Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold171
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: 2364178
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 278680 characters in sequence are not A, C, G, or T
File 13 of 13
Found at i:2022768 original size:112 final size:112
Alignment explanation
Indices: 2022520--2022770 Score: 287
Period size: 112 Copynumber: 2.2 Consensus size: 112
2022510 AATTCGTTTA
* ** *
2022520 ATTTTCAAAGAAATTCATGTTTTC-TACATCTTGATCCATTCATGCCTAAGAAAATGGGCACGTA
1 ATTTTTAAAGAAATTCA-CATTTCATACATCTTGATCCATTCATGCCTAAGAAAATGAGCACGTA
** *
2022584 TCTCATCAGTTTCGATCTTTTTGAGCCCCACAACATCAAATTTGCTTG
65 TCTCATCAGTTTCGAAATCTTTGAGCCCCACAACATCAAATTTGCTTG
* * * **
2022632 ATTTTTGAAGAAATTCACACTTCATACATTTTGATCCATTTGTGCCTAAG-AAATAGAGCACGTA
1 ATTTTTAAAGAAATTCACATTTCATACATCTTGATCCATTCATGCCTAAGAAAAT-GAGCACGTA
* *
2022696 TCTTATCAGCTTT-GAAATCTTTGAGCCCCGCAACATCAAATTTG-TTAG
65 TCTCATCAG-TTTCGAAATCTTTGAGCCCCACAACATCAAATTTGCTT-G
*
2022744 ATTTTTAAAGAAACTT-ATATTTCATAC
1 ATTTTTAAAGAAA-TTCACATTTCATAC
2022771 GTTCTGGCCC
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
111 9 0.08
112 103 0.88
113 5 0.04
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (112 bp):
ATTTTTAAAGAAATTCACATTTCATACATCTTGATCCATTCATGCCTAAGAAAATGAGCACGTAT
CTCATCAGTTTCGAAATCTTTGAGCCCCACAACATCAAATTTGCTTG
Found at i:2022783 original size:112 final size:112
Alignment explanation
Indices: 2022555--2022801 Score: 277
Period size: 112 Copynumber: 2.2 Consensus size: 112
2022545 ACATCTTGAT
* * ** *
2022555 CCATTCATGCCTAAGAAAATGGGCACGTATCTCATCAGTTTCGATCTTTTTGAGCCCCACAACAT
1 CCATTCGTGCCTAAGAAAATGAGCACGTATCTCATCAGTTTCGAAATCTTTGAGCCCCACAACAT
* * *
2022620 CAAATTTGCTTGATTTTTGAAGAAATTCACACTTCATACATTTTGAT
66 CAAATTTGCTTGATTTTTAAAGAAATTCACACTTCATACATTCTGAC
* * *
2022667 CCATTTGTGCCTAAG-AAATAGAGCACGTATCTTATCAGCTTT-GAAATCTTTGAGCCCCGCAAC
1 CCATTCGTGCCTAAGAAAAT-GAGCACGTATCTCATCAG-TTTCGAAATCTTTGAGCCCCACAAC
* * * *
2022730 ATCAAATTTG-TTAGATTTTTAAAGAAACTT-ATATTTCATACGTTCTGGC
64 ATCAAATTTGCTT-GATTTTTAAAGAAA-TTCACACTTCATACATTCTGAC
* *
2022779 CCATTCGTGCATAGGAAAATGAG
1 CCATTCGTGCCTAAGAAAATGAG
2022802 GCATGCACCC
Statistics
Matches: 112, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
111 6 0.05
112 97 0.87
113 9 0.08
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (112 bp):
CCATTCGTGCCTAAGAAAATGAGCACGTATCTCATCAGTTTCGAAATCTTTGAGCCCCACAACAT
CAAATTTGCTTGATTTTTAAAGAAATTCACACTTCATACATTCTGAC
Found at i:2023951 original size:88 final size:90
Alignment explanation
Indices: 2023736--2023960 Score: 287
Period size: 90 Copynumber: 2.5 Consensus size: 90
2023726 TTCTTAACTC
* * * * * *
2023736 CTAGATGGTATTGATGCATCACAAAGTCTAATTTCCATAGGGCAAGGTGCAGGCCACACACTCCT
1 CTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCACACACTCCC
* *
2023801 AATCATATCCCCTCTTTCTTAACCA
66 AATCATATCCCCTCTATCTCAACCA
* * *
2023826 CTAAATGGTATTGATGCATCACAAAGCTTGATTTCCTTTGGGGCAAGGTGCAGCCCACACATTCC
1 CTAGATGGTATTGATGCATCACAAAGCCTGATTTCC-TTGGGGCAAGGTGCAGCCCACACACTCC
2023891 CAAT-ATATCCCCT-TCATC-CAA-CA
65 CAATCATATCCCCTCT-ATCTCAACCA
* *
2023914 CTAGATGGTATTGATGCATTACAAAGCCTGATATCCTTGGGGCAAGG
1 CTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGG
2023961 ACATCCTGAC
Statistics
Matches: 118, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
87 11 0.09
88 34 0.29
89 3 0.03
90 43 0.36
91 27 0.23
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (90 bp):
CTAGATGGTATTGATGCATCACAAAGCCTGATTTCCTTGGGGCAAGGTGCAGCCCACACACTCCC
AATCATATCCCCTCTATCTCAACCA
Found at i:2024385 original size:44 final size:44
Alignment explanation
Indices: 2024334--2024476 Score: 137
Period size: 44 Copynumber: 3.2 Consensus size: 44
2024324 GGTGTTAGGG
* *
2024334 CCTAGTCAAACTCTCCTCTTTCCTATCTGACATATGGTTACCAC
1 CCTAGTCAAACTCTCCTCTTTCCTATTTGACGTATGGTTACCAC
* * * * * * *
2024378 CCTAGTCAGATTCT-TTTTATTTCAATTTGATGTATGGTTACCAC
1 CCTAGTCAAACTCTCCTCT-TTCCTATTTGACGTATGGTTACCAC
* * *
2024422 CCCAGTCAAA-TCTGCCTCTTTCTTGTTTGACGTATGGTTACCAC
1 CCTAGTCAAACTCT-CCTCTTTCCTATTTGACGTATGGTTACCAC
*
2024466 CCTGGTCAAAC
1 CCTAGTCAAAC
2024477 GATTTGCATT
Statistics
Matches: 75, Mismatches: 20, Indels: 7
0.74 0.20 0.07
Matches are distributed among these distances:
43 5 0.07
44 68 0.91
45 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (44 bp):
CCTAGTCAAACTCTCCTCTTTCCTATTTGACGTATGGTTACCAC
Found at i:2024811 original size:43 final size:44
Alignment explanation
Indices: 2024707--2024812 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 44
2024697 CGTTAGCTTT
** * *
2024707 GACCC-AGAAGACTTCT-TT-ATCTTTTGTTTGCCTATCAACTTT
1 GACCCTAG-AGACTTCTCTTCATCTTTCATTTGCCCATCAACTTA
*
2024749 GACCCTAGAGACTTC-CTTCATCTTTCATTTGCCCATCGACTTA
1 GACCCTAGAGACTTCTCTTCATCTTTCATTTGCCCATCAACTTA
*
2024792 GA-CCTGGAGACTTCTCTTCAT
1 GACCCTAGAGACTTCTCTTCAT
2024813 TTTTTGACTG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
42 25 0.46
43 29 0.54
ACGTcount: A:0.21, C:0.28, G:0.13, T:0.38
Consensus pattern (44 bp):
GACCCTAGAGACTTCTCTTCATCTTTCATTTGCCCATCAACTTA
Found at i:2025014 original size:42 final size:42
Alignment explanation
Indices: 2024645--2025015 Score: 170
Period size: 42 Copynumber: 8.8 Consensus size: 42
2024635 TTACCCTTTC
* * *** * * *
2024645 TTTGTCTGCCTATCGGCTTTGACCCTAAAGACTTCTACGTCC
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGACTTCTTCATCT
* ** * * * *
2024687 TTTGTCTGCCCGTTAGCTTTGACCCAGAAGACTTCTTTATCT
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGACTTCTTCATCT
* * ** * **
2024729 TTTGTTTGCCTATCAACTTTGACCCTAGAGACTTCCTTCATCT
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGACTT-CTTCATCT
** * * * *
2024772 TTCATTTGCCCATCGACTTAGA-CCTGGAGACTTCTCTTCATTT
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGAC-T-TCTTCATCT
* * * * * * * * *
2024815 TTTGACTGCCCGTTGACTTAGTCTCGGAAGACTTTCTTTATCA
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGAC-TTCTTCATCT
* ** * *** * * * *
2024858 ATCATCCGCTTGTTGGTTTAGACCTGGGAGACTTCTTCATCA
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGACTTCTTCATCT
* * * *
2024900 ATCGTCTACCCATCGGCTTAGACTCGGGAGACTTCTTCAT-T
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGACTTCTTCATCT
* *
2024941 TTTCGTTTGCCCATCGGCTTAGACTCGGGAGACTTCTTCATCT
1 TTT-GTCTGCCCATCGGCTTAGACCCGGGAGACTTCTTCATCT
* * *
2024984 TTTATCTGCCCATCAGCTTAGACCCAGGAGAC
1 TTTGTCTGCCCATCGGCTTAGACCCGGGAGAC
2025016 CCGGGAGACT
Statistics
Matches: 250, Mismatches: 73, Indels: 12
0.75 0.22 0.04
Matches are distributed among these distances:
41 1 0.00
42 164 0.66
43 76 0.30
44 9 0.04
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.37
Consensus pattern (42 bp):
TTTGTCTGCCCATCGGCTTAGACCCGGGAGACTTCTTCATCT
Found at i:2025197 original size:41 final size:41
Alignment explanation
Indices: 2025143--2025270 Score: 105
Period size: 43 Copynumber: 3.0 Consensus size: 41
2025133 TGCCAGCTAA
*
2025143 TCTCCGGTCAAACCTTCATCCATTGTTTACCTATTGACTTAG
1 TCTCCGGT-AAACCTTCATCCATTGTTTACCTATTAACTTAG
* * * * * * * *
2025185 TCTCTGGTAAACCCATT-ACCCTTATGGTGACCTATCAGCTCAG
1 TCTCCGGTAAA-CC-TTCATCCAT-TGTTTACCTATTAACTTAG
* * *
2025228 TCTCCGGTCAACCTTCATCCATTGTTTACCTGTCAACTTAG
1 TCTCCGGTAAACCTTCATCCATTGTTTACCTATTAACTTAG
2025269 TC
1 TC
2025271 CTGGATAAAC
Statistics
Matches: 64, Mismatches: 18, Indels: 9
0.70 0.20 0.10
Matches are distributed among these distances:
41 21 0.33
42 19 0.30
43 24 0.38
ACGTcount: A:0.21, C:0.30, G:0.13, T:0.35
Consensus pattern (41 bp):
TCTCCGGTAAACCTTCATCCATTGTTTACCTATTAACTTAG
Found at i:2025249 original size:84 final size:83
Alignment explanation
Indices: 2025068--2025530 Score: 520
Period size: 84 Copynumber: 5.5 Consensus size: 83
2025058 CTTGGGAAAT
* * *
2025068 AACCTTCATCCATTGTTTACCTGT-TAGCTTAGTCCCCGATAAAACCCATTATCC-TTATGGTGA
1 AACCTTCATCCATTGTTTACCTGTCGA-CTTAGT-CCTGGT-AAACCCATTA-CCTTTATGGTGA
* * *
2025131 CTTGCCAGCT-AATCTCCGGTC
62 CCTGTCAGCTCAGTCTCCGGTC
* * *
2025152 AAACCTTCATCCATTGTTTACCTATTGACTTAGTCTCTGGTAAACCCATTACCCTTATGGTGACC
1 -AACCTTCATCCATTGTTTACCTGTCGACTTAGTC-CTGGTAAACCCATTACCTTTATGGTGACC
*
2025217 TATCAGCTCAGTCTCCGGTC
64 TGTCAGCTCAGTCTCCGGTC
*
2025237 AACCTTCATCCATTGTTTACCTGTCAACTTAGTCCTGGATAAACCCATTAACCTTTATGGTGACC
1 AACCTTCATCCATTGTTTACCTGTCGACTTAGTCCTGG-TAAACCCATT-ACCTTTATGGTGACC
2025302 TGTCAGCTCAGTCTCCGGTC
64 TGTCAGCTCAGTCTCCGGTC
* * ** * * *
2025322 AACCTTCATCCATTATTTACCTATCGGTTTAATCCTCAGTAAATCCATTACCTTTATGGTGACCT
1 AACCTTCATCCATTGTTTACCTGTCGACTTAGTCCT-GGTAAACCCATTACCTTTATGGTGACCT
*
2025387 ATCAGCTCAGTCTCCGGTC
65 GTCAGCTCAGTCTCCGGTC
* * * *
2025406 AACCTTCATCCATTGTTTACCTGTCGGCTTAGTCCTCAGTAAGCCCATTACCTTTATGGTGACTT
1 AACCTTCATCCATTGTTTACCTGTCGACTTAGTCCT-GGTAAACCCATTACCTTTATGGTGACCT
* *
2025471 GTCAGCTCAATCTCCGATC
65 GTCAGCTCAGTCTCCGGTC
* * * * *
2025490 AACTTTTATCC-TTCATTCACCTGTCGGCTTAGTCCTAGGTA
1 AACCTTCATCCATT-GTTTACCTGTCGACTTAGTCCT-GGTA
2025531 CTTCCTTCTA
Statistics
Matches: 332, Mismatches: 38, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
83 8 0.02
84 208 0.63
85 114 0.34
86 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (83 bp):
AACCTTCATCCATTGTTTACCTGTCGACTTAGTCCTGGTAAACCCATTACCTTTATGGTGACCTG
TCAGCTCAGTCTCCGGTC
Found at i:2025372 original size:169 final size:168
Alignment explanation
Indices: 2025068--2025492 Score: 597
Period size: 169 Copynumber: 2.5 Consensus size: 168
2025058 CTTGGGAAAT
* * *
2025068 AACCTTCATCCATTGTTTACCTGTTAGCTTAGTCCCCGATAAAACCCATTATCC-TTATGGTGAC
