Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 93 of 193
Found at i:30149053 original size:244 final size:244
Alignment explanation
Indices: 30148611--30149093 Score: 734
Period size: 244 Copynumber: 2.0 Consensus size: 244
30148601 TCAAAAAACG
* * * * * *
30148611 AAGCTAAGCTCAATATGAGTGAAACTTCAAACCCCATCTTCTTGATGAGATACAGAGAAGTGGGT
1 AAGCAAAGCTCAATATAAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAAAGAAGTAGGT
** * *
30148676 CAGACAATAAAGTGGTCATCTTCCTGGTAAGATATAGAGAAGTAGACCAAATCAATGAAGTAGAG
66 CAGACAATAAAGTGGTCATCTTCCTAATAAGATATAGAGAAGTAGACCAAATAAATGAAGCAGAG
* * *
30148741 CTCAATGTGAGCGAAACTTCGAGCCCTATCTTCCTGATGAGACACAGAGAAGTGAGTCAGATAAT
131 CTCAATGTGAGCGAAACTTCGAACCCCATCTTCCTGATGAGACACAGAGAAGTGAGTCAGACAAT
**
30148806 GAAGTGATCATCTTCCTGGTGAGATACAGAGAAGTAGACCAAATAAATT
196 GAAGCAATCATCTTCCTGGTGAGATACAGAGAAGTAGACCAAATAAATT
*
30148855 AAGCAAAGCTCAATGTAAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAAAGAAGTAGGT
1 AAGCAAAGCTCAATATAAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAAAGAAGTAGGT
* * * *
30148920 CAGACAATGAAGTGGTCATCTTCCTAATGAGATATAGAGAAGTGGACCAAATAAATGAAGCGGAG
66 CAGACAATAAAGTGGTCATCTTCCTAATAAGATATAGAGAAGTAGACCAAATAAATGAAGCAGAG
* * *
30148985 CTCAATGTGAGTGAAACTTCGAACCCCATCTTCCTGATGAGATATAGAGAAGTG-GCTCAGACAA
131 CTCAATGTGAGCGAAACTTCGAACCCCATCTTCCTGATGAGACACAGAGAAGTGAG-TCAGACAA
*
30149049 TGAAGCAATCATCTTCCTGGTGAGGTACAGAGAAGTAGACCAAAT
195 TGAAGCAATCATCTTCCTGGTGAGATACAGAGAAGTAGACCAAAT
30149094 CAATGTGAGT
Statistics
Matches: 214, Mismatches: 24, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
243 1 0.00
244 213 1.00
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (244 bp):
AAGCAAAGCTCAATATAAGTGAAACTTCAAACCCCATCTTCCTAATGAGATACAAAGAAGTAGGT
CAGACAATAAAGTGGTCATCTTCCTAATAAGATATAGAGAAGTAGACCAAATAAATGAAGCAGAG
CTCAATGTGAGCGAAACTTCGAACCCCATCTTCCTGATGAGACACAGAGAAGTGAGTCAGACAAT
GAAGCAATCATCTTCCTGGTGAGATACAGAGAAGTAGACCAAATAAATT
Found at i:30149172 original size:107 final size:107
Alignment explanation
Indices: 30148986--30149199 Score: 286
Period size: 107 Copynumber: 2.0 Consensus size: 107
30148976 GAAGCGGAGC
* * * * *
30148986 TCAATGTGAGTGAAACTTCGAACCCCATCTTCCTGATGAGATATAGAGAAGTGGCTCAGACAATG
1 TCAATGTGAGTAAAACTTCAAACCCCATCTTCCTGATAAGATATAGAGAAGTGGCGCAAACAATG
** *
30149051 AAGCAATCATCTTCCTGGTGAGGTACAGAGAAGTAGACCAAA
66 AAGCAATCATCTTCCTAATGAGATACAGAGAAGTAGACCAAA
** *
30149093 TCAATGTGAGTAAAACTTCAAAACCCCATCTTTTTGATAAGTTATAGAGAAGTGG-GCAAACAAT
1 TCAATGTGAGTAAAACTTC-AAACCCCATCTTCCTGATAAGATATAGAGAAGTGGCGCAAACAAT
* * *
30149157 GAAGCTATTATCTTCCTAATGAGATACAGAGAAGTGGACCAAA
65 GAAGCAATCATCTTCCTAATGAGATACAGAGAAGTAGACCAAA
30149200 ATAATGAGGT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 62 0.67
108 30 0.33
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (107 bp):
TCAATGTGAGTAAAACTTCAAACCCCATCTTCCTGATAAGATATAGAGAAGTGGCGCAAACAATG
AAGCAATCATCTTCCTAATGAGATACAGAGAAGTAGACCAAA
Found at i:30151065 original size:20 final size:19
Alignment explanation
Indices: 30151019--30151066 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
30151009 GTCCCTCCAC
*
30151019 ATTTTTGTTCTTTTAAATT
1 ATTTTTTTTCTTTTAAATT
*
30151038 -TTCATTTTTACTTTTAAATT
1 ATT--TTTTTTCTTTTAAATT
30151058 ATTTTTTTT
1 ATTTTTTTT
30151067 TTAAAATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
18 2 0.09
19 5 0.22
20 14 0.61
21 2 0.09
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTTTCTTTTAAATT
Found at i:30157248 original size:21 final size:20
Alignment explanation
Indices: 30157207--30157254 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
30157197 AGAGTTTTTA
30157207 GTATCGGTAGAAGTAAGACTT
1 GTATCGGTAGAAG-AAGACTT
30157228 GTATCGGTAGAAG-AGTCACTT
1 GTATCGGTAGAAGAAG--ACTT
30157249 GTATCG
1 GTATCG
30157255 ATAAAGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.08
21 23 0.92
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (20 bp):
GTATCGGTAGAAGAAGACTT
Found at i:30162065 original size:12 final size:12
Alignment explanation
Indices: 30162044--30162072 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30162034 GAGATGAAGC
30162044 TTTT-GGAGTGT
1 TTTTGGGAGTGT
30162055 TTTTGGGAGTGT
1 TTTTGGGAGTGT
30162067 TTTTGG
1 TTTTGG
30162073 ATGCATAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.07, C:0.00, G:0.38, T:0.55
Consensus pattern (12 bp):
TTTTGGGAGTGT
Found at i:30176619 original size:27 final size:26
Alignment explanation
Indices: 30176589--30176774 Score: 139
Period size: 27 Copynumber: 7.1 Consensus size: 26
30176579 AGACAAAGGA
*
30176589 ATTCTAATTCTAGCTCGAAAGAGCAAT
1 ATTCT-ATTCTGGCTCGAAAGAGCAAT
* *
30176616 ATTCTGATTTTGGCTCGAAAGAGTAAT
1 ATTCT-ATTCTGGCTCGAAAGAGCAAT
* ** *
30176643 ATTCTGTT-TAACTC-ATAAGAGCGAT
1 ATTCTATTCTGGCTCGA-AAGAGCAAT
*
30176668 ATTCTGATTCTGGCTCGAAATAGCAAT
1 ATTCT-ATTCTGGCTCGAAAGAGCAAT
* * *
30176695 ATT-T-TGTCTGTCTCGTAAGAGCGAT
1 ATTCTAT-TCTGGCTCGAAAGAGCAAT
* *
30176720 ATTCTGATTTTGGCTCGAAAGAGTAAT
1 ATTCT-ATTCTGGCTCGAAAGAGCAAT
* * *
30176747 TTTCTATT-TGGCTCGTAAGAGCGAT
1 ATTCTATTCTGGCTCGAAAGAGCAAT
30176772 ATT
1 ATT
30176775 ATGTCTGGGC
Statistics
Matches: 123, Mismatches: 28, Indels: 18
0.73 0.17 0.11
Matches are distributed among these distances:
24 2 0.02
25 50 0.41
26 9 0.07
27 60 0.49
28 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (26 bp):
ATTCTATTCTGGCTCGAAAGAGCAAT
Found at i:30176670 original size:52 final size:52
Alignment explanation
Indices: 30176602--30176774 Score: 229
Period size: 52 Copynumber: 3.3 Consensus size: 52
30176592 CTAATTCTAG
* * *
30176602 CTCGAAAGAGCAATATTCTGATTTTGGCTCGAAAGAGTAATATTCTGTTTAA
1 CTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATATTCTGTTTGA
* * * * * * *
30176654 CTCATAAGAGCGATATTCTGATTCTGGCTCGAAATAGCAATATTTTGTCTGT
1 CTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATATTCTGTTTGA
* * *
30176706 CTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATTTTCTATTTGG
1 CTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATATTCTGTTTGA
30176758 CTCGTAAGAGCGATATT
1 CTCGTAAGAGCGATATT
30176775 ATGTCTGGGC
Statistics
Matches: 102, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 102 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (52 bp):
CTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATATTCTGTTTGA
Found at i:30176721 original size:25 final size:26
Alignment explanation
Indices: 30176601--30176782 Score: 111
Period size: 25 Copynumber: 7.0 Consensus size: 26
30176591 TCTAATTCTA
* * *
30176601 GCTCGAAAGAGCAATATTCTGATTTTG
1 GCTCGTAAGAGCGATATTCTGA-TCTG
* ** * *
30176628 GCTCGAAAGAGTAATATTCTG-TTTA
1 GCTCGTAAGAGCGATATTCTGATCTG
* *
30176653 ACTCATAAGAGCGATATTCTGATTCTG
1 GCTCGTAAGAGCGATATTCTGA-TCTG
* * * *
30176680 GCTCGAAATAGCAATATTTTG-TCTG
1 GCTCGTAAGAGCGATATTCTGATCTG
* *
30176705 TCTCGTAAGAGCGATATTCTGATTTTG
1 GCTCGTAAGAGCGATATTCTGA-TCTG
* ** * *
30176732 GCTCGAAAGAGTAATTTTCT-ATTTG
1 GCTCGTAAGAGCGATATTCTGATCTG
*
30176757 GCTCGTAAGAGCGATATTATG-TCTG
1 GCTCGTAAGAGCGATATTCTGATCTG
30176782 G
1 G
30176783 GCTCTTTTGA
Statistics
Matches: 118, Mismatches: 32, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
25 62 0.53
26 1 0.01
27 55 0.47
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (26 bp):
GCTCGTAAGAGCGATATTCTGATCTG
Found at i:30177613 original size:27 final size:27
Alignment explanation
Indices: 30177583--30177764 Score: 162
Period size: 27 Copynumber: 7.0 Consensus size: 27
30177573 AAAGGAATTC
* *
30177583 TGATTCTAGCTCAAAAGAGCGATATTT
1 TGATTCTGGCTCGAAAGAGCGATATTT
* * * *
30177610 TGATTTTGGCTCAAAAGAGCAATATTC
1 TGATTCTGGCTCGAAAGAGCGATATTT
* * *
30177637 TG--TCTGACTCGTAAGAGCGATATTC
1 TGATTCTGGCTCGAAAGAGCGATATTT
*
30177662 TGATTCTGGCTCGAAAGAGCAATATTT
1 TGATTCTGGCTCGAAAGAGCGATATTT
* *
30177689 TG--TATGGCTCGTAAGAGCGATATTT
1 TGATTCTGGCTCGAAAGAGCGATATTT
* *
30177714 TGATTTTGGCTCGAAAGAG-TA-ATTT
1 TGATTCTGGCTCGAAAGAGCGATATTT
* *
30177739 TCTATT-TGGCTCGTAAGAGCGATATT
1 T-GATTCTGGCTCGAAAGAGCGATATT
30177765 ATGTCTGGGC
Statistics
Matches: 126, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
25 59 0.47
26 5 0.04
27 62 0.49
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (27 bp):
TGATTCTGGCTCGAAAGAGCGATATTT
Found at i:30177659 original size:25 final size:25
Alignment explanation
Indices: 30177624--30177772 Score: 127
Period size: 25 Copynumber: 5.8 Consensus size: 25
30177614 TTTGGCTCAA
*
30177624 AAGAGCAATATTCTGTCTGACTCGT
1 AAGAGCAATATTCTGTCTGGCTCGT
* *
30177649 AAGAGCGATATTCTGATTCTGGCTCGA
1 AAGAGCAATATTCTG--TCTGGCTCGT
* *
30177676 AAGAGCAATATTTTGTATGGCTCGT
1 AAGAGCAATATTCTGTCTGGCTCGT
* * * *
30177701 AAGAGCGATATTTTGATTTTGGCTCGA
1 AAGAGCAATATTCTG--TCTGGCTCGT
* * * *
30177728 AAGAGTAATTTTCTATTTGGCTCGT
1 AAGAGCAATATTCTGTCTGGCTCGT
* *
30177753 AAGAGCGATATTATGTCTGG
1 AAGAGCAATATTCTGTCTGG
30177773 GCTCTTTTGA
Statistics
Matches: 98, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
25 59 0.60
27 39 0.40
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (25 bp):
AAGAGCAATATTCTGTCTGGCTCGT
Found at i:30177659 original size:52 final size:52
Alignment explanation
Indices: 30177597--30177764 Score: 246
Period size: 52 Copynumber: 3.2 Consensus size: 52
30177587 TCTAGCTCAA
* * *
30177597 AAGAGCGATATTTTGATTTTGGCTCAAAAGAGCAATATTCTGTCTGACTCGT
1 AAGAGCGATATTTTGATTTTGGCTCGAAAGAGCAATATTCTGTATGGCTCGT
* * *
30177649 AAGAGCGATATTCTGATTCTGGCTCGAAAGAGCAATATTTTGTATGGCTCGT
1 AAGAGCGATATTTTGATTTTGGCTCGAAAGAGCAATATTCTGTATGGCTCGT
* * * *
30177701 AAGAGCGATATTTTGATTTTGGCTCGAAAGAGTAATTTTCTATTTGGCTCGT
1 AAGAGCGATATTTTGATTTTGGCTCGAAAGAGCAATATTCTGTATGGCTCGT
30177753 AAGAGCGATATT
1 AAGAGCGATATT
30177765 ATGTCTGGGC
Statistics
Matches: 103, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 103 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (52 bp):
AAGAGCGATATTTTGATTTTGGCTCGAAAGAGCAATATTCTGTATGGCTCGT
Found at i:30177880 original size:990 final size:988
Alignment explanation
Indices: 30175986--30178344 Score: 4105
Period size: 990 Copynumber: 2.4 Consensus size: 988
30175976 TTGCTAATTT
* * *
30175986 AAGATCAGATCCTTAAGACGAATCACACTATTCCG-GTAGTTTATTCGGTAGACCTCGTTATCAC
1 AAGATCGGATCCTCAAGACGAATCACACTA-TCCGAG-AGTTTGTTCGGTAGACCTCGTTATCAC
30176050 CTGGCTTATGTGGCATGTAGTAGGATTTGTGAAACTTGTTATGTTGAAACTTATTTGTGTATTTT
64 CTGGCTTATGTGGCATGTAGTAGGATTTGTGAAACTTGTTATGTTGAAACTTATTTGTGTATTTT
* *
30176115 AATATTTGGGAACATAATGGTGGTTCATGAATGTATTTTGGAGTAGTCTTCATATGCATGTGATA
129 AATAATTGGGAACATAATGGTGGTTCATGAATGTATTTTGAAGTAGTCTTCATATGCATGTGATA
*
30176180 TAAAGGCAATATGAAAGGTATTTTGATGAAAAGTTGCAACACTTAAAAGAATTTTCATGTAACTT
194 TAAAGGCAATATGAAAGGTATTTTGATGAAAAGTTGCAACACTTAGAAGAATTTTCATGTAACTT
* * * *
30176245 TGCAATTCTGCTTACTTATTTTGGTAGAACCTATGCATGTATCAATAGAAGTACAGGGTAAGAGA
259 TGCAGTTCTGCTTACTTGTTTCGGTAGAACCTATGCATGTATCAGTAGAAGTACAGGGTAAGAGA
*
30176310 GAGGTTACATTCTGACTTGCATTATATCGATAGTAACAATTGAAGTATCGGTAGTTGGGATTTCA
324 GAGGTTACATTTTGACTTGCATTATATCGATAGTAACAATTGAAGTATCGGTAGTTGGGATTTCA
* *
30176375 TGATTTAACGTGGAATTTAATGATTTGTTAATTCAAATCACGAGCGGGCTGCAGATCGTGAAAAA
389 TGATTTAACGTGGAATTTAATAATTTGTTAATTCAAATCACGAGCGGGCTACAGATCGTGAAAAA
*
30176440 TGGAAAATTTTAGAGTAGTCCTTAAAGTTTAGCCATAACTACAATCTCATCCGGTAAGTTCGTGA
454 TGGAAAATTTTAGAGTAGTCCTTAAAGTTTAACCATAACTACAATCTCATCCGGTAAGTTCGTGA
* *
30176505 AACCACTACTTTACTTAATTTCTCTAATTTTCTTTGTTTTGTGTTACTCTTGATGGAACGAATGA
519 AACCACAACTTTACTTAATTTCTCTAATTTTCTTTGTTTTGTGTTACTCTTCATGGAACGAATGA
* * *
30176570 GATAGAAGAAGACAAAGGAATTCTAATTCTAGCTCGAAAGAGCAATATTCTGATTTTGGCTCGAA
584 GATAAAAGAAGACAAAGGAATTCTAATTCTAGCTCAAAAGAGCAATATTCTGATTTTGGCTCAAA
* * *
30176635 AGAGTAATATTCTGTTTAACTCATAAGAGCGATATTCTGATTCTGGCTCGAAATAGCAATATTTT
649 AGAGCAATATTCTGTCTAACTCATAAGAGCGATATTCTGATTCTGGCTCGAAAGAGCAATATTTT
* *
30176700 GTCTGTCTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATTTTCTATTTGGCTCGTAA
714 GTATGGCTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATTTTCTATTTGGCTCGTAA
*
30176765 GAGCGATATTATGTCTGGGCTCTTTTGAGTCAAATTTTGGAAGACTTGAAGACAATGGTTTGACA
779 GAGCGATATTATGTCTGGGCTCTTTTGAGTCAAATTCTGGAAGACTTGAAGACAATGGTTTGACA
* *
30176830 AAGTATTCGAGACATCGGAGTTGTTAAATTACTCGTCCTGAATTTAAGTATACCAATTTGTAAGA
844 AAGTATTCGAGACATCGAAGTTGTTAAATTACTCATCCTGAATTTAAGTATACCAATTTGTAAGA
*
30176895 TAACCGTTTTACGAACTTACTAAGCATTGTAAGCTTACCTATGTCTCTATTCCTTCTTTTGTAGA
909 TAACCGTTTTACGAACTTACTAAGCATTGTAAGCTTACCTATGTCTCTATTCCTTATTTTGTAGA
30176960 TTCCTTTTAGTGTTG
974 TTCCTTTTAGTGTTG
* *
30176975 AAGATCGGATCCTCAAGACCAATCACACTATCCTGAGAGTTTGTTCGGTAGACCTCGTTGTCACC
1 AAGATCGGATCCTCAAGACGAATCACACTATCC-GAGAGTTTGTTCGGTAGACCTCGTTATCACC
30177040 TGGCTTATGTGGCATGTAGTAGGATTTGTGAAACTTGTTATGTTGAAACTTATTTGTGTATTTTA
65 TGGCTTATGTGGCATGTAGTAGGATTTGTGAAACTTGTTATGTTGAAACTTATTTGTGTATTTTA
*
30177105 ATAATTGGGAACATAATGGTGGTTCATGAATGTATTTTGAAGTAGTCTTCATATCCATGTGATAT
130 ATAATTGGGAACATAATGGTGGTTCATGAATGTATTTTGAAGTAGTCTTCATATGCATGTGATAT
*
30177170 AAAGGCAATATGAAAGGTATTTTGATGAAAAGTTGCAACAGTTAGAAGAATTTTCATGTAACTTT
195 AAAGGCAATATGAAAGGTATTTTGATGAAAAGTTGCAACACTTAGAAGAATTTTCATGTAACTTT
