Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 201 of 427
Found at i:56106746 original size:98 final size:94
Alignment explanation
Indices: 56106620--56106796 Score: 255
Period size: 98 Copynumber: 1.8 Consensus size: 94
56106610 CTAAATCGAG
56106620 GTCGATGCCATGTCCCAGACATACTCTTACACTAGCTCTCACATATCTGTACCGATGCCATGTCC
1 GTCGATGCCATGTCCCAGACATACTCTTACACTAGCTCTCACA-ATCTG-ACCGATG-CATGTCC
56106685 CAGACATGGTCTTACACTAGCTCTCGTCTCAAT
63 CAGACAT-GTCTTACACTAGCTCTCGTCTCAAT
** * * * *
56106718 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 GTCGATGCCATGTCCCAGACATACTCTTACACTAGCTCTCACAATCTGACCGATGCATGTCCCAG
*
56106783 TCATGTCTTACACT
66 ACATGTCTTACACT
56106797 GGAACACAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
94 10 0.14
95 13 0.18
96 6 0.08
97 4 0.06
98 39 0.54
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (94 bp):
GTCGATGCCATGTCCCAGACATACTCTTACACTAGCTCTCACAATCTGACCGATGCATGTCCCAG
ACATGTCTTACACTAGCTCTCGTCTCAAT
Found at i:56110477 original size:32 final size:33
Alignment explanation
Indices: 56110436--56110504 Score: 131
Period size: 32 Copynumber: 2.1 Consensus size: 33
56110426 CATGATGCTA
56110436 GGGAGATATGAGAGCTAGTGTAAGACCATGTCT
1 GGGAGATATGAGAGCTAGTGTAAGACCATGTCT
56110469 GGGA-ATATGAGAGCTAGTGTAAGACCATGTCT
1 GGGAGATATGAGAGCTAGTGTAAGACCATGTCT
56110501 GGGA
1 GGGA
56110505 CATGACATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 32 0.89
33 4 0.11
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (33 bp):
GGGAGATATGAGAGCTAGTGTAAGACCATGTCT
Found at i:56110697 original size:48 final size:48
Alignment explanation
Indices: 56110479--56110751 Score: 248
Period size: 48 Copynumber: 5.7 Consensus size: 48
56110469 GGGAATATGA
* * * *
56110479 GAGCTAGTGTAAGACCATGTCTGGGACATGACA-TCAGC-TTGATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGA-CTTTGATGTGT
** * * * ** *
56110526 --GTTAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGATAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGAT-G-TGT
* * * * * * * **
56110574 GAACCAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCGATATACAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGT--GT
** * *
56110624 GAGTTAGTGTAAGACCATGTTTGGGACATGACATTGACTTTGATGTGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGTGT
56110672 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGTGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGTGT
56110720 GAGCCAGTGTAAGACCATGTCTGGGACATGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGC
56110752 GTTGGCACCT
Statistics
Matches: 182, Mismatches: 36, Indels: 15
0.78 0.15 0.06
Matches are distributed among these distances:
45 29 0.16
46 4 0.02
48 79 0.43
50 70 0.38
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACTTTGATGTGT
Found at i:56110748 original size:146 final size:145
Alignment explanation
Indices: 56110478--56110751 Score: 365
Period size: 146 Copynumber: 1.9 Consensus size: 145
56110468 TGGGAATATG
**
56110478 AGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCTTGATATGTGTTAGTGTAAGACCATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCTTGATATGTGCCAGTGTAAGACCATG
*
56110543 TCTAGGACATGGCATCGGCACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCAT
66 TCTAGGACATGGCATCGACACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCAT
56110608 CGGCCTCGATATACA
131 CGGCCTCGATATACA
* * * *
56110623 AGAGTTAGTGTAAGACCATGTTTGGGACATGACAT-TGACTTTGATGTGTGAGCCAGTGTAAGAC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAG-C-TTGATATGT--GCCAGTGTAAGAC
* * ** * * *
56110687 CATGTCTGGGACATGGCATTGACTTTGAT-G-TGTGAGCCAGTGTAAGACCATGTCTGGGACATG
62 CATGTCTAGGACATGGCATCGACACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATG
56110750 GC
127 GC
56110752 GTTGGCACCT
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
144 1 0.01
145 34 0.31
146 40 0.36
147 1 0.01
148 35 0.32
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (145 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCTTGATATGTGCCAGTGTAAGACCATG
TCTAGGACATGGCATCGACACTGATAGATGAGAACCAGTGTAAGACCATGTCTGAGACATGGCAT
CGGCCTCGATATACA
Found at i:56121259 original size:13 final size:13
Alignment explanation
Indices: 56121241--56121267 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
56121231 TAGTTTAATC
56121241 AGTTAATTAGTTT
1 AGTTAATTAGTTT
56121254 AGTTAATTAGTTT
1 AGTTAATTAGTTT
56121267 A
1 A
56121268 ATAAACAACC
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:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (13 bp):
AGTTAATTAGTTT
Found at i:56128396 original size:28 final size:28
Alignment explanation
Indices: 56128333--56128434 Score: 116
Period size: 27 Copynumber: 3.6 Consensus size: 28
56128323 ATAGTGTGTC
* *
56128333 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATGATCAAACT
56128360 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATGATCAAACT
* * * *
56128388 CGCACACTTAGTGCTGTACAAGTTTTAAACC
1 CGCACACTTAGTGC--TACATG-ATCAAACT
56128419 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
56128435 TTCTCATGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
27 21 0.32
28 18 0.28
29 2 0.03
30 5 0.08
31 19 0.29
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATGATCAAACT
Found at i:56129984 original size:29 final size:29
Alignment explanation
Indices: 56129950--56130024 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 29
56129940 TACTCGATTT
*
56129950 CGCACACTTAGTGCCATGCGATTTAG-GCC
1 CGCACACTTAGTGCCATGC-ACTTAGAGCC
** * * *
56129979 CGCACACACAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCACTTAGAGCC
56130008 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
56130025 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.21
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTAGAGCC
Found at i:56130041 original size:29 final size:29
Alignment explanation
Indices: 56130008--56130081 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
56129998 CCTTCGAGCT
56130008 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
56130037 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
56130066 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56130082 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:56134503 original size:38 final size:39
Alignment explanation
Indices: 56134446--56134542 Score: 108
Period size: 38 Copynumber: 2.5 Consensus size: 39
56134436 CTTATAGTGA
*
56134446 TCGCACAATTGCCTT-GGGAACTCCCCGGATTTAGTAAC-
1 TCGCACAA-TGCCTTCGGGAACTCACCGGATTTAGTAACT
* * *
56134484 TCGCACAATGCCTTCGGGAATTGACCGGATTTAGTCACT
1 TCGCACAATGCCTTCGGGAACTCACCGGATTTAGTAACT
* *
56134523 TAGCACAAAAGCCTTCGGGA
1 TCGCAC-AATGCCTTCGGGA
56134543 CTTAGCCCGG
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
37 6 0.12
38 27 0.54
39 5 0.10
40 12 0.24
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
TCGCACAATGCCTTCGGGAACTCACCGGATTTAGTAACT
Found at i:56142469 original size:40 final size:39
Alignment explanation
Indices: 56142420--56142552 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 39
56142410 GACTTGCTCG
* * *
56142420 ATTGTCTTCGGGACATAGCCCGGTTATAGTGATTCGCACA
1 ATTGCCTTCGGGACATAGCCCGGTT-TAGTAACTCGCACA
56142460 ATTGCCTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCACGA
1 ATTGCCTTCGGGACA-TAGCCCGG-TTTAGTAACTCGCAC-A
* * * *
56142501 A-TGCCTTCTGGACTTAACCCGGTTTTGGTAACTCGCACA
1 ATTGCCTTCGGGACATAGCCCGG-TTTAGTAACTCGCACA
*
56142540 AATGCCTTCGGGA
1 ATTGCCTTCGGGA
56142553 ATTGACCCGG
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
39 3 0.04
40 72 0.91
41 4 0.05
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (39 bp):
ATTGCCTTCGGGACATAGCCCGGTTTAGTAACTCGCACA
Found at i:56142561 original size:40 final size:39
Alignment explanation
Indices: 56142453--56142567 Score: 149
Period size: 40 Copynumber: 2.9 Consensus size: 39
56142443 TTATAGTGAT
*
56142453 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGAATTA-CCCGGATTTAGTAAC
* * * * *
56142493 TCGCACGAATGCCTTCTGGACTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTAGTAAC
56142533 TCGCACAAATGCCTTCGGGAATTGACCCGGATTTA
1 TCGCACAAATGCCTTCGGGAATT-ACCCGGATTTA
56142568 CTCACTTACA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
40 61 0.98
41 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (39 bp):
TCGCACAAATGCCTTCGGGAATTACCCGGATTTAGTAAC
Found at i:56144868 original size:40 final size:40
Alignment explanation
Indices: 56144803--56145050 Score: 293
Period size: 40 Copynumber: 6.2 Consensus size: 40
56144793 TCTTCGGAAT
* ** *
56144803 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
56144842 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
56144882 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* ** * * * * *
56144922 TTAACTGGGGTATAGCAACTCACACGAATGCCTTCGGGGC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
56144962 TTAGCCCGGATATAACAACTCGAACAAATGCCTTCGGGCC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
56145002 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
56145042 TTAGCCCGG
1 TTAGCCCGG
56145051 GTATCATTCA
Statistics
Matches: 176, Mismatches: 31, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
39 3 0.02
40 172 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:56145053 original size:120 final size:120
Alignment explanation
Indices: 56144830--56145054 Score: 326
Period size: 120 Copynumber: 1.9 Consensus size: 120
56144820 CAAGCACAAT
* * * * *
56144830 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGGCTTAACCCGGATATAACAACTCGAACAAATGCCTTCGGGCCTTAGCCCGGATAT
* * **
56144895 AACAACTCGCACAAATGCCTTCGGGTCTTAACTGGGGTATAGCAACTCACACGAA
66 AACAACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTCACACGAA
*
56144950 TGCCTTCGGGGCTTAGCCCGGATATAACAACTCGAACAAATGCCTTCGGGCCTTAGCCCGGATAT
1 TGCCTTCGGGGCTTAACCCGGATATAACAACTCGAACAAATGCCTTCGGGCCTTAGCCCGGATAT
* *
56145015 AATC-ACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
66 AA-CAACTAGCACAAATGCCTTCGGGACTTAACCCGGGTAT
56145055 CATTCAAATG
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
120 91 0.99
121 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
TGCCTTCGGGGCTTAACCCGGATATAACAACTCGAACAAATGCCTTCGGGCCTTAGCCCGGATAT
AACAACTAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTCACACGAA
Found at i:56163910 original size:27 final size:27
