Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 57 of 425
Found at i:15572384 original size:52 final size:50
Alignment explanation
Indices: 15572038--15572575 Score: 767
Period size: 48 Copynumber: 10.9 Consensus size: 50
15572028 TTGATGCATA
* *
15572038 AGATATGTATATGTGATAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
15572086 AGGTATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
15572136 AGATATGTATATGTGGTAAAG-CTAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATG
*
15572187 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
15572235 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
15572283 AGATATGCATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
15572331 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATG
* *
15572383 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATG
*
15572435 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
* *
15572485 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
15572533 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
15572576 GTAGGCGATG
Statistics
Matches: 454, Mismatches: 23, Indels: 24
0.91 0.05 0.05
Matches are distributed among these distances:
48 217 0.48
49 19 0.04
50 78 0.17
51 37 0.08
52 103 0.23
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (50 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:15572775 original size:37 final size:37
Alignment explanation
Indices: 15572725--15572832 Score: 180
Period size: 37 Copynumber: 2.9 Consensus size: 37
15572715 GGAAATATAT
15572725 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
15572762 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
15572799 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
15572833 TCATCTGAGC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:15579265 original size:40 final size:40
Alignment explanation
Indices: 15579220--15579387 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
15579210 CGGAATATAA
15579220 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
15579260 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
15579300 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
15579340 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
15579380 CCGGATAT
1 CCGGATAT
15579388 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:15587280 original size:40 final size:40
Alignment explanation
Indices: 15587235--15587401 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
15587225 CGGAATATAA
15587235 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
15587275 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
15587315 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
15587355 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
15587394 CCGGATAT
1 CCGGATAT
15587402 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:15590089 original size:40 final size:40
Alignment explanation
Indices: 15590044--15590211 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
15590034 CGGAATATAA
15590044 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
15590084 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
15590124 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
15590164 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
15590204 CCGGATAT
1 CCGGATAT
15590212 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:15592568 original size:25 final size:25
Alignment explanation
Indices: 15592540--15592607 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
15592530 TATACATTAC
15592540 AATTATATTTAACTACACCTAATGA
1 AATTATATTTAACTACACCTAATGA
*
15592565 AATTATATTTAACTACACCTTATGA
1 AATTATATTTAACTACACCTAATGA
15592590 AATTATATTTAACTACAC
1 AATTATATTTAACTACAC
15592608 ACTTTAGTCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (25 bp):
AATTATATTTAACTACACCTAATGA
Found at i:15592964 original size:35 final size:34
Alignment explanation
Indices: 15592900--15592966 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
15592890 ATACATATGA
**
15592900 TTAAATTAATTAATCTTAATTACTTTAACAAAAG
1 TTAAATTAATTAATCTTAATTACAATAACAAAAG
*
15592934 TTAAATTAATTAATTCTTAGTTTA-AATAACAAA
1 TTAAATTAATTAA-TCTTA-ATTACAATAACAAA
15592967 TTACTGGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