1 AACCTTCATCCATTGTTTACCTGTCAGCTTAGT-CCTGAT-AAACCCATTAACCTTTATGGTGAC
* * * * *
2025132 TTGCCAGCT-AATCTCCGGTCAAACCTTCATCCATTGTTTACCTATTGACTTAGTCTCTGGTAAA
64 TTGTCAGCTCAATCTCCGGTC-AACCTTCATCCATTATTTACCTATCGACTTAATCTCTAGTAAA
2025196 CCCATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGGTC
128 CCCATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGGTC
* *
2025237 AACCTTCATCCATTGTTTACCTGTCAACTTAGTCCTGGATAAACCCATTAACCTTTATGGTGACC
1 AACCTTCATCCATTGTTTACCTGTCAGCTTAGTCCT-GATAAACCCATTAACCTTTATGGTGACT
* ** *
2025302 TGTCAGCTCAGTCTCCGGTCAACCTTCATCCATTATTTACCTATCGGTTTAATC-CTCAGTAAAT
65 TGTCAGCTCAATCTCCGGTCAACCTTCATCCATTATTTACCTATCGACTTAATCTCT-AGTAAAC
*
2025366 CCATTACCTTTATGGTGACCTATCAGCTCAGTCTCCGGTC
129 CCATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGGTC
* * *
2025406 AACCTTCATCCATTGTTTACCTGTCGGCTTAGTCCTCAGTAAGCCCATT-ACCTTTATGGTGACT
1 AACCTTCATCCATTGTTTACCTGTCAGCTTAGTCCTGA-TAAACCCATTAACCTTTATGGTGACT
*
2025470 TGTCAGCTCAATCTCCGATCAAC
65 TGTCAGCTCAATCTCCGGTCAAC
2025493 TTTTATCCTT
Statistics
Matches: 229, Mismatches: 22, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
168 52 0.23
169 167 0.73
170 10 0.04
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (168 bp):
AACCTTCATCCATTGTTTACCTGTCAGCTTAGTCCTGATAAACCCATTAACCTTTATGGTGACTT
GTCAGCTCAATCTCCGGTCAACCTTCATCCATTATTTACCTATCGACTTAATCTCTAGTAAACCC
ATTACCCTTATGGTGACCTATCAGCTCAGTCTCCGGTC
Found at i:2025591 original size:42 final size:42
Alignment explanation
Indices: 2025539--2025662 Score: 108
Period size: 42 Copynumber: 3.0 Consensus size: 42
2025529 TACTTCCTTC
* *
2025539 TATCTTTTGTTGACTTATCGGTCCAATCCTAGTCAACTTTTT
1 TATCCTTTGTTGACTTACCGGTCCAATCCTAGTCAACTTTTT
* * * * *
2025581 TATCCTTTGTTTACCTACCCGG-CCAATCCCAAGT-AAATCTTT
1 TATCCTTTGTTGACTTA-CCGGTCCAAT-CCTAGTCAACTTTTT
* * * **
2025623 TATCCCTCGTTGACTTGCCGGTTTAATCCTAGTCAACTTT
1 TATCCTTTGTTGACTTACCGGTCCAATCCTAGTCAACTTT
2025663 ATCCTTCATT
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
41 9 0.15
42 44 0.72
43 8 0.13
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.41
Consensus pattern (42 bp):
TATCCTTTGTTGACTTACCGGTCCAATCCTAGTCAACTTTTT
Found at i:2256362 original size:13 final size:13
Alignment explanation
Indices: 2256344--2256369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2256334 ACAATATTCC
2256344 TTGTATCGATACA
1 TTGTATCGATACA
2256357 TTGTATCGATACA
1 TTGTATCGATACA
2256370 AGAGGTACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2258879 original size:13 final size:13
Alignment explanation
Indices: 2258861--2258889 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2258851 ATACATTATG
2258861 CATTGTATCGATA
1 CATTGTATCGATA
2258874 CATTGTATCGATA
1 CATTGTATCGATA
2258887 CAT
1 CAT
2258890 GTTCATTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:2258904 original size:32 final size:33
Alignment explanation
Indices: 2258844--2258908 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
2258834 CACACCCAGA
2258844 TGTATCGATACATTATGCATTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
*
2258877 TGTATCGATACATGT-T-CATTGTGTCGATACAT
1 TGTATCGATACAT-TATGCATTGTATCGATACAT
2258909 GGACAATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 14 0.47
34 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAT
Found at i:2258923 original size:20 final size:19
Alignment explanation
Indices: 2258873--2258929 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2258863 TTGTATCGAT
*
2258873 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
2258892 TCATTGTGTCGATACATGG
1 ACATTGTATCGATACATGG
2258911 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2258930 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2259937 original size:225 final size:224
Alignment explanation
Indices: 2259540--2259985 Score: 698
Period size: 225 Copynumber: 2.0 Consensus size: 224
2259530 TGCCTTAAAG
*
2259540 GTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTGTCAAGGAGAGAGGACGTA
1 GTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTATCAAGGAGAGAGGACGTA
* * * * *
2259605 GGTACCAGATTGGATCGAACCTCTATAAACTCTTATGTCGATCATTTCTTCCTTAATCTTTTTAT
66 GGTACCAGATTGGAACGAACCTCTATAAACTCTTATGTCAAGCATTTCCTCCTCAATCTTTTTAT
*
2259670 CTTTTGAATTATTTTGCACCAAACCTTTAAAAATTCTCAAAATTCAAAAAGAACTAATTCACCCC
131 CTTTTGAATTATTTTGCACCAAACCTTTAAAAATTCTCAAAATTCAAAAAGAACCAATTCA-CCC
2259735 CCTCTTGGTTCATTATTCCTTGAGCTTTCA
195 CCTCTTGGTTCATTATTCCTTGAGCTTTCA
* * *
2259765 GTAATCAATTCTTGTAGTGAATTGGATAACCACTCGACAAGGAAGTATCGAGGAGAGAGGATGTA
1 GTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTATCAAGGAGAGAGGACGTA
** *
2259830 GGTACTGGATTGGAACGAACCTCTATAAACTCTTATGTCAAGCTTTTCCTCCTCAATCTTTTTAT
66 GGTACCAGATTGGAACGAACCTCTATAAACTCTTATGTCAAGCATTTCCTCCTCAATCTTTTTAT
* * **
2259895 CTTTTGAATTGTTTTGCACCAAATCTTTCAAAACA-T-TCAAAATTTGAAAAGAACCAATTCACC
131 CTTTTGAATTATTTTGCACCAAACCTTT-AAAA-ATTCTCAAAATTCAAAAAGAACCAATTCACC
2259958 CCCTCTTGGTTCATTATTCCTTGAGCTT
194 CCCTCTTGGTTCATTATTCCTTGAGCTT
2259986 ACAATTGGTA
Statistics
Matches: 202, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
224 30 0.15
225 166 0.82
226 5 0.02
227 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (224 bp):
GTAATCAATTCTAGTAGTGAATTGGATAACCACTCGACAAGGAAGTATCAAGGAGAGAGGACGTA
GGTACCAGATTGGAACGAACCTCTATAAACTCTTATGTCAAGCATTTCCTCCTCAATCTTTTTAT
CTTTTGAATTATTTTGCACCAAACCTTTAAAAATTCTCAAAATTCAAAAAGAACCAATTCACCCC
CTCTTGGTTCATTATTCCTTGAGCTTTCA
Found at i:2265214 original size:20 final size:20
Alignment explanation
Indices: 2265189--2265230 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2265179 AAATATGTTG
2265189 TTTTATTGGTGTTGAT-TGAA
1 TTTTATTGGT-TTGATATGAA
*
2265209 TTTTATTTGTTTGATATGAA
1 TTTTATTGGTTTGATATGAA
2265229 TT
1 TT
2265231 AGGATTGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (20 bp):
TTTTATTGGTTTGATATGAA
Found at i:2267376 original size:18 final size:18
Alignment explanation
Indices: 2267333--2267370 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2267323 GAGAGCTTTA
*
2267333 AAACAAAAATTTTGCATT
1 AAACGAAAATTTTGCATT
2267351 AAACGAAAATTTTGCATT
1 AAACGAAAATTTTGCATT
2267369 AA
1 AA
2267371 GAGAAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.08, T:0.32
Consensus pattern (18 bp):
AAACGAAAATTTTGCATT
Found at i:2267966 original size:20 final size:19
Alignment explanation
Indices: 2267921--2267977 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
2267911 TGCATCGATA
*
2267921 CATTGTGTCGATACATGAT
1 CATTGTATCGATACATGAT
2267940 CATTGTATCGATACATGCA-
1 CATTGTATCGATACATG-AT
2267959 CAATTGTATCGATACATGA
1 C-ATTGTATCGATACATGA
2267978 AACTGGTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:2268041 original size:76 final size:76
Alignment explanation
Indices: 2267943--2268118 Score: 291
Period size: 76 Copynumber: 2.3 Consensus size: 76
2267933 ACATGATCAT
* * *
2267943 TGTATCGATACAT-GCACAATTGTATCGATACATGAAACTGGTAGTAGCTACCCTACCACTGTTT
1 TGTATCGATACATGGCAC-ATTGTATCGATACATGAAACTAGCAGTAGCTACCCTACCACTATTT
* *
2268007 GCATCGATACGA
65 ACATCGATACAA
2268019 TGTATCGATACATGGCACATTGTATCGATACATGAAACTAGCAGTAGCTACCCTACCACTATTTA
1 TGTATCGATACATGGCACATTGTATCGATACATGAAACTAGCAGTAGCTACCCTACCACTATTTA
2268084 CATCGATACAA
66 CATCGATACAA
2268095 TGTATCGATACATGGCACATTGTA
1 TGTATCGATACATGGCACATTGTA
2268119 GAAGAATTGT
Statistics
Matches: 94, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 90 0.96
77 4 0.04
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (76 bp):
TGTATCGATACATGGCACATTGTATCGATACATGAAACTAGCAGTAGCTACCCTACCACTATTTA
CATCGATACAA
Found at i:2271026 original size:21 final size:21
Alignment explanation
Indices: 2271002--2271044 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
2270992 AAATGAAATT
2271002 GTTATACATATATATATCTCG
1 GTTATACATATATATATCTCG
*
2271023 GTTATATATATATATATCTCG
1 GTTATACATATATATATCTCG
2271044 G
1 G
2271045 ATGATGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (21 bp):
GTTATACATATATATATCTCG
Found at i:2271825 original size:62 final size:62
Alignment explanation
Indices: 2271725--2271849 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
2271715 GGCTCAGTTT
*
2271725 GAATAAAGTGTCCTAAAGGGAATAGGTGCTCTAAACTTGGATATGTATCGACGGGGCAAGTC
1 GAATAAAGTGTCCTAAAGGGAATAGGTGCGCTAAACTTGGATATGTATCGACGGGGCAAGTC
*
2271787 GAATAAAGTGTCCTAAAGGGAATAGGTGCGCTACACTTGGATATGTATCGACGGGGCAAGTC
1 GAATAAAGTGTCCTAAAGGGAATAGGTGCGCTAAACTTGGATATGTATCGACGGGGCAAGTC
2271849 G
1 G
2271850 TTATACAATT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.23
Consensus pattern (62 bp):
GAATAAAGTGTCCTAAAGGGAATAGGTGCGCTAAACTTGGATATGTATCGACGGGGCAAGTC
Found at i:2280162 original size:8 final size:8
Alignment explanation
Indices: 2280149--2280210 Score: 52
Period size: 9 Copynumber: 7.0 Consensus size: 8
2280139 AAGTCACAAG
*
2280149 CAAAAACA
1 CAAAAAAA
2280157 CAAAAAAAA
1 C-AAAAAAA
*
2280166 AAAGAGAAAA
1 CAA-A-AAAA
2280176 CAAAAAAAA
1 C-AAAAAAA
2280185 CAAAAAAA
1 CAAAAAAA
2280193 CAAAAAAAA
1 C-AAAAAAA
2280202 CACAAAAAA
1 CA-AAAAAA
2280211 AGTGCAAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
8 12 0.27
9 26 0.58
10 5 0.11
11 2 0.04
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:2280181 original size:28 final size:28
Alignment explanation
Indices: 2280150--2280211 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
2280140 AGTCACAAGC
*
2280150 AAAAACACAAAAAAA-AAAAGAGAAA-ACA
1 AAAAAAACAAAAAAACAAAA-A-AAACACA
2280178 AAAAAAACAAAAAAACAAAAAAAACACA