30177235 GCAGTTCTGCTTACTTGTTTCGGTAGAACCTATGCATGTATCAGTAGAAGTAACAGGGTAAGAGA
260 GCAGTTCTGCTTACTTGTTTCGGTAGAACCTATGCATGTATCAGTAGAAGT-ACAGGGTAAGAGA
30177300 GAGGTTACATTTTGACTTGCATTATATCGATAGTAACAATTGAAGTATCGGTAGTTGGGATTTCA
324 GAGGTTACATTTTGACTTGCATTATATCGATAGTAACAATTGAAGTATCGGTAGTTGGGATTTCA
*
30177365 TGATTTAACGTGGAATTTAATAATTTGTTGATTCAAATCACGAGCGGGCTACAGATCGTGAAAAA
389 TGATTTAACGTGGAATTTAATAATTTGTTAATTCAAATCACGAGCGGGCTACAGATCGTGAAAAA
* *
30177430 TGGAAAATTTTAGATTAGTTCC-TAAAGTTTAACCATAACTACAATCTCATCCGGTGAGTTCGTG
454 TGGAAAATTTTAGAGTAG-TCCTTAAAGTTTAACCATAACTACAATCTCATCCGGTAAGTTCGTG
* * *
30177494 AAACCACAACTTTACTTAATTTCTTTAATTTTCTTTGTTTTGTGTTACTCTTCATGGAATGGATG
518 AAACCACAACTTTACTTAATTTCTCTAATTTTCTTTGTTTTGTGTTACTCTTCATGGAACGAATG
* * *
30177559 AGATAAAAGAAGACAAAGGAATTCTGATTCTAGCTCAAAAGAGCGATATTTTGATTTTGGCTCAA
583 AGATAAAAGAAGACAAAGGAATTCTAATTCTAGCTCAAAAGAGCAATATTCTGATTTTGGCTCAA
* *
30177624 AAGAGCAATATTCTGTCTGACTCGTAAGAGCGATATTCTGATTCTGGCTCGAAAGAGCAATATTT
648 AAGAGCAATATTCTGTCTAACTCATAAGAGCGATATTCTGATTCTGGCTCGAAAGAGCAATATTT
*
30177689 TGTATGGCTCGTAAGAGCGATATTTTGATTTTGGCTCGAAAGAGTAATTTTCTATTTGGCTCGTA
713 TGTATGGCTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATTTTCTATTTGGCTCGTA
30177754 AGAGCGATATTATGTCTGGGCTCTTTTGAGTCAAATTCTGGAAGACTTGAAGACAATGGTTTGAC
778 AGAGCGATATTATGTCTGGGCTCTTTTGAGTCAAATTCTGGAAGACTTGAAGACAATGGTTTGAC
30177819 AAAGTATTCGAGACATCGAAGTTGTTAAATTACTCATCCTGAATTTAAGTATACCAATTTGTAAG
843 AAAGTATTCGAGACATCGAAGTTGTTAAATTACTCATCCTGAATTTAAGTATACCAATTTGTAAG
* *
30177884 ATAACCGTTTTACGAACTTACTAAGCATTGTAAGCTTACCTGTGTCTCTGTTCCTTATTTTGTAG
908 ATAACCGTTTTACGAACTTACTAAGCATTGTAAGCTTACCTATGTCTCTATTCCTTATTTTGTAG
30177949 ATTCCTTTTAGTGTTG
973 ATTCCTTTTAGTGTTG
* * *
30177965 AAGATCGGATCCTCAAGTCGAATCACACTATCCCAAGAGTTTGTTCGGTAGACCTCATTATCACC
1 AAGATCGGATCCTCAAGACGAATCACACTAT-CCGAGAGTTTGTTCGGTAGACCTCGTTATCACC
30178030 TGGCTTATGTGGCATGTAGTAGGATTTGTGAAACTTGTTATGTTGAAACTTATTTGTGTATTTTA
65 TGGCTTATGTGGCATGTAGTAGGATTTGTGAAACTTGTTATGTTGAAACTTATTTGTGTATTTTA
*
30178095 ATAATTGGGAACATAATGGTGGTTCATGAATGTATTTTGAAGTAGTCTTCATATGCATGTGCTAT
130 ATAATTGGGAACATAATGGTGGTTCATGAATGTATTTTGAAGTAGTCTTCATATGCATGTGATAT
* *
30178160 AAAGGTAATATGAAAGGTATTTTGATGAAAAGTTGCGACACTTAGAAGAATTTTCATGTAACTTT
195 AAAGGCAATATGAAAGGTATTTTGATGAAAAGTTGCAACACTTAGAAGAATTTTCATGTAACTTT
* * *
30178225 GCAGTTTTTCTTACTTGTTTCGGTAGAACCTATGCATGTATCAGTAGAAGTACAGGGTAGGAGAG
260 GCAGTTCTGCTTACTTGTTTCGGTAGAACCTATGCATGTATCAGTAGAAGTACAGGGTAAGAGAG
* *
30178290 AGGTTACATTTTGTCTT-CAATTGTATCCG-TAGTAACAATTGAAGTATCGGTAGTT
325 AGGTTACATTTTGACTTGC-ATTATAT-CGATAGTAACAATTGAAGTATCGGTAGTT
30178345 CTGTTTACCC
Statistics
Matches: 1302, Mismatches: 61, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
988 4 0.00
989 352 0.27
990 941 0.72
991 5 0.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.36
Consensus pattern (988 bp):
AAGATCGGATCCTCAAGACGAATCACACTATCCGAGAGTTTGTTCGGTAGACCTCGTTATCACCT
GGCTTATGTGGCATGTAGTAGGATTTGTGAAACTTGTTATGTTGAAACTTATTTGTGTATTTTAA
TAATTGGGAACATAATGGTGGTTCATGAATGTATTTTGAAGTAGTCTTCATATGCATGTGATATA
AAGGCAATATGAAAGGTATTTTGATGAAAAGTTGCAACACTTAGAAGAATTTTCATGTAACTTTG
CAGTTCTGCTTACTTGTTTCGGTAGAACCTATGCATGTATCAGTAGAAGTACAGGGTAAGAGAGA
GGTTACATTTTGACTTGCATTATATCGATAGTAACAATTGAAGTATCGGTAGTTGGGATTTCATG
ATTTAACGTGGAATTTAATAATTTGTTAATTCAAATCACGAGCGGGCTACAGATCGTGAAAAATG
GAAAATTTTAGAGTAGTCCTTAAAGTTTAACCATAACTACAATCTCATCCGGTAAGTTCGTGAAA
CCACAACTTTACTTAATTTCTCTAATTTTCTTTGTTTTGTGTTACTCTTCATGGAACGAATGAGA
TAAAAGAAGACAAAGGAATTCTAATTCTAGCTCAAAAGAGCAATATTCTGATTTTGGCTCAAAAG
AGCAATATTCTGTCTAACTCATAAGAGCGATATTCTGATTCTGGCTCGAAAGAGCAATATTTTGT
ATGGCTCGTAAGAGCGATATTCTGATTTTGGCTCGAAAGAGTAATTTTCTATTTGGCTCGTAAGA
GCGATATTATGTCTGGGCTCTTTTGAGTCAAATTCTGGAAGACTTGAAGACAATGGTTTGACAAA
GTATTCGAGACATCGAAGTTGTTAAATTACTCATCCTGAATTTAAGTATACCAATTTGTAAGATA
ACCGTTTTACGAACTTACTAAGCATTGTAAGCTTACCTATGTCTCTATTCCTTATTTTGTAGATT
CCTTTTAGTGTTG
Found at i:30178452 original size:21 final size:20
Alignment explanation
Indices: 30178445--30178487 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
30178435 TAGAAGCATG
*
30178445 ACTTGTATCGATAGATATGTC
1 ACTTGTATCGGTAGA-ATGTC
30178466 ACTTGTATCGGTAGAACTGTC
1 ACTTGTATCGGTAGAA-TGTC
30178487 A
1 A
30178488 TAGATATCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (20 bp):
ACTTGTATCGGTAGAATGTC
Found at i:30182647 original size:9 final size:9
Alignment explanation
Indices: 30182633--30182667 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
30182623 CCAAAATTAT
30182633 AATTTTAAA
1 AATTTTAAA
30182642 AATTTTAAA
1 AATTTTAAA
30182651 AATTTTAAA
1 AATTTTAAA
30182660 AATTTTAA
1 AATTTTAA
30182668 CTTTCTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTTTAAA
Found at i:30182703 original size:20 final size:21
Alignment explanation
Indices: 30182673--30182714 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
30182663 TTTAACTTTC
30182673 TTTATATATTTTTAGAATTTT
1 TTTATATATTTTTAGAATTTT
*
30182694 TTTATA-ATTTTTATAATTTT
1 TTTATATATTTTTAGAATTTT
30182714 T
1 T
30182715 AAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTATATATTTTTAGAATTTT
Found at i:30182704 original size:8 final size:9
Alignment explanation
Indices: 30182673--30182715 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
30182663 TTTAACTTTC
30182673 TTTATATATT
1 TTTATA-ATT
*
30182683 TTTAGAATTTT
1 TTTATAA--TT
30182694 TTTATAATT
1 TTTATAATT
30182703 TTTATAATT
1 TTTATAATT
30182712 TTTA
1 TTTA
30182716 AAAAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 16 0.55
10 5 0.17
11 8 0.28
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (9 bp):
TTTATAATT
Found at i:30182760 original size:45 final size:41
Alignment explanation
Indices: 30182682--30182792 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 41
30182672 CTTTATATAT
30182682 TTTTAGAA-TTTTTTTATAATTTTTATAATTTTTAAAAAATATAAA
1 TTTT-GAATTTTTTTTATAATTTTTATAATTTTT-AAAAAT-T--A
30182727 TTTTGAATTTTTTTTATAAATATTTTA-AA-TTTTAAAAATTA
1 TTTTGAATTTTTTTTAT-AAT-TTTTATAATTTTTAAAAATTA
*
30182768 TTTTGAATTTTTTTTTGTAATTTTT
1 TTTTGAA-TTTTTTTTATAATTTTT
30182793 GTTGAGAGAG
Statistics
Matches: 61, Mismatches: 1, Indels: 13
0.81 0.01 0.17
Matches are distributed among these distances:
40 4 0.07
41 11 0.18
42 9 0.15
43 1 0.02
44 9 0.15
45 17 0.28
46 5 0.08
47 5 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (41 bp):
TTTTGAATTTTTTTTATAATTTTTATAATTTTTAAAAATTA
Found at i:30182765 original size:18 final size:19
Alignment explanation
Indices: 30182738--30182778 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
30182728 TTTGAATTTT
*
30182738 TTTTATAAA-TATTTTAAA
1 TTTTAAAAATTATTTTAAA
*
30182756 TTTTAAAAATTATTTTGAA
1 TTTTAAAAATTATTTTAAA
30182775 TTTT
1 TTTT
30182779 TTTTTGTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATTATTTTAAA
Found at i:30183552 original size:21 final size:21
Alignment explanation
Indices: 30183523--30183563 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30183513 TAGCGTAATC
*
30183523 CAAATATAAAGTTTAGAAATT
1 CAAACATAAAGTTTAGAAATT
*
30183544 CAAACATAAAGTTTATAAAT
1 CAAACATAAAGTTTAGAAAT
30183564 CTAAATTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (21 bp):
CAAACATAAAGTTTAGAAATT
Found at i:30188505 original size:3 final size:3
Alignment explanation
Indices: 30188497--30188527 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30188487 GATAAGGGTC
30188497 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
30188528 ACTATTATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:30191717 original size:18 final size:18
Alignment explanation
Indices: 30191696--30191731 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30191686 TACCTTAAAG
*
30191696 AAAACAAATATAAGAAAA
1 AAAACAAATAAAAGAAAA
30191714 AAAACAAATAAAAGAAAA
1 AAAACAAATAAAAGAAAA
30191732 CCCTAGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.08
Consensus pattern (18 bp):
AAAACAAATAAAAGAAAA
Found at i:30193513 original size:22 final size:22
Alignment explanation
Indices: 30193485--30193526 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
30193475 CTACCACCAG
30193485 AATTTTGCCATGATATGTTCCA
1 AATTTTGCCATGATATGTTCCA
30193507 AATTTTGCCATGATATGTTC
1 AATTTTGCCATGATATGTTC
30193527 TAACTCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (22 bp):
AATTTTGCCATGATATGTTCCA
Found at i:30198046 original size:21 final size:23
Alignment explanation
Indices: 30198022--30198064 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
30198012 AAAATAATAT
30198022 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
30198043 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
30198065 TAATTTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:30198055 original size:30 final size:28
Alignment explanation
Indices: 30197989--30198061 Score: 119
Period size: 28 Copynumber: 2.5 Consensus size: 28
30197979 TTATTTAATA
30197989 AATTTAATAATTTTATATTTTAAAAAAT
1 AATTTAATAATTTTATATTTTAAAAAAT
*
30198017 AATATAATAATTTTATATTTTAAAAAAAT
1 AATTTAATAATTTTATATTTT-AAAAAAT
30198046 AATTTTAATAATTTTA
1 AA-TTTAATAATTTTA
30198062 AAATAATTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
28 20 0.49
29 9 0.22
30 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AATTTAATAATTTTATATTTTAAAAAAT
Found at i:30198746 original size:21 final size:20
Alignment explanation
Indices: 30198704--30198752 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
30198694 CAAAAATAAT
**
30198704 AATAATTTTATATTTTTAAAA
1 AATAATTTTATAACTTT-AAA
30198725 AATAATTTTAATAACTTT-AA
1 AATAATTTT-ATAACTTTAAA
30198745 AATAATTT
1 AATAATTT
30198753 GCTAACATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 10 0.40
21 9 0.36
22 6 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
AATAATTTTATAACTTTAAA
Found at i:30198746 original size:22 final size:21
Alignment explanation
Indices: 30198704--30198746 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
30198694 CAAAAATAAT
**
30198704 AATAATTTTATATTTTTAAAA
1 AATAATTTTATAACTTTAAAA
30198725 AATAATTTTAATAACTTTAAAA
1 AATAATTTT-ATAACTTTAAAA
30198747 TAATTTGCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
AATAATTTTATAACTTTAAAA
Found at i:30199114 original size:682 final size:677
Alignment explanation
Indices: 30197869--30199115 Score: 2014
Period size: 682 Copynumber: 1.8 Consensus size: 677
30197859 AAAGAATAAG
* * *
30197869 TTTGATTTTTAAAAGATTTCAGATTTCAAAAACCTAGATTTTATTTGGTGGATTAAGGGATTTTA
1 TTTGATTTTTAAAAAATTTCAGATTTCAAAAACCTAGATTTCATTTAGTGGATTAAGGGATTTTA
*
30197934 GGGAAGAAACAATGGGGAAGAAGATTTGGAAATTGGAAATTAAAATTATTTAATAAATTTAATAA
66 GGGAAGAAACAATGGGGAAGAAGATTTGGAAATTGGAAATTAAAATTAGTTAATAAATTTAATAA
* * * *
30197999 TTTTATATTTTAAAAAATAATATAATAATTTTATATTTTAAAAAAATAATTTTAATAATTTTAAA
131 TTTTAAATTTAAAAAAAAAATATAATAATTTTATATTTTAAAAAAATAATTTTAATAACTTTAAA
* * * * *
30198064 ATAATTTACTAACGTGATATATAAGATAAAATAGTGTCACATCATCATTTAATTACATTTGAACC
196 ATAATTTACTAACATGACATATAAGACAAAATAGTATCACATCAACATTTAATTACATTTGAACC
* * *
30198129 ATCTTGTCAACGATTAATGTTGACCATTAGTCAACTAACTGCCACGTCAGCATATCCGTTAAAAA
261 ACCTTGTCAACGATTAATGTTGACCATTAGTCAACTAACGGCCACATCAGCATATCCGTTAAAAA
*
30198194 CATTCCAATTTGACCAAAAAACATTAGATGTTAAGTGCTCCAAAAAAACATTAAAGGCCAAAGTA
326 CATACCAATTTGACCAAAAAACATTAGATGTTAAGTGCTCCAAAAAAACATTAAAGGCCAAAGTA
* *
30198259 ACCCAACACTCAAACGTTAGGGGCTATTTTTGTTATTATGCATATTTTAAAATATCTTAAATATT
391 ACCCAACACCCAAACGTTAGGGGCTATTTTTGTCATTATGCATATTTTAAAATATCTTAAATATT
**
30198324 TTTCATGAGAAATTATTTTATAGACTTTTCGCACCACATCATCCATGGTCTTTTTTCAATTATTT
456 TTTCATGAGAAATTATTTTATAGACCCTTCGCACCACATCATCCATGGTCTTTTTTCAATTATTT
30198389 AATGACTTTTCAACAATTTTTTCCATTTGATTGACACATAATTTTAGTAATATTTTTACCTTGAA
521 AATGACTTTTCAACAATTTTTTCCATTTGATTG--A-ATAATTTTAGTAATATTTTTACCTTGAA
30198454 TTCTAAACCCTGAACCTTGGGCTAGGTGCAAAAATTTAGGGTTTTTGATTTCATTTGGGAGAAAA
583 TTCTAAACCCTGAACCTTGGGCTAGGTGCAAAAATTTAGGGTTTTTGATTTCATTTGGGAGAAAA
30198519 GAACAAGTTTCAAAAGCCTAGGTTTTTAAT
648 GAACAAGTTTCAAAAGCCTAGGTTTTTAAT
*
30198549 TTTGATTTTTAAAAAATTTCATATTTCAAAAACCTAGATTTCATTTAGTGGATTAAGGGA-TTTA
1 TTTGATTTTTAAAAAATTTCAGATTTCAAAAACCTAGATTTCATTTAGTGGATTAAGGGATTTTA
*
30198613 GGGAAGAAACAATGGGGAAGAAGATTTGGAAATTGGAAATTAAAATTAGTTAATAATTTTAATAA
66 GGGAAGAAACAATGGGGAAGAAGATTTGGAAATTGGAAATTAAAATTAGTTAATAAATTTAATAA
*
30198678 TTTTAAATTTAAAAATCAAAAATAATAATAATTTTATATTTTTAAAAAATAATTTTAATAACTTT
131 TTTTAAATTTAAAAA--AAAAAT-ATAATAATTTTATATTTTAAAAAAATAATTTTAATAACTTT
* * * *
30198743 AAAATAATTTGCTAACATGGCATATAAGACAAAATAGTATCACGTCAACATTTAATTACATTTGG
193 AAAATAATTTACTAACATGACATATAAGACAAAATAGTATCACATCAACATTTAATTACATTTGA
* * *
30198808 ACCGCCTTGTCAACGGTTAATGTTGACCATTAGTCAACTAACGGCCACATTAGCATATCCGTTAA
258 ACCACCTTGTCAACGATTAATGTTGACCATTAGTCAACTAACGGCCACATCAGCATATCCGTTAA
* *
30198873 AAACATACCAATTTGACCAAAAAATATGTTAGGTGTTAAAGTGCTCCAAAAAAAACATT-AAGGC
323 AAACATACCAATTTGACCAAAAAACA--TTAGATGTT-AAGTGCTCC-AAAAAAACATTAAAGGC
*
30198937 CAAAGTAACCCAACACCCAAACGTTAGGGGCTATTTTTGTCATTATGCCTATTTTAAAATATCTT
384 CAAAGTAACCCAACACCCAAACGTTAGGGGCTATTTTTGTCATTATGCATATTTTAAAATATCTT