34 13 0.46
35 12 0.43
36 3 0.11
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.42
Consensus pattern (34 bp):
TTAAATTAATTAATCTTAATTACAATAACAAAAG
Found at i:15609567 original size:22 final size:22
Alignment explanation
Indices: 15609542--15609585 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15609532 AGTACATATC
15609542 ATACTTATCAATACAACCTATT
1 ATACTTATCAATACAACCTATT
15609564 ATACTTATCAATACAACCTATT
1 ATACTTATCAATACAACCTATT
15609586 TCAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (22 bp):
ATACTTATCAATACAACCTATT
Found at i:15610636 original size:43 final size:43
Alignment explanation
Indices: 15610571--15610737 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
15610561 AGCTCGTACA
* *
15610571 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * *
15610613 ATGCCACTATCCCAGACAGGGTCTTACATGAAATCAAATAACG
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
* * **
15610656 ATGCTAATATCCCAGACATGGTCTTACACGTAATCACA-ATAAA
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATAT-CG
* * *
15610699 ATACCAATTTCCCAAACATGGTCTTACATGTAATCACAT
1 ATGCCAATATCCCAGACATGGTCTTACATGTAATCACAT
15610738 CTCGGTAATC
Statistics
Matches: 101, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 6 0.06
43 95 0.94
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:15611664 original size:2 final size:2
Alignment explanation
Indices: 15611657--15611686 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
15611647 CAACAAATGG
15611657 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15611687 TACCGTGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15613713 original size:40 final size:40
Alignment explanation
Indices: 15613652--15613779 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 40
15613642 AATTATTGTA
* * * * *
15613652 TAATTACACATACATGTCCCTATTTGTACTTCGGTGCCCC
1 TAATTGCACATACAGGCCCCTATTTGTACTTCAGTACCCC
** * *
15613692 TAATTGCACATATGGGCCCCTATTTGTACTCCAGTACCCT
1 TAATTGCACATACAGGCCCCTATTTGTACTTCAGTACCCC
* * * * *
15613732 TGATTGCACATACATGCCCCTGTTTGTACTTTAGCA-CCC
1 TAATTGCACATACAGGCCCCTATTTGTACTTCAGTACCCC
*
15613771 TAAATGCAC
1 TAATTGCAC
15613780 TTTCGGGCCT
Statistics
Matches: 68, Mismatches: 20, Indels: 1
0.76 0.22 0.01
Matches are distributed among these distances:
39 9 0.13
40 59 0.87
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (40 bp):
TAATTGCACATACAGGCCCCTATTTGTACTTCAGTACCCC
Found at i:15615848 original size:43 final size:43
Alignment explanation
Indices: 15615807--15615970 Score: 220
Period size: 43 Copynumber: 3.8 Consensus size: 43
15615797 GCGCTGCTAT
* ***
15615807 AGAACATGACCTTTAGCGGCGCTTTTCCCACAAACATTGCTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
* *
15615850 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACGCCATTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
* * * *
15615893 AAAACATGACCTTTCGTGGTGCTTTCCCCACAAACACCACTAA
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
* *
15615936 AGAACATTACCTTTAGCGTCGCTTTCCCCACAAAC
1 AGAACATGACCTTTAGCGGCGCTTTCCCCACAAAC
15615971 GCTGCTAAGG
Statistics
Matches: 103, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAA
Found at i:15615899 original size:86 final size:86
Alignment explanation
Indices: 15615809--15615972 Score: 247
Period size: 86 Copynumber: 1.9 Consensus size: 86
15615799 GCTGCTATAG
* ***
15615809 AACATGACCTTTAGCGGCGCTTTTCCCACAAACATTGCTAAAGAACATGACCTTTAGCGGCGCTT
1 AACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAAAGAACATGACCTTTAGCGGCGCTT
15615874 TCCCCACAAACGCCATTAAAA
66 TCCCCACAAACGCCATTAAAA
* * * * *
15615895 AACATGACCTTTCGTGGTGCTTTCCCCACAAACACCACTAAAGAACATTACCTTTAGCGTCGCTT
1 AACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAAAGAACATGACCTTTAGCGGCGCTT
15615960 TCCCCACAAACGC
66 TCCCCACAAACGC
15615973 TGCTAAGGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (86 bp):
AACATGACCTTTAGCGGCGCTTTCCCCACAAACACCACTAAAGAACATGACCTTTAGCGGCGCTT
TCCCCACAAACGCCATTAAAA
Found at i:15617410 original size:21 final size:22
Alignment explanation
Indices: 15617365--15617418 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
15617355 TGCAAGGCTC
*
15617365 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