1 AAAAAAACAAAAAAACAAAAAAAACACA
2280206 AAAAAA
1 AAAAAA
2280212 GTGCAAAGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 3 0.10
28 24 0.77
29 4 0.13
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.00
Consensus pattern (28 bp):
AAAAAAACAAAAAAACAAAAAAAACACA
Found at i:2280182 original size:17 final size:17
Alignment explanation
Indices: 2280149--2280210 Score: 79
Period size: 17 Copynumber: 3.5 Consensus size: 17
2280139 AAGTCACAAG
*
2280149 CAAAAACACAAAAAAAA
1 CAAAAAAACAAAAAAAA
*
2280166 AAAGAGAAAACAAAAAAAA
1 CAA-A-AAAACAAAAAAAA
2280185 CAAAAAAACAAAAAAAA
1 CAAAAAAACAAAAAAAA
2280202 CACAAAAAA
1 CA-AAAAAA
2280211 AGTGCAAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 17 0.44
18 8 0.21
19 14 0.36
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (17 bp):
CAAAAAAACAAAAAAAA
Found at i:2281518 original size:32 final size:32
Alignment explanation
Indices: 2281475--2281896 Score: 406
Period size: 30 Copynumber: 13.3 Consensus size: 32
2281465 AATTCTTTAA
* * *
2281475 ATCTCTCTTCTCAAAGTCCACAACTCAGTAGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
* * *
2281507 ATCTCTTTTCTCAAAGTCTATGACTTAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
*
2281539 ATCTCTTTTCT--AAGACCACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
* *
2281569 ATC-CTTTTCTTCCAAGTCTACGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGC
*
2281601 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGC
* *
2281634 ATGTCTTTTCT--AAGACCACGACTCAGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
* *
2281664 ATC-CTTTTGTTCCAAGTCCACGACTCAGTGGC
1 ATCTCTTTT-CTCAAAGTCCACGACTCAGTGGC
*
2281696 ATCTTTTTTCTTCAAAGTCCACGACTCAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGC
* *
2281729 ATCTC-TTTC-CAAAGTCCACAACTCATTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
* *
2281759 ATCTTTTTTCTTCAAAGTCCACGACACAGTGGC
1 ATCTCTTTTC-TCAAAGTCCACGACTCAGTGGC
* *
2281792 AATC-GTTTT-TCAAAGTCCATGACTCAGTGGC
1 -ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
* * *
2281823 ATCTC--TTCCCAAAGTCCATGACTCTGTGGC
1 ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
* *
2281853 ACCT-TTTTCTTTTCAAAGTCCACAACT-ATGTGGC
1 ATCTCTTTTC---TCAAAGTCCACGACTCA-GTGGC
*
2281887 ACCT-TTTTCT
1 ATCTCTTTTCT
2281897 TTTTAAAGCC
Statistics
Matches: 327, Mismatches: 42, Indels: 43
0.79 0.10 0.10
Matches are distributed among these distances:
29 13 0.04
30 89 0.27
31 28 0.09
32 83 0.25
33 85 0.26
34 29 0.09
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (32 bp):
ATCTCTTTTCTCAAAGTCCACGACTCAGTGGC
Found at i:2281586 original size:62 final size:63
Alignment explanation
Indices: 2281478--2281897 Score: 403
Period size: 62 Copynumber: 6.7 Consensus size: 63
2281468 TCTTTAAATC
* * * * * *
2281478 TCTCTTCTCAAAGTCCACAACTCAGTAGCATCTCTTTTC-TCAAAGTCTATGACTTAGTGGCA
1 TCTCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* * * *
2281540 TCTCTTTTCTAAGACCACGACTCAGTGGCATC-CTTTTCTTCCAAGTCTACGACTCAGTGGCA
1 TCTCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
2281602 TCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATGTCTTTTC-T--AAGACCACGACTCAGTGGC
1 TC--TCTT-TTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGC
2281664 A
63 A
* * *
2281665 TCCTTTTGTTCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 T-CTCTT-TTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* * * * *
2281730 TCTCTTTCCAAAGTCCACAACTCATTGGCATCTTTTTTCTTCAAAGTCCACGACACAGTGGCAA
1 TCTCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGC-A
* * * *
2281794 TCGT-TTTTCAAAGTCCATGACTCAGTGGCATCTC--TTC-CCAAAGTCCATGACTCTGTGGCA
1 TC-TCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
* * *
2281854 CCTTTTTCTTTTCAAAGTCCACAACT-ATGTGGCACCT-TTTTCTT
1 ----TCTCTTTTCAAAGTCCACGACTCA-GTGGCATCTCTTTTCTT
2281898 TTTAAAGCCT
Statistics
Matches: 299, Mismatches: 39, Indels: 36
0.80 0.10 0.10
Matches are distributed among these distances:
60 1 0.00
61 24 0.08
62 86 0.29
63 73 0.24
64 61 0.20
65 48 0.16
66 6 0.02
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.34
Consensus pattern (63 bp):
TCTCTTTTCAAAGTCCACGACTCAGTGGCATCTCTTTTCTTCAAAGTCCACGACTCAGTGGCA
Found at i:2281825 original size:94 final size:94
Alignment explanation
Indices: 2281485--2281897 Score: 467
Period size: 95 Copynumber: 4.4 Consensus size: 94
2281475 ATCTCTCTTC
* * * * * *
2281485 TCAAAGTCCACAACTCAGTAGCATCTCTTTTC-TCAAAGTCTATGACTTAGTGGCATCTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATCT-TTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
*
2281549 TAAGACCACGACTCAGTGGCATCCTTTTCT
65 AAAGACCACGACTCAGTGGCATCCTTTTCT
* * * *
2281579 TCCAAGTCTACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATGTCTTTTC
1 TCAAAGTCCACGACTCAGTGGCATC-TTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
* *
2281644 TAAGACCACGACTCAGTGGCATCCTTTTGT
65 AAAGACCACGACTCAGTGGCATCCTTTTCT
*
2281674 TCCAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
1 TCAAAGTCCACGACTCAGTGGCATC-TTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
* * * *
2281739 AAAGTCCACAACTCATTGGCATCTTTTTTCT
65 AAAGACCACGACTCAGTGGCATC-CTTTTCT
* * * *
2281770 TCAAAGTCCACGACACAGTGGCAATC-GTTT-TTCAAAGTCCATGACTCAGTGGCATCTCTTCCC
1 TCAAAGTCCACGACTCAGTGGC-ATCTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCC
* * *
2281833 AAAGTCCATGACTCTGTGGCA-CCTTTTTCTTT
65 AAAGACCACGACTCAGTGGCATCC-TTTTC--T
* *
2281865 TCAAAGTCCACAACT-ATGTGGCACCTTTTTCTT
1 TCAAAGTCCACGACTCA-GTGGCATCTTTTTCTT
2281898 TTTAAAGCCT
Statistics
Matches: 277, Mismatches: 32, Indels: 18
0.85 0.10 0.06
Matches are distributed among these distances:
93 6 0.02
94 77 0.28
95 164 0.59
96 27 0.10
97 3 0.01
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (94 bp):
TCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTTCCA
AAGACCACGACTCAGTGGCATCCTTTTCT
Found at i:2281885 original size:34 final size:32
Alignment explanation
Indices: 2281834--2282672 Score: 500
Period size: 34 Copynumber: 26.8 Consensus size: 32
2281824 TCTCTTCCCA
**
2281834 AAGTCCATGACTCTGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
*
2281866 CAAAGTCCACAACTATGTGGCACCTTTTTCTTTTT
1 --AAGTCCACAACTCTGTGGCACCTTTTTC-TTTT
* *
2281901 AAAG-CCTAGAACTCCGTGGCACTCTTTTTCCTTTT
1 -AAGTCC-ACAACTCTGTGGCAC-CTTTTT-CTTTT
*
2281936 AAGTCCACAACTCTGTGGCACC-----CTTTA
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * *
2281963 AAGCCCACAACTCCGTGGCACTTTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCAC-CTTTTT-CTTTT
* *
2281997 AAGTCGACAACTCTGTGGGACC----T-TTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * *
2282024 AAGTCCAAAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT-CTTTT
* * *
2282057 AAGTCCATAACTCTGTGGCACTTTTTTCTCTTCA
1 AAGTCCACAACTCTGTGGCACCTTTTTCT-TT-T
** *
2282091 AAGTTTACAACTATGTGGCACC----T-TTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * *
2282118 AAGTCCATAACTCCGTGGAACCTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTC-TTTT
* *
2282151 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCAC-CTTTTT-CTTTT
* * *
2282186 AAGTTCATAACTCTGTGGCGCC-----CTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
2282213 AAGTCCACAACTCTGTGGCACC-----CTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* *
2282240 AAGTCCATAACT-TCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCT-GTGGCACCTTTTT-CTTTT
** *
2282273 AAGTCCACAACTCCATGGCACCTTTTTCTCTTCA
1 AAGTCCACAACTCTGTGGCACCTTTTTCT-TT-T
* * *
2282307 AAGTCTATAACTCTGT-GAACC-----CTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
*
2282333 AAGTCCACAACTCTGTGGCACTTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTC-TTTT
* *
2282366 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCAC-CTTTTT-CTTTT
* *
2282401 AAGTCCACAA-TTTCGTGGTACC-----CTTTT
1 AAGTCCACAACTCT-GTGGCACCTTTTTCTTTT
* * *
2282428 AGGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTT-CTTTT
** *
2282461 AAGTCCACAACTCCATGGCACCTTTTTCTCTTCA
1 AAGTCCACAACTCTGTGGCACCTTTTTCT-TT-T
*
2282495 AAGTCCACAACTCTATGGCACC----T-TTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
*
2282522 AAGTCCACAACTCTGTGGCACCTTATTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTT-TTTCTTTT
* *
2282555 AAGTCCACAACTCCGTGGCA-CATTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTC-TTTT
** * *
2282587 AAGTCCATGACTCCGTGACACC-----CTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
* * ** *
2282614 AAGCCCACACCTCCATGGCATCCCTTTTTCTTGT
1 AAGTCCACAACTCTGTGGCA--CCTTTTTCTTTT
2282648 AAGTCCACAACTCTGTGGCACCTTT
1 AAGTCCACAACTCTGTGGCACCTTT
2282673 AAGTCCAATA
Statistics
Matches: 626, Mismatches: 105, Indels: 150
0.71 0.12 0.17
Matches are distributed among these distances:
26 15 0.02
27 171 0.27
28 8 0.01
29 5 0.01
30 2 0.00
31 5 0.01
32 35 0.06
33 131 0.21
34 216 0.35
35 35 0.06
36 3 0.00
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (32 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCTTTT
Found at i:2281886 original size:158 final size:157
Alignment explanation
Indices: 2281554--2281887 Score: 408
Period size: 158 Copynumber: 2.1 Consensus size: 157
2281544 TTTTCTAAGA
* * * *
2281554 CCACGACTCAGTGGCATCCTTTTCTTCCAAGTCTACGACTCAGTGGCATCTTTTTTCTTCAAAGT
1 CCACAACTCAGTGGCAT-C-TCT-TTCCAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGT
* * * *
2281619 CCACGACTCAGTGGCATGTCTTTTCTAAGACCACGACTCAGTGGCATCCTTTTGTTCCAAGTCCA
63 CCACGACACAGTGGCATGTCTTTTCAAAGACCACGACTCAGTGGCATCCTTCTGTCCCAAGTCCA
*
2281684 CGACTCAGTGGCATCTTTTTTCTTCAAAGT