Alignment explanation
Indices: 56163864--56163916 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
56163854 CAGTAACAGT
*
56163864 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAGAATCAGG
*
56163891 TGGGCCTAAGCCCAGT-ACAGATTCAG
1 TGGGCCT-AGCCCAGTAACAGAATCAG
56163917 TATTAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAGAATCAGG
Found at i:56167588 original size:27 final size:27
Alignment explanation
Indices: 56167542--56167594 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
56167532 CAGTAACAGT
*
56167542 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAGAATCAGG
*
56167569 TGGGCCTAAGCCCAGT-ACAGATTCAG
1 TGGGCCT-AGCCCAGTAACAGAATCAG
56167595 TATTAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAGAATCAGG
Found at i:56172911 original size:17 final size:18
Alignment explanation
Indices: 56172889--56172922 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56172879 CATATTGAAG
56172889 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
56172906 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
56172923 CTTCTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:56174224 original size:28 final size:28
Alignment explanation
Indices: 56174193--56174283 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
56174183 GCCCAATTTG
*
56174193 ATTCATATGGCCTATCGGGCCCAATCAC
1 ATTCATATGGCCTATCAGGCCCAATCAC
*
56174221 ATTCATATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCTATCAGGCCCAATCAC
* *
56174249 TTTCATATGG-CTCATTAGGCCCAATCAC
1 ATTCATATGGCCT-ATCAGGCCCAATCAC
56174277 ATTCATA
1 ATTCATA
56174284 GCCATGCAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 1 0.02
28 55 0.98
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (28 bp):
ATTCATATGGCCTATCAGGCCCAATCAC
Found at i:56178892 original size:28 final size:28
Alignment explanation
Indices: 56178853--56178950 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 28
56178843 CTTCAAGCTG
* * * *
56178853 AATCTCATTCATATGGCCTATCGGGCTC
1 AATCACATTCATATGGCCCATCAGGCCC
56178881 AATCACATTCATATGGCCCATCAGGCCC
1 AATCACATTCATATGGCCCATCAGGCCC
* * * *
56178909 AGTCACTTTCATATGGCCCGTCAAGCCC
1 AATCACATTCATATGGCCCATCAGGCCC
56178937 AATCACATTCATAT
1 AATCACATTCATAT
56178951 TCATGCAATC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.27, C:0.32, G:0.14, T:0.28
Consensus pattern (28 bp):
AATCACATTCATATGGCCCATCAGGCCC
Found at i:56179185 original size:16 final size:16
Alignment explanation
Indices: 56179164--56179195 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56179154 GCCAAACTTC
*
56179164 TGGCTTTTTGGCATTT
1 TGGCTTTTCGGCATTT
56179180 TGGCTTTTCGGCATTT
1 TGGCTTTTCGGCATTT
56179196 CAAGATTTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.16, G:0.25, T:0.53
Consensus pattern (16 bp):
TGGCTTTTCGGCATTT
Found at i:56187143 original size:39 final size:39
Alignment explanation
Indices: 56187100--56187332 Score: 394
Period size: 39 Copynumber: 6.0 Consensus size: 39
56187090 ATTATATTAT
* * * *
56187100 CAGCACAAAGCCTGCAGGACTTTAACCCAGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
56187139 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
56187178 CAGCACGAAGCCTGCGGGACTTTAGTCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
56187217 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
56187256 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
56187295 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
56187333 TCAGTGTCTT
Statistics
Matches: 182, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 182 1.00
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:56203689 original size:14 final size:14
Alignment explanation
Indices: 56203670--56203698 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56203660 GTGATGCCTT
56203670 GGGCTCTTATGATG
1 GGGCTCTTATGATG
56203684 GGGCTCTTATGATG
1 GGGCTCTTATGATG
56203698 G
1 G
56203699 TTAGGACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.34
Consensus pattern (14 bp):
GGGCTCTTATGATG
Found at i:56204302 original size:40 final size:40
Alignment explanation
Indices: 56204243--56204463 Score: 347
Period size: 40 Copynumber: 5.5 Consensus size: 40
56204233 CATTTGAATG
*
56204243 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
56204283 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
56204323 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
56204363 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
56204403 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
56204443 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
56204464 AAACTTGGGT
Statistics
Matches: 169, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 12 0.07
40 156 0.92
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:56212358 original size:40 final size:40
Alignment explanation
Indices: 56212299--56212518 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
56212289 CATTTGAATG
*
56212299 ATATCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
56212339 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
56212379 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
56212419 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * * * * *
56212459 ATGTCCGGGTTAAGACCCGAAGGCAATTGGGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
56212499 ATATCC-GGCTAA-ATCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
56212519 AAACTTGGGT
Statistics
Matches: 166, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 7 0.04
39 5 0.03
40 154 0.93
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:56216938 original size:16 final size:16
Alignment explanation
Indices: 56216917--56216951 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
56216907 TATTATACCC
56216917 AACCATAAATCTCATG
1 AACCATAAATCTCATG
56216933 AACCATAAATCTCATG
1 AACCATAAATCTCATG
56216949 AAC
1 AAC
56216952 ATGTGTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.26, G:0.06, T:0.23
Consensus pattern (16 bp):
AACCATAAATCTCATG
Found at i:56217062 original size:22 final size:23
Alignment explanation
Indices: 56217017--56217062 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
56217007 ATAACCAGAA
* * *
56217017 ATATTTATCAATTAAATGAGATT
1 ATATCTATCAATTAAAAGACATT
56217040 ATATCTATC-ATTAAAAGACATT
1 ATATCTATCAATTAAAAGACATT
56217062 A
1 A
56217063 ACCACCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATCTATCAATTAAAAGACATT
Found at i:56221718 original size:50 final size:50
Alignment explanation
Indices: 56221650--56221792 Score: 223
Period size: 50 Copynumber: 2.9 Consensus size: 50
56221640 ACATAGTGGG
* * *
56221650 ATGCCAATGCCATATCCCAGATATGGTCTTACATGGGTTCACACATATCA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCA
* * *
56221700 ATTCCAATGTCATGTCCCAGACATGGTCTTACATGGGATCACACATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCA
*
56221750 ATGCCAATGCCATGTCCCCGACATGGTCTTACATGGGATCACA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
56221793 TATCGAAACT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 84 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCA
Found at i:56225114 original size:47 final size:47
Alignment explanation
Indices: 56225019--56225338 Score: 250
Period size: 47 Copynumber: 6.9 Consensus size: 47
56225009 CCATCTGTGT
* * * *
56225019 CGATGCCGTGTCCCAAACA-GGTCTTACACTA--ACACATGTCAAGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATCTCAAGC
* * * *
56225063 CGATGCCATGTCTTAGATATGGTCTTACACTAGCTCACATCTCAAGT
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATCTCAAGC
*
56225110 CGATGCCATGTCCTAGACATGGTCTTAGACT-G-ACTATCATCATCAAGGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCAC-A-CATC-TCAA-GC
* * * *
56225159 CGATG-CATGTCCTAGACA-CGTCTTACACTAGCACTCGTCTCAATAC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATCTCAA-GC
* * * *
56225205 TGATGCCATGT-CTCAGACATGGTCTTACACTAACACGCATATCTAGAGGC
1 CGATGCCATGTCCT-AGACATGGTCTTACACTAGCACACATCTC-A-A-GC
* * * *
56225255 CGAT-ACATGTCCTAGACAT-GTCTTACACTAGCTCTCGTCTCAAAGC
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATCTC-AAGC
* * *
56225301 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCGCACAT
1 CGATGCCATGTCCTAGACATGGTCTTACACTAGCACACAT
56225339 ATCACCTGTA
Statistics
Matches: 220, Mismatches: 40, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
44 14 0.06
45 13 0.06
46 47 0.21
47 65 0.30
48 54 0.25
49 20 0.09
50 7 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATCTCAAGC
Found at i:56225217 original size:142 final size:142
Alignment explanation
Indices: 56225064--56225329 Score: 342
Period size: 142 Copynumber: 1.9 Consensus size: 142
56225054 ATGTCAAGCC
* * * * * * *
56225064 GATGCCATGTCTTAGATATGGTCTTACACTAGCTCACATCTC-A-A-GTCGATGCCATGTCCTAG
1 GATGCCATGTCTCAGACATGGTCTTACACTAACACACATATCTAGAGGCCGAT-ACATGTCCTAG
* * *
56225126 ACATGGTCTTAGACT-GACTATCATCATCAAGGCCGATGCATGTCCTAGACACGTCTTACACTAG
65 ACAT-GTCTTACACTAG-CTATCATC-TCAAAGCCGATGCATGTCCCAGACACGTCTTACACTAG
56225190 CACTCGTCTCAATACT
127 CACTCGTCTCAATACT
*
56225206 GATGCCATGTCTCAGACATGGTCTTACACTAACACGCATATCTAGAGGCCGATACATGTCCTAGA
1 GATGCCATGTCTCAGACATGGTCTTACACTAACACACATATCTAGAGGCCGATACATGTCCTAGA
* * *
56225271 CATGTCTTACACTAGCTCTCGTCTCAAAGCCGATGCATGTCCCAGACATGTCTTACACT
66 CATGTCTTACACTAGCTATCATCTCAAAGCCGATGCATGTCCCAGACACGTCTTACACT
56225330 GGCGCACATA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
142 69 0.65
143 16 0.15
144 16 0.15
145 5 0.05
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (142 bp):
GATGCCATGTCTCAGACATGGTCTTACACTAACACACATATCTAGAGGCCGATACATGTCCTAGA
CATGTCTTACACTAGCTATCATCTCAAAGCCGATGCATGTCCCAGACACGTCTTACACTAGCACT
CGTCTCAATACT
Found at i:56225278 original size:96 final size:91
Alignment explanation
Indices: 56225019--56225329 Score: 328
Period size: 95 Copynumber: 3.3 Consensus size: 91
56225009 CCATCTGTGT
* * * * * *
56225019 CGATGCCGTGTCCCAAACA-GGTCTTACACTAACACATGTCAA-GCCGATGCCATGTCTTAGATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATATCAAGGCCGAT-ACATGTCCTAGACA
* *
56225082 TGGTCTTACACTAGCTCACATCTCAAGT-
65 T-GTCTTACACTAGCTCTCGTCTCAA-TA
* * * *
56225110 CGATGCCATGTCCTAGACATGGTCTTAGACTGACTATCATCATCAAGGCCGATGCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-A-CAT-ATCAAGGCCGATACATGTCCTAGA
* *
56225175 CACGTCTTACACTAGCACTCGTCTCAATA
