGAAGAAGTTCTCGTTTGGCAACAAAGACAGTATGAGAATGAAATTGTAA
29340366 AAGACACTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (52 bp):
TGGGAAGAAGTTCTCGTTTGGCAACAAAGACAGTATGAGAATGAAATTGTAA
Found at i:29342297 original size:118 final size:118
Alignment explanation
Indices: 29342089--29342436 Score: 593
Period size: 118 Copynumber: 3.0 Consensus size: 118
29342079 TGAGGGAGGG
*
29342089 AGCTTGATCTATGTTCTTGACTATATTATCACTCATAAATTGCACCTTCCGTTAATTAGTACTTT
1 AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
*
29342154 AACTGCCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
66 AACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
29342207 AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
1 AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
*
29342272 AACTACCATCAAGCTACAGCTAAGATTCTAC-GATACATAGCATACCATCTAA
66 AACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
*
29342324 AGCTTGATCTATGTTCTTGACTATATTCAGCACTCGTAAATTG------CCGTTAATTAGTACTT
1 AGCTTGATCTATGTTCTTGACTATATT-ATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTT
*
29342383 TAACTACCATCAAGGTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
65 TAACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
29342437 CTGATGGCAG
Statistics
Matches: 222, Mismatches: 6, Indels: 9
0.94 0.03 0.04
Matches are distributed among these distances:
112 47 0.21
113 20 0.09
117 47 0.21
118 108 0.49
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (118 bp):
AGCTTGATCTATGTTCTTGACTATATTATCACTCGTAAATTGCACCTTCCGTTAATTAGTACTTT
AACTACCATCAAGCTACAGCTAAGATTCTACGGATACATAGCATACCATTTAA
Found at i:29349330 original size:21 final size:20
Alignment explanation
Indices: 29349291--29349330 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
29349281 AAGAGAATTT
*
29349291 TTTAATAATTTTAATTAATA
1 TTTAATAATTTTAAATAATA
*
29349311 TTTAATTATGTTTAAATAAT
1 TTTAATAAT-TTTAAATAAT
29349331 TTATTGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
TTTAATAATTTTAAATAATA
Found at i:29349940 original size:22 final size:21
Alignment explanation
Indices: 29349897--29349943 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
29349887 TTTTTAATAC
29349897 AAAATAATTCTAATTCATAATT
1 AAAATAATTCTAATTCA-AATT
29349919 AAAATAATTCTCAAATTC-AATT
1 AAAATAATTCT--AATTCAAATT
29349941 AAA
1 AAA
29349944 TGTCTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 18 0.78
24 5 0.22
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATAATTCTAATTCAAATT
Found at i:29352006 original size:17 final size:18
Alignment explanation
Indices: 29351975--29352012 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
29351965 CTTTGGGAAT
29351975 TTACACAATCCTCTAAGA
1 TTACACAATCCTCTAAGA
* *
29351993 TTACA-AATCTTCTAATA
1 TTACACAATCCTCTAAGA
29352010 TTA
1 TTA
29352013 GTTTCCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (18 bp):
TTACACAATCCTCTAAGA
Found at i:29358532 original size:38 final size:36
Alignment explanation
Indices: 29358459--29358533 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 36
29358449 ATAAATAAGT
*
29358459 ATATCCACCCAACTCTCAAATGCATAATGTGAATATA
1 ATATCCACCCAACTCTCAAAT-CATAATGTAAATATA
*
29358496 ATATCCACCCAAACTCTCCAAAAT-ATCATGTAAATATA
1 ATATCCACCC-AACTCT-C-AAATCATAATGTAAATATA
29358534 TCACCCAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
37 10 0.30
38 18 0.55
39 1 0.03
40 4 0.12
ACGTcount: A:0.43, C:0.25, G:0.05, T:0.27
Consensus pattern (36 bp):
ATATCCACCCAACTCTCAAATCATAATGTAAATATA
Found at i:29361862 original size:44 final size:45
Alignment explanation
Indices: 29361799--29361888 Score: 173
Period size: 44 Copynumber: 2.0 Consensus size: 45
29361789 ATTACTGCAG
29361799 AAATCCTTTGTAGAAATTGAGTTTTTGTTATACA-TGCTCAGCAC
1 AAATCCTTTGTAGAAATTGAGTTTTTGTTATACATTGCTCAGCAC
29361843 AAATCCTTTGTAGAAATTGAGTTTTTGTTATACATTGCTCAGCAC
1 AAATCCTTTGTAGAAATTGAGTTTTTGTTATACATTGCTCAGCAC
29361888 A
1 A
29361889 TAATGGACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 34 0.76
45 11 0.24
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (45 bp):
AAATCCTTTGTAGAAATTGAGTTTTTGTTATACATTGCTCAGCAC
Found at i:29368618 original size:28 final size:28
Alignment explanation
Indices: 29368586--29368659 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
29368576 CAGTAACAAT
* *
29368586 ACAGTGTAGGCCCTGGCCTAATACAGTA
1 ACAGTGTGGGCCCTAGCCTAATACAGTA
*
29368614 ACAGTGTGGGCCTTAGCCTAATACAGTA
1 ACAGTGTGGGCCCTAGCCTAATACAGTA
* *
29368642 ATAGTGTGGGCCTTAGCC
1 ACAGTGTGGGCCCTAGCC
29368660 CATTATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (28 bp):
ACAGTGTGGGCCCTAGCCTAATACAGTA
Found at i:29369117 original size:27 final size:27
Alignment explanation
Indices: 29369068--29369255 Score: 209
Period size: 27 Copynumber: 7.0 Consensus size: 27
29369058 GGGTATAACA
*
29369068 GTCATTTTACCCTATG-GAAGTATTTCG
1 GTCATTTTACCCTATGAG-GGTATTTCG
* *
29369095 GTCATTTTACCCTATAAGGGTATTTCA
1 GTCATTTTACCCTATGAGGGTATTTCG
* **
29369122 ATCATTTTACCCTATGAGGGTATTTTA
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
29369149 GTCATTTTACCCTATAAAGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
29369176 GTCATTTTACTCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* * *
29369203 GTTATTTTATCCTATGAGGGTATGTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
29369230 GTTATTTTATCCTATTG-GGGTATTTC
1 GTCATTTTACCCTA-TGAGGGTATTTC
29369256 AAGGCTCGAT
Statistics
Matches: 138, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
27 135 0.98
28 3 0.02
ACGTcount: A:0.21, C:0.15, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:29369162 original size:81 final size:81
Alignment explanation
Indices: 29369067--29369225 Score: 230
Period size: 81 Copynumber: 2.0 Consensus size: 81
29369057 GGGGTATAAC
*
29369067 AGTCATTTTACCCTATGGAA-GTATTTCGGTCATTTTACCCTATAAGGGTATTTCAATCATTTTA
1 AGTCATTTTACCCTAT-AAAGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCAATCATTTTA
29369131 CCCTATGAGGGTATTTT
65 CCCTATGAGGGTATTTT
* ** ** * *
29369148 AGTCATTTTACCCTATAAAGGTATTTCGGTCATTTTACTCTATGGGGGTATTTCGGTTATTTTAT
1 AGTCATTTTACCCTATAAAGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCAATCATTTTAC
29369213 CCTATGAGGGTAT
66 CCTATGAGGGTAT
29369226 GTCGGTTATT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 2 0.03
81 67 0.97
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (81 bp):
AGTCATTTTACCCTATAAAGGTATTTCGGTCATTTTACCCTATAAGGGTATTTCAATCATTTTAC
CCTATGAGGGTATTTT
Found at i:29378220 original size:486 final size:486
Alignment explanation
Indices: 29377384--29378355 Score: 1935
Period size: 486 Copynumber: 2.0 Consensus size: 486
29377374 ATGAAAATCA
29377384 AACAAAACTGTAATACAAAGTTGAAATAAAGAAGAAAGAATATGGATTTTACAAAACGTTGAGGC
1 AACAAAACTGTAATACAAAGTTGAAATAAAGAAGAAAGAATATGGATTTTACAAAACGTTGAGGC
29377449 CTGTGAAACACAGTTTCCTTAAGACAGATTCGACCGTTCCTACGGTACTTGGAGTAACATTGGTC
66 CTGTGAAACACAGTTTCCTTAAGACAGATTCGACCGTTCCTACGGTACTTGGAGTAACATTGGTC
29377514 GAATGTCTCCCAGGATACAACAACAGTGATCAAAGTAATAGAACCTTTACAATGATCAACAAATG
131 GAATGTCTCCCAGGATACAACAACAGTGATCAAAGTAATAGAACCTTTACAATGATCAACAAATG
29377579 AACAACGTCTTTTTCTATCACCGAAATATTTAAAAATACGAAGAGGAAAAGGAAGAGTTTTGAGA
196 AACAACGTCTTTTTCTATCACCGAAATATTTAAAAATACGAAGAGGAAAAGGAAGAGTTTTGAGA
29377644 GCAATAGAGTTACGGTAAGAGAAAGATATCACAGTATTTTCTTATGAAAAACCTTCAGAAATCAT
261 GCAATAGAGTTACGGTAAGAGAAAGATATCACAGTATTTTCTTATGAAAAACCTTCAGAAATCAT
29377709 GGCCTTTTATAGGCATAGAGAATATTGGAATTTTGAAAAAAAATATCCACAAAATCTGTCATTAA
326 GGCCTTTTATAGGCATAGAGAATATTGGAATTTTGAAAAAAAATATCCACAAAATCTGTCATTAA
29377774 ATCAATAATAAAATCAATAAGATAAATATCTTTACATAAGTAGATTATGTCTGCTGAGGAAAATA
391 ATCAATAATAAAATCAATAAGATAAATATCTTTACATAAGTAGATTATGTCTGCTGAGGAAAATA
29377839 AATTTGTGTTCGACTAAAATATTCGCAAACC
456 AATTTGTGTTCGACTAAAATATTCGCAAACC
29377870 AACAAAACTGTAATACAAAGTTGAAATAAAGAAGAAAGAATATGGATTTTACAAAACGTTGAGGC
1 AACAAAACTGTAATACAAAGTTGAAATAAAGAAGAAAGAATATGGATTTTACAAAACGTTGAGGC
29377935 CTGTGAAACACAGTTTCCTTAAGACAGATTCGACCGTTCCTACGGTACTTGGAGTAACATTGGTC
66 CTGTGAAACACAGTTTCCTTAAGACAGATTCGACCGTTCCTACGGTACTTGGAGTAACATTGGTC
29378000 GAATGTCTCCCAGGATACAACAACAGTGATCAAAGTAATAGAACCTTTACAATGATCAACAAATG
131 GAATGTCTCCCAGGATACAACAACAGTGATCAAAGTAATAGAACCTTTACAATGATCAACAAATG
29378065 AACAACGTCTTTTTCTATCACCGAAATATTTAAAAATACGAAGAGGAAAAGGAAGAGTTTTGAGA
196 AACAACGTCTTTTTCTATCACCGAAATATTTAAAAATACGAAGAGGAAAAGGAAGAGTTTTGAGA
29378130 GCAATAGAGTTACGGTAAGAGAAAGATATCACAGTATTTTCTTATGAAAAACCTTCAGAAATCAT
261 GCAATAGAGTTACGGTAAGAGAAAGATATCACAGTATTTTCTTATGAAAAACCTTCAGAAATCAT
29378195 GGCCTTTTATAGGCATAGAGAATATTGGAATTTTGAAAAAAAATATCCACAAAATCTGTCATTAA
326 GGCCTTTTATAGGCATAGAGAATATTGGAATTTTGAAAAAAAATATCCACAAAATCTGTCATTAA
*
29378260 ATCAATAATAAAATCAATAAGATAAATATCTTTATATAAGTAGATTATGTCTGCTGAGGAAAATA
391 ATCAATAATAAAATCAATAAGATAAATATCTTTACATAAGTAGATTATGTCTGCTGAGGAAAATA
29378325 AATTTGTGTTCGACTAAAATATTCGCAAACC
456 AATTTGTGTTCGACTAAAATATTCGCAAACC
29378356 CATTTGGGCC
Statistics
Matches: 485, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
486 485 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (486 bp):
AACAAAACTGTAATACAAAGTTGAAATAAAGAAGAAAGAATATGGATTTTACAAAACGTTGAGGC
CTGTGAAACACAGTTTCCTTAAGACAGATTCGACCGTTCCTACGGTACTTGGAGTAACATTGGTC
GAATGTCTCCCAGGATACAACAACAGTGATCAAAGTAATAGAACCTTTACAATGATCAACAAATG
AACAACGTCTTTTTCTATCACCGAAATATTTAAAAATACGAAGAGGAAAAGGAAGAGTTTTGAGA
GCAATAGAGTTACGGTAAGAGAAAGATATCACAGTATTTTCTTATGAAAAACCTTCAGAAATCAT
GGCCTTTTATAGGCATAGAGAATATTGGAATTTTGAAAAAAAATATCCACAAAATCTGTCATTAA
ATCAATAATAAAATCAATAAGATAAATATCTTTACATAAGTAGATTATGTCTGCTGAGGAAAATA
AATTTGTGTTCGACTAAAATATTCGCAAACC
Found at i:29379112 original size:3 final size:3
Alignment explanation
Indices: 29379104--29379129 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
29379094 AATATTTGCT
29379104 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
29379130 GCAATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:29380036 original size:24 final size:24
Alignment explanation
Indices: 29380004--29380055 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
29379994 TGAGACCCTG
29380004 TCTCAGTAGTAGGAGTACCAACGA
1 TCTCAGTAGTAGGAGTACCAACGA
*
29380028 TCTCAGTAGTAGGAGTACCAACGG
1 TCTCAGTAGTAGGAGTACCAACGA
29380052 TCTC
1 TCTC
29380056 GCTGGTCTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (24 bp):
TCTCAGTAGTAGGAGTACCAACGA
Found at i:29386305 original size:335 final size:335
Alignment explanation
Indices: 29385695--29386371 Score: 1347
Period size: 335 Copynumber: 2.0 Consensus size: 335
29385685 CATTGATGCA
29385695 TATATATAAACTATTAATATATTATATACTATATGATATGATAAAGTAGGAGGGTTAACTTTCAA
1 TATATATAAACTATTAATATATTATATACTATATGATATGATAAAGTAGGAGGGTTAACTTTCAA
29385760 ATATACAAAACGTTTAAGGACTTAGAGCATATTTTAACCAGTATAATAATAAACAATAATTATGA
66 ATATACAAAACGTTTAAGGACTTAGAGCATATTTTAACCAGTATAATAATAAACAATAATTATGA
29385825 TAATAATTAATATCTAATGACTACTATTATATTATAGAATATACAAAATTTATAGTATTACATGA
131 TAATAATTAATATCTAATGACTACTATTATATTATAGAATATACAAAATTTATAGTATTACATGA
29385890 TATTATAATGTTTAATCATTTATGCATATATATGAACTATTAATATATTATATGCTATATCATTA
196 TATTATAATGTTTAATCATTTATGCATATATATGAACTATTAATATATTATATGCTATATCATTA
29385955 TGTAATATAATAGGAAGGTTAACTTTCAAATGTAGGAATATATGATAATGACTAATATATTATGT
261 TGTAATATAATAGGAAGGTTAACTTTCAAATGTAGGAATATATGATAATGACTAATATATTATGT
29386020 ACTACTCTAT
326 ACTACTCTAT
29386030 TATATATAAACTATTAATATATTATATACTATATGATATGATAAAGTAGGAGGGTTAACTTTCAA
1 TATATATAAACTATTAATATATTATATACTATATGATATGATAAAGTAGGAGGGTTAACTTTCAA
29386095 ATATACAAAACGTTTAAGGACTTAGAGCATATTTTAACCAGTATAATAATAAACAATAATTATGA
66 ATATACAAAACGTTTAAGGACTTAGAGCATATTTTAACCAGTATAATAATAAACAATAATTATGA
29386160 TAATAATTAATATCTAATGACTACTATTATATTATAGAATATACAAAATTTATAGTATTACATGA
131 TAATAATTAATATCTAATGACTACTATTATATTATAGAATATACAAAATTTATAGTATTACATGA
29386225 TATTATAATGTTTAATCATTTATGCATATATATGAACTATTAATATATTATATGCTATATCATTA
196 TATTATAATGTTTAATCATTTATGCATATATATGAACTATTAATATATTATATGCTATATCATTA
29386290 TGTAATATAATAGGAAGGTTAACTTTCAAATGTAGGAATATATGATAATGACTAATATATTATGT
261 TGTAATATAATAGGAAGGTTAACTTTCAAATGTAGGAATATATGATAATGACTAATATATTATGT
29386355 ACTACTCTAT
326 ACTACTCTAT
29386365 TAT-TATA
1 TATATATA
29386372 GTATGTGATA
Statistics
Matches: 342, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
334 4 0.01
335 338 0.99
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (335 bp):
TATATATAAACTATTAATATATTATATACTATATGATATGATAAAGTAGGAGGGTTAACTTTCAA