15617387 ACACGCCCGTGT-GACCTTGGG
1 ACACGCCCGTGTGGACCAAGGG
15617408 ACACGCCCGTG
1 ACACGCCCGTG
15617419 CTAGAGGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.17, C:0.35, G:0.33, T:0.15
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:15618919 original size:49 final size:49
Alignment explanation
Indices: 15618842--15619086 Score: 247
Period size: 49 Copynumber: 4.9 Consensus size: 49
15618832 TAGCCAAAGC
* * * *
15618842 TATCTGGTACGCATAGTAGCCTGCACTTAGTAGTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* ** *
15618891 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTAACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AAT
* * * * * * *
15618941 CATCTGATACACGTAGAAGCTTGCACTTAGTGCTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-T
* * * * *
15618992 TATCGGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
15619041 AATCTGGTACAGGTAGTAGCCTGTACTTAGTACTACACACGTGACC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
15619087 TCACAATAGA
Statistics
Matches: 157, Mismatches: 36, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
49 77 0.49
50 44 0.28
51 36 0.23
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:15619017 original size:101 final size:100
Alignment explanation
Indices: 15618859--15619084 Score: 258
Period size: 100 Copynumber: 2.3 Consensus size: 100
15618849 TACGCATAGT
* * * * *
15618859 AGCCTGCACTTAGTAGTACACATGCGA-CCAA-TTATCCGGTACACGTAGTAGCCTGCACTTAGT
1 AGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCCGGTACACATAGTAGCCTGCACTTAGT
* *
15618922 ACTACACACGTAACCTAACCATCTGATACACGTAGA
66 ACTACACACGCAACC-AACAATCTGATACACGTAGA
* * * * *
15618958 AGCTTGCACTTAGTGCTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCTTGCACTTAGT
1 AGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCCGGTACACATAGTAGCCTGCACTTAGT
* * * * * *
15619023 ACTACACATGCGACCAATAATCTGGTACAGGTAGT
66 ACTACACACGCAACCAACAATCTGATACACGTAGA
*
15619058 AGCCTGTACTTAGTACTACACACGTGA
1 AGCCTGCACTTAGTACTACACACGTGA
15619085 CCTCACAATA
Statistics
Matches: 104, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
99 22 0.21
100 42 0.40
101 40 0.38
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (100 bp):
AGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCCGGTACACATAGTAGCCTGCACTTAGT
ACTACACACGCAACCAACAATCTGATACACGTAGA
Found at i:15622432 original size:29 final size:29
Alignment explanation
Indices: 15622390--15622448 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
15622380 TTTTCTATGT
15622390 TTCCATGGATGAGTCACCAAAAATCTACA
1 TTCCATGGATGAGTCACCAAAAATCTACA
*
15622419 TTCCATGGATGAGTCACCAAGAATCTACA
1 TTCCATGGATGAGTCACCAAAAATCTACA
15622448 T
1 T
15622449 ACTTTTCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (29 bp):
TTCCATGGATGAGTCACCAAAAATCTACA
Found at i:15627694 original size:9 final size:9
Alignment explanation
Indices: 15627680--15627842 Score: 92
Period size: 9 Copynumber: 18.6 Consensus size: 9
15627670 CTTTAAATGT
15627680 TTATGTAAG
1 TTATGTAAG
15627689 TTATGTAAG
1 TTATGTAAG
15627698 TTATG-ATA-
1 TTATGTA-AG
* *
15627706 TGATGTATAT
1 TTATGTA-AG
15627716 TTATG-AA-
1 TTATGTAAG
15627723 TTATGTAAG
1 TTATGTAAG
*
15627732 TTATGATATG
1 TTATG-TAAG
* * *
15627742 ATATAT-AT
1 TTATGTAAG
15627750 TTATGTAA-
1 TTATGTAAG
*
15627758 TTAATGTAAT
1 TT-ATGTAAG
15627768 TTATGTAAG
1 TTATGTAAG
15627777 TTATGTAAG
1 TTATGTAAG
*
15627786 TTATGTAAT
1 TTATGTAAG
*
15627795 TTATGATATG
1 TTATG-TAAG
* * *
15627805 ATATAT-AT
1 TTATGTAAG
*
15627813 TTCTGT-A-
1 TTATGTAAG
*
15627820 TTGTGTAAG
1 TTATGTAAG
15627829 TTATGTAAG
1 TTATGTAAG
15627838 TTATG
1 TTATG
15627843 ATCCAAAGTT
Statistics
Matches: 120, Mismatches: 22, Indels: 24
0.72 0.13 0.14
Matches are distributed among these distances:
7 10 0.08
8 19 0.16
9 74 0.62
10 17 0.14
ACGTcount: A:0.34, C:0.01, G:0.17, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:15627799 original size:63 final size:59
Alignment explanation
Indices: 15627716--15627843 Score: 184
Period size: 63 Copynumber: 2.1 Consensus size: 59
15627706 TGATGTATAT
*
15627716 TTATGAATTATGTAAGTTATGATATGATATATATTTATGTAATTAATGTAATTTATGTAAG
1 TTATGAATTATGTAAGTTATGATATGATATATATTTATGT-ATT-ATGTAAGTTATGTAAG
* * *
15627777 TTATGTAAGTTATGTAATTTATGATATGATATATATTTCTGTATTGTGTAAGTTATGTAAG