63 CATGTCTTACACTAGCTCTCGTCTCAATA
*
56225204 CTGATGCCATGTCTCAGACATGGTCTTACACTAACACGCATATCTAGAGGCCGATACATGTCCTA
1 C-GATGCCATGTCCCAGACATGGTCTTACACTAACA--CATATC-A-AGGCCGATACATGTCCTA
56225269 GACATGTCTTACACTAGCTCTCGTCTCAA-A
61 GACATGTCTTACACTAGCTCTCGTCTCAATA
56225299 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 --CGATGCCATGTCCCAGACATGGTCTTACACT
56225330 GGCGCACATA
Statistics
Matches: 186, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
91 16 0.09
92 12 0.06
93 2 0.01
94 39 0.21
95 62 0.33
96 54 0.29
97 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (91 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACACATATCAAGGCCGATACATGTCCTAGACAT
GTCTTACACTAGCTCTCGTCTCAATA
Found at i:56225354 original size:142 final size:144
Alignment explanation
Indices: 56225116--56225373 Score: 314
Period size: 142 Copynumber: 1.8 Consensus size: 144
56225106 AAGTCGATGC
* * *
56225116 CATGTCCTAGACATGGTCTTAGACTGACTATCATCATCAAGGCCGATGCATGTCCTAGACACGTC
1 CATGTCCTAGACATGGTCTTACACTGACTATCATCATCAAAGCCGATGCATGTCCCAGACACGTC
* * *
56225181 TTACACTAGCACTCGTCTCAATACTGATGCCAT-GTCTCAGA-CATGGTCTTACACTAACACGCA
66 TTACACTAGCACACATATCAATACTGATGCCATGGTC-CA-ACCATGGTCTTACACTAACACGCA
56225244 TATCTAGAGGCCGATA
129 TATCTAGAGGCCGATA
* * *
56225260 CATGTCCTAGACAT-GTCTTACACT-AGCTCTCGTC-TCAAAGCCGATGCATGTCCCAGACATGT
1 CATGTCCTAGACATGGTCTTACACTGA-CTATCATCATCAAAGCCGATGCATGTCCCAGACACGT
* * *
56225322 CTTACACTGGCGCACATATC-A-CCTGTACTGCCATGGTCCAACCATGGTCTTA
65 CTTACACTAGCACACATATCAATACTG-A-TGCCATGGTCCAACCATGGTCTTA
56225374 TTTGTCAATT
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
140 3 0.03
141 3 0.03
142 59 0.61
143 18 0.19
144 14 0.14
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (144 bp):
CATGTCCTAGACATGGTCTTACACTGACTATCATCATCAAAGCCGATGCATGTCCCAGACACGTC
TTACACTAGCACACATATCAATACTGATGCCATGGTCCAACCATGGTCTTACACTAACACGCATA
TCTAGAGGCCGATA
Found at i:56228059 original size:50 final size:50
Alignment explanation
Indices: 56227982--56228125 Score: 207
Period size: 50 Copynumber: 2.9 Consensus size: 50
56227972 CACATAGTGA
* * * * *
56227982 GATGCCAATGTCATATCCTAGATATGGTCTTACATGGGTTCACACATACC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATACC
**
56228032 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATACC
* *
56228082 GCTGCCAATGCCATGTCCCCGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
56228126 TATCGAAACT
Statistics
Matches: 85, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 85 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (50 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATACC
Found at i:56246040 original size:27 final size:27
Alignment explanation
Indices: 56246010--56246063 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
56246000 AACCTAGACC
*
56246010 GGGGGAAAGCAAAGCAAATTGACTAAA
1 GGGGGAAAGCAAAGCAAATCGACTAAA
56246037 GGGGGAAAGCAAAGCAAATCGACTAAA
1 GGGGGAAAGCAAAGCAAATCGACTAAA
56246064 TCGACTAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.30, T:0.09
Consensus pattern (27 bp):
GGGGGAAAGCAAAGCAAATCGACTAAA
Found at i:56246391 original size:46 final size:44
Alignment explanation
Indices: 56246339--56246450 Score: 127
Period size: 46 Copynumber: 2.5 Consensus size: 44
56246329 GACTGCTAGT
*
56246339 GTAAGACATGTCTAGGACATGCATAGGC-CCGGAGACGTAAGCCAGC
1 GTAAGACATGTCTAGGACATGCATAGGCTAC-GAGACGT--GCCAGC
* * * **
56246385 GTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTTAGC
1 GTAAGACATGTCTAGGACATGCATAGGCTACGAGACGTGCCAGC
56246429 GTAAGACCATGTCTAGGACATG
1 GTAAGA-CATGTCTAGGACATG
56246451 TAATCGGCAC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 10 0.18
45 14 0.25
46 32 0.56
47 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.21
Consensus pattern (44 bp):
GTAAGACATGTCTAGGACATGCATAGGCTACGAGACGTGCCAGC
Found at i:56246673 original size:24 final size:24
Alignment explanation
Indices: 56246646--56246693 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56246636 TATGTATGAA
56246646 ATGTGAGCTCAATATATGCTATAT
1 ATGTGAGCTCAATATATGCTATAT
56246670 ATGTGAGCTCAATATATGCTATAT
1 ATGTGAGCTCAATATATGCTATAT
56246694 GAGGTGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (24 bp):
ATGTGAGCTCAATATATGCTATAT
Found at i:56252409 original size:3 final size:3
Alignment explanation
Indices: 56252358--56252396 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
56252348 CATGGAAATC
56252358 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56252397 TCTCATAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56254056 original size:24 final size:24
Alignment explanation
Indices: 56254029--56254076 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
56254019 AAAATAAACA
56254029 AAGTAAGCTTTATAGCTTAGTAAG
1 AAGTAAGCTTTATAGCTTAGTAAG
56254053 AAGTAAGCTTTATAGCTTAGTAAG
1 AAGTAAGCTTTATAGCTTAGTAAG
56254077 CTCGTATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.33
Consensus pattern (24 bp):
AAGTAAGCTTTATAGCTTAGTAAG
Found at i:56254390 original size:40 final size:40
Alignment explanation
Indices: 56254346--56254485 Score: 167
Period size: 41 Copynumber: 3.5 Consensus size: 40
56254336 CAAATCGCAC
* *
56254346 ACTAAGTGCGATATATAGCCAAGCTCTCTCGATCTCACAA
1 ACTAAGTGCCATATATAGCCAAGCTATCTCGATCTCACAA
* * *
56254386 ACTAAGTGCCATATATAGCCAAAGCTATCTTGATCTCGCAC
1 ACTAAGTGCCATATATAGCC-AAGCTATCTCGATCTCACAA
* *
56254427 ACTAAGTGCCATATATAGCCAAAGCTATGTCGAATCGCAC--
1 ACTAAGTGCCATATATAGCC-AAGCTATCTCG-ATCTCACAA
*
56254467 ACTAAGTGCCACATATAGC
1 ACTAAGTGCCATATATAGC
56254486 TAATTTGTCG
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 37 0.42
41 46 0.52
42 5 0.06
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGCCAAGCTATCTCGATCTCACAA
Found at i:56254431 original size:41 final size:41
Alignment explanation
Indices: 56254297--56254485 Score: 213
Period size: 40 Copynumber: 4.7 Consensus size: 41
56254287 AGTACTTGAT
* * * * * *
56254297 ATCTTGCACACTAAGTGTCGTACATAGTCGAAGCTATCTC-
1 ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCG
** * *
56254337 AAATCGCACACTAAGTGCGATATATAGCC-AAGCTCTCTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCG
* * *
56254377 ATCTCACAAACTAAGTGCCATATATAGCCAAAGCTATCTTG
1 ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCG
*
56254418 ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATGTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCG
* *
56254459 A-ATCGCACACTAAGTGCCACATATAGC
1 ATCTCGCACACTAAGTGCCATATATAGC
56254486 TAATTTGTCG
Statistics
Matches: 125, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
39 9 0.07
40 69 0.55
41 47 0.38
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATCTCG
Found at i:56257977 original size:80 final size:80
Alignment explanation
Indices: 56257893--56258041 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56257883 TATGGTAACC
* * * *
56257893 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56257957 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56257973 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56258038 CCGG
66 CCGG
56258042 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56257983 original size:40 final size:38
Alignment explanation
Indices: 56257934--56258041 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56257924 ATCACGATTT
*
56257934 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56257974 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56258014 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56258042 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56266079 original size:40 final size:38
Alignment explanation
Indices: 56266030--56266137 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56266020 ATCACGATTT
*
56266030 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56266070 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56266110 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56266138 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56266097 original size:80 final size:80
Alignment explanation
Indices: 56265989--56266137 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56265979 TATGGTAACC
* * * *
56265989 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56266053 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56266069 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56266134 CCGG
66 CCGG
56266138 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56270016 original size:43 final size:43
Alignment explanation
Indices: 56269735--56270009 Score: 460
Period size: 43 Copynumber: 6.4 Consensus size: 43
56269725 TAAATCCCAT
* * *
56269735 AGGCTTCATGCCGGTGATGTATATTTGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
*
56269778 AGGCTTTGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* *
56269821 AGGCTTCGTACCGGTGATGTGTATTCGGGCCTTCGTGTCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
* * *
56269864 AGGCTTCGTACCGGTGATGTATATCCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
*
56269907 AGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
56269950 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
1 AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
56269993 AGGCTTCGTGCCGGTGA
1 AGGCTTCGTGCCGGTGA
56270010 AATGTATGTT
Statistics
Matches: 219, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 219 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
AGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGC
Found at i:56271010 original size:47 final size:48
Alignment explanation
Indices: 56270910--56271049 Score: 264
Period size: 47 Copynumber: 2.9 Consensus size: 48
56270900 AGTCTATTCT
*
56270910 ATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTC
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
56270958 ATACATATTTCACATTAGCCATTCGGCTTT-CCACATATACATATCTC
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
56271005 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
56271050 ATTTATCTTG
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
47 47 0.52
48 43 0.48
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC
Found at i:56278868 original size:46 final size:45
Alignment explanation
Indices: 56278814--56278983 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 45
56278804 TTGAGCATCC
*