ATATACAAAACGTTTAAGGACTTAGAGCATATTTTAACCAGTATAATAATAAACAATAATTATGA
TAATAATTAATATCTAATGACTACTATTATATTATAGAATATACAAAATTTATAGTATTACATGA
TATTATAATGTTTAATCATTTATGCATATATATGAACTATTAATATATTATATGCTATATCATTA
TGTAATATAATAGGAAGGTTAACTTTCAAATGTAGGAATATATGATAATGACTAATATATTATGT
ACTACTCTAT
Found at i:29388885 original size:20 final size:21
Alignment explanation
Indices: 29388862--29388903 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
29388852 ATATGAACTC
29388862 TAAATT-T-GTTATATAATATG
1 TAAATTCTAGTTAT-TAATATG
29388882 TAAATTCTAGTTATTAATATG
1 TAAATTCTAGTTATTAATATG
29388903 T
1 T
29388904 TGATTGTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 9 0.45
22 5 0.25
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (21 bp):
TAAATTCTAGTTATTAATATG
Found at i:29389113 original size:21 final size:21
Alignment explanation
Indices: 29389074--29389114 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
29389064 ATAAATTTGC
* *
29389074 TGTGAAAAATGTTGGATATTT
1 TGTGAAAAATGATGAATATTT
*
29389095 TGTGAAATATGATGAATATT
1 TGTGAAAAATGATGAATATT
29389115 CATGTTGGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (21 bp):
TGTGAAAAATGATGAATATTT
Found at i:29389338 original size:115 final size:112
Alignment explanation
Indices: 29389136--29389374 Score: 329
Period size: 115 Copynumber: 2.1 Consensus size: 112
29389126 TGGGTATATT
* * *
29389136 TTAAT-ATATATTTGTAATTATTATAATAAATTAGATTAATATTTTTATTAGTATAATTTGATTG
1 TTAATAATATATTCGTAATTATTATAATAAATTAGATTAATAATTTTATTAGTAAAATTTGATTG
* *
29389200 TTTACTTGTAATTTTTTTATTTACTTAATTGTAAAGTATTTATTCTA
66 TTTACTTGTAATTTGTTTATTTACTTAAATGTAAAGTATTTATTCTA
* *
29389247 TTAGTAATATATTCGTAATTATTATAATAAATTAGATATTGATAATTTTATTAGTAAAAATTAT-
1 TTAATAATATATTCGTAATTATTATAATAAATTAG--ATTAATAATTTTATTAGT-AAAATT-TG
* * * *
29389311 ATTGTTTACTTGTAATTTGTTTGTTTACTTAAATGTAAATTTTTTATTTTA
62 ATTGTTTACTTGTAATTTGTTTATTTACTTAAATGTAAAGTATTTATTCTA
29389362 TTAATAATATATT
1 TTAATAATATATT
29389375 TAATTTAAAT
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
111 4 0.04
112 28 0.25
114 16 0.14
115 62 0.56
116 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (112 bp):
TTAATAATATATTCGTAATTATTATAATAAATTAGATTAATAATTTTATTAGTAAAATTTGATTG
TTTACTTGTAATTTGTTTATTTACTTAAATGTAAAGTATTTATTCTA
Found at i:29392243 original size:65 final size:64
Alignment explanation
Indices: 29392137--29392266 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 64
29392127 TCGCAAGCCA
* * *
29392137 TCTCTAGTCTTGTGTTTAGCTCCATTCTCTCAAATGATATTATTCCCCCACAATATGATGTAGG
1 TCTCTAGTCTTGTGTTTAACTCCATTATCTCAAATGATATTATACCCCCACAATATGATGTAGG
* * *
29392201 TCTCTAGTGCTTGTGTTTAACTCCATTATCTCAAATGGTATTATACCCCCGCGATATGATGTAGG
1 TCTCTAGT-CTTGTGTTTAACTCCATTATCTCAAATGATATTATACCCCCACAATATGATGTAGG
29392266 T
1 T
29392267 AAACCTTTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
64 8 0.14
65 51 0.86
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (64 bp):
TCTCTAGTCTTGTGTTTAACTCCATTATCTCAAATGATATTATACCCCCACAATATGATGTAGG
Found at i:29393548 original size:26 final size:26
Alignment explanation
Indices: 29393509--29393729 Score: 217
Period size: 26 Copynumber: 8.5 Consensus size: 26
29393499 CGAGATGTAC
*
29393509 TTTATTTAGCAGGCCTTGAGTCGGTG
1 TTTATTTAGCAGGCCTTGAGCCGGTG
* * *
29393535 ATTATTTAGTAGGCCTTGAGCCGGCG
1 TTTATTTAGCAGGCCTTGAGCCGGTG
*
29393561 TTTATTTAGCAGGTCTTGAGCCGGTG
1 TTTATTTAGCAGGCCTTGAGCCGGTG
* * ** * *
29393587 ATTATTTAGTAGGCCTTGAGTTGATT
1 TTTATTTAGCAGGCCTTGAGCCGGTG
* *
29393613 TTTATTTAGCAGGCCTTGAGTCGGTT
1 TTTATTTAGCAGGCCTTGAGCCGGTG
**
29393639 TTTATTTAGCAGGCCTTGAGCTAGTG
1 TTTATTTAGCAGGCCTTGAGCCGGTG
* * *
29393665 TTTATTTAGCAGGCTTTGAACCGATG
1 TTTATTTAGCAGGCCTTGAGCCGGTG
* * * **
29393691 ATTATTTAGTAGGCTTTGAGCTAGTG
1 TTTATTTAGCAGGCCTTGAGCCGGTG
* *
29393717 ATTAGTTAGCAGG
1 TTTATTTAGCAGG
29393730 TACTATGTAC
Statistics
Matches: 159, Mismatches: 36, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 159 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.39
Consensus pattern (26 bp):
TTTATTTAGCAGGCCTTGAGCCGGTG
Found at i:29393587 original size:52 final size:52
Alignment explanation
Indices: 29393509--29393729 Score: 271
Period size: 52 Copynumber: 4.2 Consensus size: 52
29393499 CGAGATGTAC
* * *
29393509 TTTATTTAGCAGGCCTTGAGTCGGTGATTATTTAGTAGGCCTTGAGCCGGCG
1 TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGTAGGCCTTGAGCTGGTG
* * * *
29393561 TTTATTTAGCAGGTCTTGAGCCGGTGATTATTTAGTAGGCCTTGAGTTGATT
1 TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGTAGGCCTTGAGCTGGTG
* ** * *
29393613 TTTATTTAGCAGGCCTTGAGTCGGTTTTTATTTAGCAGGCCTTGAGCTAGTG
1 TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGTAGGCCTTGAGCTGGTG
* * * * *
29393665 TTTATTTAGCAGGCTTTGAACCGATGATTATTTAGTAGGCTTTGAGCTAGTG
1 TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGTAGGCCTTGAGCTGGTG
* *
29393717 ATTAGTTAGCAGG
1 TTTATTTAGCAGG
29393730 TACTATGTAC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 143 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.39
Consensus pattern (52 bp):
TTTATTTAGCAGGCCTTGAGCCGGTGATTATTTAGTAGGCCTTGAGCTGGTG
Found at i:29393726 original size:78 final size:78
Alignment explanation
Indices: 29393509--29393729 Score: 246
Period size: 78 Copynumber: 2.8 Consensus size: 78
29393499 CGAGATGTAC
* * *
29393509 TTTATTTAGCAGGCCTTGAGTCGGTGATTATTTAGTAGGCCTTGAGCCGGCGTTTATTTAGCAGG
1 TTTATTTAGCAGGCCTTGAGTCGATGATTATTTAGTAGGCCTTGAGCTGGTGTTTATTTAGCAGG
* *
29393574 TCTTGAGCCGGTG
66 CCTTGAGCCAGTG
* * * ** * *
29393587 ATTATTTAGTAGGCCTTGAGTTGATTTTTATTTAGCAGGCCTTGAG-TCGGTTTTTATTTAGCAG
1 TTTATTTAGCAGGCCTTGAGTCGATGATTATTTAGTAGGCCTTGAGCT-GGTGTTTATTTAGCAG
*
29393651 GCCTTGAGCTAGTG
65 GCCTTGAGCCAGTG
* ** * * * *
29393665 TTTATTTAGCAGGCTTTGAACCGATGATTATTTAGTAGGCTTTGAGCTAGTGATTAGTTAGCAGG
1 TTTATTTAGCAGGCCTTGAGTCGATGATTATTTAGTAGGCCTTGAGCTGGTGTTTATTTAGCAGG
29393730 TACTATGTAC
Statistics
Matches: 114, Mismatches: 27, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
78 113 0.99
79 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.39
Consensus pattern (78 bp):
TTTATTTAGCAGGCCTTGAGTCGATGATTATTTAGTAGGCCTTGAGCTGGTGTTTATTTAGCAGG
CCTTGAGCCAGTG
Found at i:29394862 original size:54 final size:54
Alignment explanation
Indices: 29394750--29394855 Score: 124
Period size: 54 Copynumber: 2.0 Consensus size: 54
29394740 TAGGTTGGTT
* * ** ** *
29394750 AACACGGGCACAGTGAGATACACAGCCTGGGGACATGGCTGTGTGGCCCTGACA
1 AACACGGGCACAGAGAGATACACAGCCTGAGGACATACCCATGTGACCCTGACA
*
29394804 AACACGGGCACAGAGA-ATTATACAGCCTGAGGACATACCCATGTGACCCTGA
1 AACACGGGCACAGAGAGA-TACACAGCCTGAGGACATACCCATGTGACCCTGA
29394856 AGAACACAGG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.02
54 42 0.98
ACGTcount: A:0.30, C:0.26, G:0.28, T:0.15
Consensus pattern (54 bp):
AACACGGGCACAGAGAGATACACAGCCTGAGGACATACCCATGTGACCCTGACA
Found at i:29398111 original size:179 final size:180
Alignment explanation
Indices: 29397811--29398169 Score: 711
Period size: 179 Copynumber: 2.0 Consensus size: 180
29397801 TTAGTTCTTC
29397811 ATTTAATTTTTTGCCTCTTTTAACCCTTAAGCTTGTATTATTTGTTAAATTACCTTAAAATGAAA
1 ATTTAATTTTTTGCCTCTTTTAACCCTTAAGCTTGTATTATTTGTTAAATTACCTTAAAATGAAA
29397876 GGAAAACTTAACGATGTGGCATCTACATATATGCTACGTTAGCAATAATTAATTTTTAAAAATTA
66 GGAAAACTTAACGATGTGGCATCTACATATATGCTACGTTAGCAATAATTAATTTTTAAAAATTA
29397941 AAAATATTTTTATAATTTTAATATTTTTATATTTAAAA-GTAATTAATTA
131 AAAATATTTTTATAATTTTAATATTTTTATATTTAAAAGGTAATTAATTA
29397990 ATTTAATTTTTTGCCTCTTTTAACCCTTAAGCTTGTATTATTTGTTAAATTACCTTAAAATGAAA
1 ATTTAATTTTTTGCCTCTTTTAACCCTTAAGCTTGTATTATTTGTTAAATTACCTTAAAATGAAA
29398055 GGAAAACTTAACGATGTGGCATCTACATATATGCTACGTTAGCAATAATTAATTTTTAAAAATTA
66 GGAAAACTTAACGATGTGGCATCTACATATATGCTACGTTAGCAATAATTAATTTTTAAAAATTA
29398120 AAAATATTTTTATAATTTTAATATTTTTATATTTAAAAGGTAATTAATTA
131 AAAATATTTTTATAATTTTAATATTTTTATATTTAAAAGGTAATTAATTA
29398170 TTAACATAAT
Statistics
Matches: 179, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
179 168 0.94
180 11 0.06
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (180 bp):
ATTTAATTTTTTGCCTCTTTTAACCCTTAAGCTTGTATTATTTGTTAAATTACCTTAAAATGAAA
GGAAAACTTAACGATGTGGCATCTACATATATGCTACGTTAGCAATAATTAATTTTTAAAAATTA
AAAATATTTTTATAATTTTAATATTTTTATATTTAAAAGGTAATTAATTA
Found at i:29410372 original size:18 final size:19
Alignment explanation
Indices: 29410349--29410387 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
29410339 TTCATTATGG
*
29410349 AAGAAAGAAGAGAAGA-AA
1 AAGAAAGAAGAAAAGAGAA
29410367 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
29410386 AA
1 AA
29410388 AGATAGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:29410377 original size:13 final size:13
Alignment explanation
Indices: 29410352--29410390 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
29410342 ATTATGGAAG
29410352 AAAGAAGAGAAGAA
1 AAAGAA-AGAAGAA
29410366 AAAGAAAGAAGAA
1 AAAGAAAGAAGAA
29410379 AAGAGAAA-AAGA
1 AA-AGAAAGAAGA
29410391 TAGATAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAGAA
Found at i:29412681 original size:126 final size:126
Alignment explanation
Indices: 29412433--29412832 Score: 367
Period size: 126 Copynumber: 3.1 Consensus size: 126
29412423 CTTTTGGGTT
* *
29412433 GACACTTTCCGAAGTGTTGGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATTAGGG
1 GACACTTTCCGAAGTGTTAGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGGG
* * * **
29412498 TTGGGATAGGTATGCCTAAGGCAACACTTAAATAAGAGTTGGTTTTGTCCAGTACTATGCC
66 TTGGGATAGGCATGCCTAAGGCAACACTTAAATAAGAGTCGCTTTTGTCCAACACTATGCC
* *
29412559 GACATTTTCCTAAGTGTTAGGATAGACTTG-CTGACATACGA-TTTGGCCAACTCTTTGTATAAG
1 GACACTTTCCGAAGTGTTAGGATAGACTTGTC-GACATAC-ACTTTGGCCAACTCTTTGTATAAG
* *
29412622 GGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGACTTTT-TCCAACACTATGCC
64 GGTTGGGATAGGCATGCCTAAGGCAACACTTAAATAAGAGTCG-CTTTTGTCCAACACTATGCC
* * * * * * *
29412685 GAAACTTTTGGGCCGACACTTTTCTAATTGTTGGGATAGCCTTGTTGCCATACGCTTTGGCCAAC
1 GACAC-TTT---CCG----------AAGTGTTAGGATAGACTTGTCGACATACACTTTGGCCAAC
* * * * * **
29412750 TCTTTATATAAGGGTTGAGATATGCATTCCAAAAACAACACTTAAATAAGAGTCAGC-TTTGTCC
52 TCTTTGTATAAGGGTTGGGATAGGCATGCCTAAGGCAACACTTAAATAAGAGTC-GCTTTTGTCC
* *
29412814 AACACTATACT
116 AACACTATGCC
29412825 GACACTTT
1 GACACTTT
29412833 TGGGTTGACA
Statistics
Matches: 223, Mismatches: 30, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
125 1 0.00
126 109 0.49
127 8 0.04
130 2 0.01
139 6 0.03
140 96 0.43
141 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (126 bp):
GACACTTTCCGAAGTGTTAGGATAGACTTGTCGACATACACTTTGGCCAACTCTTTGTATAAGGG
TTGGGATAGGCATGCCTAAGGCAACACTTAAATAAGAGTCGCTTTTGTCCAACACTATGCC
Found at i:29412930 original size:140 final size:139
Alignment explanation
Indices: 29412556--29412957 Score: 443
Period size: 140 Copynumber: 2.9 Consensus size: 139
29412546 CCAGTACTAT
* * * * *
29412556 GCCGACATTTTCCTAAGTGTTAGGATAGACTTGCTGACATACGATTTGGCCAACTCTTTGTATAA
1 GCCGACACTTTCCTAAGTGTTGGGATAGACTTTC-CACATACGCTTTGGCCAACTCTTTGTATAA
* * *
29412621 GGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTC-GACTTTTTCCAACACTATGCC
65 GGGTT-GGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCAGACTTTGTCCAACACTATACC
29412685 GAAACTTTTGG
129 GAAACTTTTGG
* * * * *
29412696 GCCGACACTTTTCTAATTGTTGGGATAGCCTTGTTGC-CATACGCTTTGGCCAACTCTTTATATA
1 GCCGACACTTTCCTAAGTGTTGGGATAGAC-T-TTCCACATACGCTTTGGCCAACTCTTTGTATA
* * **
29412760 AGGGTTGAGATATGCATTCCAAAAACAACACTTAAATAAGAGTCAG-CTTTGTCCAACACTATAC
64 AGGGTTG-GATATGCATGCCTAAGGCAACACTTAAATAAGAGTCAGACTTTGTCCAACACTATAC
* *
29412824 TGACACTTTTGG
128 CGAAACTTTTGG
** * * *
29412836 GTTGACACTTTCCTAAGTGTTGGGATAGACTTTCCAACATATGCTATGGCAAACTCTTTGTATAA
1 GCCGACACTTTCCTAAGTGTTGGGATAGACTTTCC-ACATACGCTTTGGCCAACTCTTTGTATAA
* * * * **
29412901 GGGTCGGTATATGCATGACTATGGTAACACTTAAATAAGAGTCA-ACTTCATCCAACA
65 GGGTTGG-ATATGCATGCCTAAGGCAACACTTAAATAAGAGTCAGACTTTGTCCAACA
29412958 TTATGTCGAC
Statistics
Matches: 215, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
138 3 0.01
139 3 0.01
140 206 0.96
141 2 0.01
142 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (139 bp):
GCCGACACTTTCCTAAGTGTTGGGATAGACTTTCCACATACGCTTTGGCCAACTCTTTGTATAAG
GGTTGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCAGACTTTGTCCAACACTATACCGA
AACTTTTGG
Found at i:29415588 original size:15 final size:15
Alignment explanation