* * * *
30199002 AAATGTTTTTCATGAGAAATTATTTTATGGACCCTTCTCACCATATCATCCATGGTCTTTTTTCA
449 AAATATTTTTCATGAGAAATTATTTTATAGACCCTTCGCACCACATCATCCATGGTCTTTTTTCA
* *
30199067 ATTCTTTAATGAACTTTTCAACAATTTTTTCCATTTTATTG-ATAATTTT
514 ATTATTTAATG-ACTTTTCAACAATTTTTTCCATTTGATTGAATAATTTT
30199116 TTTACCTTGA
Statistics
Matches: 519, Mismatches: 40, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
679 80 0.15
680 56 0.11
681 5 0.01
682 186 0.36
684 8 0.02
685 145 0.28
686 39 0.08
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (677 bp):
TTTGATTTTTAAAAAATTTCAGATTTCAAAAACCTAGATTTCATTTAGTGGATTAAGGGATTTTA
GGGAAGAAACAATGGGGAAGAAGATTTGGAAATTGGAAATTAAAATTAGTTAATAAATTTAATAA
TTTTAAATTTAAAAAAAAAATATAATAATTTTATATTTTAAAAAAATAATTTTAATAACTTTAAA
ATAATTTACTAACATGACATATAAGACAAAATAGTATCACATCAACATTTAATTACATTTGAACC
ACCTTGTCAACGATTAATGTTGACCATTAGTCAACTAACGGCCACATCAGCATATCCGTTAAAAA
CATACCAATTTGACCAAAAAACATTAGATGTTAAGTGCTCCAAAAAAACATTAAAGGCCAAAGTA
ACCCAACACCCAAACGTTAGGGGCTATTTTTGTCATTATGCATATTTTAAAATATCTTAAATATT
TTTCATGAGAAATTATTTTATAGACCCTTCGCACCACATCATCCATGGTCTTTTTTCAATTATTT
AATGACTTTTCAACAATTTTTTCCATTTGATTGAATAATTTTAGTAATATTTTTACCTTGAATTC
TAAACCCTGAACCTTGGGCTAGGTGCAAAAATTTAGGGTTTTTGATTTCATTTGGGAGAAAAGAA
CAAGTTTCAAAAGCCTAGGTTTTTAAT
Found at i:30199265 original size:7 final size:7
Alignment explanation
Indices: 30199253--30199286 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
30199243 TTCAAGGTCA
30199253 AGGTTTG
1 AGGTTTG
30199260 AGGTTTG
1 AGGTTTG
30199267 AGGTTTG
1 AGGTTTG
30199274 AGGTTTG
1 AGGTTTG
30199281 AGGTTT
1 AGGTTT
30199287 AAGCTTTAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
AGGTTTG
Found at i:30200779 original size:28 final size:28
Alignment explanation
Indices: 30200748--30200882 Score: 89
Period size: 29 Copynumber: 4.6 Consensus size: 28
30200738 GGACATCCAA
30200748 GGGTAAAATGGTAATTTTGA-AAGTTTTG
1 GGGTAAAATGG-AATTTTGAGAAGTTTTG
*
30200776 GGGTCAAAAATGGAATTTTTG-TAAG-TTTG
1 GGGT--AAAATGGAA-TTTTGAGAAGTTTTG
* *
30200805 GGGCAAAAATGGAATTTTTAGAAGTTTATG
1 GGG-TAAAATGGAATTTTGAGAAGTTT-TG
** **
30200835 GGCAAAAATATAAATTTT-AGAAGTTTTG
1 GGGTAAAAT-GGAATTTTGAGAAGTTTTG
*
30200863 GGGTTAAAATCGCAATTTTG
1 GGG-TAAAAT-GGAATTTTG
30200883 GAAAAGTTCG
Statistics
Matches: 85, Mismatches: 11, Indels: 20
0.73 0.09 0.17
Matches are distributed among these distances:
27 4 0.05
28 20 0.24
29 36 0.42
30 25 0.29
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (28 bp):
GGGTAAAATGGAATTTTGAGAAGTTTTG
Found at i:30200792 original size:29 final size:29
Alignment explanation
Indices: 30200752--30200865 Score: 112
Period size: 29 Copynumber: 3.9 Consensus size: 29
30200742 ATCCAAGGGT
30200752 AAAATGGTAATTTTGA-AAGTTTTGGGGTCA
1 AAAATGG-AATTTTGAGAAGTTTTGGGG-CA
*
30200782 AAAATGGAATTTTTG-TAAG-TTTGGGGCA
1 AAAATGGAA-TTTTGAGAAGTTTTGGGGCA
*
30200810 AAAATGGAATTTTTAGAAGTTTAT-GGGCA
1 AAAATGGAATTTTGAGAAGTTT-TGGGGCA
**
30200839 AAAATATAAATTTT-AGAAGTTTTGGGG
1 AAAAT-GGAATTTTGAGAAGTTTTGGGG
30200866 TTAAAATCGC
Statistics
Matches: 73, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
27 4 0.05
28 15 0.21
29 32 0.44
30 22 0.30
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTGAGAAGTTTTGGGGCA
Found at i:30202765 original size:17 final size:16
Alignment explanation
Indices: 30202745--30202854 Score: 96
Period size: 17 Copynumber: 6.4 Consensus size: 16
30202735 TATTGTTTAT
*
30202745 TTTAAATTTATAATAAT
1 TTTAAATTTA-AATAAA
30202762 TTTAAATTTGAAGATAAA
1 TTTAAATTT-AA-ATAAA
* *
30202780 TTTAAACTCAAATTAAA
1 TTTAAATTTAAA-TAAA
30202797 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
*
30202814 TTTAAATTTTAAAACAAA
1 TTTAAA-TTT-AAATAAA
30202832 TTT-AATCTTAAAATAAA
1 TTTAAAT-TT-AAATAAA
30202849 TTTAAA
1 TTTAAA
30202855 ATGAGTTTGA
Statistics
Matches: 79, Mismatches: 7, Indels: 13
0.80 0.07 0.13
Matches are distributed among these distances:
16 2 0.03
17 47 0.59
18 30 0.38
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:30202801 original size:6 final size:6
Alignment explanation
Indices: 30202745--30202822 Score: 56
Period size: 6 Copynumber: 13.5 Consensus size: 6
30202735 TATTGTTTAT
* * ** * *
30202745 TTTAAA TTTATAA --TAAT TTTAAA TTTGAA GATAAA TTTAAA CTCAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
30202792 -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT
30202823 TAAAACAAAT
Statistics
Matches: 54, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
4 1 0.02
5 10 0.19
6 41 0.76
7 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (6 bp):
TTTAAA
Found at i:30202803 original size:23 final size:23
Alignment explanation
Indices: 30202776--30202822 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
30202766 AATTTGAAGA
*
30202776 TAAATTTAAACTCAAA-TTAAATT
1 TAAATTTAAAAT-AAATTTAAATT
30202799 TAAATTTAAAATAAATTTAAATT
1 TAAATTTAAAATAAATTTAAATT
30202822 T
1 T
30202823 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATTTAAAATAAATTTAAATT
Found at i:30202812 original size:52 final size:52
Alignment explanation
Indices: 30202745--30202854 Score: 148
Period size: 52 Copynumber: 2.1 Consensus size: 52
30202735 TATTGTTTAT
* * * * *
30202745 TTTAAATTTATAATAATTTTAAATTTGAAGATAAATTTAAACTCAAATTAAA
1 TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTCAAAATAAA
* * *
30202797 TTTAAATTTAAAATAAATTTAAATTTTAAAACAAATTTAATCTTAAAATAAA
1 TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTCAAAATAAA
30202849 TTTAAA
1 TTTAAA
30202855 ATGAGTTTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (52 bp):
TTTAAATTTAAAATAAATTTAAATTTGAAAACAAATTTAAACTCAAAATAAA
Found at i:30202856 original size:11 final size:11
Alignment explanation
Indices: 30202764--30202819 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
30202754 ATAATAATTT
*
30202764 TAAATTTGAAGA
1 TAAATTT-AAAA
*
30202776 TAAATTTAAAC
1 TAAATTTAAAA
*
30202787 TCAAA-TTAAATT
1 T-AAATTTAAA-A
30202799 TAAATTTAAAA
1 TAAATTTAAAA
30202810 TAAATTTAAA
1 TAAATTTAAA
30202820 TTTTAAAACA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
11 21 0.57
12 16 0.43
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:30203521 original size:27 final size:27
Alignment explanation
Indices: 30203491--30203562 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
30203481 GAAAGGCCTA
30203491 TGTGGCGAAATATGAAAGAAAAGACTT
1 TGTGGCGAAATATGAAAGAAAAGACTT
**
30203518 TGTGGC-AAAGTATGAAAGAAAATCCTT
1 TGTGGCGAAA-TATGAAAGAAAAGACTT
*
30203545 TGTGGCGAAATACGAAAG
1 TGTGGCGAAATATGAAAG
30203563 GCATGCCTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.08
27 34 0.85
28 3 0.08
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.22
Consensus pattern (27 bp):
TGTGGCGAAATATGAAAGAAAAGACTT
Found at i:30204801 original size:22 final size:22
Alignment explanation
Indices: 30204773--30204816 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
30204763 CAATTTCCAC
30204773 AAGGCTAATATTTGCAAATAAG
1 AAGGCTAATATTTGCAAATAAG
*
30204795 AAGGCTAATATTTGGAAATAAG
1 AAGGCTAATATTTGCAAATAAG
30204817 GAACTTAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.27
Consensus pattern (22 bp):
AAGGCTAATATTTGCAAATAAG
Found at i:30206638 original size:14 final size:14
Alignment explanation
Indices: 30206617--30206650 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
30206607 TTTTTTATTT
30206617 TTAA-AATTTTTAA
1 TTAATAATTTTTAA
*
30206630 TTAATAATTTTTTA
1 TTAATAATTTTTAA
30206644 TTAATAA
1 TTAATAA
30206651 GCATGTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATAATTTTTAA
Found at i:30206774 original size:19 final size:19
Alignment explanation
Indices: 30206750--30206788 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30206740 TTATATAAAA
*
30206750 AATAAATACATAATTATAT
1 AATAAAAACATAATTATAT
* *
30206769 AATAAAAATATATTTATAT
1 AATAAAAACATAATTATAT
30206788 A
1 A
30206789 TCATTATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
AATAAAAACATAATTATAT
Found at i:30207008 original size:71 final size:72
Alignment explanation
Indices: 30206864--30207022 Score: 207
Period size: 71 Copynumber: 2.2 Consensus size: 72
30206854 TTTTTATATG
* * * * * *
30206864 TCAAATAT--TTATTTTTTTCACGTATATTGTGGATATGGTAAATTATAATATTATAAAATCAAA
1 TCAAATATCATTA-TTTTGTCACATATATTGTGAATATGATAAATTATAATATCAAAAAATCAAA
*
30206927 TATTTATT
65 TAATTATT
* *
30206935 TCAAATATCATTATTTTGTCACATATATTGTGAATATGATAAATTCTAATA-CAAAAAATCAATT
1 TCAAATATCATTATTTTGTCACATATATTGTGAATATGATAAATTATAATATCAAAAAATCAAAT
30206999 AATTATT
66 AATTATT
30207006 TCAAATATCATTATTTT
1 TCAAATATCATTATTTT
30207023 AGTAAATATA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
71 41 0.53
72 33 0.43
73 3 0.04
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (72 bp):
TCAAATATCATTATTTTGTCACATATATTGTGAATATGATAAATTATAATATCAAAAAATCAAAT
AATTATT
Found at i:30213452 original size:30 final size:30
Alignment explanation
Indices: 30213418--30213569 Score: 162
Period size: 30 Copynumber: 5.1 Consensus size: 30
30213408 TTAAAATTGT
*
30213418 GTCAAATTTGAATTTTTGAAAACTTTAGGG
1 GTCAAATTTGAATTTTTGAAAAATTTAGGG
* * * *
30213448 GTCAAATTAGAAATTTT-AGAAAGTTTGGGG
1 GTCAAATTTGAATTTTTGA-AAAATTTAGGG
* *
30213478 GTTAAATTGGAATTTTTGAAAAATTTAGGG
1 GTCAAATTTGAATTTTTGAAAAATTTAGGG
* * * **
30213508 GTTAAATTTAAATTTTTGGAAAATTTAAAG
1 GTCAAATTTGAATTTTTGAAAAATTTAGGG
* *
30213538 ATCAAATTTGGATTTTTGAAAAATTTAGGG
1 GTCAAATTTGAATTTTTGAAAAATTTAGGG
30213568 GT
1 GT
30213570 TAAAAAATAA
Statistics
Matches: 98, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.01
30 96 0.98
31 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (30 bp):
GTCAAATTTGAATTTTTGAAAAATTTAGGG
Found at i:30213545 original size:60 final size:60
Alignment explanation
Indices: 30213419--30213573 Score: 179
Period size: 60 Copynumber: 2.6 Consensus size: 60
30213409 TAAAATTGTG
* * * * *** *
30213419 TCAAATTTGAATTTTTGAAAACTTTAGGGGTCAAATTAGAAATTTTAGAAAGTTTGGGGG
1 TCAAATTGGAATTTTTGAAAAATTTAGGGGTTAAATTAGAAATTTTAGAAAATTTAAAGA
* * *
30213479 TTAAATTGGAATTTTTGAAAAATTTAGGGGTTAAATTTA-AATTTTTGGAAAATTTAAAGA
1 TCAAATTGGAATTTTTGAAAAATTTAGGGGTTAAA-TTAGAAATTTTAGAAAATTTAAAGA
30213539 TCAAATTTGG-ATTTTTGAAAAATTTAGGGGTTAAA
1 TCAAA-TTGGAATTTTTGAAAAATTTAGGGGTTAAA
30213574 AAATAATTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
60 74 0.91
61 7 0.09
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (60 bp):
TCAAATTGGAATTTTTGAAAAATTTAGGGGTTAAATTAGAAATTTTAGAAAATTTAAAGA
Found at i:30219767 original size:14 final size:15
Alignment explanation
Indices: 30219742--30219771 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
30219732 TAAGAGATTG
30219742 GATGGTCTTCAATCT
1 GATGGTCTTCAATCT
30219757 GATGG-CTTCAATCT
1 GATGGTCTTCAATCT
30219771 G
1 G
30219772 CCCCATAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (15 bp):
GATGGTCTTCAATCT
Found at i:30219806 original size:54 final size:52
Alignment explanation
Indices: 30219708--30219811 Score: 156
Period size: 54 Copynumber: 1.9 Consensus size: 52
30219698 AGATTAGATT
*
30219708 GCTTCAATTTGCCCCATGTCGGGGTAAGAGATTGGATGGTCTTCAATCTGATG
1 GCTTCAATCTGCCCCATGTCGGGGTAAGAGATTGGAT-GTCTTCAATCTGATG
30219761 GCTTCAATCTGCCCCATAGTCGGGGTAAGAGATCTGGAT-TACTTCAATCTG
1 GCTTCAATCTGCCCCAT-GTCGGGGTAAGAGAT-TGGATGT-CTTCAATCTG
30219812 CCCTCTGGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
53 17 0.36
54 25 0.53
55 5 0.11
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (52 bp):
GCTTCAATCTGCCCCATGTCGGGGTAAGAGATTGGATGTCTTCAATCTGATG
Found at i:30219983 original size:79 final size:79
Alignment explanation
Indices: 30219757--30220788 Score: 742
Period size: 79 Copynumber: 13.1 Consensus size: 79
30219747 TCTTCAATCT
* * *
30219757 GATGG-CTTCAATCTGCCCCATAGTCGGGGTAAGAGATCTGGAT--TACTTCAATCTGCCCTCTG
1 GATGGTCTTCAATCTGCCTCATGGTC-GGGTAAAAGAT-TGGATGGT-CTTCAATCTGCCCTCTG
30219819 GTTAGGGTAAAAGATCTG
63 GTTAGGGTAAAAGAT-TG
* * * * * * *
30219837 AAT--TACTTCAATCTGTCC-CATGATTGGGGTAAGAGATCGGATGGTCTTTAATTTGCCCTCTG
1 GATGGT-CTTCAATCTG-CCTCATG-GTCGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTG
**
30219899 GTCGGGGTAAAAGATTG
63 GTTAGGGTAAAAGATTG
* * ** *
30219916 GATGGTCTTCAATCTGCCTCATGGTCGGGTAAAAGATTGAATGGTATTCAATCTGCCCTCTAATC
1 GATGGTCTTCAATCTGCCTCATGGTCGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTT
* * *
30219981 GGGGTAAGAGATCG
66 AGGGTAAAAGATTG
* ** ** * *
30219995 GATGTTCTTCAATCTGCCCTC-TGGTTAAGGTAAAAGATT--ATATTACTTCAATTTGCCCTAT-
1 GATGGTCTTCAATCTG-CCTCATGG-TCGGGTAAAAGATTGGATGGT-CTTCAATCTGCCCTCTG
* * * * *
30220056 GATCGGGGAAGAGATTA
63 GTTAGGGTAAAAGATTG
* * * *
30220073 GATGGT-TTCAATTTGCC-CTTTGGTTAGGGTAAAAGATCGGATGGTCTTCAATCTGCCC-CATG
1 GATGGTCTTCAATCTGCCTC-ATGG-TCGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTC-TG
* * *
30220135 G-TCGAGGTAAGAGATCG
63 GTTAG-GGTAAAAGATTG
* * * * * *
30220152 GATGGTCTTCAATCTGCCCTC-TGTTCAGGGTAAAATATCGGACGGTCTTCATTTTGCCCTCTGG
1 GATGGTCTTCAATCTG-CCTCATGGTC-GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGG
30220216 TTAGGGTAAAAGATTG
64 TTAGGGTAAAAGATTG
* * ** *