56278814 GCTCGTTGAGTTGAGTCCGAGTCCACTTATGGATGCGAATGTCCGA
1 GCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGA
* * *** * *
56278860 ACTCGTTGAGTTGAGTCCGAGTTGAGAGATGTAACTAG-GCA-TCCGA
1 GCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GA-T-GCGAAGTCCGA
*
56278906 GCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGA
1 GCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCGA
56278952 GCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56278984 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 92 0.90
47 1 0.01
48 3 0.03
49 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.28
Consensus pattern (45 bp):
GCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCGA
Found at i:56281960 original size:15 final size:15
Alignment explanation
Indices: 56281922--56281965 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
56281912 CATAGTATCG
* *
56281922 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
56281937 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
56281952 TATCTTGGATTTCT
1 TATCTTGGATTTCT
56281966 TATTCGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:56283808 original size:30 final size:30
Alignment explanation
Indices: 56283752--56283808 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
56283742 ATTCCCGAGC
*
56283752 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATCCAAAAGTT
* * *
56283782 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAGTGTAAATATCCAAAA
56283809 TATGATTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATCCAAAAGTT
Found at i:56284283 original size:46 final size:45
Alignment explanation
Indices: 56284233--56284408 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
56284223 TGGTTGAGCA
56284233 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56284279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
56284326 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
56284372 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56284409 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56284389 original size:93 final size:93
Alignment explanation
Indices: 56284230--56284400 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
56284220 GGATGGTTGA
* *
56284230 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56284295 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
56284323 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56284388 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56284401 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56287373 original size:15 final size:15
Alignment explanation
Indices: 56287353--56287408 Score: 78
Period size: 15 Copynumber: 3.7 Consensus size: 15
56287343 GTATCTTGGG
*
56287353 TTTCTTTATTCTGAA
1 TTTCTTTATTCTGGA
56287368 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56287383 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
56287398 TTTCTTTATTC
1 TTTCTTTATTC
56287409 GGTTTCCTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 2 0.06
15 32 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56289852 original size:46 final size:45
Alignment explanation
Indices: 56289801--56289931 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 45
56289791 ATGGTTGAGC
56289801 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA-T-GCGA
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAG-GA
* *** * *
56289845 ATGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGC
1 A--TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GACTAGGA
56289894 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56289932 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
46 32 0.46
47 32 0.46
48 1 0.01
49 3 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGACTAGGA
Found at i:56293430 original size:8 final size:8
Alignment explanation
Indices: 56293417--56293441 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56293407 TTAGAGTAGA
56293417 CCCATGAT
1 CCCATGAT
56293425 CCCATGAT
1 CCCATGAT
56293433 CCCATGAT
1 CCCATGAT
56293441 C
1 C
56293442 ATTTTCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:56294920 original size:34 final size:34
Alignment explanation
Indices: 56294881--56294949 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
56294871 CTAAACTGAA
*
56294881 TTTACATGAGAGAATCTAGGCTAAAGGATTGATG
1 TTTACAAGAGAGAATCTAGGCTAAAGGATTGATG
56294915 TTTACAAGAGAGAATCTAGGCTAAAGGATTGATG
1 TTTACAAGAGAGAATCTAGGCTAAAGGATTGATG
56294949 T
1 T
56294950 CATAACATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (34 bp):
TTTACAAGAGAGAATCTAGGCTAAAGGATTGATG
Found at i:56302859 original size:27 final size:27
Alignment explanation
Indices: 56302795--56302847 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
56302785 GACCCTGATT
* *
56302795 TGTAAAATCACTGAAATACCCTTGTAC
1 TGTAAAATGACTGAAATACCCCTGTAC
*
56302822 TGTAAAATGACTGTAATACCCCTGTA
1 TGTAAAATGACTGAAATACCCCTGTA
56302848 TGGTAGAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATGACTGAAATACCCCTGTAC
Found at i:56303167 original size:22 final size:22
Alignment explanation
Indices: 56303122--56303167 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
56303112 TTGAGCCTTT
* *
56303122 CTGTCTACGGTGTTAAGCCATC
1 CTGTCTACGGCGTTAACCCATC
*
56303144 CTGTCTACGGCGTTAACCCGTC
1 CTGTCTACGGCGTTAACCCATC
56303166 CT
1 CT
56303168 ATTGACTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.15, C:0.33, G:0.22, T:0.30
Consensus pattern (22 bp):
CTGTCTACGGCGTTAACCCATC
Found at i:56331554 original size:48 final size:49
Alignment explanation
Indices: 56331435--56331604 Score: 175
Period size: 48 Copynumber: 3.5 Consensus size: 49
56331425 AGATCCTGTA
* * ** * *
56331435 TAAGACCATGTCTGGGACATGGCATCAACATTCGAGATGAGA-GCCAGTG
1 TAAGACCATATCTGGGATATGGCATCGGCA-TCGATATGTGATGCCAGTG
* * * *
56331484 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTG-TGCCAGTG
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGATGCCAGTG
* * * **
56331532 TAAGACCATATCTAGGATATGGCATTGGCATCGGTATGTGATTTCA-TG
1 TAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGATGCCAGTG
56331580 TAAGACCATATCTGGGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
56331605 TGATATAAGA
Statistics
Matches: 103, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 73 0.71
49 30 0.29
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (49 bp):
TAAGACCATATCTGGGATATGGCATCGGCATCGATATGTGATGCCAGTG
Found at i:56331617 original size:42 final size:45
Alignment explanation
Indices: 56331530--56331638 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 45
56331520 TGTGTGCCAG
* **
56331530 TGTAAGACCATATCTAGGATATGGCATTGGCATCGGTATGTGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATTGGCA---GTATAAGATTTCA
*
56331578 TGTAAGACCATATCTGGGATATGGCATT-G-A-TATAAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATTGGCAGTATAAGATTTCA
*
56331620 TGTAAGACCATGTCTGGGA
1 TGTAAGACCATATCTGGGA
56331639 CAGGGCATCG
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 27 0.48
46 1 0.02
47 1 0.02
48 27 0.48
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (45 bp):
TGTAAGACCATATCTGGGATATGGCATTGGCAGTATAAGATTTCA
Found at i:56331646 original size:42 final size:42
Alignment explanation
Indices: 56331557--56331779 Score: 158
Period size: 42 Copynumber: 5.2 Consensus size: 42
56331547 GATATGGCAT
* ** * * *
56331557 TGGCATCGGTATGTGATTTCATGTAAGACCATATCTGGGATA
1 TGGCATCGATATAAGATTTCGTGTAAGACCATGTCTGGGACA
*
56331599 TGGCATTGATATAAGATTTCGTGTAAGACCATGTCTGGGACA
1 TGGCATCGATATAAGATTTCGTGTAAGACCATGTCTGGGACA
* * * * ** *
56331641 GGGCATCGATGTGAGGTCCCGTGTAATACCATGTCTGGGACA
1 TGGCATCGATATAAGATTTCGTGTAAGACCATGTCTGGGACA
* *** *
56331683 TGGCATCTGCACCAACATAAGATTTCAAATAAGACCATGTCTAGGACA
1 TGGCATC-G-----ATATAAGATTTCGTGTAAGACCATGTCTGGGACA
* * * ** *
56331731 TGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTAGGACA
1 TGGCATCGATATAAGATTTCGTGTAAGACCATGTCTGGGACA
*
56331773 TGACATC
1 TGGCATC
56331780 TGCACCGACA
Statistics
Matches: 138, Mismatches: 37, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
42 106 0.77
43 1 0.01
47 1 0.01
48 30 0.22
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (42 bp):
TGGCATCGATATAAGATTTCGTGTAAGACCATGTCTGGGACA
Found at i:56331716 original size:90 final size:90
Alignment explanation
Indices: 56331622--56331828 Score: 342
Period size: 90 Copynumber: 2.3 Consensus size: 90
56331612 AGATTTCGTG
* * * * *
56331622 TAAGACCATGTCTGGGACAGGGCATCGATGTGAGGTCCCGTGTAATACCATGTCTGGGACATGGC
1 TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTAGGACATGAC
56331687 ATCTGCACCAACATAAGATTTCAAA
66 ATCTGCACCAACATAAGATTTCAAA
56331712 TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTAGGACATGAC
1 TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTAGGACATGAC
*
56331777 ATCTGCACCGACATAAGATTTCAAA
66 ATCTGCACCAACATAAGATTTCAAA
* *
56331802 TAAGACCATATCTAGGATATGGCATCG
1 TAAGACCATGTCTAGGACATGGCATCG
56331829 GTATGTAGAC
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 109 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (90 bp):
TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTAGGACATGAC
ATCTGCACCAACATAAGATTTCAAA
Found at i:56331810 original size:48 final size:48
Alignment explanation
Indices: 56331668--56331827 Score: 161
Period size: 48 Copynumber: 3.5 Consensus size: 48
56331658 CCCGTGTAAT
* *
56331668 ACCATGTCTGGGACATGGCATCTGCACCAACATAAGATTTCAAATAAG
1 ACCATGTCTAGGACATGGCATCTGCACCGACATAAGATTTCAAATAAG
* * * ** ***
56331716 ACCATGTCTAGGACATGGCATC-G-A-TG---TGAGGTCCCGTGTAAG
1 ACCATGTCTAGGACATGGCATCTGCACCGACATAAGATTTCAAATAAG
*
56331758 ACCATGTCTAGGACATGACATCTGCACCGACATAAGATTTCAAATAAG
1 ACCATGTCTAGGACATGGCATCTGCACCGACATAAGATTTCAAATAAG
* *
56331806 ACCATATCTAGGATATGGCATC
1 ACCATGTCTAGGACATGGCATC
56331828 GGTATGTAGA
Statistics
Matches: 84, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
42 30 0.36
43 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 49 0.58
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (48 bp):
ACCATGTCTAGGACATGGCATCTGCACCGACATAAGATTTCAAATAAG
Found at i:56331862 original size:90 final size:90
Alignment explanation
Indices: 56331622--56331864 Score: 312
Period size: 90 Copynumber: 2.7 Consensus size: 90
56331612 AGATTTCGTG
* * * * * * *
56331622 TAAGACCATGTCTGGGACAGGGCATCGATGTGAGGTCCCGTGTAATACCATGTCTGGGACATGGC