128 CGACTCAGTGGCACCTTTTTTCTTCAAAGT
* *
2281714 CCACGACTCAGTGGCATCTCTTTCCAAAGTCCACAACTCATTGGCATCTTTTTTCTTCAAAGTCC
1 CCACAACTCAGTGGCATCTCTTTCC-AAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCC
* *
2281779 ACGACACAGTGGCAATCGT-TTTTCAAAGTCCATGACTCAGTGGCAT-C-TCT-TCCCAAAGTCC
65 ACGACACAGTGGC-AT-GTCTTTTCAAAGACCACGACTCAGTGGCATCCTTCTGTCCC-AAGTCC
* * *
2281840 ATGACTCTGTGGCACCTTTTTCTTTTCAAAGT
127 ACGACTCAGTGGCACCTTTTT-TCTTCAAAGT
2281872 CCACAACT-ATGTGGCA
1 CCACAACTCA-GTGGCA
2281888 CCTTTTTCTT
Statistics
Matches: 153, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
156 3 0.02
157 31 0.20
158 73 0.48
159 27 0.18
160 19 0.12
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.32
Consensus pattern (157 bp):
CCACAACTCAGTGGCATCTCTTTCCAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCA
CGACACAGTGGCATGTCTTTTCAAAGACCACGACTCAGTGGCATCCTTCTGTCCCAAGTCCACGA
CTCAGTGGCACCTTTTTTCTTCAAAGT
Found at i:2281963 original size:26 final size:27
Alignment explanation
Indices: 2281930--2281983 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
2281920 CACTCTTTTT
* * *
2281930 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTAAAGCCCACAACTCCGTGGCAC
2281957 CCTTTAAAGCCCACAACTCCGTGGCAC
1 CCTTTAAAGCCCACAACTCCGTGGCAC
2281984 TTTTTTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.37, G:0.15, T:0.24
Consensus pattern (27 bp):
CCTTTAAAGCCCACAACTCCGTGGCAC
Found at i:2281967 original size:61 final size:60
Alignment explanation
Indices: 2281898--2282077 Score: 254
Period size: 61 Copynumber: 3.0 Consensus size: 60
2281888 CCTTTTTCTT
*
2281898 TTTAAAGCCTAGAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTAAAGCC-AAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* * * * *
2281959 TTTAAAGCCCACAACTCCGTGGCACTTTTTTTCCTTTTAAGTCGACAACTCTGTGGGACCT
1 TTTAAAG-CCAAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* *
2282020 TTTTAAGTCCAAAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCATAACTCTGTGGCAC
1 TTTAAAG-CCAAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
2282078 TTTTTTCTCT
Statistics
Matches: 106, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
60 30 0.28
61 74 0.70
62 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (60 bp):
TTTAAAGCCAAAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
Found at i:2282162 original size:61 final size:62
Alignment explanation
Indices: 2282053--2282179 Score: 157
Period size: 61 Copynumber: 2.1 Consensus size: 62
2282043 ATCTTTTTCC
* * * *** *
2282053 TTTTAAGTCCATAACTCTGTGGCACTTTTTTCTCTTCAAAGTTTACAACTATGTGGCAC-CT
1 TTTTAAGTCCATAACTCCGTGGAACCTTTTTCTCTTCAAAGCCCACAACTACGTGGCACTCT
* * *
2282114 TTTTAAGTCCATAACTCCGTGGAACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCT
1 TTTTAAGTCCATAACTCCGTGGAACCTTTTTCTCTTCAAAGCCCACAACTACGTGGCACTCT
2282176 TTTT
1 TTTT
2282180 CCTTTTAAGT
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
61 49 0.89
62 6 0.11
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (62 bp):
TTTTAAGTCCATAACTCCGTGGAACCTTTTTCTCTTCAAAGCCCACAACTACGTGGCACTCT
Found at i:2282292 original size:60 final size:60
Alignment explanation
Indices: 2282207--2282679 Score: 277
Period size: 60 Copynumber: 7.7 Consensus size: 60
2282197 TCTGTGGCGC
* * *
2282207 CCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCATAACTTCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * *** * * ** ** ***
2282267 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTCTTCA-AAGTCTATAAC-TCTGTGAAC
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCT-T-TTT
* * *
2282327 CCTTTTAAGTCCACAACTCTGTGGCACTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 CCTTTTAAGTCCACAACTCCGTGGCAC------CCTTTT-AAGTCCACAACTCCGTGGCA-TCTT
2282392 TTT
58 TTT
* * * *
2282395 CCTTTTAAGTCCACAATTTCGTGGTACCCTTTTAGGTCCACAACTCCGTGGCATCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
* * **
2282455 CCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTCTTCAAAGTCCACAACTCTATGGCA-C---
1 CCTTTTAAGTCCACAACTCCGTGGCACC-----CT-TT-TAAGTCCACAACTCCGTGGCATCTTT
2282516 --
59 TT
* * *
2282516 CTTTTTAAGTCCACAACTCTGTGGCACCTTATTCCTTTTAAGTCCACAACTCCGTGGCA-CATTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACTCCGTGGCATCTTTT
2282580 T
60 T
* ** * * * *
2282581 CTTTTTAAGTCCATGACTCCGTGACACCCTTTTAAGCCCACACCTCCATGGCATCCCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCAT--CTTTTT
* *
2282643 -CTTGTAAGTCCACAACTCTGTGGCA-CC-TTTAAGTCCA
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA
2282680 ATATTGCTAG
Statistics
Matches: 313, Mismatches: 67, Indels: 67
0.70 0.15 0.15
Matches are distributed among these distances:
58 3 0.01
59 38 0.12
60 110 0.35
61 62 0.20
62 13 0.04
64 1 0.00
65 24 0.08
66 9 0.03
67 20 0.06
68 29 0.09
69 1 0.00
70 3 0.01
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (60 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCTTTTT
Found at i:2282469 original size:94 final size:92
Alignment explanation
Indices: 2281868--2282672 Score: 596
Period size: 94 Copynumber: 8.6 Consensus size: 92
2281858 TTTCTTTTCA
** * * *
2281868 AAGTCCACAACTATGTGGCACCTTTTTCTTTTTAAAG-CCTAGAACTCCGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT-AAGTCC-ACAACTCCGTGGCAC-CTTTTTCC
*
2281932 TTTTAAGTCCACAACTCTGTGGCACCCTTTA
63 TTTTAAGTCCACAACTC-GTGGCACCCTTTT
* * * * *
2281963 AAGCCCACAACTCCGTGGCACTTTTTTTCCTTTTAAGTCGACAACTCTGTGGGACC----T--TT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTT
*
2282022 TTAAGTCCAAAACTCCGTGGCATCTTTTTCCTTTT
65 TTAAGTCCACAACT-CGTGGCA-C-----CCTTTT
* * ** ** **
2282057 AAGTCCATAACTCTGTGGCA-CTTTTTTCTCTTCAAAGTTTACAACTATGTGGCACC----T--T
1 AAGTCCACAACTCCGTGGCATC-TTTTTC-CTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCT
* *
2282115 TTTAAGTCCATAACTCCGTGGAACCTTTTTCTTTTT
64 TTTAAGTCCACAACT-CGTGGCACC-----C-TTTT
* * * * *
2282151 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTTCATAACTCTGTGGC-GC-----CCT
1 -AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCT
2282210 TTTAAGTCCACAACTCTGTGGCACCCTTTT
64 TTTAAGTCCACAACTC-GTGGCACCCTTTT
* * *
2282240 AAGTCCATAACTTCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTCTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTC-CTT
** * * *
2282305 CAAAGTCTATAACTC-TGTGAACCCTTTT
65 TTAAGTCCACAACTCGTG-GCACCCTTTT
* * *
2282333 AAGTCCACAACTCTGTGGCA-CTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCATC-TTTTTCCTTTT-AAGTCCACAACTCCGTGGCAC-CTTTTTCC
* *
2282397 TTTTAAGTCCACAATTTCGTGGTACCCTTTT
63 TTTTAAGTCCACAA-CTCGTGGCACCCTTTT
* *
2282428 AGGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCATGGCACCTTTTTCTCTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTC-CTT
** * *
2282493 CAAAGTCCACAACTCTATGGCACCTTTTT
65 TTAAGTCCACAACTC-GTGGCACCCTTTT
* * * * *
2282522 AAGTCCACAACTCTGTGGCACCTTATTCCTTTTAAGTCCACAACTCCGTGGCA-CATTTTCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
** *
2282586 TAAGTCCATGACTCCGTGACACCCTTTT
66 TAAGTCCACAACT-CGTGGCACCCTTTT
* * * * *
2282614 AAGCCCACACCTCCATGGCATCCCTTTTT-CTTGTAAGTCCACAACTCTGTGGCACCTTT
1 AAGTCCACAACTCCGTGGCAT--CTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
2282673 AAGTCCAATA
Statistics
Matches: 573, Mismatches: 94, Indels: 87
0.76 0.12 0.12
Matches are distributed among these distances:
87 28 0.05
88 40 0.07
89 6 0.01
90 2 0.00
92 41 0.07
93 84 0.15
94 215 0.38
95 136 0.24
96 20 0.03
97 1 0.00
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (92 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCCTTT
TAAGTCCACAACTCGTGGCACCCTTTT
Found at i:2282836 original size:49 final size:49
Alignment explanation
Indices: 2282777--2283325 Score: 428
Period size: 49 Copynumber: 11.4 Consensus size: 49
2282767 ATATCGTTGT
* *
2282777 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGCCCAATATCGCTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* * *
2282826 CCTTGAATCAGCATATTGGCAC-CTTGTCTTTAAGACCAATGTCGTTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* * * *
2282874 CTTTGAATCAACATATTGG------TA----TAAGCCCAATATCGCTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* ** *
2282913 CCTTCAATCAGCATATTGGCAC-TTTGCCTCTAAGACCAATGTCGCTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* * * *
2282961 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* * ** * **
2283010 CCTTGAATCAGCACATTAGCACCTTAACCATCTTTAAGTCCAATGTCGCCAG
1 CCTTGAATCAGCATATTGGCA-CTT--TTATCTTTAAGACCAATGTCGCTGG
* * * * * * * *
2283062 CCTTGAATCAGCACATTGACA-TCTTCATCTTTAAGTCCGATATCACTAG
1 CCTTGAATCAGCATATTGGCACT-TTTATCTTTAAGACCAATGTCGCTGG
* *
2283111 CCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCACTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* * * ** * *
2283160 CCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTGATATCGTTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* *
2283209 CCTTGAATCAGCATATTGGCA-TCTTTAACATTCCTAAGCCCAATGTCGCTGG
1 CCTTGAATCAGCATATTGGCACT-TTTATC-TT--TAAGACCAATGTCGCTGG
** * * * * * * *
2283261 CCTTGTCTCGGCACATTGGCA-TTCT-TCTTCAAGTCTAATGTTGCTGG
1 CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
* *
2283308 CCATGAATCAGCACATTG
1 CCTTGAATCAGCATATTG
2283326 TCATTCTTCG
Statistics
Matches: 404, Mismatches: 77, Indels: 40
0.78 0.15 0.08
Matches are distributed among these distances:
39 31 0.08
43 1 0.00
44 1 0.00
47 28 0.07
48 75 0.19
49 190 0.47
50 6 0.01
51 3 0.01
52 69 0.17
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
CCTTGAATCAGCATATTGGCACTTTTATCTTTAAGACCAATGTCGCTGG