Indices: 29415568--29415598 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
29415558 TGTAGCTCTG
29415568 ATACCATTAAATGTA
1 ATACCATTAAATGTA
29415583 ATACCATTAAATGTA
1 ATACCATTAAATGTA
29415598 A
1 A
29415599 CACCTCTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (15 bp):
ATACCATTAAATGTA
Found at i:29431194 original size:40 final size:40
Alignment explanation
Indices: 29431145--29431363 Score: 242
Period size: 40 Copynumber: 5.5 Consensus size: 40
29431135 AAGAAAATGT
* ** *
29431145 CCCTAAATGCACATGCGTGCCCCTGATTGTACTTCGGTAC
1 CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTAC
* *
29431185 CCCTGAATGCACATATG-GGCCCTTTTTGTACTTCGGTAC
1 CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTAC
* * * * * *
29431224 CTCTGAATGTACTTATGTGCCCCTGTTTGTACTTTGATGC
1 CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTAC
* * *
29431264 CCCTGAATGCACATACGTGCCCCTTTTTGTACTTGGGTAC
1 CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTAC
* * *
29431304 CCCTGAATGCACATATATGCCCCTGTTTGTACTTCAGTTC
1 CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTAC
* * *
29431344 CCTTGAAGGCACATTTGTGC
1 CCCTGAATGCACATATGTGC
29431364 TTTAAATGCA
Statistics
Matches: 146, Mismatches: 32, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
39 33 0.23
40 113 0.77
ACGTcount: A:0.18, C:0.28, G:0.20, T:0.34
Consensus pattern (40 bp):
CCCTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTAC
Found at i:29431254 original size:20 final size:20
Alignment explanation
Indices: 29431231--29431337 Score: 72
Period size: 20 Copynumber: 5.3 Consensus size: 20
29431221 TACCTCTGAA
29431231 TGTACTTATGTGCCCCTGTT
1 TGTACTTATGTGCCCCTGTT
**
29431251 TGTACTT-TGATGCCCCTGAA
1 TGTACTTATG-TGCCCCTGTT
* * * *
29431271 TGCACATACGTGCCCCTTTT
1 TGTACTTATGTGCCCCTGTT
** * **
29431291 TGTACTTGGGTACCCCTGAA
1 TGTACTTATGTGCCCCTGTT
* * *
29431311 TGCACATATATGCCCCTGTT
1 TGTACTTATGTGCCCCTGTT
29431331 TGTACTT
1 TGTACTT
29431338 CAGTTCCCTT
Statistics
Matches: 59, Mismatches: 26, Indels: 4
0.66 0.29 0.04
Matches are distributed among these distances:
19 2 0.03
20 56 0.95
21 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (20 bp):
TGTACTTATGTGCCCCTGTT
Found at i:29434975 original size:25 final size:25
Alignment explanation
Indices: 29434947--29435004 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
29434937 TCCTCCGAGT
29434947 TGAATAACGGGAAGCTCATGAGAGC
1 TGAATAACGGGAAGCTCATGAGAGC
* * *
29434972 TGAATATCGGGAAGCTTATGCGAGC
1 TGAATAACGGGAAGCTCATGAGAGC
*
29434997 TGTATAAC
1 TGAATAAC
29435005 AGACTGCTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (25 bp):
TGAATAACGGGAAGCTCATGAGAGC
Found at i:29445509 original size:1 final size:1
Alignment explanation
Indices: 29445503--29445543 Score: 64
Period size: 1 Copynumber: 41.0 Consensus size: 1
29445493 TTCCGGGTTT
**
29445503 AAAAAAAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
29445544 CTATTACTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.95, C:0.00, G:0.00, T:0.05
Consensus pattern (1 bp):
A
Found at i:29446938 original size:9 final size:9
Alignment explanation
Indices: 29446924--29446955 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
29446914 TTTAAATTTT
*
29446924 ATAATTTAA
1 ATAATTCAA
29446933 ATAATTCAA
1 ATAATTCAA
29446942 ATAATTCAA
1 ATAATTCAA
29446951 ATAAT
1 ATAAT
29446956 AGATTGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAATTCAA
Found at i:29447083 original size:20 final size:20
Alignment explanation
Indices: 29447030--29447075 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
29447020 ACAAAACTAC
29447030 AAAATAATTCAAAATAATTTT
1 AAAA-AATTCAAAATAATTTT
29447051 AAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
29447071 AAAAA
1 AAAAA
29447076 TTCCAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:29449201 original size:4 final size:4
Alignment explanation
Indices: 29449192--29449268 Score: 91
Period size: 4 Copynumber: 17.8 Consensus size: 4
29449182 AACTTGAGCC
*
29449192 TTAT TTAT TTAT TTAT TTAT TCAT TTCAT TTCAT TTAT TTAT TTAT TTCATT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TT-AT TTAT TTAT TTAT TT-A-T
29449244 TTAT TTCAT TTCAT TTAT TTAT TTA
1 TTAT TT-AT TT-AT TTAT TTAT TTA
29449269 CAAGAAAATA
Statistics
Matches: 67, Mismatches: 2, Indels: 8
0.87 0.03 0.10
Matches are distributed among these distances:
4 44 0.66
5 20 0.30
6 3 0.04
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:29449221 original size:5 final size:5
Alignment explanation
Indices: 29449211--29449267 Score: 70
Period size: 5 Copynumber: 12.4 Consensus size: 5
29449201 TATTTATTTA
*
29449211 TTCAT TTCAT TTCAT TT-AT TT-AT TT-AT TTCAT TTTAT TTCAT TTCAT
1 TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT TTCAT
29449258 TT-AT TT-AT TT
1 TTCAT TTCAT TT
29449268 ACAAGAAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
4 20 0.41
5 29 0.59
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (5 bp):
TTCAT
Found at i:29449227 original size:22 final size:20
Alignment explanation
Indices: 29449192--29449268 Score: 91
Period size: 22 Copynumber: 3.5 Consensus size: 20
29449182 AACTTGAGCC
29449192 TTATTTATTTATTTATTTAT
1 TTATTTATTTATTTATTTAT
*
29449212 TCATTTCATTTCATTTATTTAT
1 TTATTT-ATTT-ATTTATTTAT
29449234 TTATTTCATTTTATTTCATTTCAT
1 TTATTT-A-TTTATTT-ATTT-AT
29449258 TTATTTATTTA
1 TTATTTATTTA
29449269 CAAGAAAATA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
20 5 0.10
21 4 0.08
22 25 0.50
23 8 0.16
24 8 0.16
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTATTTATTTATTTAT
Found at i:29453084 original size:237 final size:237
Alignment explanation
Indices: 29452669--29453142 Score: 689
Period size: 237 Copynumber: 2.0 Consensus size: 237
29452659 TTGCTTACAG
* *
29452669 ACCGGGAGTAGCCATTTTTGAATGTTGTAGTATCCTGCGCAATGCTCCAGGGTTAAAACCCTCGT
1 ACCGGGAGTAGACATTTTTGAATGTTGCAGTATCCTGCGCAATGCTCCAGGGTTAAAACCCTCGT
*
29452734 AATCGTCCTTTGGTGGGAACAGTGTAGGTACGATCTCGCCTATTACGTTGACCATCTTACGACTA
66 AATCGTCCTTTGGTGGGAACAGTGTAGGTACGACCTCGCCTATTACGTTGACCATCTTACGACTA
* * * *
29452799 AATTTTTTGTCAAACGAGCCGAGTGGTGGACTTGAATTTCCAACATCGTCAGTACTACTGTGTAG
131 AAATTTTTATCAAACGAGCCGAGTGGTGGACTTGAATTTCCAACATCGTCAATACAACTGTGTAG
*
29452864 AGGCCTCTATGTCACATTTATCGGTGGTGGACAGGACCGAGT
196 AGGCCTCGATGTCACATTTATCGGTGGTGGACAGGACCGAGT
* * * * * * *
29452906 ACCGGGAGTGGACATTTTTGAATGTTGCCGTATCTTGGGCGATGCTCTAGGGTTGAAACCCTCGT
1 ACCGGGAGTAGACATTTTTGAATGTTGCAGTATCCTGCGCAATGCTCCAGGGTTAAAACCCTCGT
* *
29452971 AATCGTCCTTTGGTGGGAACAGTGTAGGTACGACCTCGCCTATTACGTTGATCGTCTTACGACTA
66 AATCGTCCTTTGGTGGGAACAGTGTAGGTACGACCTCGCCTATTACGTTGACCATCTTACGACTA
* * * * * *
29453036 AAATTTTTATCAGATGAGCTTG-GTGGTGGGCTTGAATTTTCAACATCGTCAATACAACTGTGTG
131 AAATTTTTATCAAACGAGC-CGAGTGGTGGACTTGAATTTCCAACATCGTCAATACAACTGTGTA
* * * *
29453100 GAGGCGTCGATGTCTCCTTTATCGGTGGTTGACAGGACCGAGT
195 GAGGCCTCGATGTCACATTTATCGGTGGTGGACAGGACCGAGT
29453143 GGTGGACGAC
Statistics
Matches: 209, Mismatches: 27, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
237 208 1.00
238 1 0.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (237 bp):
ACCGGGAGTAGACATTTTTGAATGTTGCAGTATCCTGCGCAATGCTCCAGGGTTAAAACCCTCGT
AATCGTCCTTTGGTGGGAACAGTGTAGGTACGACCTCGCCTATTACGTTGACCATCTTACGACTA
AAATTTTTATCAAACGAGCCGAGTGGTGGACTTGAATTTCCAACATCGTCAATACAACTGTGTAG
AGGCCTCGATGTCACATTTATCGGTGGTGGACAGGACCGAGT
Found at i:29467872 original size:13 final size:13
Alignment explanation
Indices: 29467856--29467880 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29467846 GTTTTTAGAG
29467856 TATTTTTTGTTAT
1 TATTTTTTGTTAT
29467869 TATTTTTTGTTA
1 TATTTTTTGTTA
29467881 ATTCTTGTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (13 bp):
TATTTTTTGTTAT
Found at i:29482634 original size:11 final size:11
Alignment explanation
Indices: 29482618--29482651 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
29482608 TCAATTATTT
29482618 TCTCAATTTCC
1 TCTCAATTTCC
*
29482629 TCTCAATTTGC
1 TCTCAATTTCC
29482640 TCTCAATTTCC
1 TCTCAATTTCC
29482651 T
1 T
29482652 TCCAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.18, C:0.32, G:0.03, T:0.47
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:29482646 original size:22 final size:22
Alignment explanation
Indices: 29482614--29482667 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
29482604 TCTCTCAATT
29482614 ATTT-TCTCAATTTCC-TCTC-A
1 ATTTCTCTCAATTTCCTTC-CAA
29482634 ATTTGCTCTCAATTTCCTTCCAA
1 ATTT-CTCTCAATTTCCTTCCAA
29482657 ATTTCTCTCAA
1 ATTTCTCTCAA
29482668 ATCCATATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.13
22 19 0.63
23 7 0.23
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCCAA
Found at i:29483887 original size:7 final size:7
Alignment explanation
Indices: 29483875--29483899 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29483865 AGTCGATTGT
29483875 TATTTAG
1 TATTTAG
29483882 TATTTAG
1 TATTTAG
29483889 TATTTAG
1 TATTTAG
29483896 TATT
1 TATT
29483900 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:29484570 original size:18 final size:18
Alignment explanation
Indices: 29484547--29484589 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
29484537 TGCCAGATGC
* *
29484547 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
29484565 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
29484583 GTTTCCT
1 GTATCCT
29484590 TTCTCGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:29484885 original size:21 final size:21
Alignment explanation
Indices: 29484843--29484891 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
29484833 CCAGATGCCT
* *
29484843 TACCGGAGGAACCAAAATCCC
1 TACCGGAGCAACCAAAACCCC
* *
29484864 TACCGGAGCAATCATAACCCC
1 TACCGGAGCAACCAAAACCCC
*
29484885 TGCCGGA
1 TACCGGA
29484892 AGCTGGACAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.35, G:0.20, T:0.12
Consensus pattern (21 bp):
TACCGGAGCAACCAAAACCCC
Found at i:29485181 original size:20 final size:21
Alignment explanation
Indices: 29485137--29485185 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
29485127 CAAAAACTCT
29485137 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
29485158 AACCCTAACCCTTAACTT-AA
1 AACCCTAACCCTTAACTTAAA
29485178 AACCCTAA
1 AACCCTAA
29485186 ACTAATTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:29485220 original size:7 final size:7
Alignment explanation
Indices: 29485200--29485239 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
29485190 ATTTACTAAA
29485200 AATTTAT
1 AATTTAT
29485207 AAATTTAT
1 -AATTTAT
29485215 AATTTAT
1 AATTTAT
29485222 AA-TTA-
1 AATTTAT
29485227 AATTTAT
1 AATTTAT
29485234 AATTTA
1 AATTTA
29485240 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:29485853 original size:7 final size:7
Alignment explanation
Indices: 29485833--29485872 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
29485823 ATTTATTAAA
29485833 AATTTAT
1 AATTTAT
29485840 AAATTTAT
1 -AATTTAT
29485848 AATTTAT
1 AATTTAT
29485855 AA-TTA-
1 AATTTAT
29485860 AATTTAT
1 AATTTAT
29485867 AATTTA
1 AATTTA
29485873 ATTGACAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.07
6 6 0.20
7 15 0.50
8 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:29485928 original size:21 final size:21
Alignment explanation
Indices: 29485898--29486028 Score: 235
Period size: 21 Copynumber: 6.2 Consensus size: 21
29485888 CAAAAACCCT
29485898 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
29485919 AACTCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
29485940 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
29485962 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
29485983 AACCCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
29486004 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
29486025 AACC
1 AACC
29486029 TTAAAACCCT
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
21 84 0.80
22 21 0.20
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:29485976 original size:64 final size:63
Alignment explanation
Indices: 29485898--29486028 Score: 235
Period size: 64 Copynumber: 2.1 Consensus size: 63
29485888 CAAAAACCCT
* *
29485898 AACCCTAACCCTTAACTTAAAAACTCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCT-AACCCTTAACTTAAA
29485962 AACCCTAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAA
29486025 AACC
1 AACC