30220232 GATTG-CTTCAATCTGCCTCATGGTCGAGGTAAGAGATCAGATGATCTTCAATCTGCCCTCTGGT
1 GATGGTCTTCAATCTGCCTCATGGTCG-GGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGT
30220296 TAGGGTAAAAGATTG
65 TAGGGTAAAAGATTG
* * * * * *
30220311 GATTG-CTTCAATCTACCCCATGGTCGGGGTAAGAGATTGGATGG-CTTCAATCTACCCTCTGAT
1 GATGGTCTTCAATCTGCCTCATGGTC-GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGT
30220374 TAGGGTAAAAGATTG
65 TAGGGTAAAAGATTG
* * * * * *
30220389 AAT--TACTTCAATTTGCCCTC-TAGTTAGGGTAAAAGAGCTGAAT--TACTTCAATCTGCCCTC
1 GATGGT-CTTCAATCTG-CCTCAT-GGTCGGGTAAAAGA-TTGGATGGT-CTTCAATCTGCCCTC
* *
30220449 TAGTTAGGGTAAAAGAGCTG
61 TGGTTAGGGTAAAAGA-TTG
* * * * * *
30220469 AAT--TACTTCAATCTGCCTTATGGTTAGGGTAAAAGATTGGATGGTCTTTAATCTGTCCTCTAG
1 GATGGT-CTTCAATCTGCCTCATGG-TCGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGG
30220532 TTAGGGTAAAAGATCT-
64 TTAGGGTAAAAGAT-TG
* * * * ** * * *
30220548 AATGGTCTACAATTTGCCCTC-TGGTTAGGGTAAAAGATTGGATGACCTTCAATTTTCCCTCTAG
1 GATGGTCTTCAATCTG-CCTCATGG-TCGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGG
*
30220612 TTAGGGTAAAAGATTA
64 TTAGGGTAAAAGATTG
* * * *
30220628 GA--GTGCTTCAATCTGCCTCATGGTCAGGGTAAGAGATTGGAT-GACTTCAATTTGCCCTCTAG
1 GATGGT-CTTCAATCTGCCTCATGGTC-GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGG
30220690 TTAGGGTAAAAGATTG
64 TTAGGGTAAAAGATTG
* * * * *
30220706 AACT--ACTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGGATGGTTTTCAATCTGCCCTCTGG
1 GA-TGGTCTTCAATCTGCCTCATGGTC-GGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGG
30220769 TTAGGGTAAAAGATTG
64 TTAGGGTAAAAGATTG
30220785 GATG
1 GATG
30220789 ATTTTCAAAA
Statistics
Matches: 778, Mismatches: 122, Indels: 105
0.77 0.12 0.10
Matches are distributed among these distances:
75 1 0.00
76 2 0.00
77 24 0.03
78 167 0.21
79 309 0.40
80 259 0.33
81 15 0.02
82 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (79 bp):
GATGGTCTTCAATCTGCCTCATGGTCGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTGGTT
AGGGTAAAAGATTG
Found at i:30220144 original size:157 final size:158
Alignment explanation
Indices: 30219886--30220292 Score: 407
Period size: 157 Copynumber: 2.6 Consensus size: 158
30219876 GATGGTCTTT
* * * *
30219886 AATTTGCCCTCTGGTCGGGGTAAAAGATTGGATGGTCTTCAATCTGCCTCATGGTCGGGTAAAAG
1 AATTTGCCCTATGATCGGGGTAAAAGATTAGATGGTCTTCAATCTGCCTCATGGTAGGGTAAAAG
* * *
30219951 ATTGAATGGTATTCAATCTGCCCTCTAATCGGGGTAAGAGATCGGATGTTCTTCAATCTGCCCTC
66 ATCGAATGGTATTCAATCTGCCCTCTAATCGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTC
30220016 TGGTTAAGGTAAAAGATTATATTACTTC
131 TGGTTAAGGTAAAAGATTATATTACTTC
* * *
30220044 AATTTGCCCTATGATCGGGG-AAGAGATTAGATGGT-TTCAATTTGCC-CTTTGGTTAGGGTAAA
1 AATTTGCCCTATGATCGGGGTAAAAGATTAGATGGTCTTCAATCTGCCTC-ATGG-TAGGGTAAA
* * **
30220106 AGATCGGATGGTCTTCAATCTGCCC-CATGGTCGAGGTAAGAGATCGGATGGTCTTCAATCTGCC
64 AGATCGAATGGTATTCAATCTGCCCTC-TAATCGAGGTAAGAGATCGGATGGTCTTCAATCTGCC
* * * ***
30220170 CTCT-GTTCAGGGTAAAATATCGGACGGT-CTTC
128 CTCTGGTT-AAGGTAAAAGAT--TATATTACTTC
* * * ** * * * *
30220202 ATTTTGCCCTCTGGTTAGGGTAAAAGATTGGATTG-CTTCAATCTGCCTCATGGTCGAGGTAAGA
1 AATTTGCCCTATGATCGGGGTAAAAGATTAGATGGTCTTCAATCTGCCTCATGGTAG-GGTAAAA
* *
30220266 GATC-AGATGATCTTCAATCTGCCCTCT
65 GATCGA-ATGGTATTCAATCTGCCCTCT
30220293 GGTTAGGGTA
Statistics
Matches: 203, Mismatches: 34, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
155 1 0.00
156 17 0.08
157 90 0.44
158 39 0.19
159 54 0.27
160 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (158 bp):
AATTTGCCCTATGATCGGGGTAAAAGATTAGATGGTCTTCAATCTGCCTCATGGTAGGGTAAAAG
ATCGAATGGTATTCAATCTGCCCTCTAATCGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTC
TGGTTAAGGTAAAAGATTATATTACTTC
Found at i:30220322 original size:276 final size:275
Alignment explanation
Indices: 30219780--30220788 Score: 906
Period size: 276 Copynumber: 3.6 Consensus size: 275
30219770 TGCCCCATAG
* **
30219780 TCGGGGTAAGAGATCTGGATTACTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCTGAATTACTT
1 TCGGGGTAAGAGAT-TAGATGGCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATC-GAATTACTT
* * * * * * *
30219845 CAATCTGTCCCATGATTGGGGTAAGAGATCGGATGGTCTTTAATTTGCCCTCTGGTCGGGGTAAA
64 CAATCTGCCCCATG-GTGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGTTCAGGGTAAA
* * * *
30219910 AGATTGGATGGTCTTCAATCTG-CCTCATGG-TCGGGTAAAAGATTGAATGGTATTCAATCTGCC
128 AGATCGGA-GGTCTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGTCTTCAATCTGCC
* * * * * **
30219973 CTCTAATCGGGGTAAGAGATCGGATGTTCTTCAATCTGCCCTCTGGTTAAGGTAAAAGATTATAT
191 CTCTAGTCGAGGTAAGAGATCAGATGATCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGAT
* *
30220038 TACTTCAATTTGCCCTATGA
256 TGCTTCAATTTACCCTATGA
* * * *
30220058 TCGGGG-AAGAGATTAGATGGTTTCAATTTGCCCTTTGGTTAGGGTAAAAGATCGGATGGT-CTT
1 TCGGGGTAAGAGATTAGATGGCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGAAT--TACTT
30220121 CAATCTGCCCCATGGTCGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGTTCAGGGTAAA
64 CAATCTGCCCCATGGT-GAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGTTCAGGGTAAA
* * * *
30220186 ATATCGGACGGTCTTCATTTTGCCCTCTGGTTAGGGTAAAAGATTGGATTG-CTTCAATCTG-CC
128 AGATCGGA-GGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCC
*
30220249 TCATGGTCGAGGTAAGAGATCAGATGATCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGAT
192 TC-TAGTCGAGGTAAGAGATCAGATGATCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGAT
* * *
30220314 TGCTTCAATCTACCCCATGG
256 TGCTTCAATTTACCCTATGA
* * * *
30220334 TCGGGGTAAGAGATTGGATGGCTTCAATCTACCCTCTGATTAGGGTAAAAGATTGAATTACTTCA
1 TCGGGGTAAGAGATTAGATGGCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGAATTACTTCA
* * * * * *
30220399 ATTTGCCCTC-TAGTTAGGGTAAAAGAGCTGAAT--TACTTCAATCTGCCCTCTAGTT-AGGGTA
66 ATCTGCCC-CATGGTGA-GGTAAGAGATC-GGATGGT-CTTCAATCTGCCCTCT-GTTCAGGGTA
* * ** * * * *
30220460 AAAGAGCTGAATTACTTCAATCTGCCTTATGGTTAGGGTAAAAGATTGGATGGTCTTTAATCTGT
126 AAAGATCGGAGGT-CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGTCTTCAATCTGC
* * * * *
30220525 CCTCTAGT-TAGGGTAAAAGATCTA-ATGGTCTACAATTTGCCCTCTGGTTAGGGTAAAAGATTG
190 CCTCTAGTCGA-GGTAAGAGATC-AGATGATCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTG
* *
30220588 GA-TGACCTTCAATTTTCCCTCT-A
253 GATTG--CTTCAATTTACCCTATGA
** * * * * * *
30220611 GTTAGGGTAAAAGATTAGA-GTGCTTCAATCTG-CCTCATGGTCAGGGTAAGAGATTGGATGACT
1 -TCGGGGTAAGAGATTAGATG-GCTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATCGAATTACT
* * * * * * * * *
30220674 TCAATTTGCCCTC-TAGTTAGGGTAAAAGATTGAACT--ACTTCAATCTGCCC-CATGGTCGGGG
63 TCAATCTGCCC-CATGGTGA-GGTAAGAGATCGGA-TGGTCTTCAATCTGCCCTC-TGTTCAGGG
* * *
30220735 TAAGAGATTGGATGGTTTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATG
124 TAAAAGATCGGA-GGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATG
30220789 ATTTTCAAAA
Statistics
Matches: 608, Mismatches: 96, Indels: 55
0.80 0.13 0.07
Matches are distributed among these distances:
275 12 0.02
276 290 0.48
277 207 0.34
278 99 0.16
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (275 bp):
TCGGGGTAAGAGATTAGATGGCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCGAATTACTTCA
ATCTGCCCCATGGTGAGGTAAGAGATCGGATGGTCTTCAATCTGCCCTCTGTTCAGGGTAAAAGA
TCGGAGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGTCTTCAATCTGCCCTCTA
GTCGAGGTAAGAGATCAGATGATCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTT
CAATTTACCCTATGA
Found at i:30220788 original size:40 final size:40
Alignment explanation
Indices: 30219802--30220788 Score: 778
Period size: 40 Copynumber: 24.9 Consensus size: 40
30219792 ATCTGGATTA
*
30219802 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATCTGAAT--T
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGAT-TGGATGGT
* * * * *
30219841 ACTTCAATCTGTCCC-ATGATTGGGGTAAGAGATCGGATGGT
1 -CTTCAATCTG-CCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * **
30219882 CTTTAATTTGCCCTCTGGTCGGGGTAAAAGATTGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* *
30219922 CTTCAATCTG-CCTCATGG-TCGGGTAAAAGATTGAATGGT
1 CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGT
* ** ** * * *
30219961 ATTCAATCTGCCCTCTAATCGGGGTAAGAGATCGGATGTT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* **
30220001 CTTCAATCTGCCCTCTGGTTAAGGTAAAAGATT--ATATT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * * * * * *
30220039 ACTTCAATTTGCCCTAT-GATCGGGGAAGAGATTAGATGGT
1 -CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
30220079 -TTCAATTTGCCCTTTGGTTAGGGTAAAAGATCGGATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
30220118 CTTCAATCTGCCC-CATGG-TCGAGGTAAGAGATCGGATGGT
1 CTTCAATCTGCCCTC-TGGTTAG-GGTAAAAGATTGGATGGT
* * *
30220158 CTTCAATCTGCCCTCT-GTTCAGGGTAAAATATCGGACGGT
1 CTTCAATCTGCCCTCTGGTT-AGGGTAAAAGATTGGATGGT
* * *
30220198 CTTCATTTTGCCCTCTGGTTAGGGTAAAAGATTGGATTG-
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * ** *
30220237 CTTCAATCTG-CCTCATGG-TCGAGGTAAGAGATCAGATGAT
1 CTTCAATCTGCCCTC-TGGTTAG-GGTAAAAGATTGGATGGT
*
30220277 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTG-
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* ** *
30220316 CTTCAATCTACCC-CATGGTCGGGGTAAGAGATTGGATGG-
1 CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGT
* * *
30220355 CTTCAATCTACCCTCTGATTAGGGTAAAAGATTGAAT--T
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * * *
30220393 ACTTCAATTTGCCCTCTAGTTAGGGTAAAAGAGCTGAAT--T
1 -CTTCAATCTGCCCTCTGGTTAGGGTAAAAGA-TTGGATGGT
* * *
30220433 ACTTCAATCTGCCCTCTAGTTAGGGTAAAAGAGCTGAAT--T
1 -CTTCAATCTGCCCTCTGGTTAGGGTAAAAGA-TTGGATGGT
* *
30220473 ACTTCAATCTGCCTTATGGTTAGGGTAAAAGATTGGATGGT
1 -CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * * *
30220514 CTTTAATCTGTCCTCTAGTTAGGGTAAAAGATCT-AATGGT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGAT-TGGATGGT
* * **
30220554 CTACAATTTGCCCTCTGGTTAGGGTAAAAGATTGGATGAC
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * * *
30220594 CTTCAATTTTCCCTCTAGTTAGGGTAAAAGATTAGA--GT
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
* * *
30220632 GCTTCAATCTG-CCTCATGGTCAGGGTAAGAGATTGGAT-GA
1 -CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGT
* * * *
30220672 CTTCAATTTGCCCTCTAGTTAGGGTAAAAGATTGAACT--A
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGA-TGGT
** *
30220711 CTTCAATCTGCCC-CATGGTCGGGGTAAGAGATTGGATGGT
1 CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATGGT
*
30220751 TTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATG
1 CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATG
30220789 ATTTTCAAAA
Statistics
Matches: 762, Mismatches: 144, Indels: 82
0.77 0.15 0.08
Matches are distributed among these distances:
38 42 0.06
39 269 0.35
40 433 0.57
41 18 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (40 bp):
CTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATGGT
Found at i:30220863 original size:40 final size:40
Alignment explanation
Indices: 30220810--30220921 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 40
30220800 GATTTGGTGG
* *
30220810 TCTTTAATCTATCCTCT-GTCTAGGGTAAAAGATAGAATGA
1 TCTTCAATTTATCCTCTAGT-TAGGGTAAAAGATAGAATGA
* * *
30220850 TCTTCAATTTATCCTCTAATTAGGGTAAAAGATTGGATGA
1 TCTTCAATTTATCCTCTAGTTAGGGTAAAAGATAGAATGA
** *
30220890 T-TTCAATTTGCCCTCTGGTTAGGGTAAAAGAT
1 TCTTCAATTTATCCTCTAGTTAGGGTAAAAGAT
30220922 TGGATTGCTT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 27 0.44
40 34 0.55
41 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (40 bp):
TCTTCAATTTATCCTCTAGTTAGGGTAAAAGATAGAATGA
Found at i:30220912 original size:39 final size:39
Alignment explanation
Indices: 30220822--30221326 Score: 359
Period size: 39 Copynumber: 12.9 Consensus size: 39
30220812 TTTAATCTAT
* * * **
30220822 CCTCT-GTCTAGGGTAAAAGATAGAATGATCTTCAATTTAT
1 CCTCTGGT-TAGGGTAAAAGATTGGATGA-CTTCAATCTGC
** * *
30220862 CCTCTAATTAGGGTAAAAGATTGGATGATTTCAATTTGC
1 CCTCTGGTTAGGGTAAAAGATTGGATGACTTCAATCTGC
*
30220901 CCTCTGGTTAGGGTAAAAGATTGGATTG-CTTTAATCTGC
1 CCTCTGGTTAGGGTAAAAGATTGGA-TGACTTCAATCTGC
* * * * * *
30220940 CC-CATGATTGGGGTAAGAGATTCGATGGTCTTCAATCTGT
1 CCTC-TGGTTAGGGTAAAAGATTGGAT-GACTTCAATCTGC
*
30220980 CCTCTGGTTAGGGTAAAAGATTGGATTG-CTTCAAACTGC
1 CCTCTGGTTAGGGTAAAAGATTGGA-TGACTTCAATCTGC
* * *
30221019 CC-CATGG-TCGGGTAAGAA-ATTGAATGGCTTCAATCTGC
1 CCTC-TGGTTAGGGTAA-AAGATTGGATGACTTCAATCTGC
* * *
30221057 TCTCTAGTTAGGGTAAAAGATTGGATTACTTCAATCTGC
1 CCTCTGGTTAGGGTAAAAGATTGGATGACTTCAATCTGC
* * * * *
30221096 CTTATGGTTAGGGTAAAAGATCTGAATTACTTCTATCTG-
1 CCTCTGGTTAGGGTAAAAGAT-TGGATGACTTCAATCTGC
* * * *
30221135 CCTCATGGTTGGGGTGAAAGATTGGATTACTTCAATCTAC
1 CCTC-TGGTTAGGGTAAAAGATTGGATGACTTCAATCTGC
** ** *
30221175 CC-CATAATCGGGGTAAGAGATTGGATGACTTCAATCTGC
1 CCTC-TGGTTAGGGTAAAAGATTGGATGACTTCAATCTGC
* **
30221214 CCTCTAGTTAGGGTAAAAGATTACACTG-CTTC-ATCTGC
1 CCTCTGGTTAGGGTAAAAGATTGGA-TGACTTCAATCTGC
** * * * *
30221252 CC-CATGGTCGGGGTAAGAGATTGAATGGTCTTCAATTTGC
1 CCTC-TGGTTAGGGTAAAAGATTGGAT-GACTTCAATCTGC
* *
30221292 CTTCTGGTTAGGGTAAAAGATTGGATAGTCTTCAA
1 CCTCTGGTTAGGGTAAAAGATTGGAT-GACTTCAA
30221327 ATGATGGTCT
Statistics