Found at i:2282845 original size:136 final size:135
Alignment explanation
Indices: 2282669--2283172 Score: 526
Period size: 136 Copynumber: 3.6 Consensus size: 135
2282659 TCTGTGGCAC
* * *
2282669 CTTTAAGTCCAATATTGCTAGCCTTGAATCAGTATATTGGCACCTTGTCTTTAAGACCAATGTCA
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCA
* *
2282734 TTGGCCTTGAATCAGCACATCAGCATATGTCCAATATCGTTGTCCTTGAATCAGCATATTGGCAC
66 TTGGCCTTGAATCAGCACATTAGCATATGTCCAATATCGCTG-CCTTGAATCAGCATATTGGCAC
2282799 TTTTAT
130 TTTTAT
* * * *
2282805 CTTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCG
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCA
* * * * * * * *
2282870 TTGGCTTTGAATCAACATATTGGTATAAGCCCAATATCGCTGGCCTTCAATCAGCATATTGGCAC
66 TTGGCCTTGAATCAGCACATTAGCATATGTCCAATATCGCT-GCCTTGAATCAGCATATTGGCAC
**
2282935 -TTTGC
130 TTTTAT
* * * * *
2282940 CTCTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTC
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGACCAATGTC
* * *
2283005 GTTGGCCTTGAATCAGCACATTAGCACCTTAACCATCTTTAAGTCCAATGTCGCCAGCCTTGAAT
65 ATTGGCCTTGAATCAGCACATTAGCA---T----A----T--GTCCAATATCG-CTGCCTTGAAT
* * *
2283070 CAGCACATTGACA-TCTTCAT
116 CAGCATATTGGCACT-TTTAT
* *
2283090 CTTTAAGTCCGATATCACTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTC
1 CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACC-TTATCTTTAAGACCAATGTC
*
2283155 ACTGGCCTTGAATCAGCA
65 ATTGGCCTTGAATCAGCA
2283173 TATTGGCACC
Statistics
Matches: 303, Mismatches: 46, Indels: 24
0.81 0.12 0.06
Matches are distributed among these distances:
135 46 0.15
136 150 0.50
137 1 0.00
139 1 0.00
143 1 0.00
149 28 0.09
150 74 0.24
151 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (135 bp):
CTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGACCAATGTCA
TTGGCCTTGAATCAGCACATTAGCATATGTCCAATATCGCTGCCTTGAATCAGCATATTGGCACT
TTTAT
Found at i:2282910 original size:87 final size:87
Alignment explanation
Indices: 2282808--2282979 Score: 281
Period size: 87 Copynumber: 2.0 Consensus size: 87
2282798 CTTTTATCTT
* * * *
2282808 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTG
1 TAAGCCCAATATCGCTGGCCTTCAATCAGCATATTGGCACCTTGCCTCTAAGACCAATGTCGCTG
*
2282873 GCTTTGAATCAACATATTGGTA
66 GCCTTGAATCAACATATTGGTA
*
2282895 TAAGCCCAATATCGCTGGCCTTCAATCAGCATATTGGCACTTTGCCTCTAAGACCAATGTCGCTG
1 TAAGCCCAATATCGCTGGCCTTCAATCAGCATATTGGCACCTTGCCTCTAAGACCAATGTCGCTG
*
2282960 GCCTTGAATCAGCATATTGG
66 GCCTTGAATCAACATATTGG
2282980 CACCTTCATC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTCAATCAGCATATTGGCACCTTGCCTCTAAGACCAATGTCGCTG
GCCTTGAATCAACATATTGGTA
Found at i:2282922 original size:39 final size:39
Alignment explanation
Indices: 2282856--2282931 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
2282846 ACCTTGTCTT
* * * *
2282856 TAAGACCAATGTCGTTGGCTTTGAATCAACATATTGGTA
1 TAAGACCAATATCGCTGGCCTTCAATCAACATATTGGTA
* *
2282895 TAAGCCCAATATCGCTGGCCTTCAATCAGCATATTGG
1 TAAGACCAATATCGCTGGCCTTCAATCAACATATTGG
2282932 CACTTTGCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (39 bp):
TAAGACCAATATCGCTGGCCTTCAATCAACATATTGGTA
Found at i:2289849 original size:15 final size:16
Alignment explanation
Indices: 2289829--2289860 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2289819 TTCTTTACAT
2289829 AAAAGAAAAA-AAAAG
1 AAAAGAAAAACAAAAG
2289844 AAAAGAAAAACAAAAG
1 AAAAGAAAAACAAAAG
2289860 A
1 A
2289861 GGAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAACAAAAG
Found at i:2289937 original size:20 final size:21
Alignment explanation
Indices: 2289905--2289944 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2289895 TCAAAAGCTC
*
2289905 AAAATGAGCAAAACGAAATAA
1 AAAATGAGCAAAAAGAAATAA
2289926 AAAATGAG-AAAAAGAAATA
1 AAAATGAGCAAAAAGAAATA
2289945 GATAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.70, C:0.05, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAATGAGCAAAAAGAAATAA
Found at i:2291143 original size:97 final size:97
Alignment explanation
Indices: 2291028--2291236 Score: 337
Period size: 97 Copynumber: 2.2 Consensus size: 97
2291018 TTAAAAATGG
*
2291028 GGTTAGAGTATCCCCTCGGAGGAATAGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGAA
1 GGTTAGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCGATGATGACAATTTAAGTGAGAA
*
2291093 CAATATTTAAACTTTGATGCGTTTAAAAGCAA
66 CAAGATTTAAACTTTGATGCGTTTAAAAGCAA
* * * *
2291125 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTAGAGTGTGCCCGATGGTGACAATTTAAGTGAGAA
1 GGTTAGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCGATGATGACAATTTAAGTGAGAA
* * *
2291190 TAAGATTTAAACTTTGATGTGTTTAAAAGCAG
66 CAAGATTTAAACTTTGATGCGTTTAAAAGCAA
2291222 GGTTAGAGTATCCCC
1 GGTTAGAGTATCCCC
2291237 GATAAATAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 102 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (97 bp):
GGTTAGAGTATCCCCTCGGAGGAATAGGGTTAGAGTGTCCCCGATGATGACAATTTAAGTGAGAA
CAAGATTTAAACTTTGATGCGTTTAAAAGCAA
Found at i:2294090 original size:13 final size:13
Alignment explanation
Indices: 2294072--2294102 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2294062 ACATTTCTTC
2294072 ATGTATCGATACA
1 ATGTATCGATACA
2294085 ATGTATCGATACA
1 ATGTATCGATACA
*
2294098 TTGTA
1 ATGTA
2294103 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2294191 original size:19 final size:19
Alignment explanation
Indices: 2294147--2294202 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2294137 CTGCCAGTTT
* **
2294147 CATGTATCAATACAATTGTC
1 CATGTATCGATACAA-TGAA
2294167 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
2294186 CATGTATCGATACAATG
1 CATGTATCGATACAATG
2294203 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2294205 original size:13 final size:13
Alignment explanation
Indices: 2294187--2294213 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2294177 TACAATGAAC
2294187 ATGTATCGATACA
1 ATGTATCGATACA
2294200 ATGTATCGATACA
1 ATGTATCGATACA
2294213 A
1 A
2294214 GGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2302369 original size:18 final size:18
Alignment explanation
Indices: 2302346--2302387 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2302336 AATGAAAACA
2302346 AAAGCTCTTGGAAATGTG
1 AAAGCTCTTGGAAATGTG
* * *
2302364 AAAGCTCTTTGAACTTTG
1 AAAGCTCTTGGAAATGTG
2302382 AAAGCT
1 AAAGCT
2302388 TTGATCTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.31
Consensus pattern (18 bp):
AAAGCTCTTGGAAATGTG
Found at i:2302725 original size:19 final size:19
Alignment explanation
Indices: 2302681--2302753 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
2302671 CTGCCAGTTT
**
2302681 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
2302701 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
2302720 CATGTATCGATACAAAGCAGA
1 CATGTATCGATACAATG-A-A
2302741 -ATGTATCGATACA
1 CATGTATCGATACA
2302754 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2303285 original size:13 final size:13
Alignment explanation
Indices: 2303267--2303291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2303257 GTCAACGATT
2303267 TGTATCGATACAA
1 TGTATCGATACAA
2303280 TGTATCGATACA
1 TGTATCGATACA
2303292 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2303304 original size:19 final size:19
Alignment explanation
Indices: 2303280--2303361 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
2303270 ATCGATACAA
2303280 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2303299 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
2303318 TGTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
2303331 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
2303350 TGTATCGATACA
1 TGTATCGATACA
2303362 ATGTATCGCT
Statistics
Matches: 57, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.19
15 2 0.04
17 2 0.04
19 42 0.74
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2303335 original size:32 final size:32
Alignment explanation
Indices: 2303299--2303369 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
2303289 ACATAAGTGT
2303299 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2303331 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2303363 TGTATCG
1 TGTATCG
2303370 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2303336 original size:13 final size:13
Alignment explanation
Indices: 2303318--2303342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2303308 ACATAAGTGT
2303318 TGTATCGATACAA
1 TGTATCGATACAA
2303331 TGTATCGATACA
1 TGTATCGATACA
2303343 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2303475 original size:52 final size:52
Alignment explanation
Indices: 2303392--2303542 Score: 257
Period size: 52 Copynumber: 2.9 Consensus size: 52
2303382 TGCCAAGAAA
* * *
2303392 ATGTATCGATACATTACTCAAATGTATCGATACATGCAGGCAAATTTGCCGAG
1 ATGTATCGATACACTA-TGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
*
2303445 ATGTATCGATACACTATGAAATGTATCGATACATACAGGCAAATTTGCCCAG
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
2303497 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
1 ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTT
2303543 TCATATTTCG
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
52 78 0.84
53 15 0.16
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
ATGTATCGATACACTATGAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:2308433 original size:21 final size:21
Alignment explanation
Indices: 2308375--2308433 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2308365 CTGCCAACAA