29486029 TTAAAACCCT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 19 0.29
64 46 0.71
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (63 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:29486053 original size:20 final size:21
Alignment explanation
Indices: 29486024--29486069 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
29486014 CTTAACTTAA
*
29486024 AAACCTTAAAACCCT-ACCCT
1 AAACCCTAAAACCCTAACCCT
*
29486044 AAACCCTAAAATCCTAACCCT
1 AAACCCTAAAACCCTAACCCT
29486065 AAACC
1 AAACC
29486070 TAACTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACCCTAAAACCCTAACCCT
Found at i:29486141 original size:19 final size:18
Alignment explanation
Indices: 29486096--29486143 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 18
29486086 TAATTTGATA
29486096 AATTTACTAACAATTAAT
1 AATTTACTAACAATTAAT
* *
29486114 -A-TAATTAACAATTAAT
1 AATTTACTAACAATTAAT
29486130 AATTTTACTAACAA
1 AA-TTTACTAACAA
29486144 AATGTTAGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
16 13 0.57
17 2 0.09
19 8 0.35
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTTACTAACAATTAAT
Found at i:29489377 original size:124 final size:124
Alignment explanation
Indices: 29489156--29489551 Score: 614
Period size: 124 Copynumber: 3.2 Consensus size: 124
29489146 GCGGTTTCAT
* * *
29489156 AAATTCTTCTGATAAAGCATCCTGCTTGAAGCATTTTTTATACTATTCGCTCAGAAATGTCAACT
1 AAATTCTTCAGATAAAGCATCCTGCTTGAAGC-GTTTTTATACTATTCGCTCAGAAACGTCAACT
* * * * *
29489221 CAAAATTATTTTTTTAGGACCTACTGTAGCAAAAGCGCGTCCACATGGGCGCAATTTAAA
65 CAAAATTATTTTTTCAGGACCAACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAAG
29489281 AAATTCTTCAGATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTC
1 AAATTCTTCAGATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTC
* *
29489346 AAAATTATTTTTTCAGGAGCAACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTTAG
66 AAAATTATTTTTTCAGGACCAACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAAG
* ** *
29489405 AAATTCTTCTGATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTTTCTCAGAAACATCAACTC
1 AAATTCTTCAGATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTC
* * *
29489470 GAAATTATTTTTTCAGGACCAACTGTAGCAAAAGCGCGCCCACGTGGGCGCGATTTCAG
66 AAAATTATTTTTTCAGGACCAACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAAG
29489529 AAATTCTTCTA-ATAAAGCATCCT
1 AAATTCTTC-AGATAAAGCATCCT
29489552 AAACCCTAAA
Statistics
Matches: 251, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
124 220 0.88
125 31 0.12
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (124 bp):
AAATTCTTCAGATAAAGCATCCTGCTTGAAGCGTTTTTATACTATTCGCTCAGAAACGTCAACTC
AAAATTATTTTTTCAGGACCAACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAAG
Found at i:29489640 original size:21 final size:22
Alignment explanation
Indices: 29489597--29489642 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
29489587 TTTTCTCTAA
* *
29489597 AACCCTAAAAACCTTAAATCCT
1 AACCCTAAAAACCTCAAAACCT
29489619 AACCCTAAAAA-CTCAAAACCT
1 AACCCTAAAAACCTCAAAACCT
29489640 AAC
1 AAC
29489643 AATGGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCTAAAAACCTCAAAACCT
Found at i:29492055 original size:25 final size:25
Alignment explanation
Indices: 29492001--29492066 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
29491991 TTTTGAACTT
29492001 ATATTATTTATTTTAAATTGTTCTA
1 ATATTATTTATTTTAAATTGTTCTA
* *
29492026 TTATTATTTATTTTAAATTTTTC-A
1 ATATTATTTATTTTAAATTGTTCTA
**
29492050 CATATTATGCATTTTAA
1 -ATATTATTTATTTTAA
29492067 GCTATATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 1 0.03
25 34 0.97
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (25 bp):
ATATTATTTATTTTAAATTGTTCTA
Found at i:29492320 original size:24 final size:23
Alignment explanation
Indices: 29492283--29492330 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
29492273 TTCTTGGTTA
*
29492283 TTTATTTTAATTTGCTATGTTATT
1 TTTATTTTAATTTGC-ATATTATT
**
29492307 TTTATTTTTCTTTGCATATTATT
1 TTTATTTTAATTTGCATATTATT
29492330 T
1 T
29492331 ACTTTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.19, C:0.06, G:0.06, T:0.69
Consensus pattern (23 bp):
TTTATTTTAATTTGCATATTATT
Found at i:29503698 original size:950 final size:949
Alignment explanation
Indices: 29501865--29505632 Score: 6194
Period size: 950 Copynumber: 4.0 Consensus size: 949
29501855 CTATCCCACA
29501865 AGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
1 AGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
29501930 AGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAG
66 AGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAG
* *
29501995 GGAGAAAAGAATGATAGCCCTTGGTATAAAGATATATT--GTATATGTGAAGAATCGTTAGTATC
131 GGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTACG-ATATGTGAAGAATCGTGAGTATC
* * * *
29502058 CTGACCAGGCAGCTGAGAATGATAAGAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGAT
195 TTAACCAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGAT
29502123 GGGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACACTGTGAAGGC
260 GGGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACACTGTGAAGGC
* * *
29502188 TAAGAAAATCTTAGAGGAGGTCCATTAGGGTATTTGCGGAACACATGCCAGTGGGTTCACAATGG
325 TAAGAAAATATTAGAGGAAGTCCATGAGGGTATTTGCGGAACACATGCCAGTGGGTTCACAATGG
*
29502253 CTAGACAGATTATGAGGTTCGGGTACTACTGGTTCACCATAGAAGGAGATTGCATCAATTATGCC
390 CTAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCC
*
29502318 AAGAAATGCCATAAATGCCAAATTTATGGTGATAAA--G--TGCACCTCCTTCGCCTCTTCATGT
455 AAGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCG-CTCTTCATGT
* * *
29502379 TATGACTTCTCCGTGGCCTTTCGT-TATGTGGGGTATGGATGTTATCGGGCCAATATC-ACTGAA
519 TATGACTTCTCCATGGCCTTTC-TCTATGTGGGGTATGGATGTCATCGGGCCAATATCGTC-GAA
* *
29502442 GGCTTCTAATGGGAATTGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTG
582 GGCTTCTAATGGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTG
* *
29502507 CTTCGTATGCTAATGTCACAAAGTCAGCAGTTAGCAAGTTCTTGAAAAAGAAGATCATATGTCGA
647 CTTCGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGA
* *
29502572 TATGGAATGCCTGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGTAGA
712 TATGGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGCAGA
* * *
29502637 TATCTGCAGTCAATTTAAGAACAGACACCATAATTCGTCACCGTACTGCCTAAAAATGAATGGTG
777 TGTCTGCAGTCAATTTAAGATCAGACAACATAATTCGTCACCGTACTGCCTAAAAATGAATGGTG
* * * * *
29502702 CAATAGAAGCGACCAATAAAAATATTAAGAAAATTATGGGGAAAATGACTGAGACTTACAAGAAC
842 CAATGGAAGCGGCCAATAAAAATATCAAGAAAATTGTGGGGAAAATGACTGAGACTTACAAGGAC
29502767 TGGCATCAGAAATAAACAGACAAGACTTACAAGGACTGGCACG
907 TGGCATCAGAAATAAACAGACAAGACTTACAAGGACTGGCACG
* * *
29502810 AGATGAAAATCAGATGGCTGACTCGTTGGCTTCTCTAGCCTCCATGATTAAAATGAGCAGACAAG
1 AGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
*
29502875 AGGACATGAAGCCTATCCAGATGAGCATCTTTGAAACCCCAGCTCACTGTTACAATATCGAAGAG
66 AGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAG
* * *
29502940 GGAGAAAATGATGATAGCCCTTGGTATAAAGATATATTACGACATGTGAAGAATCATGAGTATCT
131 GGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTACGATATGTGAAGAATCGTGAGTATCT
29503005 TAACCAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGATG
196 TAACCAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGATG
*
29503070 GGGAGATCTTATATAAAAAGGGAAATGATCAGGTACTATTAAGATGTGTGGACACTGTGAAGGCT
261 GGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACACTGTGAAGGCT
* *
29503135 AAGAAAATCTTAGAGGAAGTCCATGAGGGTATTTGCGGAACACATGCCAGTGGGTTCACAATGGT
326 AAGAAAATATTAGAGGAAGTCCATGAGGGTATTTGCGGAACACATGCCAGTGGGTTCACAATGGC
*
29503200 TAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATAAATTATGCCA
391 TAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCCA
*
29503265 AGAAGTGCCATAAATGTCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCGACTCTTCATGTT
456 AGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCG-CTCTTCATGTT
* *
29503330 ATGACTTCTCCATGGCTTTTCTCTATGTGGGGTATGGATGTCATTGGGCCAATATCGTCGAAGGC
520 ATGACTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGTCGAAGGC
*
29503395 TTCTAATGGGCATCGTTTCTTCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTT
585 TTCTAATGGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTT
* * * * *
29503460 CGTATGCTAGTGTTACAAAGTCAGAAGTCAGTAAGTTCTTGAAAAAGGAGATCATATGTCAATAT
650 CGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATAT
* *
29503525 GGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAAAGCTCAATCGCAGATGT
715 GGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGCAGATGT
29503590 CTGCAGTCAATTTAAGATCAGACAACATAATTCGTCACCGTACTGCCTAAAAATGAATGGTGCAA
780 CTGCAGTCAATTTAAGATCAGACAACATAATTCGTCACCGTACTGCCTAAAAATGAATGGTGCAA
*
29503655 TGGAAACGGCCAATAAAAATATCAAGAAAATTGTGGGGAAAATGACTGAGACTTACAAGGACTGG
845 TGGAAGCGGCCAATAAAAATATCAAGAAAATTGTGGGGAAAATGACTGAGACTTACAAGGACTGG
* * *
29503720 CATGAGAAATAAATACACAAGACTTACAAGGACTGGCACG
910 CATCAGAAATAAACAGACAAGACTTACAAGGACTGGCACG
*
29503760 ATATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
1 AGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
*
29503825 AGGACATGAAGCCTATCCAGATGAGCATCTATGAAAACCCAGCTCACTGTTACAATATCGAAGAG
66 AGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAG
*
29503890 GGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTACGATATGTGAAGAATCGTGAGTATCA
131 GGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTACGATATGTGAAGAATCGTGAGTATCT
* *
29503955 TAACCAGGCAACTGAGAATGATAAAAGGGCTCTAAGAAGACTAGCCATTGATTATGTCTTAGATA
196 TAACCAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGATG
* **
29504020 GGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTACGATGTGTGGATGCTGTGAAGGCT
261 GGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACACTGTGAAGGCT
* *
29504085 AAGAAAATATTAGAGGAAGTCCATGAGGGTATTTACGGAACGCATGCCAGTGGGTTCACAATGGC
326 AAGAAAATATTAGAGGAAGTCCATGAGGGTATTTGCGGAACACATGCCAGTGGGTTCACAATGGC
29504150 TAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCCA
391 TAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCCA
29504215 AGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCGTCTCTTCATGTT
456 AGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCG-CTCTTCATGTT
* * * * *
29504280 ATGACTTCGCCTTGGCCTTTCTCTATGTGGGGTATGGATGTTATTGGGCCAATATCATCGAAGGC
520 ATGACTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGTCGAAGGC
29504345 TTCTAATGGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTT
585 TTCTAATGGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTT
*
29504410 CGTATGCTAATGTCCCAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATAT
650 CGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATAT
*
29504475 GGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGCGGATGT
715 GGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGCAGATGT
29504540 CTGCAGTCAATTTAAGATCAGACAACATAATTCGTCACCGTACTGCCTAAAAATGAATGGTGCAA
780 CTGCAGTCAATTTAAGATCAGACAACATAATTCGTCACCGTACTGCCTAAAAATGAATGGTGCAA
* * *
29504605 TGGAAGCGGCCAATAAAAATATC------------GGGAAAATGACTAAGACTTACAATGACTGA
845 TGGAAGCGGCCAATAAAAATATCAAGAAAATTGTGGGGAAAATGACTGAGACTTACAAGGACTGG
29504658 CATCAGAAATAAACAGACAAGACTTACAATGACTTACAAGGACTGGCACG
910 CATCAGAAAT--A-A-AC-AG----ACAA-GACTTACAAGGACTGGCACG
* *
29504708 ATATGAAAATCAGATGGCTGACGCGTTGCCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
1 AGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
* *
29504773 AGGACATGAAGCCTATCCAGATGACCATCTATGAAACACCAGCTCACTGTTACAATATCGAAGAG
66 AGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAG
* *
29504838 GGAGAAAAGGATGATAGCCCATGGTATAAAGATATATTGCGATATGTGAAGAATCGTGAGTATCC
131 GGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTACGATATGTGAAGAATCGTGAGTAT-C
* *
29504903 TGAA-CAGGCAACTGAGAATGATAAGAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGAT
195 TTAACCAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGAT
*
29504967 GGGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACGCTGTGAAGGC
260 GGGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACACTGTGAAGGC
* * * **
29505032 TAAGAAAATATTAGAGGAGGTCCATAAGAGTATTTGCGGAATGCATGCCAGTGGGTTCACAATGG
325 TAAGAAAATATTAGAGGAAGTCCATGAGGGTATTTGCGGAACACATGCCAGTGGGTTCACAATGG
* *
29505097 CTAGATAGATTATGAGATTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCC
390 CTAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCC
29505162 AAGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCGCTTCTTCATGT
455 AAGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCGC-TCTTCATGT
* * * *
29505227 TATAACTTCTCCATAGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCCATATCGCCGAAGG
519 TATGACTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGTCGAAGG
** *
29505292 CTTCTAATGGGTTTCGTTTCATCTTTCTGGTTACTGATTACTTCACTAAATGGGTAGAAGCTGCT
584 CTTCTAATGGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCT
* * *
29505357 TCGTATGCTAATATCAGAAAGTCAGCAGTCAGCAAGTTCTTGAAAAATGAGATCATATGTCGATA
649 TCGTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATA
** ** * *
29505422 TGGAATGCCCGAAAGAATCATATCTGACAATACGTTGAATTTGAAC-AGCATTTCAATAGCGGAG
714 TGGAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAG-AGCTCAATAGCAGAT
* * * *
29505486 GTCTGCAGTTAATTTAAGATCAGACACCATAATTCGTCACCGTACTACCTAAAAATGAATGGTGA
778 GTCTGCAGTCAATTTAAGATCAGACAACATAATTCGTCACCGTACTGCCTAAAAATGAATGGTGC
**
29505551 AATGGAAGCGGCCAATAAAAATATCAAGAAAATTGTAAGGAAAATGACTGAGACTTACAAGGACT
843 AATGGAAGCGGCCAATAAAAATATCAAGAAAATTGTGGGGAAAATGACTGAGACTTACAAGGACT
*
29505616 GGCATGAGAAATAAACA
908 GGCATCAGAAATAAACA
29505633 TTTTCCCTCT
Statistics
Matches: 2642, Mismatches: 148, Indels: 56
0.93 0.05 0.02
Matches are distributed among these distances:
938 36 0.01
940 1 0.00
941 1 0.00
942 1 0.00
943 1 0.00
945 162 0.06
946 304 0.12
947 8 0.00
948 835 0.32
949 4 0.00
950 1248 0.47
951 1 0.00
955 1 0.00
956 2 0.00
957 1 0.00
958 1 0.00
960 35 0.01
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (949 bp):
AGATGAAAATCAGATGGCTGACGCGTTGGCTACTCTAGCCTCCATGATTAAAATGAACAGACAAG
AGGACATGAAGCCTATCCAGATGAGCATCTATGAAACCCCAGCTCACTGTTACAATATCGAAGAG
GGAGAAAAGGATGATAGCCCTTGGTATAAAGATATATTACGATATGTGAAGAATCGTGAGTATCT
TAACCAGGCAACTGAGAATGATAAAAGGGCTCTGAGAAGACTAGCCATTGATTATGTCTTAGATG
GGGAGATCTTATATAAAAAGGGAAAGGATCAGGTACTATTAAGATGTGTGGACACTGTGAAGGCT
AAGAAAATATTAGAGGAAGTCCATGAGGGTATTTGCGGAACACATGCCAGTGGGTTCACAATGGC
TAGACAGATTATGAGGTTCGGGTACTACTGGTCCACCATAGAAGGAGATTGCATCAATTATGCCA
AGAAGTGCCATAAATGCCAAATTTATGGTGATAAAGTGCATGCACCTCCTTCGCTCTTCATGTTA
TGACTTCTCCATGGCCTTTCTCTATGTGGGGTATGGATGTCATCGGGCCAATATCGTCGAAGGCT
TCTAATGGGCATCGTTTCATCTTTCTGGTTATTGATTACTTCACTAAATGGGTAGAAGCTGCTTC
GTATGCTAATGTCACAAAGTCAGCAGTCAGCAAGTTCTTGAAAAAGGAGATCATATGTCGATATG
GAATGCCCGAAAGAATCATATCTGACAATGGGTTGAATTTGAACAAGAGCTCAATAGCAGATGTC
TGCAGTCAATTTAAGATCAGACAACATAATTCGTCACCGTACTGCCTAAAAATGAATGGTGCAAT
GGAAGCGGCCAATAAAAATATCAAGAAAATTGTGGGGAAAATGACTGAGACTTACAAGGACTGGC
ATCAGAAATAAACAGACAAGACTTACAAGGACTGGCACG
Found at i:29507903 original size:132 final size:132
Alignment explanation
Indices: 29507492--29507892 Score: 523
Period size: 132 Copynumber: 3.0 Consensus size: 132
29507482 TGGATTGAAG
* * ** *
29507492 AAGATGGTGAATCTTATCTTCCCGAGGTAGTAGATAAACAGATTTAAGCCACCAGTCCTGTCTCC
1 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTGTCTCC
* * * *
29507557 TTGAGCAGCAGTGGAGTAGGTTGAAGATGGTAGATCCTGTCTCCCTAAGCAGCAGTGGAGCAGAT
66 CTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGAT
*
29507622 CC
131 CA
* * * *
29507624 AAGACGGTGAATATTATCTTCCCAAGGTAGTAGGGAAGCAAATTTAAGCCACCAATCCTGTCTTC
1 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTGTCTCC
* * **
29507689 CTGAGTAGTAGTGGAGTAGGTTGAAGAATGTAGATCCTGTCTCCCTAAATAGTAGTGGAGCAGAT
66 CTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGAT
29507754 CA
131 CA
* * * * * *
29507756 AAGATGGTGAATCTTATCTTCCTAAAGTAGTAGGGAAGCAGATTTAAACCACCAGTTCTATCTCC
1 AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTGTCTCC
* * * * * *
29507821 CTGAGTAGCAGTGGAGTAGGTTCAATATTGTAGATCATGTATCTCTGAGCAGTAGTGGAGCAGAT
66 CTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGAT
*
29507886 CG
131 CA
29507888 AAGAC
1 AAGAC
29507893 AACGAATCTT
Statistics
Matches: 229, Mismatches: 40, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
132 229 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCCTGTCTCC
CTGAGTAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGAT
CA
Found at i:29507949 original size:50 final size:50
Alignment explanation
Indices: 29507895--29508055 Score: 214
Period size: 50 Copynumber: 3.2 Consensus size: 50
29507885 TCGAAGACAA
* * *
29507895 CGAATCTTACTTCTTCGATGTTACAGTAAAACAGATTGAAGCTACAACAG
1 CGAATCTTACTTCTTCGACGTTGCAGTAAAACAGATTAAAGCTACAACAG
* * * * * *
29507945 CGAATCTTACTTCCTCGACATTGCAGTGAAGCGGGTTAAAGCTACAACAG
1 CGAATCTTACTTCTTCGACGTTGCAGTAAAACAGATTAAAGCTACAACAG
* * *
29507995 CGAATCTTACTTCTCCGACGTTGCAATAAAATAGATTAAAGCTACAACAG
1 CGAATCTTACTTCTTCGACGTTGCAGTAAAACAGATTAAAGCTACAACAG
29508045 CGAATCTTACT
1 CGAATCTTACT
29508056 ACCCTAGCAT
Statistics
Matches: 93, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 93 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (50 bp):
CGAATCTTACTTCTTCGACGTTGCAGTAAAACAGATTAAAGCTACAACAG
Found at i:29508080 original size:50 final size:49
Alignment explanation
Indices: 29507927--29508080 Score: 157
Period size: 50 Copynumber: 3.1 Consensus size: 49
29507917 ACAGTAAAAC
* * * *
29507927 AGATTGAAGCTACAACAGCGAATCTTACTTCCTCGACATTGCAGTGAAGC
1 AGATTAAAGCTACAACAGCGAATCTTACTCCCTAG-CATTGCAGTGAAGT
* * * * * * *
29507977 GGGTTAAAGCTACAACAGCGAATCTTACTTCTCCGA-CGTTGCAATAAAAT
1 AGATTAAAGCTACAACAGCGAATCTTAC-TC-CCTAGCATTGCAGTGAAGT
*
29508027 AGATTAAAGCTACAACAGCGAATCTTACTACCCTAGCATTGCAGTGGAGT
1 AGATTAAAGCTACAACAGCGAATCTTACT-CCCTAGCATTGCAGTGAAGT
29508077 AGAT
1 AGAT
29508081 CGAAGCCACT
Statistics
Matches: 81, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
49 4 0.05
50 74 0.91
51 1 0.01
52 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (49 bp):
AGATTAAAGCTACAACAGCGAATCTTACTCCCTAGCATTGCAGTGAAGT
Found at i:29509534 original size:25 final size:25
Alignment explanation
Indices: 29509480--29509545 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
29509470 TTTTGAACTT
* *
29509480 ATATTATTTCTTTTAAATTGTTCTA
1 ATATTATTTATTTTAAATTGTTCCA
*
29509505 TTATTATTTATTTTAAATT-TTCCA
1 ATATTATTTATTTTAAATTGTTCCA
**
29509529 CATATTATGCATTTTAA
1 -ATATTATTTATTTTAA
29509546 GCTATATTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 4 0.12
25 30 0.88
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (25 bp):
ATATTATTTATTTTAAATTGTTCCA
Found at i:29509781 original size:26 final size:24
Alignment explanation
Indices: 29509752--29509809 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 24
29509742 GTCTTCTTGG
*
29509752 TTATTTA-TTTTAATTTGCTTTGCATA
1 TTATTTACTTTGAA-TTGCTTT--ATA
29509778 TTATTTACTTTGAATTGCTTTATA
1 TTATTTACTTTGAATTGCTTTATA
29509802 TTATTTAC
1 TTATTTAC
29509810 CTCAAATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 11 0.37
26 14 0.47
27 5 0.17
ACGTcount: A:0.24, C:0.09, G:0.07, T:0.60
Consensus pattern (24 bp):
TTATTTACTTTGAATTGCTTTATA
Found at i:29509817 original size:24 final size:24
Alignment explanation
Indices: 29509766--29509833 Score: 64
Period size: 26 Copynumber: 2.7 Consensus size: 24
29509756 TTATTTTAAT
* **
29509766 TTGCTTTGCATATTATTTACTTTGAA
1 TTGCTTT--ATATTATTTACCTCAAA
29509792 TTGCTTTATATTATTTACCTCAAA
1 TTGCTTTATATTATTTACCTCAAA
*
29509816 TTGTTCTATATATTATTT
1 TTG--CTTTATATTATTT
29509834 CGTTTTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 17 0.47
26 19 0.53
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.56
Consensus pattern (24 bp):
TTGCTTTATATTATTTACCTCAAA
Found at i:29517745 original size:114 final size:112
Alignment explanation
Indices: 29517383--29517807 Score: 457
Period size: 113 Copynumber: 3.8 Consensus size: 112
29517373 AAAATAAGAA
* ** * *
29517383 TTAGCTGCGTTTTCCAGAAAGCGTCGCAAAAAACCTAAGCCCAACGACGCCGTTTAGC-GAGC-T
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTT-TCTGAGCTT
* *
29517446 TTCGGGGATTTAGCGACGTTTTATAA-AAGTGCCGCTAATTTTTAGGGCT
65 TTCGGGGATTTAGCGACG-TTTATAAGAAGTGCCGCTAA-TGTTATGGCT
* * * * * * * *
29517495 TTAGCGGCGTTTTTGGGGAAGCGCCACAAAAGACCTAATCCCAATGATGCCGTTTTCTAAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
* *
29517560 T-GGGGATTTAGCGACGCTTGTA-AAGAAGTGCCGCTAAAGTTCTGGGCT
66 TCGGGGATTTAGCGACG-TT-TATAAGAAGTGCCGCTAATGTTAT-GGCT
29517608 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
* *
29517673 TCGGGGATTTGGCGGCGTTTATAAGGAAGTGCCGCTAATGCTTATGGCT
66 TCGGGGATTTAGCGACGTTTATAA-GAAGTGCCGCTAATG-TTATGGCT
* * * * * * * * *
29517722 ATAACAGCGTTTTTAAAAAAGCGCTGCAAAAAAAACCTAAGCCCAACGATGCCGTTTCCTGAG-A
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC--AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
29517786 TTTCGGGGATTTAGCGGCGTTT
64 TTTCGGGGATTTAGCGACGTTT
29517808 CTAGCAAAAA
Statistics
Matches: 262, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
111 1 0.00
112 70 0.27
113 83 0.32
114 52 0.20
115 24 0.09
116 32 0.12
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (112 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
TCGGGGATTTAGCGACGTTTATAAGAAGTGCCGCTAATGTTATGGCT
Found at i:29518307 original size:14 final size:14
Alignment explanation
Indices: 29518288--29518314 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
29518278 GTGTCGTTCT
29518288 TTATACCAAATTTG
1 TTATACCAAATTTG
29518302 TTATACCAAATTT
1 TTATACCAAATTT
29518315 TATAAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.04, T:0.44
Consensus pattern (14 bp):
TTATACCAAATTTG
Found at i:29518581 original size:21 final size:21
Alignment explanation
Indices: 29518557--29518699 Score: 116
Period size: 21 Copynumber: 7.5 Consensus size: 21
29518547 GGTTTGGGCT
*
29518557 TTATGGTTTAGAGGTTAGGGG
1 TTATGCTTTAGAGGTTAGGGG
* *
29518578 TTATACTTTAGGGGTTAGGGG
1 TTATGCTTTAGAGGTTAGGGG
*
29518599 --AT--TTAAG-GGTTAGGGG
1 TTATGCTTTAGAGGTTAGGGG
29518615 TTATGCTTTAGAGGTTA-GGG
1 TTATGCTTTAGAGGTTAGGGG
* * *
29518635 ---TGATTTAGGGGTTAGGAG
1 TTATGCTTTAGAGGTTAGGGG
29518653 TTATGCTTTAGAGGTTAGGGG
1 TTATGCTTTAGAGGTTAGGGG
*
29518674 --A---TTTAGGGGTTAGGGG
1 TTATGCTTTAGAGGTTAGGGG
29518690 TTATGCTTTA
1 TTATGCTTTA
29518700 AGGGTTAAGG
Statistics
Matches: 96, Mismatches: 12, Indels: 28
0.71 0.09 0.21
Matches are distributed among these distances:
16 23 0.24
17 16 0.17
18 5 0.05
19 3 0.03
20 7 0.07
21 42 0.44
ACGTcount: A:0.20, C:0.03, G:0.39, T:0.38
Consensus pattern (21 bp):
TTATGCTTTAGAGGTTAGGGG
Found at i:29518595 original size:7 final size:7
Alignment explanation
Indices: 29518585--29518692 Score: 63
Period size: 7 Copynumber: 14.4 Consensus size: 7
29518575 GGGTTATACT
29518585 TTAGGGG
1 TTAGGGG
29518592 TTAGGGG
1 TTAGGGG
*
29518599 ATTTAAGGG
1 --TTAGGGG
29518608 TTAGGGG
1 TTAGGGG
* **
29518615 TTATGCT
1 TTAGGGG
*
29518622 TTAGAGG
1 TTAGGGG
29518629 TTAGGGTG
1 TTAGGG-G
29518637 ATTTAGGGG
1 --TTAGGGG
*
29518646 TTAGGAG
1 TTAGGGG
* **
29518653 TTATGCT
1 TTAGGGG
*
29518660 TTAGAGG
1 TTAGGGG
29518667 TTAGGGG
1 TTAGGGG
29518674 ATTTAGGGG
1 --TTAGGGG
29518683 TTAGGGG
1 TTAGGGG
29518690 TTA
1 TTA
29518693 TGCTTTAAGG
Statistics
Matches: 75, Mismatches: 19, Indels: 14
0.69 0.18 0.13
Matches are distributed among these distances:
7 54 0.72
8 1 0.01
9 14 0.19
10 6 0.08
ACGTcount: A:0.20, C:0.02, G:0.43, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:29518624 original size:37 final size:37
Alignment explanation
Indices: 29518563--29518724 Score: 236
Period size: 37 Copynumber: 4.3 Consensus size: 37
29518553 GGCTTTATGG
* * *
29518563 TTTAGAGGTTAGGGGTTATACTTTAGGGGTTAGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAGAGGTTAGGGGA
*
29518600 TTTAAGGGTTAGGGGTTATGCTTTAGAGGTTAGGGTGA
1 TTTAGGGGTTAGGGGTTATGCTTTAGAGGTTAGGG-GA
*
29518638 TTTAGGGGTTAGGAGTTATGCTTTAGAGGTTAGGGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAGAGGTTAGGGGA
29518675 TTTAGGGGTTAGGGGTTATGCTTTA-AGGGTTAAGGAGGA
1 TTTAGGGGTTAGGGGTTATGCTTTAGA-GGTT-AGG-GGA
29518714 TTTAGGGGTTA
1 TTTAGGGGTTA
29518725 TGTGTTAGGG
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
36 1 0.01
37 61 0.54
38 38 0.33
39 14 0.12
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.36
Consensus pattern (37 bp):
TTTAGGGGTTAGGGGTTATGCTTTAGAGGTTAGGGGA
Found at i:29518648 original size:75 final size:76
Alignment explanation
Indices: 29518563--29518724 Score: 240
Period size: 75 Copynumber: 2.1 Consensus size: 76
29518553 GGCTTTATGG
* * *
29518563 TTTAGAGGTTAGGGGTTATACTTTAGGGGTTAGGGGATTTAAGGGTTAGGGGTTATGCTTT-AGA
1 TTTAGGGGTTAGGAGTTATACTTTAGAGGTTAGGGGATTTAAGGGTTAGGGGTTATGCTTTAAG-
29518627 GGTT-AGG-GTGA
65 GGTTAAGGAG-GA
* *