Matches: 371, Mismatches: 71, Indels: 46
0.76 0.15 0.09
Matches are distributed among these distances:
37 4 0.01
38 54 0.15
39 188 0.51
40 121 0.33
41 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.33
Consensus pattern (39 bp):
CCTCTGGTTAGGGTAAAAGATTGGATGACTTCAATCTGC
Found at i:30220974 original size:79 final size:79
Alignment explanation
Indices: 30220872--30221326 Score: 478
Period size: 79 Copynumber: 5.8 Consensus size: 79
30220862 CCTCTAATTA
* * * * *
30220872 GGGTAAAAGATTGGATGAT-TTCAATTTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTTAAT
1 GGGTAAGAGATTGAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
30220936 CTGCCCCATGATTG
66 CTGCCCCATGATTG
*
30220950 GGGTAAGAGATTCG-ATGGTCTTCAATCTGTCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAA
1 GGGTAAGAGATT-GAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAA
* * *
30221014 ACTGCCCCATG-GTC
65 TCTGCCCCATGATTG
* * * *
30221028 GGGTAAGAAATTGAATGG-CTTCAATCTGCTCTCTAGTTAGGGTAAAAGATTGGATTACTTCAAT
1 GGGTAAGAGATTGAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
** * *
30221092 CTGCCTTATGGTTA
66 CTGCCCCATGATTG
* * * * *
30221106 GGGTAAAAGATCTGAAT--TACTTCTATCTG-CCTCATGGTTGGGGTGAAAGATTGGATTACTTC
1 GGGTAAGAGAT-TGAATGGT-CTTCAATCTGCCCTC-TGGTTAGGGTAAAAGATTGGATTGCTTC
* * *
30221168 AATCTACCCCATAATCG
63 AATCTGCCCCATGATTG
* * * ** *
30221185 GGGTAAGAGATTGGAT-GACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTACACTGCTTC-AT
1 GGGTAAGAGATTGAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
* *
30221248 CTGCCCCATGGTCG
66 CTGCCCCATGATTG
* * *
30221262 GGGTAAGAGATTGAATGGTCTTCAATTTGCCTTCTGGTTAGGGTAAAAGATTGGATAGTCTTCAA
1 GGGTAAGAGATTGAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTG-CTTCAA
30221327 ATGATGGTCT
Statistics
Matches: 309, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
77 78 0.25
78 111 0.36
79 119 0.39
80 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (79 bp):
GGGTAAGAGATTGAATGGTCTTCAATCTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTCAAT
CTGCCCCATGATTG
Found at i:30221093 original size:156 final size:157
Alignment explanation
Indices: 30220872--30221327 Score: 532
Period size: 156 Copynumber: 2.9 Consensus size: 157
30220862 CCTCTAATTA
* * * * *
30220872 GGGTAA-AAGATTGGATGATTTCAATTTGCCCTCTGGTTAGGGTAAAAGATTGGATTGCTTTAAT
1 GGGTAAGAA-ATTGAATGACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAAT
*
30220936 CTGCCCCATGATTGGGGTAAGAGATTCG-ATGGTCTTCAATCTGTCCTCTGGTTAGGGTAAAAGA
65 CTGCCCCATGGTTGGGGTAAGAGATTCGAATGGTCTTCAATCTG-CCTCTGGTTAGGGTAAAAGA
* **
30221000 TTGGATTGCTTCAAACTGCCCCATGGTC-
129 TTGGATTGCTTCAAACTACCCCATAATCG
* * *
30221028 GGGTAAGAAATTGAATGGCTTCAATCTGCTCTCTAGTTAGGGTAAAAGATTGGATTACTTCAATC
1 GGGTAAGAAATTGAATGACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATC
** * * * * *
30221093 TGCCTTATGGTTAGGGTAAAAGA-TCTGAAT--TACTTCTATCTGCCTCATGGTTGGGGTGAAAG
66 TGCCCCATGGTTGGGGTAAGAGATTC-GAATGGT-CTTCAATCTGCCTC-TGGTTAGGGTAAAAG
* *
30221155 ATTGGATTACTTCAATCTACCCCATAATCG
128 ATTGGATTGCTTCAAACTACCCCATAATCG
* * ** *
30221185 GGGTAAGAGATTGGATGACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTACACTGCTTC-ATC
1 GGGTAAGAAATTGAATGACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATC
* *
30221249 TGCCCCATGGTCGGGGTAAGAGATT-GAATGGTCTTCAATTTGCCTTCTGGTTAGGGTAAAAGAT
66 TGCCCCATGGTTGGGGTAAGAGATTCGAATGGTCTTCAATCTGCC-TCTGGTTAGGGTAAAAGAT
*
30221313 TGGATAGTCTTCAAA
130 TGGATTG-CTTCAAA
30221328 TGATGGTCTT
Statistics
Matches: 248, Mismatches: 41, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
155 11 0.04
156 170 0.69
157 67 0.27
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (157 bp):
GGGTAAGAAATTGAATGACTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGGATTGCTTCAATC
TGCCCCATGGTTGGGGTAAGAGATTCGAATGGTCTTCAATCTGCCTCTGGTTAGGGTAAAAGATT
GGATTGCTTCAAACTACCCCATAATCG
Found at i:30222819 original size:5 final size:5
Alignment explanation
Indices: 30222809--30222859 Score: 52
Period size: 5 Copynumber: 9.8 Consensus size: 5
30222799 GACCTCCCCT
30222809 TTTTC TTTTC TTTTC TTCTT- TTTTCC TTTTC TTTCTC TTTTTC TTTT-
1 TTTTC TTTTC TTTTC TT-TTC TTTT-C TTTTC TTT-TC -TTTTC TTTTC
30222856 TTTT
1 TTTT
30222860 TAATTTTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
4 6 0.15
5 22 0.54
6 10 0.24
7 3 0.07
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:30222836 original size:27 final size:28
Alignment explanation
Indices: 30222809--30222877 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
30222799 GACCTCCCCT
30222809 TTTTCTTT-TC-TTTTCTTCTTTTTTCC
1 TTTTCTTTCTCTTTTTCTTCTTTTTTCC
* **
30222835 TTTTCTTTCTCTTTTTCTTTTTTTTTAA
1 TTTTCTTTCTCTTTTTCTTCTTTTTTCC
*
30222863 TTTT-TTTATCTTTTT
1 TTTTCTTTCTCTTTTT
30222878 TTTTGAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 8 0.22
27 12 0.32
28 17 0.46
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (28 bp):
TTTTCTTTCTCTTTTTCTTCTTTTTTCC
Found at i:30222837 original size:21 final size:18
Alignment explanation
Indices: 30222808--30222855 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 18
30222798 CGACCTCCCC
30222808 TTTTTCTTTTCTTTTCTTCT
1 TTTTTCTTTTC-TTTC-TCT
30222828 TTTTTCCTTTTCTTTCTC-
1 TTTTT-CTTTTCTTTCTCT
30222846 TTTTTCTTTT
1 TTTTTCTTTT
30222856 TTTTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 2 0.07
20 9 0.33
21 6 0.22
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTTTCTTTCTCT
Found at i:30222857 original size:8 final size:8
Alignment explanation
Indices: 30222814--30222858 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
30222804 CCCCTTTTTC
30222814 TTTTCTTT
1 TTTTCTTT
*
30222822 TCTTCTTT
1 TTTTCTTT
*
30222830 TTTCCTTT
1 TTTTCTTT
*
30222838 TCTTTCTCT
1 T-TTTCTTT
30222847 TTTTCTTT
1 TTTTCTTT
30222855 TTTT
1 TTTT
30222859 TTAATTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 24 0.80
9 6 0.20
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTCTTT
Found at i:30223769 original size:13 final size:14
Alignment explanation
Indices: 30223753--30223785 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
30223743 TCATTTTGAC
30223753 TTTTTCTTTGTT-T
1 TTTTTCTTTGTTCT
*
30223766 TTTTTCTTTTTTCT
1 TTTTTCTTTGTTCT
30223780 TTTTTC
1 TTTTTC
30223786 CTTAAGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (14 bp):
TTTTTCTTTGTTCT
Found at i:30223775 original size:7 final size:7
Alignment explanation
Indices: 30223753--30223785 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
30223743 TCATTTTGAC
30223753 TTTTTCT
1 TTTTTCT
*
30223760 TTGTT-T
1 TTTTTCT
30223766 TTTTTCT
1 TTTTTCT
30223773 TTTTTCT
1 TTTTTCT
30223780 TTTTTC
1 TTTTTC
30223786 CTTAAGTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (7 bp):
TTTTTCT
Found at i:30227286 original size:23 final size:23
Alignment explanation
Indices: 30227256--30227300 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
30227246 TTCAAAAAAA
* *
30227256 ACCGACACGCAGTGAGTTAGGGT
1 ACCGACACCCAGTAAGTTAGGGT
30227279 ACCGACACCCAGTAAGTTAGGG
1 ACCGACACCCAGTAAGTTAGGG
30227301 CATGATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.31, T:0.16
Consensus pattern (23 bp):
ACCGACACCCAGTAAGTTAGGGT
Found at i:30236501 original size:123 final size:122
Alignment explanation
Indices: 30235999--30236767 Score: 832
Period size: 123 Copynumber: 6.4 Consensus size: 122
30235989 AACACACTGT
* * * *
30235999 TTTGACCTACTTCTTTGTATCTCATCAGAAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC
1 TTTGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC
* * * * *
30236064 ACCTTATTGTTTGGGTCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTCATTG
66 ACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTG
* * * * * *
30236121 TTTGACCCGCTTCTCTGTATCTTATCAGGAAGATGGGTTTTCGAAGTTTTACTCACA-TGCGC-T
1 TTTGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTT-GAAGTTTCACTCACATTGAGCTT
* * * * *
30236184 CTGCTTCATTGA-TTTGGTCCACTTCTCTGTACCTCACCAGGAAGATGACCGCTTCATTG
65 C-ACCTCATT-ATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTG
* * *
30236243 TATCTAACCCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCT
1 T-T-TGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCT
** * ** * * * * **
30236308 TTGCTTCATTGA-TTTAAT-CTACTTCTTTGTACCTCACCAAGAAGATGATCGTTTCATTG
64 TCACCTCATT-ATTTTGGTAC-ACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTG
* * * * *
30236367 TCTAACTCACTTCTCTGTATCTCACCAGGAAGATGGGATTTGAAGTTTCACTCATATTTGAGCTT
1 TTTGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTTGAAGTTTCACTCACA-TTGAGCTT
* *
30236432 CACCTCATTATTTTGGTACACTTCTCTGAATCTCACCAGGAAGATGATCACTTCATTG
65 CACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTG
* * * * *
30236490 TTTGATCCACTTCTCTGTACCTCACTAGGAAAATGGGGTTTGAAGTTTCACTCACATTTGATCTT
1 TTTGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTTGAAGTTTCACTCACA-TTGAGCTT
* * *
30236555 CACCTTATTATTTTGGTACACTTCTTTGAATCTCACCAGGAAGATGACCACTTCATTG
65 CACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTG
* * *
30236613 TTTGATCCACTTCTCTGTACCTCACTAGGAAGAT-GGGTTTGAAGTTTCACTCACATTTGAGCTT
1 TTTGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTTGAAGTTTCACTCACA-TTGAGCTT
* *
30236677 CACCTTATTATTTTGGTACACTTCTC--TA--T----A--TAGATGACCACTTCATTG
65 CACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTG
* *
30236725 TTTGACCCACTTCTTTGTACCTCACCAGGAAGATGGGGTTTGA
1 TTTGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTTGA
30236768 TGTCAAAGCT
Statistics
Matches: 567, Mismatches: 68, Indels: 33
0.85 0.10 0.05
Matches are distributed among these distances:
112 48 0.08
113 8 0.01
114 1 0.00
118 1 0.00
120 1 0.00
121 2 0.00
122 192 0.34
123 224 0.40
124 89 0.16
125 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (122 bp):
TTTGACCCACTTCTCTGTATCTCACCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTC
ACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTG
Found at i:30236973 original size:49 final size:49
Alignment explanation
Indices: 30236920--30237198 Score: 195
Period size: 50 Copynumber: 5.7 Consensus size: 49
30236910 AAGATTTATT
* * * *
30236920 GTTACGGCTTCGATCTTTCCCATCACATCTTCATGGTATCGGGTTCGCC
1 GTTACGGCCTCAACCTTTCCCATCACATCTTCACGGTATCGGGTTCGCC
* * * *
30236969 GTTACGGCCTCAACCTTTACCTTCATATCTTCACGGTATCGGGTTCGCT
1 GTTACGGCCTCAACCTTTCCCATCACATCTTCACGGTATCGGGTTCGCC
* * * * *
30237018 GTTCCAGCCTCAACCTTTCCCATCACATCTTTTAAGGTA-CTGGGTTCGCT
1 GTTACGGCCTCAACCTTTCCCATCACATC-TTCACGGTATC-GGGTTCGCC
* * * * * *** *
30237068 ATTGCAGCCTCAACCTTTCCCATCACAT-TTCATGGTACCATATTTGCC
1 GTTACGGCCTCAACCTTTCCCATCACATCTTCACGGTATCGGGTTCGCC
* * * * * *
30237116 GTTGCGGCCTCAATCC-TTCCCATTATATCTTCTAAGGTACCGGGTCCGCC
1 GTTACGGCCTCAA-CCTTTCCCATCACATCTTC-ACGGTATCGGGTTCGCC
* ** * * *
30237166 ATTGTGACCTCAACCTTTCCCTTCAAATCTTCA
1 GTTACGGCCTCAACCTTTCCCATCACATCTTCA
30237199 TGTTTCCTTG
Statistics
Matches: 183, Mismatches: 40, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
48 32 0.17
49 75 0.41
50 76 0.42
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (49 bp):
GTTACGGCCTCAACCTTTCCCATCACATCTTCACGGTATCGGGTTCGCC
Found at i:30237079 original size:50 final size:49
Alignment explanation
Indices: 30236934--30237104 Score: 202
Period size: 49 Copynumber: 3.5 Consensus size: 49
30236924 CGGCTTCGAT
* * *
30236934 CTTTCCCATCACATCTTCATGGTATCGGGTTCGCCGTTACGGCCTCAAC
1 CTTTCCCATCACATCTTCAAGGTATCGGGTTCGCTGTTACAGCCTCAAC
* * * * *
30236983 CTTTACCTTCATATCTTCACGGTATCGGGTTCGCTGTTCCAGCCTCAAC
1 CTTTCCCATCACATCTTCAAGGTATCGGGTTCGCTGTTACAGCCTCAAC
* * *
30237032 CTTTCCCATCACATCTTTTAAGGTA-CTGGGTTCGCTATTGCAGCCTCAAC
1 CTTTCCCATCACATC-TTCAAGGTATC-GGGTTCGCTGTTACAGCCTCAAC
*
30237082 CTTTCCCATCACAT-TTCATGGTA
1 CTTTCCCATCACATCTTCAAGGTA
30237105 CCATATTTGC
Statistics
Matches: 104, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
48 7 0.07
49 55 0.53
50 42 0.40
ACGTcount: A:0.18, C:0.32, G:0.16, T:0.34
Consensus pattern (49 bp):
CTTTCCCATCACATCTTCAAGGTATCGGGTTCGCTGTTACAGCCTCAAC
Found at i:30238199 original size:18 final size:18
Alignment explanation
Indices: 30238149--30238201 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
30238139 ACCTCTCCTC
*
30238149 TCTTTTCTTTCTCTTTTG
1 TCTTTTCTTTATCTTTTG
* *
30238167 T-TGTTTTTTTTTCTTTTG
1 TCT-TTTCTTTATCTTTTG
30238185 TCTTTTCTTTATCTTTT
1 TCTTTTCTTTATCTTTT
30238202 TTTGGTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.02, C:0.15, G:0.06, T:0.77
Consensus pattern (18 bp):
TCTTTTCTTTATCTTTTG
Found at i:30240092 original size:50 final size:44
Alignment explanation
Indices: 30240005--30240094 Score: 108
Period size: 44 Copynumber: 1.9 Consensus size: 44
30239995 CATTAACGAT
*
30240005 ATTAATAGTAATACTAATAATAATTTATAATATTAAATAATATC
1 ATTAATAGTAATACTAATAATAATTTATAATAATAAATAATATC
*
30240049 ATTAATAGTAATACAGTAATTAATGATATTATTAATTAATAAATAA
1 ATTAATAGTAATAC--TAA-TAATAAT-TTA-TAA-TAATAAATAA
30240095 ATAAGAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 14 0.37
46 3 0.08
47 6 0.16
48 3 0.08
49 3 0.08
50 9 0.24
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (44 bp):