* * *
2308375 GATGTATCGATATATTCACTT
1 GATGTATTGATATATTTACAT
* *
2308396 AATGTATTGATACATTTACAT
1 GATGTATTGATATATTTACAT
2308417 GATGTATTGATATATTT
1 GATGTATTGATATATTT
2308434 TTACTTGTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (21 bp):
GATGTATTGATATATTTACAT
Found at i:2312938 original size:80 final size:77
Alignment explanation
Indices: 2312655--2313142 Score: 394
Period size: 79 Copynumber: 6.1 Consensus size: 77
2312645 AATTATCGAT
** ** * *
2312655 TTTTCACCATCGGGGATACTCCAACCCATCA-TTTCAAGGGGATACTCCAACCTCCTTTTTATTT
1 TTTTCACCATTAGGGATACTCCAACCCATCATTTTTGA-GGGATACTCCAACC-CGTTTTTACTT
* * *
2312719 TCAAAGTATC-AAT
64 CCAAAATATCAAAA
* * * * *
2312732 TTTTCACCATT-GTAGATACTCCAACCCCATCATTTTTGAAAGAATACTCCAGCCCTGTTTTTAT
1 TTTTCACCATTAG-GGATACTCCAA-CCCATCATTTTTG-AGGGATACTCCAACCC-GTTTTTAC
** *
2312796 TTCCAAAATAT-TGAT
62 TTCCAAAATATCAAAA
* *
2312811 TTTTCACCA-TCGAGGATACTCCAAACCCATCATTTTCGAGGGAATACTCCAACTCCGTTTTTAC
1 TTTTCACCATTAG-GGATACTCC-AACCCATCATTTTTGAGGG-ATACTCCAAC-CCGTTTTTAC
*
2312875 TTCCTAAATATCAAAA
62 TTCCAAAATATCAAAA
* * *
2312891 TTTTCACCATTAGGGATACTTCAACTCCATTATTTTTGAGGAGATACTCTAAACCCGTTTTTACT
1 TTTTCACCATTAGGGATACTCCAAC-CCATCATTTTTGAGG-GATACTC-CAACCCGTTTTTACT
2312956 TCCAAAAATATCAAAA
63 TCC-AAAATATCAAAA
** * ** *
2312972 TTTTCAGTATTCA-AGATACTTTAACCCTATCATTTTTGAGGGGATACTCTAACCCCGTTTTATA
1 TTTTCACCATT-AGGGATACTCCAACCC-ATCATTTTTGA-GGGATACTCCAA-CCCGTTTT-TA
*
2313036 TTTCCAAAAATATCAAAA
61 CTTCC-AAAATATCAAAA
* * * * * * **
2313054 TTTTCACCATTGGGGATACTACAACCCCATCATTTTTTAGGGATACTCTGACCCCATTTACACTT
1 TTTTCACCATTAGGGATACTCCAA-CCCATCATTTTTGAGGGATACTC-CAACCCGTTTTTACTT
2313119 CCAAAATATCAAAA
64 CCAAAATATCAAAA
2313133 TTTTCACCAT
1 TTTTCACCAT
2313143 CGGAGGTACT
Statistics
Matches: 339, Mismatches: 48, Indels: 46
0.78 0.11 0.11
Matches are distributed among these distances:
76 1 0.00
77 20 0.06
78 11 0.03
79 113 0.33
80 65 0.19
81 76 0.22
82 50 0.15
83 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (77 bp):
TTTTCACCATTAGGGATACTCCAACCCATCATTTTTGAGGGATACTCCAACCCGTTTTTACTTCC
AAAATATCAAAA
Found at i:2314358 original size:48 final size:48
Alignment explanation
Indices: 2314263--2314417 Score: 188
Period size: 48 Copynumber: 3.2 Consensus size: 48
2314253 TACTATGCAC
* * *
2314263 GTATCGATACAATCTAG-AAACCCAGATGTAATGAAATATTATTCATT
1 GTATCGATACATTCTAGAAAACCCAGATGTATTGAAACATTATTCATT
* *
2314310 GTATCGATACATTCTAGAAAATCTAGATGTATTGAAACATT-TTGCATT
1 GTATCGATACATTCTAGAAAACCCAGATGTATTGAAACATTATT-CATT
* * * * *
2314358 GTATCAATACATTTTGGAAAAACCCAGATGTATTGATACATTGTTCATT
1 GTATCGATACATTCTAG-AAAACCCAGATGTATTGAAACATTATTCATT
2314407 GTATCGATACA
1 GTATCGATACA
2314418 AAAACCATAA
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
47 18 0.20
48 37 0.40
49 35 0.38
50 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (48 bp):
GTATCGATACATTCTAGAAAACCCAGATGTATTGAAACATTATTCATT
Found at i:2315332 original size:19 final size:19
Alignment explanation
Indices: 2315307--2315363 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
2315297 TTGTGTCGAT
2315307 ACATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
* * *
2315326 TCATTGTATTGATACATAC
1 ACATTGTATCGATACATGC
2315345 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2315364 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:2317260 original size:13 final size:13
Alignment explanation
Indices: 2317242--2317267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2317232 CAATTTTTTG
2317242 TGTATCGATACAT
1 TGTATCGATACAT
2317255 TGTATCGATACAT
1 TGTATCGATACAT
2317268 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2321254 original size:167 final size:165
Alignment explanation
Indices: 2321006--2321436 Score: 555
Period size: 167 Copynumber: 2.6 Consensus size: 165
2320996 AAATAAGAGC
** * *
2321006 ATTTCAAGGGAAAAATGAAAAATTCATGAAAGTAAATGAAATTTTT-AAAACTGAATTAATATGA
1 ATTTCAA-GGAAAAATGAAAAATAAATGAAAATAAATG-AATTTTTGAAAACTGATTTAATATGA
* * ** * * *
2321070 ATTAAAAAATTATATTTGATGAATATTAAAAATTTCAAACCTTGAAATATCCCCCGAAAACGTTT
64 ATTAAATAATAATATTTGATGAATATTAAAAATTTCAAACCAAGAAAAATCCCCCGAAAACCTTC
* *
2321135 ATGGAAT-AAAAAATTCAGTTTTTTTGAAAATTAG-GAA
129 ATGGAATAAAAAAACTCA-ATTTTTTGAAAA-TAGAGAA
* * * *
2321172 ATTTCAAGGAAAAAAATGAAAAATGAATAAAAATGAATGAATTTTTGAAAATTGATTTAATATGA
1 ATTTCAAGG--AAAAATGAAAAATAAATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGA
* * * ** *
2321237 ATTAAATGATCATATTTGATGAATAATAAAAATTTTGAACCAAGAAAAATCCCTCGAAAACCTTC
64 ATTAAATAATAATATTTGATGAATATTAAAAATTTCAAACCAAGAAAAATCCCCCGAAAACCTTC
2321302 ATGGAATAAAAAAACTCAATTTTTTGAAAATAGAGAA
129 ATGGAATAAAAAAACTCAATTTTTTGAAAATAGAGAA
2321339 ATTTCAAGGAAAAATGAAAAATAAATGAAAATAAATGAATTTTTGAAAACTGATTATAA-ATGAA
1 ATTTCAAGGAAAAATGAAAAATAAATGAAAATAAATGAATTTTTGAAAACTGATT-TAATATGAA
*
2321403 TTAAATAATAATATTTGATGAATTTTAAAAATTT
65 TTAAATAATAATATTTGATGAATATTAAAAATTT
2321437 TGGATTAATA
Statistics
Matches: 230, Mismatches: 29, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
165 79 0.34
166 20 0.09
167 122 0.53
168 9 0.04
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (165 bp):
ATTTCAAGGAAAAATGAAAAATAAATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAAT
TAAATAATAATATTTGATGAATATTAAAAATTTCAAACCAAGAAAAATCCCCCGAAAACCTTCAT
GGAATAAAAAAACTCAATTTTTTGAAAATAGAGAA
Found at i:2321498 original size:165 final size:165
Alignment explanation
Indices: 2321006--2321516 Score: 442
Period size: 167 Copynumber: 3.1 Consensus size: 165
2320996 AAATAAGAGC
** * * *
2321006 ATTTCAAGGGAAAAATGAAAAATTCATGAAAGTAAATGAAATTTTT-AAAACTGAATTAATATGA
1 ATTTCAA-GGAAAAATGAAAAATAAATAAAAATAAATG-AATTTTTGAAAACTGATTTAATATGA
* * * ** ** * * ** *
2321070 ATTAAAAAATTATATTTGATGAATATTAAAAATTTCAAACCTTGAAATATCCCCCGAAAACGTTT
64 ATTAAATAATAATATTTGATGAATAATAAAAATTTTGAACCAAGAAAAATCCCTCGAAAAAATTC
** * * * *
2321135 ATGGAAT-AAAAAATTCAGTTTTTTTGAAAATTAG-GAA
129 ATCAAATAAAAAAACTCA-ATATTTGGAAAA-TAGAGAA
* * *
2321172 ATTTCAAGGAAAAAAATGAAAAATGAATAAAAATGAATGAATTTTTGAAAATTGATTTAATATGA
1 ATTTCAAGG--AAAAATGAAAAATAAATAAAAATAAATGAATTTTTGAAAACTGATTTAATATGA
* * **
2321237 ATTAAATGATCATATTTGATGAATAATAAAAATTTTGAACCAAGAAAAATCCCTCGAAAACCTTC
64 ATTAAATAATAATATTTGATGAATAATAAAAATTTTGAACCAAGAAAAATCCCTCGAAAAAATTC
** * *
2321302 ATGGAATAAAAAAACTCAATTTTTTGAAAATAGAGAA
129 ATCAAATAAAAAAACTCAATATTTGGAAAATAGAGAA
*
2321339 ATTTCAAGGAAAAATGAAAAATAAATGAAAATAAATGAATTTTTGAAAACTGATTATAA-ATGAA
1 ATTTCAAGGAAAAATGAAAAATAAATAAAAATAAATGAATTTTTGAAAACTGATT-TAATATGAA
** * ** * *
2321403 TTAAATAATAATATTTGATGAATTTTAAAAATTTTGGATTAATAAAAAT-CATCGTGAAAAAATT
65 TTAAATAATAATATTTGATGAATAATAAAAATTTTGAACCAAGAAAAATCCCTC--GAAAAAATT
* * * *
2321467 TA-CAAAGT-AGAAAACTCTATATTTGGAAAATAAGAGGA
128 CATCAAA-TAAAAAAACTCAATATTTGGAAAAT-AGAGAA
* *
2321505 ATTCCAAAGAAA
1 ATTTCAAGGAAA
2321517 GTAACAAGTC
Statistics
Matches: 289, Mismatches: 46, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
164 3 0.01
165 111 0.38
166 44 0.15
167 122 0.42
168 9 0.03
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (165 bp):
ATTTCAAGGAAAAATGAAAAATAAATAAAAATAAATGAATTTTTGAAAACTGATTTAATATGAAT
TAAATAATAATATTTGATGAATAATAAAAATTTTGAACCAAGAAAAATCCCTCGAAAAAATTCAT
CAAATAAAAAAACTCAATATTTGGAAAATAGAGAA
Found at i:2322623 original size:84 final size:80
Alignment explanation
Indices: 2322535--2322780 Score: 228
Period size: 80 Copynumber: 3.0 Consensus size: 80
2322525 ATTGATAGGA
* *
2322535 AAACAAAGAATGAAAGGTTGACCAGGGCTAAACCGATAAATTAACAAAGGGTACAGGAGTATACC
1 AAACAAAG-ATGAAAGGTTGACCAGGGCT-AACCGATAAGTTAACAAAGGGTAAAGGAGT-TACC
2322600 AAGGACTGAGTCGACAAGT
63 AAGGACTGAG-CGACAAGT
* * * * * * *
2322619 AAACAAAGATGAAAAGTTAACCA-AG-TAACTGATAAGTCAATAAAGGATAAAGGAGTT-CACAA
1 AAACAAAGATGAAAGGTTGACCAGGGCTAACCGATAAGTTAACAAAGGGTAAAGGAGTTAC-CAA
* * *
2322681 GGGACTGTGCTGATAGGT
65 -GGACTGAGC-GACAAGT
* ** *
2322699 AAACAAGGGATGAAAGGTTGAATAGGGCTGAACCCATAAGTTAACAAAGGGTAAAGGAGTTTACC
1 AAACAA-AGATGAAAGGTTGACCAGGGCT-AACCGATAAGTTAACAAAGGGTAAAGGAG-TTACC
*
2322764 AGGGACTGAGCGACAAG
63 AAGGACTGAGCGACAAG
2322781 CAAATGGGAA
Statistics
Matches: 126, Mismatches: 27, Indels: 19
0.73 0.16 0.11
Matches are distributed among these distances:
78 1 0.01
79 5 0.04
80 42 0.33
81 13 0.10
82 2 0.02
83 18 0.14
84 40 0.32
85 4 0.03
86 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.17
Consensus pattern (80 bp):
AAACAAAGATGAAAGGTTGACCAGGGCTAACCGATAAGTTAACAAAGGGTAAAGGAGTTACCAAG
GACTGAGCGACAAGT
Found at i:2323417 original size:43 final size:44
Alignment explanation
Indices: 2322961--2323664 Score: 337
Period size: 44 Copynumber: 16.0 Consensus size: 44
2322951 CAAGAATCTA
* * * *
2322961 ACCAGGGTGGTAACCATACGGCAGACAAAAATGAGAA-ACATTTG
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGA-GTTTG
** * * * * * *
2323005 ATTAGAGTGGTAATCACACATCAAAC-AGAAATGAAAAGAGCTTG
1 ACCAGGGTGGTAACCATACGTCAAACTA-AAATGAGAAGAGTTTG
* * * * *
2323049 ACCAGGGTGGTAACCATACATTAAGC-ACGAATGA-AAGGAGTCTG
1 ACCAGGGTGGTAACCATACGTCAAACTA-AAATGAGAA-GAGTTTG
* * ** ** * *
2323093 ACCAGGGTGGTATCCACACGTCAAACCGAGTTAAAAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGAGTTTG
* * * * * *
2323137 ACCAGGTTGGTAACCATATGTCAAAC-AGGAAGGAGGTAGA-TTTA
1 ACCAGGGTGGTAACCATACGTCAAACTA-AAATGA-GAAGAGTTTG
* * * * * * * * *
2323181 ACTAGGGTGGTAACCATGCATCAAA-TCAGAATAAAAAGAATCTA
1 ACCAGGGTGGTAACCATACGTCAAACT-AAAATGAGAAGAGTTTG
* * * * *
2323225 ACTAGGGTGGTAACCATATGTCAAA-TCGAAATGAAAAGAGTTGG
1 ACCAGGGTGGTAACCATACGTCAAACT-AAAATGAGAAGAGTTTG