29518638 TTTAGGGGTTAGGAGTTATGCTTTAGAGGTTAGGGGATTTAGGGGTTAGGGGTTATGCTTTAAGG
1 TTTAGGGGTTAGGAGTTATACTTTAGAGGTTAGGGGATTTAAGGGTTAGGGGTTATGCTTTAAGG
29518703 GTTAAGGAGGA
66 GTTAAGGAGGA
29518714 TTTAGGGGTTA
1 TTTAGGGGTTA
29518725 TGTGTTAGGG
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
75 60 0.76
76 18 0.23
77 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.40, T:0.36
Consensus pattern (76 bp):
TTTAGGGGTTAGGAGTTATACTTTAGAGGTTAGGGGATTTAAGGGTTAGGGGTTATGCTTTAAGG
GTTAAGGAGGA
Found at i:29518704 original size:21 final size:21
Alignment explanation
Indices: 29518638--29518706 Score: 60
Period size: 21 Copynumber: 3.5 Consensus size: 21
29518628 GTTAGGGTGA
* *
29518638 TTTAGGGGTTAGGAGTTATGC
1 TTTAAGGGTTAGGGGTTATGC
29518659 TTT-AGAGGTTAGGGG--A---
1 TTTAAG-GGTTAGGGGTTATGC
*
29518675 TTTAGGGGTTAGGGGTTATGC
1 TTTAAGGGTTAGGGGTTATGC
29518696 TTTAAGGGTTA
1 TTTAAGGGTTA
29518707 AGGAGGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 14
0.67 0.07 0.25
Matches are distributed among these distances:
16 12 0.32
17 1 0.03
18 1 0.03
19 1 0.03
20 1 0.03
21 21 0.57
ACGTcount: A:0.20, C:0.03, G:0.39, T:0.38
Consensus pattern (21 bp):
TTTAAGGGTTAGGGGTTATGC
Found at i:29519277 original size:231 final size:231
Alignment explanation
Indices: 29519003--29519632 Score: 1188
Period size: 231 Copynumber: 2.7 Consensus size: 231
29518993 CACCGTTTCG
* * *
29519003 GTTAATAATTTGTGGCGTGTTTTATGAAAACGCCAGAAAATTGACTTATATTTTAATAAAACGGC
1 GTTAATAATTTGTGGCGTTTTTTGTGAAAACGCCAGAAAATTGACTTATATTTTAATAGAACGGC
* *
29519068 ACCGTCTTTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAACGTGGATGCA
66 GCCGTCTCTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAACGTGGATGCA
29519133 ATAGCCGCAAATTCTTATAAATAAAGTGAATATTTAGTGACGTTTCTATGAAAAATGCCACAAAT
131 ATAGCCGCAAATTCTTATAAATAAAGTGAATATTTAGTGACGTTTCTATGAAAAATGCCACAAAT
29519198 AATATTTTAATAATTGAACGAAACGGCGCCTTTTGA
196 AATATTTTAATAATTGAACGAAACGGCGCCTTTTGA
29519234 GTTAATAATTTGTGGCGTTTTTTGTGAAAACGCCAGAAAATTGACTTATATTTTAATAGAACGGC
1 GTTAATAATTTGTGGCGTTTTTTGTGAAAACGCCAGAAAATTGACTTATATTTTAATAGAACGGC
29519299 GCCGTCTCTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAACGTGGATGCA
66 GCCGTCTCTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAACGTGGATGCA
29519364 ATAGCCGCAAATTCTTATAAATAAAGTGAATATTTAGTGACGTTTCTATGAAAAATGCCACAAAT
131 ATAGCCGCAAATTCTTATAAATAAAGTGAATATTTAGTGACGTTTCTATGAAAAATGCCACAAAT
29519429 AATATTTTAATAATTGAACGAAACGGCGCCTTTTGA
196 AATATTTTAATAATTGAACGAAACGGCGCCTTTTGA
29519465 GTTAATAATTTGTGGCGTTTTTTGTGAAAACGCCAGAAAATTGACTTATATTTTAATAGAACGGC
1 GTTAATAATTTGTGGCGTTTTTTGTGAAAACGCCAGAAAATTGACTTATATTTTAATAGAACGGC
*
29519530 GCCGTCTCTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAATGTGGATGCA
66 GCCGTCTCTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAACGTGGATGCA
* *
29519595 ATAGTCTCAAATTCTTATAAATAAAGTGAATATTTAGT
131 ATAGCCGCAAATTCTTATAAATAAAGTGAATATTTAGT
29519633 NNNNNNNNNN
Statistics
Matches: 391, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 391 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (231 bp):
GTTAATAATTTGTGGCGTTTTTTGTGAAAACGCCAGAAAATTGACTTATATTTTAATAGAACGGC
GCCGTCTCTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAACGTGGATGCA
ATAGCCGCAAATTCTTATAAATAAAGTGAATATTTAGTGACGTTTCTATGAAAAATGCCACAAAT
AATATTTTAATAATTGAACGAAACGGCGCCTTTTGA
Found at i:29529551 original size:230 final size:231
Alignment explanation
Indices: 29529271--29529728 Score: 749
Period size: 230 Copynumber: 2.0 Consensus size: 231
29529261 AAACGGCACC
* *
29529271 GTTTCGGTTAATAATTTGTGGCGTGTTTTATGAAAACGCCAGAAAATTGACTTATATTTTAATAA
1 GTTTCAGTTAATAATTTGTGGCGTGTTTTATGAAAACGCCAGAAAATTGACTTAAATTTTAATAA
* *
29529336 AAC-GCACCGTCTTTTTTCTGTACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGC-AAATG
66 AACGGCACCGTC-TCTTTCTATACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAAATG
* * * *
29529399 TGGATGCAATAGTCTCAAATTCTTATAAATAAAGTGAATATTTAGTAGCGTTTCTATGAAAAACT
130 TGGATGCAATAGCCGCAAATACTTATAAATAAAGTGAATATTTAGTAGCGTTTCTATGAAAAACG
29529464 CCGCAAATAATATTTTAAAAATTGAACAAAACGGGCT
195 CCGCAAATAATATTTTAAAAATTGAACAAAACGGGCT
* * * * *
29529501 GTTTCAGTTAATAGTTTGTGGCGTTTTTTATGGAAATGCCAGAAAATTGACTTAAATTTTTATAA
1 GTTTCAGTTAATAATTTGTGGCGTGTTTTATGAAAACGCCAGAAAATTGACTTAAATTTTAATAA
29529566 AACGGCACCGTCTCTTTCTATACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAAATGT
66 AACGGCACCGTCTCTTTCTATACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAAATGT
* *
29529631 GGATGCAATAGCCGCAGATACTTATAAATAAAGTGAATATTTAGTGGCGTTTCTATGAAAAACGC
131 GGATGCAATAGCCGCAAATACTTATAAATAAAGTGAATATTTAGTAGCGTTTCTATGAAAAACGC
*
29529696 CTCAAATAATATTTTAAAAATTGAACAAAACGG
196 CGCAAATAATATTTTAAAAATTGAACAAAACGG
29529729 TGCCATTGCA
Statistics
Matches: 210, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
230 105 0.50
231 105 0.50
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (231 bp):
GTTTCAGTTAATAATTTGTGGCGTGTTTTATGAAAACGCCAGAAAATTGACTTAAATTTTAATAA
AACGGCACCGTCTCTTTCTATACTTGAAATTTTAGTGGCGTTTTTATTAAAACGCCGCAAAATGT
GGATGCAATAGCCGCAAATACTTATAAATAAAGTGAATATTTAGTAGCGTTTCTATGAAAAACGC
CGCAAATAATATTTTAAAAATTGAACAAAACGGGCT
Found at i:29531687 original size:5 final size:5
Alignment explanation
Indices: 29531664--29531703 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
29531654 ATAACACTTC
*
29531664 TTTTA TTTTAA TATGTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTT-A T-TTTA TTTTA TTTTA TTTTA TTTTA TTT
29531704 AATAATACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 25 0.81
6 4 0.13
7 2 0.06
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:29531882 original size:18 final size:18
Alignment explanation
Indices: 29531859--29531936 Score: 95
Period size: 18 Copynumber: 4.2 Consensus size: 18
29531849 TTACTGACTA
*
29531859 AAATATGTTACATTACTT
1 AAATATATTACATTACTT
*
29531877 AAATATATTAC-TTACTA
1 AAATATATTACATTACTT
29531894 AAATTTATAATTTACATTACTT
1 AAA--TAT-A-TTACATTACTT
29531916 AAATATATTACATTACTT
1 AAATATATTACATTACTT
29531934 AAA
1 AAA
29531937 GTTTATATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
17 8 0.15
18 24 0.46
19 4 0.08
20 4 0.08
21 4 0.08
22 8 0.15
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (18 bp):
AAATATATTACATTACTT
Found at i:29531909 original size:39 final size:41
Alignment explanation
Indices: 29531866--29531943 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 41
29531856 CTAAAATATG
29531866 TTACATTACTTAAATATATTAC-TTAC-TAAAATTTATAAT
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
*
29531905 TTACATTACTTAAATATATTACATTACTTAAAGTTTATA
1 TTACATTACTTAAATATATTACATTACTTAAAATTTATA
29531944 TATATATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
39 22 0.61
40 4 0.11
41 10 0.28
ACGTcount: A:0.42, C:0.10, G:0.01, T:0.46
Consensus pattern (41 bp):
TTACATTACTTAAATATATTACATTACTTAAAATTTATAAT
Found at i:29532265 original size:34 final size:34
Alignment explanation
Indices: 29532222--29532558 Score: 136
Period size: 34 Copynumber: 9.9 Consensus size: 34
29532212 ATAATAACAT
* *
29532222 AATAACTTACATAATACACAACTTACATAATTTA
1 AATAACTTACATAATACATAACTTACATAACTTA
* **
29532256 AATAACTTACATAGTACATAACTTTGATAACTTA
1 AATAACTTACATAATACATAACTTACATAACTTA
* * *
29532290 CATAACATACACTTAAATACATAACTTACATAACGTA
1 AATAACTTACA--T-AATACATAACTTACATAACTTA
* * *
29532327 CAT-A-GTACATAACTTACATAA--TACACAACTTA
1 AATAACTTACATAA--TACATAACTTACATAACTTA
* * *
29532359 ATTAA--T--ATTATACATAACATACATAA--TA
1 AATAACTTACATAATACATAACTTACATAACTTA
* * *
29532387 CAT-A--T--ATAATACACAACTTA-ATTAATATTA
1 AATAACTTACATAATACATAACTTACA-TAA-CTTA
* *
29532417 TACATAACATACATAATACATAA-TACACATAACTTACATA
1 -A-ATAACTTACATAATACATAACT-TACATAAC-T---TA
* * *
29532457 GTACATAACTAACATAATACACAACTTACGTAACTTA
1 --A-ATAACTTACATAATACATAACTTACATAACTTA
*
29532494 AATAACTTACATAGCTTACATAA--TACATAACTTA
1 AATAACTTACATA--ATACATAACTTACATAACTTA
* *
29532528 CATAACTTATATAATTACATAACTTACATAA
1 AATAACTTACATAA-TACATAACTTACATAA
29532559 TTTACCTAAT
Statistics
Matches: 232, Mismatches: 39, Indels: 63
0.69 0.12 0.19
Matches are distributed among these distances:
26 1 0.00
27 17 0.07
28 10 0.04
30 11 0.05
32 15 0.06
33 10 0.04
34 77 0.33
35 13 0.06
36 9 0.04
37 38 0.16
38 1 0.00
40 3 0.01
41 26 0.11
42 1 0.00
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.31
Consensus pattern (34 bp):
AATAACTTACATAATACATAACTTACATAACTTA
Found at i:29532278 original size:16 final size:16
Alignment explanation
Indices: 29532223--29532559 Score: 131
Period size: 16 Copynumber: 20.9 Consensus size: 16
29532213 TAATAACATA
29532223 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
29532239 ACAACTTACATAATTTAA
1 ATAACTTACATAA--TAC
*
29532257 ATAACTTACATAGTAC
1 ATAACTTACATAATAC
**
29532273 ATAACTTTGATAACTTAC
1 ATAACTTACATAA--TAC
*
29532291 ATAACATACACT--T--
1 ATAACTTACA-TAATAC
29532304 A-AA--TACATAACTTAC
1 ATAACTTACATAA--TAC
* *
29532319 ATAACGTACATAGTAC
1 ATAACTTACATAATAC
29532335 ATAACTTACATAATAC
1 ATAACTTACATAATAC
* *
29532351 ACAACTTAATTAATATTATAC
1 ATAACTT-A--CATA--ATAC
*
29532372 ATAACATACATAATAC
1 ATAACTTACATAATAC
29532388 AT-A--T--ATAATAC
1 ATAACTTACATAATAC
*
29532399 ACAACTTA-AT--TA-
1 ATAACTTACATAATAC
*
29532411 AT-ATTATACATAACATAC
1 ATAACT-TACAT-A-ATAC
29532429 ATAA--TACATAATACAC
1 ATAACTTACATAAT--AC
*
29532445 ATAACTTACATAGTAC
1 ATAACTTACATAATAC
*
29532461 ATAACTAACATAATAC
1 ATAACTTACATAATAC
* * *
29532477 ACAACTTACGTAACTTAA
1 ATAACTTACATAA--TAC
*
29532495 ATAACTTACATAGCTTAC
1 ATAACTTACATA--ATAC
29532513 ATAA--TACATAACTTAC
1 ATAACTTACATAA--TAC
*
29532529 ATAACTTATATAATTAC
1 ATAACTTACATAA-TAC
29532546 ATAACTTACATAAT
1 ATAACTTACATAAT
29532560 TTACCTAATA
Statistics
Matches: 242, Mismatches: 36, Indels: 86
0.66 0.10 0.24
Matches are distributed among these distances:
9 1 0.00
10 4 0.02
11 10 0.04
12 6 0.02
13 7 0.03
14 3 0.01
15 6 0.02
16 106 0.44
17 19 0.08
18 65 0.27
19 5 0.02
20 1 0.00
21 9 0.04
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (16 bp):
ATAACTTACATAATAC
Found at i:29532294 original size:9 final size:9
Alignment explanation
Indices: 29532223--29532563 Score: 163
Period size: 9 Copynumber: 39.0 Consensus size: 9
29532213 TAATAACATA
29532223 ATAACTTAC
1 ATAACTTAC
29532232 ATAA--TAC
1 ATAACTTAC
*
29532239 ACAACTTAC
1 ATAACTTAC
* *
29532248 ATAATTTAA
1 ATAACTTAC
29532257 ATAACTTAC
1 ATAACTTAC
*
29532266 AT-A-GTAC
1 ATAACTTAC
**
29532273 ATAACTTTG
1 ATAACTTAC
29532282 ATAACTTAC
1 ATAACTTAC
*
29532291 ATAACATAC
1 ATAACTTAC
*
29532300 ACTTAA-ATAC
1 A--TAACTTAC
29532310 ATAACTTAC
1 ATAACTTAC
*
29532319 ATAACGTAC
1 ATAACTTAC
*
29532328 AT-A-GTAC
1 ATAACTTAC
29532335 ATAACTTAC
1 ATAACTTAC
29532344 ATAA--TAC
1 ATAACTTAC
*
29532351 ACAACTTA-
1 ATAACTTAC
*
29532359 ATTAATATTATAC
1 A-T-A-ACT-TAC
*
29532372 ATAACATAC
1 ATAACTTAC
29532381 ATAA--TAC
1 ATAACTTAC
29532388 ATATA-TAATAC
1 ATA-ACT--TAC
*
29532399 ACAACTTA-
1 ATAACTTAC
*
29532407 ATTAATATTATAC
1 A-T-A-ACT-TAC
*
29532420 ATAACATAC
1 ATAACTTAC
29532429 ATAA--TAC
1 ATAACTTAC
*
29532436 ATAA-TACAC
1 ATAACT-TAC
29532445 ATAACTTAC
1 ATAACTTAC
*
29532454 AT-A-GTAC
1 ATAACTTAC
*
29532461 ATAACTAAC
1 ATAACTTAC
29532470 ATAA--TAC
1 ATAACTTAC
*
29532477 ACAACTTAC
1 ATAACTTAC
* *
29532486 GTAACTTAA
1 ATAACTTAC
29532495 ATAACTTAC
1 ATAACTTAC
*
29532504 ATAGCTTAC
1 ATAACTTAC
29532513 ATAA--TAC
1 ATAACTTAC
29532520 ATAACTTAC
1 ATAACTTAC
*
29532529 ATAACTTAT
1 ATAACTTAC
29532538 ATAA-TTAC
1 ATAACTTAC
29532546 ATAACTTAC
1 ATAACTTAC
*
29532555 ATAATTTAC
1 ATAACTTAC
29532564 CTAATACGTA
Statistics
Matches: 253, Mismatches: 43, Indels: 72
0.69 0.12 0.20
Matches are distributed among these distances:
7 53 0.21
8 19 0.08
9 147 0.58
10 11 0.04
11 15 0.06
12 6 0.02
13 2 0.01
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:29532318 original size:28 final size:28
Alignment explanation
Indices: 29532282--29532381 Score: 93
Period size: 28 Copynumber: 3.7 Consensus size: 28
29532272 CATAACTTTG
29532282 ATAACTTACATAACATACACTTAAATAC
1 ATAACTTACATAACATACACTTAAATAC
* *
29532310 ATAACTTACATAACGTACA--T-AGTAC
1 ATAACTTACATAACATACACTTAAATAC
* * *
29532335 ATAACTTACATAATACACAACTTAATTA-
1 ATAACTTACATAACATAC-ACTTAAATAC
*
29532363 AT-ATTATACATAACATACA
1 ATAACT-TACATAACATACA
29532382 TAATACATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
25 19 0.33
26 2 0.03