1 TAAGACCATATCTAGGACATGGCATCGATGTGAGGACCCATGTAAGACCATGTCTGGGACATGAC
56331687 ATCTGCACCAACATAAGATTTCAAA
66 ATCTGCACCAACATAAGATTTCAAA
* * * *
56331712 TAAGACCATGTCTAGGACATGGCATCGATGTGAGGTCCCGTGTAAGACCATGTCTAGGACATGAC
1 TAAGACCATATCTAGGACATGGCATCGATGTGAGGACCCATGTAAGACCATGTCTGGGACATGAC
*
56331777 ATCTGCACCGACATAAGATTTCAAA
66 ATCTGCACCAACATAAGATTTCAAA
* *
56331802 TAAGACCATATCTAGGATATGGCATCGGTATGT-A-GACTCATGTAAGACCATGT-TGGGGACAT
1 TAAGACCATATCTAGGACATGGCATC-G-ATGTGAGGACCCATGTAAGACCATGTCT-GGGACAT
56331864 G
63 G
56331865 GCTTTGGCAT
Statistics
Matches: 138, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
89 1 0.01
90 131 0.95
91 2 0.01
92 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (90 bp):
TAAGACCATATCTAGGACATGGCATCGATGTGAGGACCCATGTAAGACCATGTCTGGGACATGAC
ATCTGCACCAACATAAGATTTCAAA
Found at i:56337902 original size:16 final size:16
Alignment explanation
Indices: 56337881--56337940 Score: 52
Period size: 16 Copynumber: 3.7 Consensus size: 16
56337871 GACGTCATTA
56337881 GATTAAATTAATTAAT
1 GATTAAATTAATTAAT
56337897 GATTAAAGTTTAATTAAT
1 GATTAAA--TTAATTAAT
* * *
56337915 CA-TAATTTAGTTAAAT
1 GATTAAATTAATT-AAT
56337931 GATT-AATTAA
1 GATTAAATTAA
56337941 GCTTAATTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
15 5 0.15
16 15 0.44
17 4 0.12
18 10 0.29
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (16 bp):
GATTAAATTAATTAAT
Found at i:56338842 original size:17 final size:18
Alignment explanation
Indices: 56338817--56338851 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56338807 GATGATTTGA
*
56338817 ATTGTAATAT-GTATATG
1 ATTGAAATATGGTATATG
56338834 ATTGAAATATGGTATATG
1 ATTGAAATATGGTATATG
56338852 TACTGAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (18 bp):
ATTGAAATATGGTATATG
Found at i:56339002 original size:19 final size:19
Alignment explanation
Indices: 56338957--56339002 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
56338947 GGGTTATCTG
*
56338957 CTTATGTGCTAGGATGCGC
1 CTTATGTGCTAGGATGCAC
*
56338976 CTTGTGTGCTAGGATGCAC
1 CTTATGTGCTAGGATGCAC
*
56338995 TTTATGTG
1 CTTATGTG
56339003 TTGGTATGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.30, T:0.37
Consensus pattern (19 bp):
CTTATGTGCTAGGATGCAC
Found at i:56348282 original size:26 final size:26
Alignment explanation
Indices: 56348253--56348386 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
56348243 TGGTACAAAT
56348253 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56348279 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56348305 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56348331 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56348357 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56348383 TGAT
1 TGAT
56348387 GGGCATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56349575 original size:8 final size:8
Alignment explanation
Indices: 56349562--56349590 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
56349552 CTAGATTGGC
56349562 AAAAGCCG
1 AAAAGCCG
56349570 AAAAGCCG
1 AAAAGCCG
56349578 AAAAGCCG
1 AAAAGCCG
56349586 AAAAG
1 AAAAG
56349591 TCGGTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.55, C:0.21, G:0.24, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:56350050 original size:27 final size:27
Alignment explanation
Indices: 56350009--56350147 Score: 142
Period size: 27 Copynumber: 5.1 Consensus size: 27
56349999 GAAGCGTCCA
56350009 GGTGGCTATGCCACAATTATCTGATCT
1 GGTGGCTATGCCACAATTATCTGATCT
* * * *
56350036 AGTGGCTTTGTCAC-ATATATCTGTTCT
1 GGTGGCTATGCCACAAT-TATCTGATCT
*
56350063 GGTGGCTATGCCACGATTATCTGATCT
1 GGTGGCTATGCCACAATTATCTGATCT
* *
56350090 GGTGGCTCTGCCAC-ATATATCT-ATTTT
1 GGTGGCTATGCCACAAT-TATCTGA-TCT
*
56350117 GGTGGCTCTGCCACAA-TATCTGTATCT
1 GGTGGCTATGCCACAATTATCTG-ATCT
56350144 GGTG
1 GGTG
56350148 ACTTGGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 10 0.11
27 80 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
GGTGGCTATGCCACAATTATCTGATCT
Found at i:56350095 original size:54 final size:53
Alignment explanation
Indices: 56350009--56350165 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 53
56349999 GAAGCGTCCA
*
56350009 GGTGGCTATGCCACAATTATCTGATCTAGTGGCTTTGTCACATATATCTGTTCT
1 GGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGTCACATATATCTGTTCT
* * * *
56350063 GGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTATTTT
1 GGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTTTGTCACATATATCTGTTCT
* * * *
56350117 GGTGGCTCTGCCACAATATCTGTATCTGGTGACTTGGTCACA-ATATCTG
1 GGTGGCTATGCCACATTATCTG-ATCTGGTGGCTTTGTCACATATATCTG
56350166 GCAACCTCGC
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 13 0.15
54 76 0.85
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (53 bp):
GGTGGCTATGCCACATTATCTGATCTGGTGGCTTTGTCACATATATCTGTTCT
Found at i:56355133 original size:29 final size:29
Alignment explanation
Indices: 56355116--56355202 Score: 165
Period size: 29 Copynumber: 3.0 Consensus size: 29
56355106 CCCAGTGTCG
56355116 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
56355145 TATATTTCCAGCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
*
56355174 TATATTTCCATCATGCACACTTAGTGCCA
1 TATATTTCCAGCATGCACACTTAGTGCCA
56355203 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 57 1.00
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.32
Consensus pattern (29 bp):
TATATTTCCAGCATGCACACTTAGTGCCA
Found at i:56355134 original size:58 final size:58
Alignment explanation
Indices: 56355072--56355202 Score: 156
Period size: 58 Copynumber: 2.3 Consensus size: 58
56355062 ATTTAAGCCC
* * * * *
56355072 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGTCGTATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * ** *
56355130 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCATCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
56355188 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
56355203 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
58 61 0.98
59 1 0.02
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:56363168 original size:29 final size:29
Alignment explanation
Indices: 56363078--56363237 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
56363068 ACTCGATTTC
* * **
56363078 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
56363107 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
56363135 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
56363165 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
56363194 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
56363223 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
56363238 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:56366269 original size:29 final size:29
Alignment explanation
Indices: 56366179--56366338 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
56366169 ACTCGATTTC
* * **
56366179 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
56366208 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
56366236 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
56366266 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
56366295 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
56366324 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
56366339 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:56374299 original size:29 final size:29
Alignment explanation
Indices: 56374209--56374368 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
56374199 ACTCGATTTC
* * **
56374209 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
56374238 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
56374266 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
56374296 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
*
56374325 GCACACTTAGTGCCATATATTTCCATCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
56374354 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
56374369 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:56377546 original size:5 final size:5
Alignment explanation
Indices: 56377536--56377578 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
56377526 AATAATAATA
*
56377536 ATTAT ATTAT ATTAT ATTAAT ATTAT TTTAT ATTA- ATTA- ATTA
1 ATTAT ATTAT ATTAT ATT-AT ATTAT ATTAT ATTAT ATTAT ATTA
56377579 AATAAATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
4 8 0.23
5 22 0.63
6 5 0.14
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:56377560 original size:16 final size:16
Alignment explanation
Indices: 56377539--56377572 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
56377529 AATAATAATT
56377539 ATATTATATTATATTA
1 ATATTATATTATATTA
*
56377555 ATATTATTTTATATTA
1 ATATTATATTATATTA
56377571 AT
1 AT
56377573 TAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTATATTATATTA
Found at i:56377715 original size:14 final size:14
Alignment explanation
Indices: 56377677--56377719 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
56377667 ATAGTTTAAT
56377677 AATAAAATAAA-GA
1 AATAAAATAAATGA
*
56377690 AATGAAATAAATGA
1 AATAAAATAAATGA
*
56377704 AATAAAAGAAATGA
1 AATAAAATAAATGA
56377718 AA
1 AA
56377720 AAGAAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (14 bp):
AATAAAATAAATGA
Found at i:56379459 original size:45 final size:45
Alignment explanation
Indices: 56379396--56379676 Score: 454
Period size: 45 Copynumber: 6.2 Consensus size: 45
56379386 TTATGTGCTA
*
56379396 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
* *
56379441 GCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
*
56379486 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGGATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
*
56379531 GTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
* *
56379576 ATTAACGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
* * * *
56379621 GTTACCATTACCGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
*
56379666 GTTACTGTTAC
1 GTTACCGTTAC
56379677 TATTCTGGAT
Statistics
Matches: 219, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 219 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (45 bp):
GTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
Found at i:56379884 original size:18 final size:18