* *
2323269 ACCAAGGTGGTAACCATACGTCAAAC-AGGAAA-GAGGCAGA-TTTG
1 ACCAGGGTGGTAACCATACGTCAAACTA--AAATGA-GAAGAGTTTG
* * * * * *
2323313 ACAAGGGTGGTAACCATATGTCAAATTAGAATGAAAAGAGATCTG
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGAG-TTTG
* *
2323358 ACCAGGGT-GTAACCATACGTCAGACCAAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGAGTTTG
* * * *
2323401 ACCCGGGT-GCAACCATACGTCAAA-TAAAA-AAGAGGTAGATTTG
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAG-AG-TTTG
* * * * * *
2323444 ACCAGGGTGGTAACCATACGTCAAATTAGAATGAAAAGAATCTA
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGAGTTTG
* * *
2323488 ACTAGGGTGGTAACCATACATCAGACTAAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGAGTTTG
* * ** * *
2323532 ACTAGGGTGGTAACCATACATCAAAC-AGGGAGGAGGCAGA-TTTG
1 ACCAGGGTGGTAACCATACGTCAAACTA-AAATGA-GAAGAGTTTG
* * * ** * * *
2323576 ACTAGGATGGTAACGATGTGTCAAA-TCAAAATGAAAATAATTTG
1 ACCAGGGTGGTAACCATACGTCAAACT-AAAATGAGAAGAGTTTG
* * * * * *
2323620 ACTAGAGTCGTAGCCATACGTTAGACTAAAATGAGAAGAGTTTG
1 ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGAGTTTG
2323664 A
1 A
2323665 GCAGATATAG
Statistics
Matches: 490, Mismatches: 141, Indels: 58
0.71 0.20 0.08
Matches are distributed among these distances:
41 4 0.01
42 6 0.01
43 49 0.10
44 393 0.80
45 35 0.07
46 3 0.01
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (44 bp):
ACCAGGGTGGTAACCATACGTCAAACTAAAATGAGAAGAGTTTG
Found at i:2323624 original size:132 final size:132
Alignment explanation
Indices: 2322952--2323664 Score: 648
Period size: 132 Copynumber: 5.4 Consensus size: 132
2322942 TCTACATAAC
* * * * ** *
2322952 AAGAATCTAACCAGGGTGGTAACCATACGGCAGACAAAAATGAGAA-ACATTTGATTAGAGTGGT
1 AAGAATCTAACTAGGGTGGTAACCATACGTCAGACTAAAATGAGAAGA-GTTTGACCAGGGTGGT
* * * ** * * * * *
2323016 AATCACACATCAAACA-GAAATGA-AAAGAGCTTGACCAGGGTGGTAACCATACAT-TAAGCACG
65 AACCATACGTCAAACAGGAAA-GAGGCAGA-TTTGACTAGGGTGGTAACCATACGTCAAATCA-G
2323078 AATGAA
127 AATGAA
* * * * * * * ** ** * * *
2323084 AGGAGTCTGACCAGGGTGGTATCCACACGTCAAACCGAGTTAAAAAGAGTTTGACCAGGTTGGTA
1 AAGAATCTAACTAGGGTGGTAACCATACGTCAGACTAAAATGAGAAGAGTTTGACCAGGGTGGTA
* * * * * * *
2323149 ACCATATGTCAAACAGGAAGGAGGTAGATTTAACTAGGGTGGTAACCATGCATCAAATCAGAATA
66 ACCATACGTCAAACAGGAAAGAGGCAGATTTGACTAGGGTGGTAACCATACGTCAAATCAGAATG
2323214 AA
131 AA
* * * * * *
2323216 AAGAATCTAACTAGGGTGGTAACCATATGTCA-AATCGAAATGAAAAGAGTTGGACCAAGGTGGT
1 AAGAATCTAACTAGGGTGGTAACCATACGTCAGACT-AAAATGAGAAGAGTTTGACCAGGGTGGT
* * *
2323280 AACCATACGTCAAACAGGAAAGAGGCAGATTTGACAAGGGTGGTAACCATATGTCAAATTAGAAT
65 AACCATACGTCAAACAGGAAAGAGGCAGATTTGACTAGGGTGGTAACCATACGTCAAATCAGAAT
2323345 GAA
130 GAA
* * * * *
2323348 AAGAGATCTGACCAGGGT-GTAACCATACGTCAGACCAAAATGAGAAGAGTTTGACCCGGGT-GC
1 AAGA-ATCTAACTAGGGTGGTAACCATACGTCAGACTAAAATGAGAAGAGTTTGACCAGGGTGGT
* ** * * *
2323411 AACCATACGTCAAATAAAAAAGAGGTAGATTTGACCAGGGTGGTAACCATACGTCAAATTAGAAT
65 AACCATACGTCAAACAGGAAAGAGGCAGATTTGACTAGGGTGGTAACCATACGTCAAATCAGAAT
2323476 GAA
130 GAA
* *
2323479 AAGAATCTAACTAGGGTGGTAACCATACATCAGACTAAAATGAGAAGAGTTTGACTAGGGTGGTA
1 AAGAATCTAACTAGGGTGGTAACCATACGTCAGACTAAAATGAGAAGAGTTTGACCAGGGTGGTA
* * * * * ** *
2323544 ACCATACATCAAACAGGGAGGAGGCAGATTTGACTAGGATGGTAACGATGTGTCAAATCAAAATG
66 ACCATACGTCAAACAGGAAAGAGGCAGATTTGACTAGGGTGGTAACCATACGTCAAATCAGAATG
2323609 AA
131 AA
* * * * * * *
2323611 AATAATTTGACTAGAGTCGTAGCCATACGTTAGACTAAAATGAGAAGAGTTTGA
1 AAGAATCTAACTAGGGTGGTAACCATACGTCAGACTAAAATGAGAAGAGTTTGA
2323665 GCAGATATAG
Statistics
Matches: 469, Mismatches: 103, Indels: 18
0.79 0.17 0.03
Matches are distributed among these distances:
130 11 0.02
131 107 0.23
132 328 0.70
133 23 0.05
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (132 bp):
AAGAATCTAACTAGGGTGGTAACCATACGTCAGACTAAAATGAGAAGAGTTTGACCAGGGTGGTA
ACCATACGTCAAACAGGAAAGAGGCAGATTTGACTAGGGTGGTAACCATACGTCAAATCAGAATG
AA
Found at i:2323705 original size:35 final size:35
Alignment explanation
Indices: 2323655--2323819 Score: 195
Period size: 35 Copynumber: 4.7 Consensus size: 35
2323645 CTAAAATGAG
* *
2323655 AAGAGTTTGAGCAGATATAGTCAAATGATGATGGA
1 AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
* ** *
2323690 AAGAGTTTGGCCAGATGTAATCAAATGATGATGGA
1 AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
* * *
2323725 AAGAGTTTGACCTGATACAGTCAAACGATGATGAA
1 AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
* * * * *
2323760 AAGGGTTTGACCAAATACAATTAAATGATGATAGA
1 AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
*
2323795 AAGAGTTTGACTAGATACAGTCAAA
1 AAGAGTTTGACCAGATACAGTCAAA
2323820 CAAGAGAAAA
Statistics
Matches: 106, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 106 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.25
Consensus pattern (35 bp):
AAGAGTTTGACCAGATACAGTCAAATGATGATGGA
Found at i:2324154 original size:92 final size:92
Alignment explanation
Indices: 2323997--2324314 Score: 332
Period size: 92 Copynumber: 3.5 Consensus size: 92
2323987 TGGTCATGTA
* * * ** * * *** * **
2323997 ATGCATCAATACCATCTAGTGGTTAAAAGAAAAAGATATAATTAGGAATAAATGGTCGGGATATC
1 ATGCATCAATACTATCTAGTGGTTGAATGAAAGGGATATGATTCGGAATGTGTGGGCAAGATATC
2324062 CTTGCCCCAAGGAAATTTGGCTTTGTG
66 CTTGCCCCAAGGAAATTTGGCTTTGTG
* * * *
2324089 ATGCATCAATAATATCTAGTGGTTGAATAAAAGGGATATGATTCGGATTGTGTGGGCAATATATC
1 ATGCATCAATACTATCTAGTGGTTGAATGAAAGGGATATGATTCGGAATGTGTGGGCAAGATATC
* *
2324154 CTTGCCCCAAGGAAATCTGGCTCTGTG
66 CTTGCCCCAAGGAAATTTGGCTTTGTG
* ****
2324181 ATGCATCAATACCT-TCTAGTGGTTGAATGAAAGGGATATGATTTGGAATGTGTGGTTGGGATAT
1 ATGCATCAATA-CTATCTAGTGGTTGAATGAAAGGGATATGATTCGGAATGTGTGGGCAAGATAT
* ** *
2324245 CGTTGCCTAAAGGAAATTTGGTTTTGTG
65 CCTTGCCCCAAGGAAATTTGGCTTTGTG
* * * *
2324273 ATGCATCAATACCATTTAGTGGTTAAATGAAGGGGATATGAT
1 ATGCATCAATACTATCTAGTGGTTGAATGAAAGGGATATGAT
2324315 ACCCTTTTCC
Statistics
Matches: 186, Mismatches: 38, Indels: 4
0.82 0.17 0.02
Matches are distributed among these distances:
91 1 0.01
92 184 0.99
93 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (92 bp):
ATGCATCAATACTATCTAGTGGTTGAATGAAAGGGATATGATTCGGAATGTGTGGGCAAGATATC
CTTGCCCCAAGGAAATTTGGCTTTGTG
Found at i:2327150 original size:33 final size:33
Alignment explanation
Indices: 2327113--2327179 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
2327103 AAGTGCACTA
*
2327113 AAGTGCTCATCCATGCGCTGCAAGAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCAAAAGTGAAGTG
* *
2327146 AAGTGCTCATTCATGTGCTGCAAAAGTGAAGTG
1 AAGTGCTCATCCATGCGCTGCAAAAGTGAAGTG
2327179 A
1 A
2327180 TCAACTCTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (33 bp):
AAGTGCTCATCCATGCGCTGCAAAAGTGAAGTG
Found at i:2334927 original size:19 final size:20
Alignment explanation
Indices: 2334883--2334936 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
2334873 CTGCCAATTT
**
2334883 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
2334903 CATGTATCAATACAA-TGAA
1 CATGTATCGATACAATTGAA
2334922 CATGTATCGATACAA
1 CATGTATCGATACAA
2334937 AGCCTAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2335331 original size:44 final size:44
Alignment explanation
Indices: 2335258--2335360 Score: 152
Period size: 44 Copynumber: 2.3 Consensus size: 44
2335248 AAATGTTCAA
* *
2335258 GAAACGATGCTAATGTAGATGTTAGCTAAATTACAGATTTACAT
1 GAAATGATGCTAATGTAGATGTTACCTAAATTACAGATTTACAT
* ** *
2335302 GAAATGATGCTAATGTGGATGTTACCTAAATTGTAGATTTGCAT
1 GAAATGATGCTAATGTAGATGTTACCTAAATTACAGATTTACAT
2335346 GAAATGATGCTAATG
1 GAAATGATGCTAATG
2335361 CGAAAAATTA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (44 bp):
GAAATGATGCTAATGTAGATGTTACCTAAATTACAGATTTACAT
Found at i:2338311 original size:131 final size:136
Alignment explanation
Indices: 2338078--2338406 Score: 404
Period size: 143 Copynumber: 2.4 Consensus size: 136
2338068 TATACATGTG
* * * *
2338078 TGCAAATGAGTGC-TAAGATAAAATTAATGTGATGTCAAAGAAAAAGGTGTAAC-AAGTAAGACA
1 TGCAAATGAGTGCAT-AGATGAAATTAATATAATGTCAAAG-AAAAGGTATAACAAAGTAAGACA
2338141 AACAAATATATACAGAAGGTTTGGAAACAAGGGCTTCAAAAAT-G-T-AA-G-T-CATGTATGTA
64 AACAAATATATACAGAAGGTTTGGAAACAAGGGCTTCAAAAATCGATGAATGATGCATGTATGTA
2338200 TTCATATA
129 TTCATATA
* * *
2338208 TGCAAATGAATGCATAGATGAAATTAATATAATGTTAAAGAGAAAGGTATAACAAAGTAATACAA
1 TGCAAATGAGTGCATAGATGAAATTAATATAATGTCAAAGA-AAAGGTATAACAAAGTAAGACAA
*
2338273 ACAAATATATACAGAAGGTTTTGAAACAAGGGCTTCAAAAATGCCAGTCATGAATGAATGCATGT
65 ACAAATATATACAGAAGGTTTGGAAACAAGGGCTTCAAAAAT--C-G--ATGAATG-ATGCATGT
2338338 ATGTATTCATATA
124 ATGTATTCATATA
* * * *
2338351 TGCGAATGAGTGCACAGATGAAATTAATAAAATGTCAAAGAAAAGTTATATACAAA
1 TGCAAATGAGTGCATAGATGAAATTAATATAATGTCAAAGAAAAGGTATA-ACAAA
2338407 AAAAGTTCAG
Statistics
Matches: 169, Mismatches: 14, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
129 1 0.01
130 43 0.25
131 52 0.31
135 1 0.01
138 1 0.01
139 2 0.01
140 1 0.01
142 9 0.05
143 59 0.35
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.26
Consensus pattern (136 bp):
TGCAAATGAGTGCATAGATGAAATTAATATAATGTCAAAGAAAAGGTATAACAAAGTAAGACAAA
CAAATATATACAGAAGGTTTGGAAACAAGGGCTTCAAAAATCGATGAATGATGCATGTATGTATT
CATATA
Found at i:2341151 original size:156 final size:156
Alignment explanation
Indices: 2340862--2341158 Score: 341
Period size: 156 Copynumber: 1.9 Consensus size: 156
2340852 CTTAGAGGAT
* * **
2340862 TTAAAAAGGATTATAGACAAGATGAACCTATCCTAAATACTCAATTTTGGCATAAAAGGGGATCC
1 TTAAAAAGGATTATAGACAAGATGAAACTATCCTAAATACTCAATTTCGGCATAAAAGCAGATCC
* * * * * * *
2340927 TGTGACAACTTAGGACTCAGTTTTGGAAAAATTATGAAAATGTCCCTATAAGATACTTTTAACTT