ATTAATAGTAATACTAATAATAATTTATAATAATAAATAATATC
Found at i:30241223 original size:58 final size:58
Alignment explanation
Indices: 30241096--30241524 Score: 483
Period size: 59 Copynumber: 7.3 Consensus size: 58
30241086 ACACTGTCCA
* * *
30241096 AAAATTACCA-TTTACCCCCTAACTTTCTAAAATCCCA-TTTTAAACCCGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* *
30241152 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
** * *
30241210 AAAATTACCATTTTACCCCTGAACTTTCCTAAATCCTATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * *
30241268 -AAATTACCATTATATACCCTCAAACTTTCTAAAATCCCACTTTTAACCCTGATTTCACC
1 AAAATTACCATT-T-TACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * *
30241327 AAAATTATCATTTTACCCCCCTAAACTTTCCAAAATCCTACTTTTAACCCC-ATTTCACT
1 AAAATTACCATTTTA-CCCCC-AAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * ** *
30241386 ATAAATTACCATTTTAACCCTCGAACTTTCCAAAATCCCATTTTTAAACCTAATTTTACC
1 A-AAATTACCATTTT-ACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
* * * * *
30241446 AAAATTACCATTTTACCCCTAAA-TTTCCTAAAATCCCATTTTTGACCTCAATTTCATCA
1 AAAATTACCATTTTACCCCCAAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCA-CC
30241505 AAAATTA-CATTTTTACCCCC
1 AAAATTACCA-TTTTACCCCC
30241525 GAAAGTCAAA
Statistics
Matches: 316, Mismatches: 44, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
56 10 0.03
57 40 0.13
58 102 0.32
59 104 0.33
60 59 0.19
61 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:30241315 original size:59 final size:58
Alignment explanation
Indices: 30241096--30241523 Score: 460
Period size: 58 Copynumber: 7.3 Consensus size: 58
30241086 ACACTGTCCA
*
30241096 AAAATTACCA-TTTACCCCCT-AACTTTCTAAAATCCCA-TTTTAAACCCGATTTCACC
1 AAAATTACCATTTTA-CCCCTAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACC
* * * *
30241152 AAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAATTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACC
* *
30241210 AAAATTACCATTTTACCCCTGAACTTTCCT-AAATCCTATTTTTAACCCCGATTTCACC
1 AAAATTACCATTTTACCCCTAAACTTT-CTAAAATCCCATTTTTAACCCCGATTTCACC
* *
30241268 -AAATTACCATTATATA-CCCTCAAACTTTCTAAAATCCCACTTTTAACCCTGATTTCACC
1 AAAATTACCATT-T-TACCCCT-AAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACC
* * * * *
30241327 AAAATTATCATTTTACCCCCCTAAACTTTCCAAAATCCTACTTTTAACCCC-ATTTCACT
1 AAAATTACCATTTTA--CCCCTAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACC
* * * * ** *
30241386 ATAAATTACCATTTTAACCCTCGAACTTTCCAAAATCCCATTTTTAAACCTAATTTTACC
1 A-AAATTACCATTTTACCCCT-AAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACC
* * * *
30241446 AAAATTACCATTTTACCCCTAAA-TTTCCTAAAATCCCATTTTTGACCTCAATTTCATCA
1 AAAATTACCATTTTACCCCTAAACTTT-CTAAAATCCCATTTTTAACCCCGATTTCA-CC
30241505 AAAATTA-CATTTTTACCCC
1 AAAATTACCA-TTTTACCCC
30241524 CGAAAGTCAA
Statistics
Matches: 316, Mismatches: 38, Indels: 33
0.82 0.10 0.09
Matches are distributed among these distances:
56 14 0.04
57 33 0.10
58 107 0.34
59 102 0.32
60 56 0.18
61 4 0.01
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (58 bp):
AAAATTACCATTTTACCCCTAAACTTTCTAAAATCCCATTTTTAACCCCGATTTCACC
Found at i:30241466 original size:29 final size:28
Alignment explanation
Indices: 30241096--30241487 Score: 147
Period size: 29 Copynumber: 13.5 Consensus size: 28
30241086 ACACTGTCCA
*
30241096 AAAATTACCA-TTTACCCCCTAACTTTCT
1 AAAATTACCATTTTA-CCCCTAACTTTCC
* * *
30241124 AAAA-TCCCATTTTAAACCC-GA-TTTCACC
1 AAAATTACCATTTT-ACCCCTAACTTT--CC
*
30241152 AAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATTACCATTTTA-CCCCTAACTTTCC
* *
30241181 AAAATT-CCATTTTTAACCCC-GATTTTACC
1 AAAATTACCA-TTTT-ACCCCTAACTTT-CC
30241210 AAAATTACCATTTTACCCCTGAACTTTCC
1 AAAATTACCATTTTACCCCT-AACTTTCC
* *
30241239 TAAA-T-CCTATTTTTAACCCC-GA-TTTCAC
1 AAAATTACC-A-TTTT-ACCCCTAACTTTC-C
* * *
30241267 CAAATTACCATTATATACCCTCAAACTTTCT
1 AAAATTACCATT-T-TACCC-CTAACTTTCC
* * *
30241298 AAAA-TCCCACTTTTAACCCTGA-TTTCACC
1 AAAATTACCA-TTTTACCCCTAACTTT--CC
*
30241327 AAAATTATCATTTTACCCCCCTAAACTTTCC
1 AAAATTACCATTTTA--CCCCT-AACTTTCC
30241358 AAAA-T-CCTACTTTTAACCCC--A-TTTCAC
1 AAAATTACC-A-TTTT-ACCCCTAACTTTC-C
*
30241385 TATAAATTACCATTTTAACCCTCGAACTTTCC
1 -A-AAATTACCATTTT-ACCC-CTAACTTTCC
* ** *
30241417 AAAA-TCCCATTTTTAAACCTAATTTTACC
1 AAAATTACCA-TTTTACCCCTAACTTT-CC
*
30241446 AAAATTACCATTTTACCCCTAAATTTCC
1 AAAATTACCATTTTACCCCTAACTTTCC
*
30241474 TAAAA-TCCCATTTT
1 -AAAATTACCATTTT
30241488 TGACCTCAAT
Statistics
Matches: 278, Mismatches: 37, Indels: 98
0.67 0.09 0.24
Matches are distributed among these distances:
26 7 0.03
27 16 0.06
28 56 0.20
29 112 0.40
30 46 0.17
31 26 0.09
32 8 0.03
33 7 0.03
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCTAACTTTCC
Found at i:30241507 original size:29 final size:28
Alignment explanation
Indices: 30241416--30241507 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
30241406 TCGAACTTTC
* *
30241416 CAAAATCCCATTTTTAAACCTAATTTTAC
1 CAAAATCCCATTTTT-AACCTAATTTCAT
* * *
30241445 CAAAATTACCA-TTTTACCCCTAAATTTCCT
1 CAAAA-TCCCATTTTTA-ACCT-AATTTCAT
*
30241475 -AAAATCCCATTTTTGACCTCAATTTCAT
1 CAAAATCCCATTTTTAACCT-AATTTCAT
30241503 CAAAA
1 CAAAA
30241508 ATTACATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 10
0.71 0.15 0.15
Matches are distributed among these distances:
28 15 0.31
29 24 0.50
30 9 0.19
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (28 bp):
CAAAATCCCATTTTTAACCTAATTTCAT
Found at i:30247750 original size:58 final size:58
Alignment explanation
Indices: 30247677--30248334 Score: 819
Period size: 58 Copynumber: 11.3 Consensus size: 58
30247667 TTAGACTGTC
*
30247677 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCTCGATTTCA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* *
30247735 CAAAAATTACCATTTTACCCCC-AACTTTCCAAAATCCCATTTTTAAACGCGATGTT-A
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGAT-TTCA
* * *
30247792 CCAAAAATTACCATTTT-CCCCTAAACTTTCCAAAATCCCATTTTTAACCCCAATTTTA
1 -CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * * *
30247850 CCAAAATTACCATTTTACCCCCGAACTTTCCAAAATCCCATTTTTATCCCCGATTTTA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
30247908 CCAAAAATTACCATTTTACCCCCAAACTTTCCTAAATCCCATTTTTAA-CCCAATTTTA
1 -CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * ** * *
30247966 CCAAAATTATCATTTTACCCTTAAACTTTCCAAAATCCCACTTTTAACCTCGATTTCA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * * * *
30248024 CCAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCAATTTTAACCCTGATTTCA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
30248082 CTAAAAATTATCATTTTA-CCCCGAACTTTCGAAAATCCCATTTTTAACCCCGATTTCA
1 C-AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* * *
30248140 CCAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCACTTTTAACCCCGATTTCA
1 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
*** ** *
30248198 CTAAAAATTACCATTTTACCCTTGAACTTTCCAAAATCCCATTTTTAACCCTAATTTTA
1 C-AAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
* ** * *
30248257 C-CAAATTACCATTTTACCCTTAAA-TTTCCTAAAATCCCATTTTTGACCTCGATTTCA
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAAATCCCATTTTTAACCCCGATTTCA
30248314 TCAAAAATTA-CATTTTTACCC
1 -CAAAAATTACCA-TTTTACCC
30248335 TCGGAAGTCA
Statistics
Matches: 528, Mismatches: 58, Indels: 27
0.86 0.09 0.04
Matches are distributed among these distances:
56 5 0.01
57 149 0.28
58 252 0.48
59 122 0.23
ACGTcount: A:0.33, C:0.30, G:0.02, T:0.35
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACCCCGATTTCA
Found at i:30250927 original size:71 final size:71
Alignment explanation
Indices: 30250806--30250962 Score: 242
Period size: 71 Copynumber: 2.2 Consensus size: 71
30250796 ATACCTGCCT
* * *
30250806 GACTTGTACCGATACAACCATAACTTATACCGGTAGAACAAGCTCTAGAGAGCAAAAAAGTTACG
1 GACTTCTACCGATACAACCATAACTTATACCGGTAGAACAAACTCCAGAGAGCAAAAAAGTTACG
30250871 GCCTGG
66 GCCTGG
* * * **
30250877 GACTTCTACCGATACAACCATGACTTCTACCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTG
1 GACTTCTACCGATACAACCATAACTTATACCGGTAGAACAAACTCCAGAGAGCAAAAAAGTTACG
30250942 GCCTGG
66 GCCTGG
30250948 GACTTCTACCGATAC
1 GACTTCTACCGATAC
30250963 CTTGAAGGCT
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 78 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (71 bp):
GACTTCTACCGATACAACCATAACTTATACCGGTAGAACAAACTCCAGAGAGCAAAAAAGTTACG
GCCTGG
Found at i:30254819 original size:10 final size:10
Alignment explanation
Indices: 30254804--30254829 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30254794 ATTTTTTTAA
30254804 AAAAGGATTT
1 AAAAGGATTT
30254814 AAAAGGATTT
1 AAAAGGATTT
30254824 AAAAGG
1 AAAAGG
30254830 TAACTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (10 bp):
AAAAGGATTT
Found at i:30256191 original size:15 final size:14
Alignment explanation
Indices: 30256145--30256191 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
30256135 TCGAATACAA
30256145 TTTGTTTTTTTGCT-
1 TTTG-TTTTTTGCTC
30256159 TTTGTTTTTTGCTC
1 TTTGTTTTTTGCTC
*
30256173 -TTGTTGTTTTGGTC
1 TTTGTT-TTTTGCTC
30256187 TTTGT
1 TTTGT
30256192 CTCTGTGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 14 0.48
14 11 0.38
15 4 0.14
ACGTcount: A:0.00, C:0.09, G:0.19, T:0.72
Consensus pattern (14 bp):
TTTGTTTTTTGCTC
Found at i:30257468 original size:123 final size:122
Alignment explanation
Indices: 30257158--30257617 Score: 552
Period size: 123 Copynumber: 3.7 Consensus size: 122
30257148 GCTTCCTTGA
* * * * *
30257158 TTTGGT-CTACTTCTCTGTACCTCACTAGGAAGATGATCGCTTCATTGTATCTAACCCACTTCTC
1 TTTGGTAC-ACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTGT-T-TGACCCACTTCTC
* * * *
30257222 TGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCACA-TTGAGCTTCGCTTCATTGA-
63 TGTATCTCACCAGGAAGATG-GGTTTGAAGTTTCACTCATATTTGAGCTTCACCTCATT-AT
* * * *
30257282 TTTGGT-CTACTTCTCTGTACCTCATCAGGAAGATGACCGCTTCATTGTCTGACCCACTTCTCTG
1 TTTGGTAC-ACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTGTTTGACCCACTTCTCTG
*
30257346 TATCTCACCAGGAAGATGGGATTTGAAGTTTCACTCATATTTGAGCTCCACCTCATTAT
65 TATCTCACCAGGAAGATGGG-TTTGAAGTTTCACTCATATTTGAGCTTCACCTCATTAT
* * * * *
30257405 TTTGGTACACTACTCTGTATCTCACCAAGAACATGACCACTTTATTATTTGACCCACTTCTCTGT
1 TTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTGTTTGACCCACTTCTCTGT
* * *
30257470 ACCTCACTAGGAAGATGGGGTTTGAAGTTTCACTC-TCATTTGAGCTTCACCTTATTAT
66 ATCTCACCAGGAAGAT-GGGTTTGAAGTTTCACTCAT-ATTTGAGCTTCACCTCATTAT
* * *
30257528 TTTTGTACACTTCTCTGTATCTCACCAGGAAGATAACCACTTCATTGTTTGACCCACTTCTCTAT
1 TTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTGTTTGACCCACTTCTCTGT
* *
30257593 ATCTTAACAGGAAGATTGGGTTTGA
66 ATCTCACCAGGAAGA-TGGGTTTGA
30257618 TGTTGAAGCT
Statistics
Matches: 294, Mismatches: 35, Indels: 15
0.85 0.10 0.04
Matches are distributed among these distances:
121 2 0.01
122 50 0.17
123 192 0.65
124 50 0.17
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.36
Consensus pattern (122 bp):
TTTGGTACACTTCTCTGTATCTCACCAGGAAGATGACCACTTCATTGTTTGACCCACTTCTCTGT
ATCTCACCAGGAAGATGGGTTTGAAGTTTCACTCATATTTGAGCTTCACCTCATTAT
Found at i:30257955 original size:98 final size:97
Alignment explanation
Indices: 30257774--30258051 Score: 227
Period size: 104 Copynumber: 2.8 Consensus size: 97
30257764 TTTATCATTA
* * * * * *
30257774 CGGCCTCGATCTTTCCCATCATATCTTCATGGTACCGGGTTCACCGTTGCGGCCTCAATCTTTCC
1 CGGCCTCAACCTTTCCCATCACATCTTCAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCC
** * *
30257839 TTTTATATCTTTAGGTACCGGGTTCGTCGTTG
66 CATCACATCTTTAGGTACCGGGTTCGTCGTTG
* * * *
30257871 CGGCCTCAACCTTTCCTATCACATCTTCTAAGGTATCAGGTTTACCGTTGCGTCCTCAACCTTTC
1 CGGCCTCAACCTTTCCCATCACATCTTC-AAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTC
* * *
30257936 CCATCACATTTCTTA-GTACCAGATTAGCCGTAGCCGTTG
65 CCATCACATCT-TTAGGTACCGGGTT---CGT---CGTTG
* * * * * *
30257975 CGGCCTCAATCC-TTCCCATCATATCTTCTAAGTTACCGGGTTCGCCATTGTGGCCTCAACCTTT
1 CGGCCTCAA-CCTTTCCCATCACATCTTC-AAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTT
* *
30258039 CCCTTCAAATCTT
64 CCCATCACATCTT
30258052 CATGTTTTCT
Statistics
Matches: 142, Mismatches: 30, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
97 24 0.17
98 44 0.31
99 3 0.02
101 3 0.02
103 1 0.01
104 65 0.46
105 2 0.01
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (97 bp):
CGGCCTCAACCTTTCCCATCACATCTTCAAGGTACCAGGTTCACCGTTGCGGCCTCAACCTTTCC
CATCACATCTTTAGGTACCGGGTTCGTCGTTG
Found at i:30258041 original size:50 final size:50
Alignment explanation
Indices: 30257774--30258052 Score: 228
Period size: 50 Copynumber: 5.6 Consensus size: 50
30257764 TTTATCATTA
* * * *
30257774 CGGCCTCGATCTTTCCCATCATATCTTC-ATGGTACCGGGTTCACCGTTG
1 CGGCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTG
* ** * *
30257823 CGGCCTCAATCTTTCCTTTTATATCTT-T-AGGTACCGGGTTCGTCGTTG
1 CGGCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTG
* * * * **
30257871 CGGCCTCAACCTTTCCTATCACATCTTCTAAGGTATCAGGTTTACCGTTG
1 CGGCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTG
* * * * *
30257921 CGTCCTCAACCTTTCCCATCACAT-TTCTTA-GTACCAGATTAGCCGTAGCCGTTG