1 TTATG-AA-TTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAG
15627838 TTATGA
1 TTATGA
15627844 TCCAAAGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
60 1 0.02
61 24 0.39
62 5 0.08
63 31 0.51
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (59 bp):
TTATGAATTATGTAAGTTATGATATGATATATATTTATGTATTATGTAAGTTATGTAAG
Found at i:15627905 original size:35 final size:35
Alignment explanation
Indices: 15627866--15627932 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
15627856 TTTTTTTAAT
15627866 CTTTAAATGTTTATGTAAGTCATGATAATCATAAA
1 CTTTAAATGTTTATGTAAGTCATGATAATCATAAA
* *
15627901 CTTTAAATGTTTATGTAAGTTATGATTATCAT
1 CTTTAAATGTTTATGTAAGTCATGATAATCAT
15627933 CTTTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.12, T:0.45
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAGTCATGATAATCATAAA
Found at i:15627949 original size:26 final size:26
Alignment explanation
Indices: 15627920--15627971 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
15627910 TTTATGTAAG
15627920 TTATGATTATCATCTTTAAATTTTAA
1 TTATGATTATCATCTTTAAATTTTAA
15627946 TTATGATTATCATCTTTAAATTTTAA
1 TTATGATTATCATCTTTAAATTTTAA
15627972 CTTTAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.54
Consensus pattern (26 bp):
TTATGATTATCATCTTTAAATTTTAA
Found at i:15627977 original size:13 final size:13
Alignment explanation
Indices: 15627959--15627985 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15627949 TGATTATCAT
15627959 CTTTAAATTTTAA
1 CTTTAAATTTTAA
15627972 CTTTAAATTTTAA
1 CTTTAAATTTTAA
15627985 C
1 C
15627986 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:15629076 original size:71 final size:72
Alignment explanation
Indices: 15628897--15629091 Score: 191
Period size: 71 Copynumber: 2.7 Consensus size: 72
15628887 TAAATGGTTC
* * * * *
15628897 CACTTAATATCAACAAACTCAATAAGTTGAACTAAATTAATCTTTTTAAAAATTCATAATTAAAC
1 CACTTAATATC-A-AAACTTAATAAATTGAACTAAATTAAGCTTTCTAAAAATTCATAACTAAAC
15628962 AAACGTTTT
64 AAACGTTTT
* ** * * *
15628971 CACTTAATATC-AAATTTCAATAAATCAAATTAAATTAAGC-TTCTGAAAATGT-ATAACTAAAT
1 CACTTAATATCAAAACTT-AATAAATTGAACTAAATTAAGCTTTCTAAAAAT-TCATAACTAAAC
15629033 AAACGGTTTT
64 AAAC-GTTTT
* * *
15629043 -GCTTAATATCAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAA
1 CACTTAATATCAAAACTTAATAAATTGAACTAAATTAAGCTTTCTAAAAA
15629092 CAAATAATTA
Statistics
Matches: 97, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
71 51 0.53
72 35 0.36
74 11 0.11
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (72 bp):
CACTTAATATCAAAACTTAATAAATTGAACTAAATTAAGCTTTCTAAAAATTCATAACTAAACAA
ACGTTTT
Found at i:15629769 original size:22 final size:22
Alignment explanation
Indices: 15629744--15629789 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
15629734 TAAAAGAGAA
15629744 AGAAAAAGATAATTAGGAGCTC
1 AGAAAAAGATAATTAGGAGCTC
15629766 AGAAAAAGATAATTAGGAGCTC
1 AGAAAAAGATAATTAGGAGCTC
15629788 AG
1 AG
15629790 TAACTGCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.50, C:0.09, G:0.24, T:0.17
Consensus pattern (22 bp):
AGAAAAAGATAATTAGGAGCTC
Found at i:15635553 original size:40 final size:39
Alignment explanation
Indices: 15635507--15635714 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
15635497 CGGAATACAA
* *
15635507 CCGGATATAACCACATGCACGAATGTCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
15635547 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
15635587 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
15635627 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
15635667 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
15635707 CCGGATAT
1 CCGGATAT
15635715 CATTTAATTG
Statistics
Matches: 141, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 140 0.99
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:15635654 original size:80 final size:81
Alignment explanation
Indices: 15635507--15635712 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
15635497 CGGAATACAA
* * * *
15635507 CCGGATATAACCACATGCACGAATGTCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
15635571 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * * *
15635587 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