Alignment explanation
Indices: 56379856--56380046 Score: 122
Period size: 18 Copynumber: 10.6 Consensus size: 18
56379846 TAACTGATTA
*
56379856 TTACTGAATAATTGACTG
1 TTACTGGATAATTGACTG
56379874 TTA-TCGGATAATTGACTG
1 TTACT-GGATAATTGACTG
56379892 TTACTGGAT-ATTAGACTG
1 TTACTGGATAATT-GACTG
* * * *
56379910 TTACTGAATAACTGAATA
1 TTACTGGATAATTGACTG
* * *
56379928 TTACTGAATAATTGATTA
1 TTACTGGATAATTGACTG
* * *
56379946 TTACTGAATAACTGATTG
1 TTACTGGATAATTGACTG
* *
56379964 TCACTGAATGAA-TGACTG
1 TTACTGGAT-AATTGACTG
* * *
56379982 CTACTGAATAACTT-AATAG
1 TTACTGGATAA-TTGACT-G
* * *
56380001 TTACTGAATATTTGA-TT
1 TTACTGGATAATTGACTG
*
56380018 TTACTGAATAATTGACTG
1 TTACTGGATAATTGACTG
56380036 TTACTGGATAA
1 TTACTGGATAA
56380047 CCGATCAATT
Statistics
Matches: 143, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
17 20 0.14
18 106 0.74
19 17 0.12
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TTACTGGATAATTGACTG
Found at i:56379932 original size:36 final size:36
Alignment explanation
Indices: 56379844--56380126 Score: 189
Period size: 36 Copynumber: 7.6 Consensus size: 36
56379834 AAAGGTATAA
*
56379844 AATAACTGATTATTACTGAATAATTGACTGTTA-TCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACT-G
* * * * *
56379880 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACTG
* *
56379916 AATAACTGAATATTACTGAATAATTGATTATTACTG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * *
56379952 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* * *
56379988 AATAACTTAATAGTTACTGAATATTTGA-TTTTACTG
1 AATAACTGAATA-TTACTGAATAATTGACTGTTACTG
* * * *
56380024 AATAATTGACTGTTACTGGATAACCGATCAATTGA-TCGATACTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACT-GTTACTG
** * *
56380068 AATAACTGGTTATTATTGAATAATTGATTGTTACTG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* *
56380104 AATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
56380127 ATAATTATTC
Statistics
Matches: 189, Mismatches: 42, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
35 8 0.04
36 133 0.70
37 20 0.11
39 1 0.01
40 1 0.01
42 2 0.01
43 7 0.04
44 17 0.09
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.37
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:56379970 original size:54 final size:53
Alignment explanation
Indices: 56379912--56380047 Score: 141
Period size: 54 Copynumber: 2.5 Consensus size: 53
56379902 TTAGACTGTT
* * *
56379912 ACTGAATAACTGAATATTACTGAATAA-TTGATTA-TTACTGAATAACTGATTGTC
1 ACTGAATAA-TGACTGTTACTGAATAACTT-AATAGTTACTGAATAACTGATT-TC
* ** *
56379966 ACTGAATGAATGACTGCTACTGAATAACTTAATAGTTACTGAATATTTGATTTT
1 ACTGAAT-AATGACTGTTACTGAATAACTTAATAGTTACTGAATAACTGATTTC
*
56380020 ACTGAATAATTGACTGTTACTGGATAAC
1 ACTGAATAA-TGACTGTTACTGAATAAC
56380048 CGATCAATTG
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
53 2 0.03
54 48 0.70
55 19 0.28
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (53 bp):
ACTGAATAATGACTGTTACTGAATAACTTAATAGTTACTGAATAACTGATTTC
Found at i:56380089 original size:18 final size:18
Alignment explanation
Indices: 56380063--56380139 Score: 75
Period size: 18 Copynumber: 4.3 Consensus size: 18
56380053 AATTGATCGA
*
56380063 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTAT
* * *
56380081 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
56380099 TACTGAATAACTGACTGT
1 TACTGAATAACTGATTAT
* *
56380117 TACTGAATAAATAATTAT
1 TACTGAATAACTGATTAT
56380135 T-CTGA
1 TACTGA
56380140 GTGTTAATGA
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 4 0.08
18 44 0.92
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.40
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:56381946 original size:22 final size:22
Alignment explanation
Indices: 56381872--56382021 Score: 86
Period size: 22 Copynumber: 6.4 Consensus size: 22
56381862 TCAGTGTGTA
* *
56381872 AGAGCTTACTGTTTTTAGCTCATT
1 AGAGCTTACTG--TTCAGCTCAAT
* * * *
56381896 GGAGCTTGCCTTTTCAGCTCGTAT
1 AGAGCTT-ACTGTTCAGCTC-AAT
56381920 A-AGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* * *
56381941 AGAGCTTATTGCTCAACTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* *
56381963 AGAGCTTACCATTTTTAGCTCAAT
1 AGAGCTTA-C-TGTTCAGCTCAAT
* *
56381987 AAAGCTTACTGTCCATCAGCTCAGAA
1 AGAGCTTACTGT---TCAGCTCA-AT
56382013 AGAGCTTAC
1 AGAGCTTAC
56382022 CGATCATGGC
Statistics
Matches: 94, Mismatches: 23, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
21 3 0.03
22 37 0.39
23 13 0.14
24 23 0.24
25 9 0.10
26 9 0.10
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:56385950 original size:19 final size:20
Alignment explanation
Indices: 56385926--56385967 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
56385916 AATTAACTAA
56385926 ATTATTTAATTAAATT-TAT
1 ATTATTTAATTAAATTGTAT
*
56385945 ATTATTTAATTAGATTGTAT
1 ATTATTTAATTAAATTGTAT
56385965 ATT
1 ATT
56385968 TTAAAGTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (20 bp):
ATTATTTAATTAAATTGTAT
Found at i:56389394 original size:30 final size:30
Alignment explanation
Indices: 56389358--56389419 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
56389348 TTTCCTAAAG
56389358 TTCTTTAATGTTTTAAAGTACTCTTCCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCCAAT
* *
56389388 TTCTTTAATGTTTTCAAGTATTCTTCCAAT
1 TTCTTTAATGTTTTAAAGTACTCTTCCAAT
56389418 TT
1 TT
56389420 GTAAGTGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.53
Consensus pattern (30 bp):
TTCTTTAATGTTTTAAAGTACTCTTCCAAT
Found at i:56396210 original size:22 final size:22
Alignment explanation
Indices: 56396175--56396217 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
56396165 TCTCTCACAT
*
56396175 TCTCAAATCTCTCTTAAATTTC
1 TCTCAAATCCCTCTTAAATTTC
*
56396197 TCTCAAGTCCCTCTTAAATTT
1 TCTCAAATCCCTCTTAAATTT
56396218 TCACTTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (22 bp):
TCTCAAATCCCTCTTAAATTTC
Found at i:56397241 original size:21 final size:21
Alignment explanation
Indices: 56397217--56397258 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56397207 TGGTTGTATG
*
56397217 GCTACTTCACATGCCCGTGTA
1 GCTACTTCACATGCCCATGTA
56397238 GCTACTTCACATGCCCATGTA
1 GCTACTTCACATGCCCATGTA
56397259 CGTTGACTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.33, G:0.17, T:0.29
Consensus pattern (21 bp):
GCTACTTCACATGCCCATGTA
Found at i:56397451 original size:54 final size:54
Alignment explanation
Indices: 56397320--56397452 Score: 153
Period size: 54 Copynumber: 2.5 Consensus size: 54
56397310 GTGGCCAGAT
* * * *
56397320 CATGTAACTCACTGTGACCATGTAGCTCAGAGTCACACAAGTGTGTCACCAGGC
1 CATGTAACTCTCTGTGCCCATGTGGCTCAGAGTCACACAAGTATGTCACCAGGC
* ** * *
56397374 CATGTAACTCTTTGTGCTTATGTGGTTCA-AGATCACACAA-TCATGTCGCCAGGC
1 CATGTAACTCTCTGTGCCCATGTGGCTCAGAG-TCACACAAGT-ATGTCACCAGGC
56397428 CATGTAACTCTCTGTGCCCATGTGG
1 CATGTAACTCTCTGTGCCCATGTGG
56397453 ACCAACCTGC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 3 0.05
54 62 0.95
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (54 bp):
CATGTAACTCTCTGTGCCCATGTGGCTCAGAGTCACACAAGTATGTCACCAGGC
Found at i:56407401 original size:12 final size:14
Alignment explanation
Indices: 56407384--56407415 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56407374 TTGAGAACAC
56407384 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
56407396 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
56407410 ATGTGT
1 ATGTGT
56407416 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:56407500 original size:50 final size:50
Alignment explanation
Indices: 56407383--56407775 Score: 277
Period size: 50 Copynumber: 7.8 Consensus size: 50
56407373 ATTGAGAACA
* * * *** * *
56407383 CATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATAG--TTAGGTCG
* * * *
56407435 CGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTTG
1 CATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATAGTTAGGTCG
* * ** * * * * * *
56407485 CATTTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACAACTTTGATCA
1 CATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGA-TAGTTAGGTCG
* * *
56407536 CGTGTGTAGTACTAAGTGCAAGCTGCTATGTGTACCAGATTGTTAGGTCG
1 CATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATAGTTAGGTCG
* ** * * *
56407586 CATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCA-ATAGCTTCGATCA
1 CATGTGTAGTACTAAGTGCAAGCTACTATGTGTA-CCAGATAG-TTAGGTCG
* * * * * *
56407637 CGTGTGTAGTACTAAGTGCATGCTACT-TCATGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAAGCTACTAT-GTGTACCAGATAGTTAGGTCG
* * * **** * *
56407687 CGTGTGTAGTACTAAGTGTATGCTACTAAACATACCAGATTGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATAGTTAGGTCG
* * *
56407737 CATGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 CATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGA
56407776 GAGCTTTGGT
Statistics
Matches: 266, Mismatches: 69, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
50 158 0.59
51 75 0.28
52 33 0.12
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAAGCTACTATGTGTACCAGATAGTTAGGTCG
Found at i:56407569 original size:101 final size:101
Alignment explanation
Indices: 56407432--56407714 Score: 395
Period size: 101 Copynumber: 2.8 Consensus size: 101
56407422 TGGTTTTAGG
* * *
56407432 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTTGCATTTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
* *
56407497 TAAGTGCAGGCTACTATGCATACCCGACAACTTTGA
66 TAAGTGCAGGCTACTATGCATACCCAACAACTTCGA
* * *
56407533 TCACGTGTGTAGTACTAAGTGCAAGCTGCTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
* *
56407598 TAAGTGCAGGCTACTATGCATACCCAATAGCTTCGA
66 TAAGTGCAGGCTACTATGCATACCCAACAACTTCGA
* * * * * * *
56407634 TCACGTGTGTAGTACTAAGTGCATGCTACTTCATGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
* *
56407699 TAAGTGTATGCTACTA
66 TAAGTGCAGGCTACTA
56407715 AACATACCAG
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 161 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCAACAACTTCGA
Found at i:56407721 original size:101 final size:100
Alignment explanation
Indices: 56407427--56407763 Score: 383
Period size: 101 Copynumber: 3.4 Consensus size: 100
56407417 TAAGATGGTT
* * * *
56407427 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACTAGATAGTTAGGTTGCATTTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACTTCGTGTAC-AGATAGTTAGGTCGCATGTGT
* * *