66 AGTGACAACCTAGGACTCAGTTTTGAAAAAATTATGAAAATATCCCTATAAGATACCTTCAACGT
*
2340992 AAAAGTGCCTAATACCTTTAATGGAC
131 AAAAGTACCTAATACCTTTAATGGAC
* *** * *
2341018 TTAAAAAGGATTATGGATGGGATGAAACTGTCCTAAATAC-CAACTTTCGGCATAAAATCAGA-C
1 TTAAAAAGGATTATAGACAAGATGAAACTATCCTAAATACTCAA-TTTCGGCATAAAAGCAGATC
** *
2341081 TCAGTGACAACCTAGGACTC-GATTTTGAAAAAATTA-GAAAAGTATCCCTATGGGATACCTTCG
65 -CAGTGACAACCTAGGACTCAG-TTTTGAAAAAATTATGAAAA-TATCCCTATAAGATACCTTCA
2341144 ACGTAAAAGTACCTA
127 ACGTAAAAGTACCTA
2341159 CACCCCCTAA
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
155 10 0.09
156 106 0.91
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (156 bp):
TTAAAAAGGATTATAGACAAGATGAAACTATCCTAAATACTCAATTTCGGCATAAAAGCAGATCC
AGTGACAACCTAGGACTCAGTTTTGAAAAAATTATGAAAATATCCCTATAAGATACCTTCAACGT
AAAAGTACCTAATACCTTTAATGGAC
Found at i:2344606 original size:22 final size:22
Alignment explanation
Indices: 2344580--2344637 Score: 100
Period size: 22 Copynumber: 2.7 Consensus size: 22
2344570 TTAACATGTT
2344580 AAAATGCATGGAACATAGCACC
1 AAAATGCATGGAACATAGCACC
*
2344602 AAAATGCATGGAACATAGCCCC
1 AAAATGCATGGAACATAGCACC
2344624 AAAATGCAT-GAACA
1 AAAATGCATGGAACA
2344638 CGGAGTTGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (22 bp):
AAAATGCATGGAACATAGCACC
Found at i:2346233 original size:31 final size:31
Alignment explanation
Indices: 2346195--2346407 Score: 115
Period size: 31 Copynumber: 6.9 Consensus size: 31
2346185 CAGGTGCGTA
* *
2346195 TAGGCTTTGACTCAAGTGTCACCAACTCGTG
1 TAGGCTTTGACTCAAGTGCCACCAACTTGTG
* * *
2346226 TAGGCTTTAACT-AGGGTGCCACTAACTTGTG
1 TAGGCTTTGACTCA-AGTGCCACCAACTTGTG
* * * * *
2346257 TGGGCTTTGACTCGAGTGTCACCAGCTTGTA
1 TAGGCTTTGACTCAAGTGCCACCAACTTGTG
** ***
2346288 CGGGCTTTGACTTGGGTGCCACCAACTTGTG
1 TAGGCTTTGACTCAAGTGCCACCAACTTGTG
* * * ***** * *
2346319 TGGGCTTTGACTTAGGTGTTGGTAGCTTGTA
1 TAGGCTTTGACTCAAGTGCCACCAACTTGTG
* * *
2346350 TGGGCTTAGACT-AGGGTGCCACCAACTTGTG
1 TAGGCTTTGACTCA-AGTGCCACCAACTTGTG
* * *
2346381 TGGGCTTTGACTCAGGTGCCGCCAACT
1 TAGGCTTTGACTCAAGTGCCACCAACT
2346408 CGAGCGAGCT
Statistics
Matches: 140, Mismatches: 38, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
30 2 0.01
31 137 0.98
32 1 0.01
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (31 bp):
TAGGCTTTGACTCAAGTGCCACCAACTTGTG
Found at i:2346267 original size:62 final size:62
Alignment explanation
Indices: 2346197--2346409 Score: 216
Period size: 62 Copynumber: 3.4 Consensus size: 62
2346187 GGTGCGTATA
*
2346197 GGCTTTGACTCAAGTGTCACCAACTCGTGTAGGCTTTAACTAGGGTGCCACTAACTTGTGTG
1 GGCTTTGACTCAAGTGTCACCAACTCGTGTAGGCTTTAACTAGGGTGCCACCAACTTGTGTG
* * * *
2346259 GGCTTTGACTCGAGTGTCACCAGCT--TGTACGGGCTTTGACTTGGGTGCCACCAACTTGTGTG
1 GGCTTTGACTCAAGTGTCACCAACTCGTGTA--GGCTTTAACTAGGGTGCCACCAACTTGTGTG
* * **** * * * *
2346321 GGCTTTGACTTAGGTGTTGGTAGCTTGTATGGGC-TTAGACTAGGGTGCCACCAACTTGTGTG
1 GGCTTTGACTCAAGTGTCACCAACTCGTGTAGGCTTTA-ACTAGGGTGCCACCAACTTGTGTG
* * *
2346383 GGCTTTGACTCAGGTGCCGCCAACTCG
1 GGCTTTGACTCAAGTGTCACCAACTCG
2346410 AGCGAGCTAA
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
60 4 0.03
61 2 0.02
62 115 0.93
64 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.31
Consensus pattern (62 bp):
GGCTTTGACTCAAGTGTCACCAACTCGTGTAGGCTTTAACTAGGGTGCCACCAACTTGTGTG
Found at i:2346912 original size:78 final size:78
Alignment explanation
Indices: 2346733--2346957 Score: 219
Period size: 78 Copynumber: 2.9 Consensus size: 78
2346723 TGAAATGGGT
* * * *
2346733 CCTACTCTTTGAGGACAAAGGAA-A-AAGGAAA-AAAGGGATGCATCCTAC-TCTTTGAGGATAA
1 CCTATTCTTTGAGGACAAAGGAATAGAAGGAAACAAA---ATACGTCCTACTTC-TTGAGGACAA
* ***
2346794 AGGGAAAA-AAGTGTGT
62 AGGAAAAAGAAGTGCAC
* *
2346810 CCTATTCTTTGAGGACAAAGGAATA-AGAGGAAACAAAATACGTTCTATTTCTTGAGGACAAAGG
1 CCTATTCTTTGAGGACAAAGGAATAGA-AGGAAACAAAATACGTCCTACTTCTTGAGGACAAAGG
2346874 AAAAAGAAGTGCAC
65 AAAAAGAAGTGCAC
* ** * * *
2346888 CCTATTCTTTGAGGATAAAGGAATAGAAGGAAATGAAATATGTCCTGCTTCTTGAGGACAAACGA
1 CCTATTCTTTGAGGACAAAGGAATAGAAGGAAACAAAATACGTCCTACTTCTTGAGGACAAAGGA
2346953 AAAAG
66 AAAAG
2346958 GAATAGTCCC
Statistics
Matches: 124, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
77 45 0.36
78 69 0.56
79 7 0.06
80 3 0.02
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (78 bp):
CCTATTCTTTGAGGACAAAGGAATAGAAGGAAACAAAATACGTCCTACTTCTTGAGGACAAAGGA
AAAAGAAGTGCAC
Found at i:2352160 original size:3 final size:3
Alignment explanation
Indices: 2352152--2352176 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2352142 TCTGAGTCAC
2352152 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
2352177 TTCCTCTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:2353877 original size:19 final size:19
Alignment explanation
Indices: 2353834--2353888 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
2353824 TGCCAATCTT
*
2353834 ATGTATCGATACAATTGTCC
1 ATGTATCGATACAA-TGACC
*
2353854 ATGTATCGATACAATGAGC
1 ATGTATCGATACAATGACC
2353873 ATGTATCGATACAATG
1 ATGTATCGATACAATG
2353889 TATCGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGACC
Found at i:2353891 original size:13 final size:13
Alignment explanation
Indices: 2353873--2353899 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2353863 TACAATGAGC
2353873 ATGTATCGATACA
1 ATGTATCGATACA
2353886 ATGTATCGATACA
1 ATGTATCGATACA
2353899 A
1 A
2353900 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2359824 original size:13 final size:13
Alignment explanation
Indices: 2359806--2359832 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2359796 ACATTATGCT
2359806 TTGTATCGATACA
1 TTGTATCGATACA
2359819 TTGTATCGATACA
1 TTGTATCGATACA
2359832 T
1 T
2359833 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2359862 original size:20 final size:19
Alignment explanation
Indices: 2359816--2359872 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
2359806 TTGTATCGAT
*
2359816 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
2359835 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
2359854 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
2359873 AGATTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:2359927 original size:20 final size:20
Alignment explanation
Indices: 2359902--2359972 Score: 75
Period size: 20 Copynumber: 3.9 Consensus size: 20
2359892 TACCACTGTT
2359902 TGTATCGATACATGGTATAA
1 TGTATCGATACATGGTATAA
2359922 TGTATCGATAC-----AT--
1 TGTATCGATACATGGTATAA
*
2359935 TGTATCGATACATGGTACAA
1 TGTATCGATACATGGTATAA
*
2359955 TGTATCGATACATTGTAT
1 TGTATCGATACATGGTAT
2359973 CGATACATGA
Statistics
Matches: 41, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
18 1 0.02
20 27 0.66
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (20 bp):
TGTATCGATACATGGTATAA
Found at i:2359938 original size:13 final size:13
Alignment explanation
Indices: 2359922--2359980 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
2359912 CATGGTATAA
2359922 TGTATCGATACAT
1 TGTATCGATACAT
2359935 TGTATCGATACA-
1 TGTATCGATACAT
*
2359947 TG----G-TACAA
1 TGTATCGATACAT
2359955 TGTATCGATACAT
1 TGTATCGATACAT
2359968 TGTATCGATACAT
1 TGTATCGATACAT
2359981 GATGAATTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 4 0.10
8 3 0.08
12 3 0.08
13 29 0.74
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2359943 original size:33 final size:33
Alignment explanation
Indices: 2359901--2360002 Score: 154
Period size: 33 Copynumber: 3.1 Consensus size: 33
2359891 CTACCACTGT
2359901 TTGTATCGATACATGGTATAATGTATCGATACA
1 TTGTATCGATACATGGTATAATGTATCGATACA
*
2359934 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGGTATAATGTATCGATACA
*
2359967 TTGTATCGATACAT-G-ATGAATTGTATCAATACA
1 TTGTATCGATACATGGTAT-AA-TGTATCGATACA
2360000 TTG
1 TTG
2360003 CTTGTAACGG
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
31 1 0.02
32 3 0.05
33 60 0.94
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGGTATAATGTATCGATACA
Found at i:2362336 original size:166 final size:164
Alignment explanation
Indices: 2362081--2362462 Score: 382
Period size: 166 Copynumber: 2.3 Consensus size: 164
2362071 TTTATTTCAT
* * *
2362081 ATTAAATCAGTTTTCAAAAATTT-GTTCATTTTCATGAGTTTTTGAATTTTTTCCTTGAAACTCC
1 ATTAAATCAGTTTT-GAAAATTTAATTCATTTTCATGA-ATTTTGAA-TTTTTCCTTGAAACTCC
* * * *
2362145 CTATTTTTGAAAAACGGAGTTTTCTACTCCAAAAAT-TTTTTCAAAGGGATTTT-TTTCATTTTA
63 CTATTTTTAAAAAACGGAGTTTTCTACTCCAAAAATATTTCT-AAAGGGATTTTCTTT-AGTCTA
* **
2362208 AAATTTTTAGAATCCATATAATAATGTCATTAAACTTTC
126 AAATTTTTAGAATCCATATAATAATATCATTAAACTCCC
* * *
2362247 ATTAAATCAGTTTTGAAAATTTAATTCATTTTCATGAATTTTGGATTTTTCTTTGAAA-TCCCTT
1 ATTAAATCAGTTTTGAAAATTTAATTCATTTTCATGAATTTTGAATTTTTCCTTGAAACTCCCTA
* * * *** *
2362311 TTTTCCTAAAAAATC-GAGTTTTTCTATTTCATAAATATTTCTGGGGGGATTTTCTTTGGTCTAA
66 TTTT--TAAAAAA-CGGAG-TTTTCTACTCCAAAAATATTTCTAAAGGGATTTTCTTTAGTCTAA
* * * *
2362375 AATTTTTAGAATTCATCTAATATTATCATTGAACTCCC
127 AATTTTTAGAATCCATATAATAATATCATTAAACTCCC
* *
2362413 ATTAAAAT-AGTTTTGAGAAATTCAATTTATTTT-ATGAATTTTGAATTTTT
1 ATT-AAATCAGTTTTGA-AAATTTAATTCATTTTCATGAATTTTGAATTTTT
2362463 TTATATATAT
Statistics
Matches: 180, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
163 9 0.05
164 12 0.07
165 22 0.12
166 112 0.62
167 25 0.14
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (164 bp):
ATTAAATCAGTTTTGAAAATTTAATTCATTTTCATGAATTTTGAATTTTTCCTTGAAACTCCCTA
TTTTTAAAAAACGGAGTTTTCTACTCCAAAAATATTTCTAAAGGGATTTTCTTTAGTCTAAAATT
TTTAGAATCCATATAATAATATCATTAAACTCCC
Done.