27 3 0.05
28 31 0.53
29 3 0.05
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (28 bp):
ATAACTTACATAACATACACTTAAATAC
Found at i:29532371 original size:21 final size:21
Alignment explanation
Indices: 29532347--29532420 Score: 76
Period size: 21 Copynumber: 3.2 Consensus size: 21
29532337 AACTTACATA
29532347 ATACACAACTTAATTAATATT
1 ATACACAACTTAATTAATATT
* *
29532368 ATACATAACATACATAATACATATAT
1 ATACACAACTTA-AT--TA-ATAT-T
29532394 AATACACAACTTAATTAATATT
1 -ATACACAACTTAATTAATATT
29532416 ATACA
1 ATACA
29532421 TAACATACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
21 15 0.35
22 3 0.07
23 4 0.09
24 4 0.09
25 4 0.09
26 3 0.07
27 10 0.23
ACGTcount: A:0.51, C:0.15, G:0.00, T:0.34
Consensus pattern (21 bp):
ATACACAACTTAATTAATATT
Found at i:29532411 original size:48 final size:48
Alignment explanation
Indices: 29532344--29532438 Score: 190
Period size: 48 Copynumber: 2.0 Consensus size: 48
29532334 CATAACTTAC
29532344 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAT
1 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAT
29532392 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATA
1 ATAATACACAACTTAATTAATATTATACATAACATACATAATACATA
29532439 ATACACATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.33
Consensus pattern (48 bp):
ATAATACACAACTTAATTAATATTATACATAACATACATAATACATAT
Found at i:29532515 original size:43 final size:42
Alignment explanation
Indices: 29532417--29532559 Score: 164
Period size: 43 Copynumber: 3.4 Consensus size: 42
29532407 ATTAATATTA
* * * * *
29532417 TACATAACATACATAATACATAA-TACACATAACTTACAT-AG
1 TACATAACTTACATAATACACAACT-TACATAACTTAAATAAT
* *
29532458 TACATAACTAACATAATACACAACTTACGTAACTTAAATAACT
1 TACATAACTTACATAATACACAACTTACATAACTTAAATAA-T
* * *
29532501 TACATAGCTTACATAATACATAACTTACATAACTTATATAAT
1 TACATAACTTACATAATACACAACTTACATAACTTAAATAAT
29532543 TACATAACTTACATAAT
1 TACATAACTTACATAAT
29532560 TTACCTAATA
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
41 31 0.36
42 19 0.22
43 36 0.42
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (42 bp):
TACATAACTTACATAATACACAACTTACATAACTTAAATAAT
Found at i:29532528 original size:25 final size:26
Alignment explanation
Indices: 29532215--29532607 Score: 145
Period size: 25 Copynumber: 15.2 Consensus size: 26
29532205 GACTTACATA
29532215 ATAACATA-ATAACTTACATAA--TAC
1 ATAAC-TACATAACTTACATAACTTAC
* * *
29532239 ACAACTTACATAATTTAAATAACTTAC
1 ATAAC-TACATAACTTACATAACTTAC
* **
29532266 AT-AGTACATAACTTTGATAACTTAC
1 ATAACTACATAACTTACATAACTTAC
*
29532291 ATAACATACACTTAA-ATACATAACTTAC
1 ATAAC-TACA--TAACTTACATAACTTAC
*
29532319 ATAACGTACAT-A-GTACATAACTTAC
1 ATAAC-TACATAACTTACATAACTTAC
* *
29532344 ATAA-TACACAACTTA-ATTAATATTATAC
1 ATAACTACATAACTTACA-T-A-ACT-TAC
29532372 ATAACATACATAA--TACAT-A-TATA-
1 ATAAC-TACATAACTTACATAACT-TAC
* * *
29532395 ATACACAACTTAA-TTA-AT-ATTATAC
1 ATA-ACTACATAACTTACATAACT-TAC
*
29532420 ATAACATACATAA--TACATAA-TACAC
1 ATAAC-TACATAACTTACATAACT-TAC
* *
29532445 ATAACTTACAT-A-GTACATAACTAAC
1 ATAAC-TACATAACTTACATAACTTAC
* * *
29532470 ATAA-TACACAACTTACGTAACTTAA
1 ATAACTACATAACTTACATAACTTAC
*
29532495 ATAACTTACATAGCTTACATAA--TAC
1 ATAAC-TACATAACTTACATAACTTAC
*
29532520 ATAACTTACATAACTTATATAA-TTAC
1 ATAAC-TACATAACTTACATAACTTAC
* * *
29532546 ATAACTTACATAATTTACCTAATACGTAC
1 ATAAC-TACATAACTTACAT-A-ACTTAC
* * * *
29532575 ATAAATATATATCATATCATAACTTAC
1 ATAACTACATAACTTA-CATAACTTAC
29532602 ATAACT
1 ATAACT
29532608 CATTTATAGT
Statistics
Matches: 286, Mismatches: 49, Indels: 65
0.71 0.12 0.16
Matches are distributed among these distances:
23 19 0.07
24 26 0.09
25 124 0.43
26 26 0.09
27 34 0.12
28 38 0.13
29 13 0.05
30 6 0.02
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAACTACATAACTTACATAACTTAC
Found at i:29532568 original size:26 final size:26
Alignment explanation
Indices: 29532223--29532568 Score: 152
Period size: 25 Copynumber: 13.9 Consensus size: 26
29532213 TAATAACATA
*
29532223 ATAACTTACATAA--TACACAACTTAC
1 ATAACTTACATAACTTACATAA-TTAC
* * *
29532248 ATAATTTAAATAACTTACAT-AGTAC
1 ATAACTTACATAACTTACATAATTAC
** *
29532273 ATAACTTTGATAACTTACATAACATAC
1 ATAACTTACATAACTTACATAA-TTAC
* *
29532300 ACTTAA-ATACATAACTTACATAACGTAC
1 A--TAACTTACATAACTTACATAA-TTAC
*
29532328 AT-A-GTACATAACTTACATAA-TAC
1 ATAACTTACATAACTTACATAATTAC
* *
29532351 ACAAC-T---TAA-TTA-ATATTATAC
1 ATAACTTACATAACTTACATAAT-TAC
*
29532372 ATAACATACATAA--TACAT-ATATA-
1 ATAACTTACATAACTTACATAAT-TAC
* * *
29532395 ATACAC-AACTTAA-TTA-ATATTATAC
1 ATA-ACTTACATAACTTACATAAT-TAC
* *
29532420 ATAACATACATAA--TACATAATACAC
1 ATAACTTACATAACTTACATAAT-TAC
* *
29532445 ATAACTTACAT-A-GTACATAACTAAC
1 ATAACTTACATAACTTACATAA-TTAC
* * *
29532470 ATAA--TACACAACTTACGTAACTTAA
1 ATAACTTACATAACTTACATAA-TTAC
*
29532495 ATAACTTACATAGCTTACATAA-TAC
1 ATAACTTACATAACTTACATAATTAC
*
29532520 ATAACTTACATAACTTATATAATTAC
1 ATAACTTACATAACTTACATAATTAC
* *
29532546 ATAACTTACATAATTTACCTAAT
1 ATAACTTACATAACTTACATAAT
29532569 ACGTACATAA
Statistics
Matches: 253, Mismatches: 40, Indels: 55
0.73 0.11 0.16
Matches are distributed among these distances:
19 3 0.01
20 3 0.01
21 10 0.04
22 1 0.00
23 18 0.07
24 22 0.09
25 126 0.50
26 27 0.11
27 21 0.08
28 19 0.08
29 3 0.01
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (26 bp):
ATAACTTACATAACTTACATAATTAC
Found at i:29534421 original size:21 final size:21
Alignment explanation
Indices: 29534397--29534444 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
29534387 GGCGGAAACA
*
29534397 AGGGAAGCAGAGGCGGCAGTG
1 AGGGAAGCAGAGGCGGCAGCG
*
29534418 AGGGCAGCAGAGGCGGCAGCG
1 AGGGAAGCAGAGGCGGCAGCG
29534439 AGGGAA
1 AGGGAA
29534445 ACAAAGCAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.52, T:0.02
Consensus pattern (21 bp):
AGGGAAGCAGAGGCGGCAGCG
Found at i:29535336 original size:24 final size:24
Alignment explanation
Indices: 29535309--29535357 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
29535299 TAAACAACTT
29535309 TTGAATTAATGGTTTATCATATTA
1 TTGAATTAATGGTTTATCATATTA
29535333 TTGAATTAATGGTTTATCATATTA
1 TTGAATTAATGGTTTATCATATTA
29535357 T
1 T
29535358 AACATGTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.51
Consensus pattern (24 bp):
TTGAATTAATGGTTTATCATATTA
Found at i:29536550 original size:213 final size:213
Alignment explanation
Indices: 29536183--29536610 Score: 734
Period size: 213 Copynumber: 2.0 Consensus size: 213
29536173 CATCATAATG
29536183 TCTAAAATAGACTTTTTATCTTTTTAAAAGGGCAATTTACCAATAAAAGCCCTTTTTCTTCAAAA
1 TCTAAAATAGACTTTTTATCTTTTTAAAAGGGCAATTTACCAATAAAAGCCCTTTTTCTTCAAAA
* * *
29536248 ATTACCGAAATAGGCTCATTTTTTAATTATTTACAGGAATGGTCCTTTTTTCGGAAAATCGCGTC
66 ATTACCGAAATAGGCCCATTTTTTAATTATTTACAGGAATGATCCTTTTTCCGGAAAATCGCGTC
* *
29536313 CACGTTAGCGCGATATCAGGGTACGCGTCAGAAAATCGCGTCCACGTCAA-CTCGAGATGCTGAC
131 CACGTCAGCGCGATATCAGGGTACGCGTCAGAAAATCGCGTCCACGTCAACCT-AAGATGCTGAC
29536377 GTGGAAGGAAATCGAGTTC
195 GTGGAAGGAAATCGAGTTC
29536396 TCTAAAATAGACTTTTTATCTTTTTAAAA-GGCAATTTACCAATAAAAGCCCTTTTTCTTCAAAA
1 TCTAAAATAGACTTTTTATCTTTTTAAAAGGGCAATTTACCAATAAAAGCCCTTTTTCTTCAAAA
* * *
29536460 ATTACCGAAATAGGCCCATTTTTTTAATTATTTACCGGAATGATCCTTTTTCCGGGAAATCGTGT
66 ATTACCGAAATAGGCCCA-TTTTTTAATTATTTACAGGAATGATCCTTTTTCCGGAAAATCGCGT
* *
29536525 CCACGTCAGCGCGATATCAGGGTACGCGTCAGGAAATCGCGTCCACGTCAGCCTAAGATGCTGAC
130 CCACGTCAGCGCGATATCAGGGTACGCGTCAGAAAATCGCGTCCACGTCAACCTAAGATGCTGAC
29536590 GTGGAAGGAAATCGAGTTC
195 GTGGAAGGAAATCGAGTTC
29536609 TC
1 TC
29536611 AAGGAAGCGA
Statistics
Matches: 203, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
212 52 0.26
213 149 0.73
214 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (213 bp):
TCTAAAATAGACTTTTTATCTTTTTAAAAGGGCAATTTACCAATAAAAGCCCTTTTTCTTCAAAA
ATTACCGAAATAGGCCCATTTTTTAATTATTTACAGGAATGATCCTTTTTCCGGAAAATCGCGTC
CACGTCAGCGCGATATCAGGGTACGCGTCAGAAAATCGCGTCCACGTCAACCTAAGATGCTGACG
TGGAAGGAAATCGAGTTC
Found at i:29536826 original size:105 final size:105
Alignment explanation
Indices: 29536644--29536853 Score: 420
Period size: 105 Copynumber: 2.0 Consensus size: 105
29536634 CAGCATCTCG
29536644 CGCTGACGTGGACGCGATTTTGGCCCGCGCGTGAACAGTACCCAACAGTCAAAAAAAATACCGGA
1 CGCTGACGTGGACGCGATTTTGGCCCGCGCGTGAACAGTACCCAACAGTCAAAAAAAATACCGGA
29536709 CCCATTTCGATAAATTTTAAAAATATAGGGATTTTTCGGT
66 CCCATTTCGATAAATTTTAAAAATATAGGGATTTTTCGGT
29536749 CGCTGACGTGGACGCGATTTTGGCCCGCGCGTGAACAGTACCCAACAGTCAAAAAAAATACCGGA
1 CGCTGACGTGGACGCGATTTTGGCCCGCGCGTGAACAGTACCCAACAGTCAAAAAAAATACCGGA
29536814 CCCATTTCGATAAATTTTAAAAATATAGGGATTTTTCGGT
66 CCCATTTCGATAAATTTTAAAAATATAGGGATTTTTCGGT
29536854 ATTTTGAATC
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
105 105 1.00
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (105 bp):
CGCTGACGTGGACGCGATTTTGGCCCGCGCGTGAACAGTACCCAACAGTCAAAAAAAATACCGGA
CCCATTTCGATAAATTTTAAAAATATAGGGATTTTTCGGT
Found at i:29539245 original size:27 final size:27
Alignment explanation
Indices: 29539215--29539270 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
29539205 TTAGTGTATC
29539215 AAGTAATTAAAGTGGAACATAAAGTCT
1 AAGTAATTAAAGTGGAACATAAAGTCT
29539242 AAGTAATTAAAGTGGAACATAAAGTCT
1 AAGTAATTAAAGTGGAACATAAAGTCT
29539269 AA
1 AA
29539271 TTTCTAATAT
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:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (27 bp):
AAGTAATTAAAGTGGAACATAAAGTCT
Found at i:29543538 original size:21 final size:22
Alignment explanation
Indices: 29543511--29543568 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 22
29543501 ACAAAATTAT
29543511 ATCGTAAAAAATTATAAAAAAA
1 ATCGTAAAAAATTATAAAAAAA
* *
29543533 AT-GT--AAAATT-TTATAAAA
1 ATCGTAAAAAATTATAAAAAAA
29543551 ATCGTAAAAAATTATAAA
1 ATCGTAAAAAATTATAAA
29543569 CTATATAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
18 8 0.29
19 8 0.29
21 8 0.29
22 4 0.14
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.29
Consensus pattern (22 bp):
ATCGTAAAAAATTATAAAAAAA
Found at i:29543550 original size:19 final size:19
Alignment explanation
Indices: 29543518--29543607 Score: 67
Period size: 19 Copynumber: 4.7 Consensus size: 19
29543508 TATATCGTAA
* *
29543518 AAAATTATAAAAAAAATGT
1 AAAATTTTATAAAAAATGT
29543537 AAAATTTTAT-AAAAATCGT
1 AAAATTTTATAAAAAAT-GT
** ** *
29543556 AAAAAATTATAAACTATAT
1 AAAATTTTATAAAAAATGT
*
29543575 AGAAA-TTTATTAAAAATTGT
1 A-AAATTTTA-TAAAAAATGT
29543595 AAAATTTTATAAA
1 AAAATTTTATAAA
29543608 GTTGTAAGAA
Statistics
Matches: 54, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
18 6 0.11
19 30 0.56
20 18 0.33
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
AAAATTTTATAAAAAATGT
Found at i:29543581 original size:39 final size:39
Alignment explanation
Indices: 29543511--29543607 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 39
29543501 ACAAAATTAT
29543511 ATCGTAAAAAATTATAAAAAAAATGTAAAATTT-TATAAAA
1 ATCGTAAAAAATTATAAAAAAAATG-AAAATTTAT-TAAAA
** *
29543551 ATCGTAAAAAATTATAAACTATAT-AGAAATTTATTAAAA
1 ATCGTAAAAAATTATAAAAAAAATGA-AAATTTATTAAAA
* **
29543590 ATTGTAAAATTTTATAAA
1 ATCGTAAAAAATTATAAA
29543608 GTTGTAAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.02
39 26 0.53
40 22 0.45
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (39 bp):
ATCGTAAAAAATTATAAAAAAAATGAAAATTTATTAAAA
Found at i:29543880 original size:20 final size:20
Alignment explanation
Indices: 29543843--29543881 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
29543833 TTAAAAGGTC
29543843 TTTTTGATGCATTTTATAAT
1 TTTTTGATGCATTTTATAAT
*
29543863 TTTTTTATG-ATTTATATAA
1 TTTTTGATGCATTT-TATAA
29543882 AAATTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTGATGCATTTTATAAT
Found at i:29543913 original size:20 final size:19
Alignment explanation
Indices: 29543881--29543919 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
29543871 GATTTATATA
29543881 AAAATTTACAATTTTTATT
1 AAAATTTACAATTTTTATT
*
29543900 AAAATTTAATAATTTTTATT
1 AAAATTT-ACAATTTTTATT
29543920 CTTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
AAAATTTACAATTTTTATT
Found at i:29544222 original size:98 final size:98
Alignment explanation
Indices: 29544057--29544255 Score: 253
Period size: 98 Copynumber: 2.0 Consensus size: 98
29544047 AATTGAGCGT
* *
29544057 AAAAAAAAGAAGCAAGAGCTTAATTGTTTTTTTTTTGAAAAAGCTTGAGGGCCTTTATGATTCAT
1 AAAAAAAAGAAGCAAGAGCTTAA-TATTTCTTTTTT-AAAAAGCTTGAGGGCCTTTATGATTCAT