56407492 AGTACTAAGTGCAGGCTACTATGCATACCCGACAAC
65 AGTACTAAGTGCAGGCTACTATGCATACCCAATAGC
* * *
56407528 TTTGATCACGTGTGTAGTACTAAGTGCAAGCTGCTAT-GTGTACCAGATTGTTAGGTCGCATGTG
1 TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACT-TCGTGTA-CAGATAGTTAGGTCGCATGTG
56407592 TAGTACTAAGTGCAGGCTACTATGCATACCCAATAGC
64 TAGTACTAAGTGCAGGCTACTATGCATACCCAATAGC
* * * * * *
56407629 TTCGATCACGTGTGTAGTACTAAGTGCATGCTACTTCATGTATCAGATGGTTAGGTCACGTGTGT
1 TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACTTCGTGTA-CAGATAGTTAGGTCGCATGTGT
* * ** *
56407694 AGTACTAAGTGTATGCTACTAAACATA-CCAGATTG-
65 AGTACTAAGTGCAGGCTACTATGCATACCCA-ATAGC
* * * *
56407729 TTAGGTCACATGTATAGTACTAAGTGCAGGCTACT
1 TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACT
56407764 ATGCGTACCA
Statistics
Matches: 204, Mismatches: 28, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
100 34 0.17
101 169 0.83
102 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (100 bp):
TTAGATCACGTGTGTAGTACTAAGTGCAAGCTACTTCGTGTACAGATAGTTAGGTCGCATGTGTA
GTACTAAGTGCAGGCTACTATGCATACCCAATAGC
Found at i:56413846 original size:138 final size:135
Alignment explanation
Indices: 56413602--56413851 Score: 299
Period size: 137 Copynumber: 1.8 Consensus size: 135
56413592 CTTTTATGTT
* * * *
56413602 TTAATTATATTATAACATAATATTATTCTTAAATAATAAGTAAGTATACATGTATATTACAAATG
1 TTAATTATATTATAAAATAATAATATTCTCAAATAATAAGTAAATATACATG-ATATTACAAATG
* *
56413667 TATATATATCATTGGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTT
65 TATATAAATCATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTT
56413732 CTTTAA
130 CTTTAA
56413738 TTAATTA-ATTATAAAATAATAATATTTACTCAAATAATAAGTAAATACATACATG-TATTACAA
1 TTAATTATATTATAAAATAATAATA-TT-CTCAAATAATAAGTAAAT--ATACATGATATTACAA
* * * ** * *
56413801 ATGTATGTACAAT-ATTTATTACACATGTATTTTATTTTTATCACACACTTG
62 ATGTATATA-AATCA-TTAGTACACATATAAATTATTATTACCACACACTTG
56413852 GCACTCCTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
135 15 0.16
136 9 0.09
137 33 0.35
138 31 0.33
139 7 0.07
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.43
Consensus pattern (135 bp):
TTAATTATATTATAAAATAATAATATTCTCAAATAATAAGTAAATATACATGATATTACAAATGT
ATATAAATCATTAGTACACATATAAATTATTATTACCACACACTTGTCTTTATTTAATTATTTTC
TTTAA
Found at i:56415165 original size:22 final size:23
Alignment explanation
Indices: 56415111--56415213 Score: 93
Period size: 23 Copynumber: 4.5 Consensus size: 23
56415101 TAAGCTGATG
*
56415111 AACAGGAAGCTATATTGAGCTGA
1 AACAGTAAGCTATATTGAGCTGA
56415134 AACAGTAAGCTATATTGAGCTG-
1 AACAGTAAGCTATATTGAGCTGA
** *
56415156 ATTAGTAAGCTCAT-TCGAGCTGA
1 AACAGTAAGCT-ATATTGAGCTGA
** ** *
56415179 AATGGTAAGCTCCATTGAGTTGAA
1 AACAGTAAGCTATATTGAGCTG-A
56415203 AACAGTAAGCT
1 AACAGTAAGCT
56415214 CTTTCAAGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
22 16 0.25
23 38 0.59
24 10 0.16
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (23 bp):
AACAGTAAGCTATATTGAGCTGA
Found at i:56427025 original size:21 final size:21
Alignment explanation
Indices: 56426999--56427038 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
56426989 TTCAATTAGC
56426999 CTCCTCATCCTCGTCATCCAT
1 CTCCTCATCCTCGTCATCCAT
56427020 CTCCTCATCCTCGTCATCC
1 CTCCTCATCCTCGTCATCC
56427039 TCATCTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.50, G:0.05, T:0.33
Consensus pattern (21 bp):
CTCCTCATCCTCGTCATCCAT
Found at i:56433771 original size:17 final size:16
Alignment explanation
Indices: 56433739--56433771 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56433729 TTGGCCCAAG
56433739 TACTAATCAGTTTTTT
1 TACTAATCAGTTTTTT
*
56433755 TACTAATTAGTTTTTT
1 TACTAATCAGTTTTTT
56433771 T
1 T
56433772 CTTGAGACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (16 bp):
TACTAATCAGTTTTTT
Found at i:56435220 original size:38 final size:38
Alignment explanation
Indices: 56435178--56435270 Score: 168
Period size: 38 Copynumber: 2.4 Consensus size: 38
56435168 CCTTAACATG
56435178 GATGTGTATGTTCGGCCACATGAACAAATACATATGTT
1 GATGTGTATGTTCGGCCACATGAACAAATACATATGTT
*
56435216 GATGTGTATGTTCGGCCACATGAACGAATACATATGTT
1 GATGTGTATGTTCGGCCACATGAACAAATACATATGTT
*
56435254 GATGTGTATATTCGGCC
1 GATGTGTATGTTCGGCC
56435271 TTAGGTAGCC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (38 bp):
GATGTGTATGTTCGGCCACATGAACAAATACATATGTT
Found at i:56435749 original size:29 final size:29
Alignment explanation
Indices: 56435716--56435847 Score: 124
Period size: 29 Copynumber: 4.6 Consensus size: 29
56435706 GTGACAAGAT
56435716 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56435745 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
56435774 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
56435803 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
56435832 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56435848 AAATCGAGTA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
28 2 0.02
29 80 0.98
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56442409 original size:21 final size:22
Alignment explanation
Indices: 56442358--56442409 Score: 61
Period size: 24 Copynumber: 2.3 Consensus size: 22
56442348 ATCGGCCTTA
*
56442358 ACATGGATGTGTATGTTCGGCGAAT
1 ACAT-GATGTGTATGTTCGGC--AC
56442383 ACATGATGTGTATGTTCGGC-C
1 ACATGATGTGTATGTTCGGCAC
56442404 ACATGA
1 ACATGA
56442410 ACGAATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 6 0.23
24 16 0.62
25 4 0.15
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (22 bp):
ACATGATGTGTATGTTCGGCAC
Found at i:56442920 original size:29 final size:29
Alignment explanation
Indices: 56442887--56443018 Score: 124
Period size: 29 Copynumber: 4.6 Consensus size: 29
56442877 GTGACGAGAT
56442887 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
56442916 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
56442945 CGGCACTGGGTGTGCGAGCTCGAAGGCTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
56442974 TGGCACTATGTGTGCGGGCT-TAAATCGA-A
1 TGGCACTAAGTGTGCGTGCTGGAAAT--ATA
56443003 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56443019 AAATCGAGTA
Statistics
Matches: 82, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
28 2 0.02
29 80 0.98
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:56448150 original size:33 final size:34
Alignment explanation
Indices: 56448113--56448185 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
56448103 GTTTGCATCT
56448113 CTGATACTG-TACTG-AATTGGCCTAAGGCCCACA
1 CTGATACTGTTACTGTAA-TGGCCTAAGGCCCACA
*
56448146 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
1 CTGATACTGTTACTGTAATGGCCTAAGGCCCACA
56448180 CTGATA
1 CTGATA
56448186 TTGCCACTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
33 9 0.24
34 26 0.70
35 2 0.05
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (34 bp):
CTGATACTGTTACTGTAATGGCCTAAGGCCCACA
Found at i:56448201 original size:34 final size:34
Alignment explanation
Indices: 56448134--56448211 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
56448124 CTGAATTGGC
** *
56448134 CTAAGGCCCACACTGATACTGTTACTGTAATGGG
1 CTAAGGCCCACACTGATACTGCCACTATAATGGG
*
56448168 CTAAGGCCCACACTGATATTGCCACTA-ATATGGG
1 CTAAGGCCCACACTGATACTGCCACTATA-ATGGG
*
56448202 CTTAGGCCCA
1 CTAAGGCCCA
56448212 GACTATTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 1 0.03
34 37 0.97
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (34 bp):
CTAAGGCCCACACTGATACTGCCACTATAATGGG
Found at i:56448527 original size:15 final size:15
Alignment explanation
Indices: 56448507--56448535 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56448497 AAAGATAAAT
56448507 GCTTTCAACTACTAC
1 GCTTTCAACTACTAC
56448522 GCTTTCAACTACTA
1 GCTTTCAACTACTA
56448536 TGCTGCGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.34
Consensus pattern (15 bp):
GCTTTCAACTACTAC
Found at i:56461879 original size:40 final size:40
Alignment explanation
Indices: 56461822--56461973 Score: 202
Period size: 40 Copynumber: 3.8 Consensus size: 40
56461812 TCGAATGATG
* ** *
56461822 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAGTGACCATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTCCCAAA
56461862 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTCCCAAA
56461902 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTCCCAAA
**
56461942 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAG
56461974 CTATTATAAC
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 94 0.91
41 8 0.08
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTCCCAAA
Found at i:56461987 original size:40 final size:40
Alignment explanation
Indices: 56461822--56462013 Score: 187
Period size: 40 Copynumber: 4.8 Consensus size: 40
56461812 TCGAATGATG
*
56461822 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTGAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
56461862 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* * *
56461902 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
56461942 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* * *
56461983 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
56462014 TCGCTATATC
Statistics
Matches: 134, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 122 0.91
41 11 0.08
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:56461999 original size:80 final size:79
Alignment explanation
Indices: 56461822--56462040 Score: 214
Period size: 80 Copynumber: 2.7 Consensus size: 79
56461812 TCGAATGATG
*
56461822 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTGAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGC-GAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
56461887 GTGCGAGTTCCCAAA
65 GTGCGAGCTACCAAA
* ** **
56461902 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCGAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
**
56461965 TTGTGCGAGCTATTATAA
63 TTGTGCGAGCTACCA-AA
* * * *
56461983 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGTCG-CTATATCCGGA-TAAGATCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCGAGT-GACCAAATCCGGACTAAGATCCGAAGG
56462041 TACGTGATTC
Statistics
Matches: 114, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
79 13 0.11
80 91 0.80
81 10 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCGAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACCAAA
Found at i:56464883 original size:6 final size:6
Alignment explanation
Indices: 56464865--56464951 Score: 79
Period size: 6 Copynumber: 14.3 Consensus size: 6
56464855 AAGAAACATT
* *
56464865 ATCAGAA AT-AGA ATCAGA ATGAGA ATCAGA ATTAGA ATCAGA ATCAGA
1 ATCAG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
56464913 ATTAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA AT
56464952 GTGTATGCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
5 4 0.06
6 55 0.86
7 4 0.06
8 1 0.02
ACGTcount: A:0.51, C:0.10, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:56464883 original size:24 final size:24
Alignment explanation
Indices: 56464850--56464919 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
56464840 AGCCCATTAC
* **
56464850 AGAATAAGAAACATTATCAGAAAT
1 AGAATCAGAAACAGAATCAGAAAT
** *
56464874 AGAATCAGAATGAGAATCAGAATT
1 AGAATCAGAAACAGAATCAGAAAT
* *
56464898 AGAATCAGAATCAGAATTAGAA
1 AGAATCAGAAACAGAATCAGAA
56464920 TCAAAATTAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.54, C:0.09, G:0.17, T:0.20
Consensus pattern (24 bp):
AGAATCAGAAACAGAATCAGAAAT
Found at i:56465253 original size:25 final size:25
Alignment explanation
Indices: 56465219--56465288 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
56465209 CTCTTTTAAT
*
56465219 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTAGGGCAAAGCCCTTTTCGATA
* *
56465244 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTAGGGCAAAGCCCTTTTCGATA
56465269 AACTAGGGCAAAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
56465289 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGATA
Found at i:56465368 original size:11 final size:11
Alignment explanation
Indices: 56465320--56465384 Score: 53
Period size: 11 Copynumber: 6.1 Consensus size: 11
56465310 ACCCAACCCA
*
56465320 TGCATAACATG
1 TGCATATCATG
* *
56465331 AGTATATCATG
1 TGCATATCATG
*
56465342 TGCATCTCAT-
1 TGCATATCATG
**
56465352 AACATATCATG
1 TGCATATCATG
*
56465363 TGCATATCACG
1 TGCATATCATG
56465374 T-CATATCATG
1 TGCATATCATG
56465384 T
1 T
56465385 ATATCAAAAT
Statistics
Matches: 40, Mismatches: 13, Indels: 3
0.71 0.23 0.05
Matches are distributed among these distances:
10 16 0.40
11 24 0.60
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (11 bp):
TGCATATCATG
Found at i:56465378 original size:21 final size:21
Alignment explanation
Indices: 56465334--56465384 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
56465324 TAACATGAGT
* *
56465334 ATATCATGTGCATCTCATAAC
1 ATATCATGTGCATATCACAAC
**
56465355 ATATCATGTGCATATCACGTC
1 ATATCATGTGCATATCACAAC
56465376 ATATCATGT
1 ATATCATGT
56465385 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (21 bp):
ATATCATGTGCATATCACAAC
Found at i:56465692 original size:27 final size:27
Alignment explanation
Indices: 56465662--56465911 Score: 365
Period size: 27 Copynumber: 9.3 Consensus size: 27
56465652 GGGGCAAAAT
* * *
56465662 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56465689 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56465716 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56465743 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56465770 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56465797 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
56465824 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56465851 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
56465878 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
56465905 GGTAATT
1 GGTAATT
56465912 TTACAAACTA
Statistics
Matches: 201, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 201 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:56465924 original size:27 final size:26
Alignment explanation
Indices: 56465761--56465957 Score: 115
Period size: 27 Copynumber: 7.3 Consensus size: 26
56465751 TACCCTACAG
* * ** *
56465761 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
* * **
56465788 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTTGGTAATTTTA-CAAACAA
* ** *
56465815 GGGTATTTTGGTAATTCTACCTTACAG
1 GGGTATTTTGGTAATTTTA-CAAACAA
** * **
56465842 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTTGGTAATTTTA-CAAACAA
* * **
56465869 GGGTATTTCGGTAATTCTACCCTACAA
1 GGGTATTTTGGTAATTTTA-CAAACAA
56465896 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAAC-AA
* *
56465923 GGGTACTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CAA
56465950 GGGTATTT
1 GGGTATTT
56465958 CAATAATTTT
Statistics
Matches: 152, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
26 3 0.02
27 148 0.97
28 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACAA
Found at i:56465938 original size:81 final size:78
Alignment explanation
Indices: 56465691--56465938 Score: 309
Period size: 81 Copynumber: 3.1 Consensus size: 78
56465681 GGTATCTCGG
* * * ** *
56465691 TAATTTTACCCTACAGGGGTATTTCGGTATTTCTACCCTATAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACAC
*
56465756 TACAGGGGTATTTCGG
66 TA-A-GGGTATTT-GA
56465772 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTAC-C
1 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACAC
*
56465836 TTACAGGGGTATTTCA
66 -TA-A-GGGTATTTGA
* *
56465852 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTTTACA
1 -TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTAC-
56465917 AACTAAGGGTACTTTGA
64 -ACTAAGGGTA-TTTGA
56465934 TAATT
1 TAATT
56465939 TTACAAACCA
Statistics
Matches: 151, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
80 1 0.01
81 142 0.94
82 5 0.03
83 2 0.01
84 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (78 bp):
TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTGGTAATTCTACAC
TAAGGGTATTTGA
Found at i:56465965 original size:81 final size:81
Alignment explanation
Indices: 56465661--56465958 Score: 296
Period size: 81 Copynumber: 3.7 Consensus size: 81
56465651 AGGGGCAAAA
* ** * * * ** * *
56465661 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGGGTATTTCGGTATTTCTA
1 TGGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCAAACAAGGGTATTTCGGTAATTCTA
*
56465726 CCCTATAAGGGTATTT
66 CCCTACAAGGGTATTT
** ** * * ** *
56465742 CAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCAAACAAGGGTATTTCGGTAATTCTA
56465807 CCCTACAAGGGTATTT
66 CCCTACAAGGGTATTT
** * **
56465823 TGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTA
1 TGGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCAAACAAGGGTATTTCGGTAATTCTA
56465888 CCCTACAAGGGTATTT
66 CCCTACAAGGGTATTT
* * *
56465904 TGGTAATTTTA-CAAACTAAGGGTACTTTGA-TAATTTTA-CAAACCAAGGGTATTTC
1 TGGTAATTCTACCAAAC-AAGGGTA-TTTCAGTAATTCTACCAAA-CAAGGGTATTTC
56465959 AATAATTTTG
Statistics
Matches: 192, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
80 5 0.03
81 183 0.95
82 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
TGGTAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCAAACAAGGGTATTTCGGTAATTCTA
CCCTACAAGGGTATTT
Found at i:56465973 original size:27 final size:26
Alignment explanation
Indices: 56465893--56465967 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 26
56465883 TTCTACCCTA
*
56465893 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTA-TTTGATAATTTTACAAAC
*
56465920 TAAGGGTACTTTGATAATTTTACAAAC
1 CAAGGGTA-TTTGATAATTTTACAAAC
*
56465947 CAAGGGTATTTCAATAATTTT
1 CAAGGGTATTT-GATAATTTT
56465968 GTAAACTAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.07
27 39 0.93
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.39
Consensus pattern (26 bp):
CAAGGGTATTTGATAATTTTACAAAC
Found at i:56470126 original size:40 final size:39
Alignment explanation
Indices: 56470080--56470209 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
56470070 GACTCGCTCA
* *
56470080 AATGCCTTCGGGACGAAGCCCGGTTATAGTGACTTGCACG
1 AATGCCTTCGGGACTAAGCCCGGTT-TAGTAACTTGCACG
*
56470120 AATGCCTTCGGGACTTAA-CCCGGGTTTAGTAACTTGCACA
1 AATGCCTTCGGGAC-TAAGCCC-GGTTTAGTAACTTGCACG
* * *
56470160 AATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACG
1 AATGCCTTCGGGACTAAGCCCGG-TTTAGTAACTTGCACG
56470199 AATGCCTTCGG
1 AATGCCTTCGG
56470210 ATCCTAGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
38 4 0.05
39 28 0.35
40 41 0.52
41 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTAAGCCCGGTTTAGTAACTTGCACG
Found at i:56470179 original size:79 final size:81
Alignment explanation
Indices: 56470078--56470259 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
56470068 ACGACTCGCT
** * * *
56470078 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTTGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
56470141 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
56470158 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
56470222 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
56470238 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
56470260 AGACATCATT
Statistics
Matches: 87, Mismatches: 11, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 53 0.61
80 31 0.36
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:56472784 original size:30 final size:30
Alignment explanation
Indices: 56472750--56472810 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56472740 TCCTTAACTC
56472750 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56472780 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56472810 A
1 A
56472811 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56474815 original size:25 final size:25
Alignment explanation
Indices: 56474787--56474840 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
56474777 ATATTTTAAA
56474787 ACAAATGCACTCAAACATACATTCC
1 ACAAATGCACTCAAACATACATTCC
56474812 ACAAATGCACTCAAACATACATTCC
1 ACAAATGCACTCAAACATACATTCC
56474837 ACAA
1 ACAA
56474841 TTTGAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (25 bp):
ACAAATGCACTCAAACATACATTCC
Found at i:56480519 original size:26 final size:26
Alignment explanation
Indices: 56480490--56480541 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
56480480 ATATAATTTC
56480490 CAAATCATGTATC-TATATATCATGTA
1 CAAATCAT-TATCATATATATCATGTA
* *
56480516 CAAATCATTTTCATATATCTCATGTA
1 CAAATCATTATCATATATATCATGTA
56480542 AATACCTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.37, C:0.17, G:0.06, T:0.40
Consensus pattern (26 bp):
CAAATCATTATCATATATATCATGTA
Done.