1 CGGCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGGTT---C---GCCGTTG
* *
30257975 CGGCCTCAATCC-TTCCCATCATATCTTCTAAGTTACCGGGTTCGCCATTG
1 CGGCCTCAA-CCTTTCCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTG
* * *
30258025 TGGCCTCAACCTTTCCCTTCAAATCTTC
1 CGGCCTCAACCTTTCCCATCATATCTTC
30258053 ATGTTTTCTT
Statistics
Matches: 184, Mismatches: 33, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
48 48 0.26
49 31 0.17
50 65 0.35
53 1 0.01
54 25 0.14
55 7 0.04
56 7 0.04
ACGTcount: A:0.17, C:0.32, G:0.16, T:0.34
Consensus pattern (50 bp):
CGGCCTCAACCTTTCCCATCATATCTTCTAAGGTACCGGGTTCGCCGTTG
Found at i:30259876 original size:13 final size:13
Alignment explanation
Indices: 30259867--30259891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30259857 TTTTTTTCCT
30259867 CTTATTTTTTGAC
1 CTTATTTTTTGAC
30259880 CTTATTTTTTGA
1 CTTATTTTTTGA
30259892 TAACATGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.12, G:0.08, T:0.64
Consensus pattern (13 bp):
CTTATTTTTTGAC
Found at i:30263855 original size:10 final size:10
Alignment explanation
Indices: 30263840--30263865 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
30263830 ATTTTTTTAA
30263840 AAAAGGATTT
1 AAAAGGATTT
30263850 AAAAGGATTT
1 AAAAGGATTT
30263860 AAAAGG
1 AAAAGG
30263866 TAACTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (10 bp):
AAAAGGATTT
Found at i:30265730 original size:18 final size:18
Alignment explanation
Indices: 30265707--30265745 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30265697 AAAAATCAAA
*
30265707 TTTCACTTCAATTCT-ATT
1 TTTCACATC-ATTCTCATT
30265725 TTTCACATCATTCTCATT
1 TTTCACATCATTCTCATT
30265743 TTT
1 TTT
30265746 GTCCAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCACATCATTCTCATT
Found at i:30266782 original size:16 final size:18
Alignment explanation
Indices: 30266750--30266787 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
30266740 TTTCTTTCTT
30266750 TTATATTTATAAATATTA
1 TTATATTTATAAATATTA
30266768 TTATA-TTAT-AATATTA
1 TTATATTTATAAATATTA
30266784 TTAT
1 TTAT
30266788 TAATTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTTATAAATATTA
Found at i:30273593 original size:2 final size:2
Alignment explanation
Indices: 30273586--30273629 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
30273576 AAGATAATAG
* *
30273586 TA TA TA TA TG TG TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30273627 TA T
1 TA T
30273630 CCCAAAACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30281613 original size:22 final size:21
Alignment explanation
Indices: 30281584--30281624 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
30281574 CCAACTGCCA
30281584 TGGGGTTGCGACACGAAAGCT
1 TGGGGTTGCGACACGAAAGCT
*
30281605 TGGGTGTTGCGACACTAAAG
1 TGGG-GTTGCGACACGAAAG
30281625 AGCAACGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (21 bp):
TGGGGTTGCGACACGAAAGCT
Found at i:30282889 original size:16 final size:17
Alignment explanation
Indices: 30282865--30282904 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
30282855 GAAACTAAAT
*
30282865 AACTAAAATAAATAAAC
1 AACTAAAATAAACAAAC
30282882 AA-TAAAATAAACAAAC
1 AACTAAAATAAACAAAC
30282898 AACTAAA
1 AACTAAA
30282905 CCGATTAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (17 bp):
AACTAAAATAAACAAAC
Found at i:30287018 original size:15 final size:15
Alignment explanation
Indices: 30286998--30287035 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
30286988 CAAGTTAGCT
30286998 TAATTGAATTTAATA
1 TAATTGAATTTAATA
30287013 TAATTGAATTTAATA
1 TAATTGAATTTAATA
30287028 TAATTGAA
1 TAATTGAA
30287036 GCACCAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
TAATTGAATTTAATA
Found at i:30289157 original size:138 final size:138
Alignment explanation
Indices: 30288899--30289451 Score: 748
Period size: 138 Copynumber: 4.0 Consensus size: 138
30288889 ACAACTTGTG
* * *
30288899 TGAGAAGCATCGTGAGTCGAGAAAATGTTGAAATGAATCCTGGATTGGATTACACGGCCCTACGA
1 TGAGCAGCATCGTGAGTCGAGAAAATGTTGAAATGAATCCTGGATTGGATTACATGGCCCTA-AA
* * *
30288964 GTGGTTGAGATTTATGCATGAATTGCGTATTCTCAACAACTTGTGTGAGTAGCATCGTTAGGGAA
65 ATGGTTGAGATTTATGCATGAATTGCATATTCTCAACAACTTGTGTGAGCAGCATCGTTAGGGAA
*
30289029 CATGTATAT
130 CATATATAT
* * ** *
30289038 TGGGCAGCATCGTGAGTCGAGAAAATGTTCAAATGAATCCCAGATTGGATTACATTGCCCTAAAA
1 TGAGCAGCATCGTGAGTCGAGAAAATGTTGAAATGAATCCTGGATTGGATTACATGGCCCTAAAA
*
30289103 TGGTTGAGATTTATGCATGAATTGCATATTCTCAATAACTTGTGTGAGCAGCATCGTTAGGGAAC
66 TGGTTGAGATTTATGCATGAATTGCATATTCTCAACAACTTGTGTGAGCAGCATCGTTAGGGAAC
*
30289168 AAATATAT
131 ATATATAT
* * **
30289176 TGAGCAGCATTGTGAGTCGGGAAAATGTTGAAATGAATCCTGGATTGGATTACATGGCCCTATGA
1 TGAGCAGCATCGTGAGTCGAGAAAATGTTGAAATGAATCCTGGATTGGATTACATGGCCCTAAAA
* ** * * *
30289241 TGGTTGAGATTTATGCATGAATTGCATATTCTTAGTAGCTTGTGTGAGCAGTATCGTTAGGAAAC
66 TGGTTGAGATTTATGCATGAATTGCATATTCTCAACAACTTGTGTGAGCAGCATCGTTAGGGAAC
*
30289306 AGATATAT
131 ATATATAT
** * * **
30289314 TGAGCAGCATTATGAGTC-AGGAAAATGTTGAAATGAATCCTGGATTGGACTACATGGCCTTACG
1 TGAGCAGCATCGTGAGTCGA-GAAAATGTTGAAATGAATCCTGGATTGGATTACATGGCCCTAAA
* * * * *
30289378 ATGGCTGAGATTTATGCATGAATTGCATATTCTCAACAGCTTGTGTGAGCAACATCATTAAGGAA
65 ATGGTTGAGATTTATGCATGAATTGCATATTCTCAACAACTTGTGTGAGCAGCATCGTTAGGGAA
*
30289443 TATATATAT
130 CATATATAT
30289452 ACCGTAACGA
Statistics
Matches: 368, Mismatches: 45, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
138 313 0.85
139 55 0.15
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (138 bp):
TGAGCAGCATCGTGAGTCGAGAAAATGTTGAAATGAATCCTGGATTGGATTACATGGCCCTAAAA
TGGTTGAGATTTATGCATGAATTGCATATTCTCAACAACTTGTGTGAGCAGCATCGTTAGGGAAC
ATATATAT
Found at i:30296410 original size:3 final size:3
Alignment explanation
Indices: 30296402--30296467 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
30296392 TTCGGAACAA
*
30296402 CTT CTT CTT CTT CTT CGTT -TT CCTT C-T CTT CTT -TT CCTT CAT CTT
1 CTT CTT CTT CTT CTT C-TT CTT -CTT CTT CTT CTT CTT -CTT CTT CTT
*
30296447 -TT CTT CTT TTT CTT -TT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CT
30296468 GCTTTAATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
2 10 0.20
3 35 0.69
4 6 0.12
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:30296446 original size:15 final size:15
Alignment explanation
Indices: 30296408--30296446 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
30296398 ACAACTTCTT
30296408 CTTCTTCTTCGTTTTC
1 CTTC-TCTTCGTTTTC
30296424 CTTCTCTTC-TTTTC
1 CTTCTCTTCGTTTTC
30296438 CTTCATCTT
1 CTTC-TCTT
30296447 TTCTTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.41
15 9 0.41
16 4 0.18
ACGTcount: A:0.03, C:0.33, G:0.03, T:0.62
Consensus pattern (15 bp):
CTTCTCTTCGTTTTC
Found at i:30303597 original size:18 final size:17
Alignment explanation
Indices: 30303574--30303607 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
30303564 TTTAAAAGAA
30303574 AATCAACAAAAGATTAGT
1 AATCAACAAAAG-TTAGT
*
30303592 AATCAATAAAAGTTAG
1 AATCAACAAAAGTTAG
30303608 AAAAGGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.24
Consensus pattern (17 bp):
AATCAACAAAAGTTAGT
Found at i:30306823 original size:52 final size:52
Alignment explanation
Indices: 30306703--30306946 Score: 275
Period size: 52 Copynumber: 4.8 Consensus size: 52
30306693 ATTTCACTTC
* * * * * **
30306703 ATTCATATACTCACGATGACACATAGCCACCGGACCT-TATAATTCGCAAGGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCT-TAATCCGTAAAAG
** *
30306755 ATTCA-A-A-T-ACGATGACACAGAGTCATCGGACCTCTTAATCCGTAAATG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAAG
** * *
30306803 ACCCATATACTCACGATGACAGTTAGTCATCGAACCT-TTAAATCCGTAAAAG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTT-AATCCGTAAAAG
* * *
30306855 ATTCATATACTCATGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAAG
30306907 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTT
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTT
30306947 CGTTTATGGC
Statistics
Matches: 163, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
48 34 0.21
49 3 0.02
50 2 0.01
51 4 0.02
52 118 0.72
53 2 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTAATCCGTAAAAG
Found at i:30314093 original size:52 final size:53
Alignment explanation
Indices: 30313989--30314139 Score: 134
Period size: 52 Copynumber: 2.9 Consensus size: 53
30313979 ACATAGCCAC
* ** * * *
30313989 CGGACCTTATAATCCGCAAGGGATTCGTATATTCACGATGACA--TAGAGTCAT
1 CGGACCTT-TAATCCGTAAAAGACTCATATACTCACGATGACACTTAGAGTCAT
30314041 C-GACCCTCTTAATCCGTAAAAGAC-CTATATACTCACGATGACACTTA-A-TCAT
1 CGGA-CCT-TTAATCCGTAAAAGACTC-ATATACTCACGATGACACTTAGAGTCAT
* * * *
30314093 CGGACCTTTTATTCGTAAAGGATTCATATACTCACGATGACACTTAG
1 CGGACCTTTAATCCGTAAAAGACTCATATACTCACGATGACACTTAG
30314140 TATTTAACCA
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
51 36 0.44
52 39 0.48
53 4 0.05
54 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (53 bp):
CGGACCTTTAATCCGTAAAAGACTCATATACTCACGATGACACTTAGAGTCAT
Found at i:30325369 original size:52 final size:52
Alignment explanation
Indices: 30325282--30325526 Score: 307
Period size: 52 Copynumber: 4.7 Consensus size: 52
30325272 AATTCACTTC
* * * *
30325282 ATTCATATACTCATGATGACACATAG-C-TACTGGACCTTATAATCCGTAAGGG
1 ATTCATATACTCACGATGACACTTAGTCAT-C-GGACCTTTTAATCCGTAAAGG
* * *
30325334 ATTCGTATACTCACGATGACA-TAGAGTCATCGGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACT-TAGTCATCGGACCTTTTAATCCGTAAAGG
** * *
30325386 ACCCAAATACTCACGATGACACTTAGTCATAGGACCTTTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGG
* *
30325438 ATTCATATAATCACGATGACACTTAGTCATCGAACCTTTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGG
* *
30325490 ATTCATATACTCACGATGACACTTAGTTATCGTACCT
1 ATTCATATACTCACGATGACACTTAGTCATCGGACCT
30325527 CTTCGTTTAT
Statistics
Matches: 166, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
52 162 0.98
53 3 0.02
54 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.29
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACTTAGTCATCGGACCTTTTAATCCGTAAAGG
Found at i:30339758 original size:17 final size:19
Alignment explanation
Indices: 30339732--30339776 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
30339722 ATAGTTTGCA
*
30339732 TGCATCTTTA-TTT-TCAT
1 TGCATTTTTATTTTGTCAT
30339749 TGCATTTTTATTTTGTCAT
1 TGCATTTTTATTTTGTCAT
30339768 TGCATTTTT
1 TGCATTTTT
30339777 TTTGTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.09, T:0.62
Consensus pattern (19 bp):
TGCATTTTTATTTTGTCAT
Found at i:30339779 original size:17 final size:17
Alignment explanation
Indices: 30339732--30339781 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
30339722 ATAGTTTGCA
*
30339732 TGCATCTTTATTT-TCAT
1 TGCAT-TTTTTTTGTCAT
30339749 TGCATTTTTATTTTGTCAT
1 TGCA-TTTT-TTTTGTCAT
30339768 TGCATTTTTTTTGT
1 TGCATTTTTTTTGT
30339782 TAATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 13 0.45
18 8 0.28
19 8 0.28
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (17 bp):
TGCATTTTTTTTGTCAT
Found at i:30347601 original size:19 final size:19
Alignment explanation
Indices: 30347556--30347604 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
30347546 TTAGTAATTT
* *
30347556 TATATACATATTTTTTTACA
1 TATATATATA-TTTTATACA
*
30347576 AAT-TATATATTTTATACA
1 TATATATATATTTTATACA
30347594 TATATATATAT
1 TATATATATAT
30347605 ATATATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 10 0.42
19 12 0.50
20 2 0.08
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
TATATATATATTTTATACA
Found at i:30351748 original size:13 final size:14
Alignment explanation
Indices: 30351723--30351765 Score: 63
Period size: 13 Copynumber: 3.2 Consensus size: 14
30351713 CGAACATGAA
*
30351723 CTCTAAACCCGAAT
1 CTCTAAACTCGAAT
30351737 CT-TAAACTCGAAT
1 CTCTAAACTCGAAT
30351750 -TCTAAACTCGAAT
1 CTCTAAACTCGAAT
30351763 CTC
1 CTC
30351766 AAATTCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 21 0.81
14 4 0.15
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (14 bp):
CTCTAAACTCGAAT
Found at i:30351946 original size:27 final size:26
Alignment explanation
Indices: 30351879--30351946 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
30351869 TTTGAGGTTT
30351879 GAATTCAAAATTCAAAACTTAAATTC
1 GAATTCAAAATTCAAAACTTAAATTC
* *
30351905 GATATTGAAAGTTCAAAA-TTCGAAATTC
1 GA-ATTCAAAATTCAAAACTT--AAATTC
*
30351933 GAATTTAAAATTCA
1 GAATTCAAAATTCA
30351947 GGGTTCCACT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.11
27 23 0.66
28 8 0.23
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (26 bp):
GAATTCAAAATTCAAAACTTAAATTC
Found at i:30352269 original size:21 final size:21
Alignment explanation
Indices: 30352245--30352284 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30352235 CTCTGAATCA
* *
30352245 TGAATTTCGAATTCAAAACCT
1 TGAACTTCGAACTCAAAACCT
30352266 TGAACTTCGAACTCAAAAC
1 TGAACTTCGAACTCAAAAC
30352285 TCCAAATCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (21 bp):
TGAACTTCGAACTCAAAACCT
Found at i:30355107 original size:4 final size:4
Alignment explanation
Indices: 30355098--30355167 Score: 63