* *
29544122 TTTG-ACAGTTCAAGTATCTAATTGAGTACAAAAAAA
64 TTTGAAC-GTTCAAGTATCCAATTAAGT-CAAAAAAA
* *
29544158 AAAAAAACAGAAGCAAGGGCTTAA-ATTTCTTTTTT-AAAAGCTTGAGGGCCTTTTTGATGT-AT
1 AAAAAAA-AGAAGCAAGAGCTTAATATTTCTTTTTTAAAAAGCTTGAGGGCCTTTATGAT-TCAT
*
29544220 TTTGAACGTTCAAGTATCCAATTAAGTGAAAAAAA
64 TTTGAACGTTCAAGTATCCAATTAAGTCAAAAAAA
29544255 A
1 A
29544256 GAACTTAATT
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
97 8 0.09
98 46 0.52
99 3 0.03
100 9 0.10
101 7 0.08
102 15 0.17
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.33
Consensus pattern (98 bp):
AAAAAAAAGAAGCAAGAGCTTAATATTTCTTTTTTAAAAAGCTTGAGGGCCTTTATGATTCATTT
TGAACGTTCAAGTATCCAATTAAGTCAAAAAAA
Found at i:29552725 original size:5 final size:5
Alignment explanation
Indices: 29552708--29552746 Score: 69
Period size: 5 Copynumber: 7.6 Consensus size: 5
29552698 TAGGTCTAAG
29552708 GAAGA GAAAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAA
1 GAAGA G-AAGA GAAGA GAAGA GAAGA GAAGA GAAGA GAA
29552747 AAAAGAGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAAGA
Found at i:29559400 original size:33 final size:33
Alignment explanation
Indices: 29559362--29559454 Score: 96
Period size: 39 Copynumber: 2.6 Consensus size: 33
29559352 GAAAGTGGTG
* *
29559362 AAGGTGGTGAGGGTGGTGAGGTTGTTGGCAATA
1 AAGGTGGTGAGGGTGGTGAGGTTGCTAGCAATA
*
29559395 AAGGTGGTGAGGGTGAGGGTGGTGAGGTTGCTAGCAGTA
1 AA---GGT---GGTGAGGGTGGTGAGGTTGCTAGCAATA
*
29559434 AAGGTGGTGAGGGTGTTGAGG
1 AAGGTGGTGAGGGTGGTGAGG
29559455 GTCAGGGTGT
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
33 17 0.34
36 6 0.12
39 27 0.54
ACGTcount: A:0.20, C:0.03, G:0.52, T:0.25
Consensus pattern (33 bp):
AAGGTGGTGAGGGTGGTGAGGTTGCTAGCAATA
Found at i:29559412 original size:39 final size:39
Alignment explanation
Indices: 29559367--29559448 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
29559357 TGGTGAAGGT
* *
29559367 GGTGAGGGTGGTGAGGTTGTTGGCAATAAAGGTGGTGAG
1 GGTGAGGGTGGTGAGGTTGCTAGCAATAAAGGTGGTGAG
*
29559406 GGTGAGGGTGGTGAGGTTGCTAGCAGTAAAGGTGGTGAG
1 GGTGAGGGTGGTGAGGTTGCTAGCAATAAAGGTGGTGAG
29559445 GGTG
1 GGTG
29559449 TTGAGGGTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.20, C:0.04, G:0.52, T:0.24
Consensus pattern (39 bp):
GGTGAGGGTGGTGAGGTTGCTAGCAATAAAGGTGGTGAG
Found at i:29559618 original size:54 final size:54
Alignment explanation
Indices: 29559510--29559618 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
29559500 GGGAGGGTGA
* **
29559510 TGATGTTACTGTCAATGAAGGTGATGAAAGTGATGGAGGTGGCGAGGAGAGGGT
1 TGATGTTACTGTCAATGAAGGTGATGAAAGTGATGGAGGTGGCAAAAAGAGGGT
* * * * * *
29559564 TGATGTTACTGTTAGTGAAGGTGGTGAGAGTGATGGAGGTGGTAAAAAGGGGGT
1 TGATGTTACTGTCAATGAAGGTGATGAAAGTGATGGAGGTGGCAAAAAGAGGGT
29559618 T
1 T
29559619 AGGGATGAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.27, C:0.04, G:0.43, T:0.27
Consensus pattern (54 bp):
TGATGTTACTGTCAATGAAGGTGATGAAAGTGATGGAGGTGGCAAAAAGAGGGT
Found at i:29559676 original size:26 final size:26
Alignment explanation
Indices: 29559647--29559701 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
29559637 GATTCAGAGG
29559647 ATGAGAGTGCTTATTTGATGAAGGTT
1 ATGAGAGTGCTTATTTGATGAAGGTT
29559673 ATGAGAGTGCTTATTTGATGAAGGTT
1 ATGAGAGTGCTTATTTGATGAAGGTT
29559699 ATG
1 ATG
29559702 TACTTACCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.04, G:0.31, T:0.38
Consensus pattern (26 bp):
ATGAGAGTGCTTATTTGATGAAGGTT
Found at i:29561101 original size:21 final size:21
Alignment explanation
Indices: 29561061--29561111 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
29561051 ATTTATAACA
* *
29561061 TATTCAATTCTCATCTCTTGC
1 TATTCAAATCTCATCACTTGC
29561082 TATTTCAAATCTCAT-ACTTGC
1 TA-TTCAAATCTCATCACTTGC
29561103 TATTCAAAT
1 TATTCAAAT
29561112 AGCTTTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 9 0.33
22 11 0.41
ACGTcount: A:0.27, C:0.24, G:0.04, T:0.45
Consensus pattern (21 bp):
TATTCAAATCTCATCACTTGC
Found at i:29561357 original size:41 final size:38
Alignment explanation
Indices: 29561232--29561364 Score: 108
Period size: 40 Copynumber: 3.4 Consensus size: 38
29561222 CCAGTTTGGT
* **
29561232 ACCCAGTACCTCATCGGATAATTTGAAGTAATAATTTGAC
1 ACCCAGTGCCTCATC-GATAATCCGAAGTAATAA-TTGAC
** * * * *
29561272 GTCCAGTGTCTCATCGGCTAAACCGAAGT-A-AATTGGC
1 ACCCAGTGCCTCATC-GATAATCCGAAGTAATAATTGAC
29561309 ACCCAGTGCCTCATCGAATTAATCCGAAGTAATAGATTGAC
1 ACCCAGTGCCTCATCG-A-TAATCCGAAGTAATA-ATTGAC
*
29561350 ACCCAGTGTCTCATC
1 ACCCAGTGCCTCATC
29561365 AACTCGAAGT
Statistics
Matches: 72, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
36 1 0.01
37 16 0.22
38 12 0.17
39 2 0.03
40 22 0.31
41 19 0.26
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (38 bp):
ACCCAGTGCCTCATCGATAATCCGAAGTAATAATTGAC
Found at i:29562281 original size:4 final size:4
Alignment explanation
Indices: 29562272--29562309 Score: 58
Period size: 4 Copynumber: 9.0 Consensus size: 4
29562262 CTAGTTTCAC
29562272 CTTT CTTT CTTT CTTT CTTTT CTTT CTTT CCTTT CTTT
1 CTTT CTTT CTTT CTTT C-TTT CTTT CTTT -CTTT CTTT
29562310 TCTCCCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 24 0.75
5 8 0.25
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:29562295 original size:9 final size:9
Alignment explanation
Indices: 29562273--29562312 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
29562263 TAGTTTCACC
29562273 TTTCTTTC-
1 TTTCTTTCT
29562281 TTTCTTTCT
1 TTTCTTTCT
29562290 TTTCTTTCT
1 TTTCTTTCT
*
29562299 TTCCTTTCT
1 TTTCTTTCT
29562308 TTTCT
1 TTTCT
29562313 CCCTATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 8 0.28
9 21 0.72
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTTCTTTCT
Found at i:29562369 original size:17 final size:15
Alignment explanation
Indices: 29562347--29562401 Score: 67
Period size: 14 Copynumber: 3.5 Consensus size: 15
29562337 TTTCTTTTCT
29562347 TTATTTATTTTATTTA
1 TTATTTATTTTA-TTA
29562363 CTTATTTATTTTATTA
1 -TTATTTATTTTATTA
*
29562379 -TATTTACTTTATTA
1 TTATTTATTTTATTA
29562393 TTATATTAT
1 TTAT-TTAT
29562402 ATATATTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 13 0.38
15 3 0.09
16 6 0.18
17 12 0.35
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTTATTTTATTA
Found at i:29562375 original size:22 final size:23
Alignment explanation
Indices: 29562346--29562414 Score: 79
Period size: 22 Copynumber: 3.0 Consensus size: 23
29562336 TTTTCTTTTC
*
29562346 TTTA-TTTATTTTATTTACTTA-
1 TTTATTTTATTATATTTACTTAT
29562367 TTTATTTTATTATATTTACTTTAT
1 TTTATTTTATTATATTTAC-TTAT
*
29562391 TATTATATTATATATATTTACTTA
1 T-TTATTTTAT-TATATTTACTTA
29562415 AATATTAAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.10
22 13 0.32
23 3 0.07
24 1 0.02
25 11 0.27
26 9 0.22
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTTTATTATATTTACTTAT
Found at i:29562420 original size:26 final size:24
Alignment explanation
Indices: 29562347--29562421 Score: 75
Period size: 26 Copynumber: 3.1 Consensus size: 24
29562337 TTTCTTTTCT
*
29562347 TTAT-TTATTTTATTTACTT-AT-
1 TTATATTATTATATTTACTTAATA
* *
29562368 TTATTTTATTATATTTACTTTATTA
1 TTATATTATTATATTTAC-TTAATA
29562393 TTATATTATATATATTTACTTAAATA
1 TTATATTAT-TATATTTACTT-AATA
29562419 TTA
1 TTA
29562422 AGTAATACAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
21 4 0.09
22 12 0.27
23 2 0.05
24 1 0.02
25 10 0.23
26 15 0.34
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (24 bp):
TTATATTATTATATTTACTTAATA
Found at i:29562433 original size:26 final size:26
Alignment explanation
Indices: 29562378--29562435 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
29562368 TTATTTTATT
* * * *
29562378 ATATTTACTTTATTATTATATTATAT
1 ATATTTACTTAAATATTATATAATAC
29562404 ATATTTACTTAAATATTA-AGTAATAC
1 ATATTTACTTAAATATTATA-TAATAC
29562430 ATATTT
1 ATATTT
29562436 TATTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATTTACTTAAATATTATATAATAC
Found at i:29564431 original size:159 final size:157
Alignment explanation
Indices: 29564101--29564558 Score: 555
Period size: 159 Copynumber: 2.9 Consensus size: 157
29564091 AACAAAGGAT
* * * *
29564101 CATGCATTCAACCTAACACAAC-AGGAGCACAGGTATATGGTAAACACTTTTTCATTGTCAATTC
1 CATGCATTCAGCCTAACACAACTA-GATCACAGGTATATCGTAAACACTTTTT-AATGTCAATTC
* * * *
29564165 CAAAATATTAAAATCTAATTT-GGGTTCTAATTTTTTTGGTCTTAGTCTGGTACTAGTACGAGAA
64 CAAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCTTAGTCTGGTACGAGTA-TAGAA
* * * *
29564229 CTAGAAACCCAAAAAATAACAACATAACAC
128 CTAGAAGCCAAAAAAAGAACAACAGAACAC
* * * * **
29564259 CATGCATTAAGCCTAATACAACTAGATCATAGGTATATCGTATACACTATTTTAATGTCAATTTA
1 CATGCATTCAGCCTAACACAACTAGATCACAGGTATATCGTAAACACT-TTTTAATGTCAATTCC
* * *
29564324 AAAATATTTTAATCTAATTTGGGGTTTTGATTTTTTTGGTGTTAGTCTGGTACGAGTATACGAAC
65 AAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCTTAGTCTGGTACGAGTATA-GAAC
*
29564389 TAGAAGTCAAAAAAAGAACAACAGAACAC
129 TAGAAGCCAAAAAAAGAACAACAGAACAC
* * *
29564418 CATGCATTCAGCCTAACACAACTGGATCGCAGGTATATCGTAAACATTTTTTTAATGTCAATTCC
1 CATGCATTCAGCCTAACACAACTAGATCACAGGTATATCGTAAACA-CTTTTTAATGTCAATTCC
* * * *
29564483 AAATTATTTAAATCTAATTTGGGGTTCTGA--CTTTTGTTCTCAGTCTGGTACGAGTATGAGAAC
65 AAAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCTTAGTCTGGTACGAGTAT-AGAAC
*
29564546 TACAAGCCAAAAA
129 TAGAAGCCAAAAA
29564559 TGGATGGCAT
Statistics
Matches: 254, Mismatches: 40, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
157 38 0.15
158 68 0.27
159 147 0.58
160 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (157 bp):
CATGCATTCAGCCTAACACAACTAGATCACAGGTATATCGTAAACACTTTTTAATGTCAATTCCA
AAATATTTAAATCTAATTTGGGGTTCTGATTTTTTTGGTCTTAGTCTGGTACGAGTATAGAACTA
GAAGCCAAAAAAAGAACAACAGAACAC
Found at i:29564772 original size:82 final size:82
Alignment explanation
Indices: 29564636--29564919 Score: 471
Period size: 82 Copynumber: 3.5 Consensus size: 82
29564626 TAAAGATGGT
* *
29564636 TAACATGTTTTGTTT-GTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACATCTTACTGTTATA
1 TAACATATTTTGTTTGGTTTTTGAAATGATTTATTGAAATGGTTGGTTAACATCTTACTGTTATA
29564700 GGATCATTTTGTTAGCA
66 GGATCATTTTGTTAGCA
**
29564717 TAACATATTTTGTTTATTTTTTGAAATGATTTATTGAAATGGTTGGTTAACATCTTACTGTTATA
1 TAACATATTTTGTTTGGTTTTTGAAATGATTTATTGAAATGGTTGGTTAACATCTTACTGTTATA
29564782 GGATCATTTTGTTAGCA
66 GGATCATTTTGTTAGCA
* **
29564799 TAACATATTTTGTTTGTTTTTTGAAATGATTTATTGAAATGGTTGGTTAACATCTTACTACTATA
1 TAACATATTTTGTTTGGTTTTTGAAATGATTTATTGAAATGGTTGGTTAACATCTTACTGTTATA
* *
29564864 TGATCATTTTGTTAGTA
66 GGATCATTTTGTTAGCA
*
29564881 TAACATATTTTGTTTGGTTTTTGAAATGATTTTTTGAAA
1 TAACATATTTTGTTTGGTTTTTGAAATGATTTATTGAAA
29564920 GATGTATACT
Statistics
Matches: 192, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
81 14 0.07
82 178 0.93
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.50
Consensus pattern (82 bp):
TAACATATTTTGTTTGGTTTTTGAAATGATTTATTGAAATGGTTGGTTAACATCTTACTGTTATA
GGATCATTTTGTTAGCA
Found at i:29566423 original size:112 final size:115
Alignment explanation
Indices: 29566267--29566477 Score: 338
Period size: 112 Copynumber: 1.9 Consensus size: 115
29566257 TACTCTAATA
* *
29566267 TTCACATATGGGAAAGAAATGTTTCATCAATATCCAATT-AAAAAAT-AAAAAAAATC-CCCAAT
1 TTCACACATGGGAAAGAAATGTTTCATCAATATCCAATTAAAAAAATCAAAAAAAATCACACAAT
29566329 TTCTTATGAACCCTAAAAAAAATCAGCTAAATATGCTTACTCGAATACAT
66 TTCTTATGAACCCTAAAAAAAATCAGCTAAATATGCTTACTCGAATACAT
*
29566379 TTCACACATGGGAAAGAAATGTTTCATCAATATCCAATTTAAAAAATCAAAAAAAATCACACAAT
1 TTCACACATGGGAAAGAAATGTTTCATCAATATCCAATTAAAAAAATCAAAAAAAATCACACAAT
* * * *
29566444 TTTTTATGAACCTTAAAACAAATCGGCTAAATAT
66 TTCTTATGAACCCTAAAAAAAATCAGCTAAATAT
29566478 ACAGTGCCTA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
112 38 0.42
113 7 0.08
114 10 0.11
115 35 0.39
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (115 bp):
TTCACACATGGGAAAGAAATGTTTCATCAATATCCAATTAAAAAAATCAAAAAAAATCACACAAT
TTCTTATGAACCCTAAAAAAAATCAGCTAAATATGCTTACTCGAATACAT
Found at i:29573060 original size:21 final size:19
Alignment explanation
Indices: 29573036--29573079 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
29573026 ATATAATATA
*
29573036 TTTAAATATTTTTTTGAAAAT
1 TTTAAATATTATTTT--AAAT
*
29573057 TTTAATTATTATTTTAAAT
1 TTTAAATATTATTTTAAAT
29573076 TTTA
1 TTTA
29573080 TGTTGATGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
21 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTAAATATTATTTTAAAT
Done.