Period size: 4 Copynumber: 17.5 Consensus size: 4
30355088 AATAAAAGGG
* * *
30355098 GAAA GAAA GAAAA GAAA GAAA G-AA GAAA GAAA GGAA GAAG GAGAG GAAA
1 GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA GAAA
* *
30355147 CAAA G-AA GAAT GAAA GAAA GA
1 GAAA GAAA GAAA GAAA GAAA GA
30355168 TAATGTGTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
3 6 0.11
4 40 0.74
5 8 0.15
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:30358176 original size:14 final size:14
Alignment explanation
Indices: 30358157--30358195 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
30358147 CATGTATAGG
*
30358157 GTTTAAGGTTTGAA
1 GTTTAAGGTTTAAA
30358171 GTTTAAGGTTTAAA
1 GTTTAAGGTTTAAA
*
30358185 GTTTATGGTTT
1 GTTTAAGGTTT
30358196 TACGTGTCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (14 bp):
GTTTAAGGTTTAAA
Found at i:30358474 original size:21 final size:21
Alignment explanation
Indices: 30358450--30358496 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
30358440 TTAGGGTCTA
* *
30358450 ATTGCACC-GGAGGGGTAGAGT
1 ATTGC-CCGGGAGGAGTAAAGT
30358471 ATTGCCCGGGAGGAGTAAAGT
1 ATTGCCCGGGAGGAGTAAAGT
30358492 ATTGC
1 ATTGC
30358497 GATGGCTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (21 bp):
ATTGCCCGGGAGGAGTAAAGT
Found at i:30360473 original size:16 final size:16
Alignment explanation
Indices: 30360452--30360501 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
30360442 TTATGGAGAT
30360452 ATTATTTTGATAATTA
1 ATTATTTTGATAATTA
*
30360468 ATTATTTT-TTATATT-
1 ATTATTTTGATA-ATTA
*
30360483 A-TATTTTGGTAATTA
1 ATTATTTTGATAATTA
30360498 ATTA
1 ATTA
30360502 GCTAGATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
ATTATTTTGATAATTA
Found at i:30361413 original size:6 final size:6
Alignment explanation
Indices: 30361402--30361445 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
30361392 CATTACCTTT
* *
30361402 TTCTCC TTCTCC TTCTCC TTCTCC TTCTTC -TCTTC TTCTCC TTC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTC
30361446 CTTCTTTCTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.14
6 30 0.86
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (6 bp):
TTCTCC
Found at i:30361438 original size:3 final size:3
Alignment explanation
Indices: 30361402--30361468 Score: 55
Period size: 3 Copynumber: 21.7 Consensus size: 3
30361392 CATTACCTTT
* * * * *
30361402 TTC TCC TTC TCC TTC TCC TTC TCC TTC TTC -TC TTC TTC TCC TTCC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C
30361447 TTC TTTC TTC TTC TTCC TTC TT
1 TTC -TTC TTC TTC TT-C TTC TT
30361469 TCTTTCTTTC
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 39 0.78
4 9 0.18
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (3 bp):
TTC
Found at i:30361441 original size:17 final size:17
Alignment explanation
Indices: 30361402--30361484 Score: 75
Period size: 17 Copynumber: 4.9 Consensus size: 17
30361392 CATTACCTTT
* *
30361402 TTCTCCTTCTCCTTCTCC
1 TTCTCCTTCTTC-TCTTC
30361420 TTCTCCTTCTTCTCTTC
1 TTCTCCTTCTTCTCTTC
30361437 TTCTCCTTCCTTCT-TTC
1 TTCTCCTT-CTTCTCTTC
*
30361454 TTCTTCTTCCTTCT-TTC
1 TTCTCCTT-CTTCTCTTC
*
30361471 TT-TCTTTCTT-TCTT
1 TTCTCCTTCTTCTCTT
30361485 TTTTTTCTCT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.02
15 5 0.09
16 3 0.05
17 33 0.57
18 16 0.28
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (17 bp):
TTCTCCTTCTTCTCTTC
Found at i:30361471 original size:4 final size:4
Alignment explanation
Indices: 30361447--30361512 Score: 56
Period size: 4 Copynumber: 17.8 Consensus size: 4
30361437 TTCTCCTTCC
*
30361447 TTCT TTC- TTC- TTC- TTCC TTCT TTCT TTCT TTCT TTCT TT-T TT-T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT
30361490 TCTCT CTT-T TTCT TTCT TT-T TTC
1 T-TCT -TTCT TTCT TTCT TTCT TTC
30361513 CTTCAATTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
3 19 0.35
4 33 0.60
5 2 0.04
6 1 0.02
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:30361471 original size:21 final size:21
Alignment explanation
Indices: 30361408--30361512 Score: 80
Period size: 21 Copynumber: 5.1 Consensus size: 21
30361398 CTTTTTCTCC
*
30361408 TTCTCCTTC-TCCTTCTCCTTCT
1 TTCTTCTTCTTCCTTCT--TTCT
*
30361430 TCTCTTCTTC-TCCTTCCTTCT
1 T-TCTTCTTCTTCCTTCTTTCT
30361451 TTCTTCTTCTTCCTTCTTTCT
1 TTCTTCTTCTTCCTTCTTTCT
*
30361472 TTC-T-TTCTTTCTT-TTT-T
1 TTCTTCTTCTTCCTTCTTTCT
* *
30361489 TTCTCTCTTTTTCTTTCTTT-T
1 TTCT-TCTTCTTCCTTCTTTCT
30361510 TTC
1 TTC
30361513 CTTCAATTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.06
18 3 0.04
19 9 0.13
20 15 0.21
21 25 0.36
22 1 0.01
23 13 0.19
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTTCTTCTTCCTTCTTTCT
Found at i:30361497 original size:13 final size:14
Alignment explanation
Indices: 30361471--30361506 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
30361461 TCCTTCTTTC
*
30361471 TTTCTTTCTTTCTT
1 TTTCTTTCTCTCTT
30361485 TTT-TTTCTCTCTT
1 TTTCTTTCTCTCTT
30361498 TTTCTTTCT
1 TTTCTTTCT
30361507 TTTTTCCTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTCTTTCTCTCTT
Found at i:30362530 original size:15 final size:15
Alignment explanation
Indices: 30362510--30362545 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
30362500 CTAACATAAT
30362510 TAACTAACTAGCAGC
1 TAACTAACTAGCAGC
* *
30362525 TAACTAACTATCTGC
1 TAACTAACTAGCAGC
30362540 TAACTA
1 TAACTA
30362546 TAAACTATAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (15 bp):
TAACTAACTAGCAGC
Found at i:30365183 original size:21 final size:24
Alignment explanation
Indices: 30365139--30365193 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 24
30365129 TGAATAGTAG
*
30365139 GTATCGGTAGTTCTGTGTATGCTT
1 GTATCGGTAGTTCAGTGTATGCTT
30365163 GTATCGGTAGTT-AG-G-ATGCTT
1 GTATCGGTAGTTCAGTGTATGCTT
*
30365184 GCATCGGTAG
1 GTATCGGTAG
30365194 AAGTTGCAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 15 0.52
22 1 0.03
23 1 0.03
24 12 0.41
ACGTcount: A:0.16, C:0.13, G:0.33, T:0.38
Consensus pattern (24 bp):
GTATCGGTAGTTCAGTGTATGCTT
Found at i:30367806 original size:21 final size:21
Alignment explanation
Indices: 30367759--30367818 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
30367749 AATAGTGTAG
* *
30367759 ACTTCTACTGATACAAGTGGC
1 ACTTCTACCGATACAAGTGAC
*
30367780 AGTTCTACCGATACAAGTGAC
1 ACTTCTACCGATACAAGTGAC
* * *
30367801 TCTTCTACCAAAACAAGT
1 ACTTCTACCGATACAAGT
30367819 TTTACTTCCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTGAC
Found at i:30368985 original size:21 final size:21
Alignment explanation
Indices: 30368960--30369012 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
30368950 GCTAGCTCTC
30368960 TCTACCGATACAAGT-ATG-A
1 TCTACCGATACAAGTCATGCA
* *
30368979 TTTCTACCAATATAAGTCATGCA
1 --TCTACCGATACAAGTCATGCA
30369002 TCTACCGATAC
1 TCTACCGATAC
30369013 CAAAAACTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 22 0.85
22 3 0.12
23 1 0.04
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (21 bp):
TCTACCGATACAAGTCATGCA
Found at i:30370831 original size:20 final size:22
Alignment explanation
Indices: 30370806--30370847 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30370796 TCATTAAGCT
*
30370806 TTAATT-AACC-ATTTTTAATC
1 TTAATTAAACCTATTTATAATC
30370826 TTAATTAAACCTATTTATAATC
1 TTAATTAAACCTATTTATAATC
30370848 AATATAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 4 0.21
22 9 0.47
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATTAAACCTATTTATAATC
Found at i:30372116 original size:20 final size:20
Alignment explanation
Indices: 30372080--30372129 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
30372070 TCATTAAGCT
*
30372080 TTAATTAATCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
30372100 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
30372120 TTAATATAAA
1 TTAAT-TAAA
30372130 TCATGTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:30394033 original size:21 final size:23
Alignment explanation
Indices: 30393977--30394035 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
30393967 ATAGTGTAGA
*
30393977 CTTCTACCGATACAAGTGGCAGT
1 CTTCTACCGATACAAGTGGCACT
30394000 C-TCTA-CGATACAAGT-G-ACT
1 CTTCTACCGATACAAGTGGCACT
*
30394019 CTTCTACCGAAACAAGT
1 CTTCTACCGATACAAGT
30394036 CTTACTTCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 5 0.16
21 19 0.59
22 4 0.12
23 1 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (23 bp):
CTTCTACCGATACAAGTGGCACT
Found at i:30396594 original size:37 final size:37
Alignment explanation
Indices: 30396569--30396752 Score: 210
Period size: 37 Copynumber: 5.0 Consensus size: 37
30396559 TAGCCCGATT
*
30396569 ACACCGACACGAAGCCTACTAGGCACATAA-CCTGAAA
1 ACACCGGCACGAAGCCTACTAGGCACA-AAGCCTGAAA
* ** * *
30396606 TCACCGGCATAAAGCCTACTAGGCATACAGCCTGAAA
1 ACACCGGCACGAAGCCTACTAGGCACAAAGCCTGAAA
* * *
30396643 ATACCGGCATGAAGCCTACTAGGCATAAAGCCTGAAA
1 ACACCGGCACGAAGCCTACTAGGCACAAAGCCTGAAA
* *
30396680 ACACCGGCACGAAGCCTATTAGGCACAAAGCCTAAAA
1 ACACCGGCACGAAGCCTACTAGGCACAAAGCCTGAAA
** *
30396717 ACACCGGCATAAAGCCTAC-ATGGCACAAAGCTTGAA
1 ACACCGGCACGAAGCCTACTA-GGCACAAAGCCTGAA
30396753 TTTTTAGATG
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
36 2 0.02
37 123 0.98
ACGTcount: A:0.39, C:0.29, G:0.19, T:0.14
Consensus pattern (37 bp):
ACACCGGCACGAAGCCTACTAGGCACAAAGCCTGAAA
Found at i:30396632 original size:16 final size:16
Alignment explanation
Indices: 30396611--30396675 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 16
30396601 TGAAATCACC
30396611 GGCATAAAGCCTACTA
1 GGCATAAAGCCTACTA
* *
30396627 GGCATACAGCCTGAAAATA
1 GGCATAAAGCCT---ACTA
*
30396646 CCGGCATGAAGCCTACTA
1 --GGCATAAAGCCTACTA
30396664 GGCATAAAGCCT
1 GGCATAAAGCCT
30396676 GAAAACACCG
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
16 22 0.58
18 3 0.08
19 3 0.08
21 10 0.26
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.17
Consensus pattern (16 bp):
GGCATAAAGCCTACTA
Found at i:30396658 original size:21 final size:21
Alignment explanation
Indices: 30396634--30396696 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
30396624 CTAGGCATAC
30396634 AGCCTGAAAATACCGGCATGA
1 AGCCTGAAAATACCGGCATGA
* *
30396655 AGCCT---ACTA--GGCATAA
1 AGCCTGAAAATACCGGCATGA
* *
30396671 AGCCTGAAAACACCGGCACGA
1 AGCCTGAAAATACCGGCATGA
30396692 AGCCT
1 AGCCT
30396697 ATTAGGCACA
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 11 0.35
18 3 0.10
19 2 0.06
21 15 0.48
ACGTcount: A:0.37, C:0.29, G:0.22, T:0.13
Consensus pattern (21 bp):
AGCCTGAAAATACCGGCATGA
Found at i:30397043 original size:28 final size:28
Alignment explanation
Indices: 30397012--30397071 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
30397002 TTAACCTAAC
30397012 ATAATACATTGATTCATTTTATCACAAA
1 ATAATACATTGATTCATTTTATCACAAA
30397040 ATAATACATTGATTCATTTTATCACAAA
1 ATAATACATTGATTCATTTTATCACAAA
30397068 ATAA
1 ATAA
30397072 ATAAAGAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.38
Consensus pattern (28 bp):
ATAATACATTGATTCATTTTATCACAAA
Found at i:30403385 original size:19 final size:19
Alignment explanation
Indices: 30403361--30403421 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
30403351 GTAATACAAC
30403361 GTGCGACAGTAACGATGGT
1 GTGCGACAGTAACGATGGT
* *
30403380 GTGCGACGGTGACAACGATGAT
1 GTGCGACAGT---AACGATGGT
* *
30403402 GTGCGACAGCAACGTTGGT
1 GTGCGACAGTAACGATGGT
30403421 G
1 G
30403422 CTTCGGCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 17 0.52
22 16 0.48
ACGTcount: A:0.25, C:0.18, G:0.38, T:0.20
Consensus pattern (19 bp):
GTGCGACAGTAACGATGGT
Found at i:30405099 original size:30 final size:30
Alignment explanation
Indices: 30405063--30405123 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
30405053 ATCTTTGCTG
30405063 TAGTATGTGAACCACTAAAGTGTCCCCCAC
1 TAGTATGTGAACCACTAAAGTGTCCCCCAC
30405093 TAGTATGTGAACCACTAAAGTGTCCCCCAC
1 TAGTATGTGAACCACTAAAGTGTCCCCCAC
30405123 T
1 T
30405124 TGGGGATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (30 bp):
TAGTATGTGAACCACTAAAGTGTCCCCCAC
Found at i:30417198 original size:37 final size:36
Alignment explanation
Indices: 30417066--30417289 Score: 164
Period size: 37 Copynumber: 5.9 Consensus size: 36
30417056 GTTCTTGGAT
* * * * **
30417066 CACCGGCACAAAGCCTGCTAGGCACATAGCCTGATTA
1 CACCGACACGAAGCCTACTAGGCACA-AACCTGAAAA
* *
30417103 CACCGGCACGAAGCCTACTAGGCACATAGCCT-AAATCA
1 CACCGACACGAAGCCTACTAGGCACA-AACCTGAAA--A
* *
30417141 TCGGCACGACACGAATCCTACTAGGCACACAACCTGAAAA
1 -C-AC-CGACACGAAGCCTACTAGGCACA-AACCTGAAAA
* * * *
30417181 CACCGACACAAAGCCTACAAGGTACAAAGCCTGAAAG
1 CACCGACACGAAGCCTACTAGGCACAAA-CCTGAAAA
*
30417218 CACC-AGCACGAAGCCTACTAGGCACAAAGCCTAAAAA
1 CACCGA-CACGAAGCCTACTAGGCACAAA-CCTGAAAA
** *
30417255 CACCGGGACGAAGCCTACTAGGCAGAAAGCCTGAA
1 CACCGACACGAAGCCTACTAGGCACAAA-CCTGAA
30417290 TTTTTAGATG
Statistics
Matches: 154, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
36 4 0.03
37 116 0.75
38 2 0.01
39 2 0.01
40 2 0.01
41 25 0.16
42 3 0.02
ACGTcount: A:0.37, C:0.32, G:0.20, T:0.11
Consensus pattern (36 bp):
CACCGACACGAAGCCTACTAGGCACAAACCTGAAAA
Done.