15635650 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** *
15635667 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCGGAT
15635713 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 103 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGTCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:15638517 original size:40 final size:40
Alignment explanation
Indices: 15638390--15638519 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
15638380 ATGCTGGAAA
* *
15638390 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
15638430 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
15638470 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
15638510 TTATATCCGG
1 TTATATCCGG
15638520 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:15645400 original size:15 final size:15
Alignment explanation
Indices: 15645382--15645414 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
15645372 ATTGTGATAA
*
15645382 AAGCCATTGCATGTT
1 AAGCCATTGCATGCT
15645397 AAGCCATTGCATGCT
1 AAGCCATTGCATGCT
15645412 AAG
1 AAG
15645415 TGTGAGCTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (15 bp):
AAGCCATTGCATGCT
Found at i:15646558 original size:40 final size:40
Alignment explanation
Indices: 15646431--15646560 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
15646421 ATGCTGGAAA
* *
15646431 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
15646471 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
15646511 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
15646551 TTATATCCGG
1 TTATATCCGG
15646561 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:15654831 original size:40 final size:39
Alignment explanation
Indices: 15654786--15654993 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
15654776 CGGAATACAA
*
15654786 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
15654826 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
15654866 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
15654906 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
15654946 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
15654986 CCGGATAT
1 CCGGATAT
15654994 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:15654933 original size:80 final size:81
Alignment explanation
Indices: 15654786--15654991 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
15654776 CGGAATACAA
* * * *
15654786 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
15654850 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
15654866 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
15654929 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
15654946 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
15654992 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:15657745 original size:75 final size:76
Alignment explanation
Indices: 15657600--15657750 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 76
15657590 AGACAAAATG
15657600 AAAGCGTAAAATGAAAGACTTGGTCAATAGTAGCACTTATAATTAAGGCCACAACTCAATAAAAA
1 AAAGCGTAAAATGAAAGACTTGGTCAATAGTAGCACTTATAATTAAGGCCACAACTCAATAAAAA
15657665 CATATTCAACA
66 CATATTCAACA
15657676 AAAGCGTAAAATGAAAGACTTGGTCAATAGTAGCA-TTATAATTAAGGCCACAACTCAATAAAAA
1 AAAGCGTAAAATGAAAGACTTGGTCAATAGTAGCACTTATAATTAAGGCCACAACTCAATAAAAA
15657740 CATATTCAACA
66 CATATTCAACA
15657751 TAACAATGTA
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 40 0.53
76 35 0.47
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.23
Consensus pattern (76 bp):
AAAGCGTAAAATGAAAGACTTGGTCAATAGTAGCACTTATAATTAAGGCCACAACTCAATAAAAA
CATATTCAACA
Found at i:15668281 original size:20 final size:21
Alignment explanation
Indices: 15668256--15668294 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
15668246 TGCCTAAAAT
*
15668256 GACACATGAGGT-CCTGATAC
1 GACACACGAGGTGCCTGATAC
15668276 GACACACGAGGTGCCTGAT
1 GACACACGAGGTGCCTGAT
15668295 CAGCAAAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.18
Consensus pattern (21 bp):
GACACACGAGGTGCCTGATAC
Found at i:15676660 original size:200 final size:200
Alignment explanation
Indices: 15676296--15676667 Score: 431
Period size: 200 Copynumber: 1.9 Consensus size: 200
15676286 CACGGAGTTA
** * *
15676296 TATTATGTAAGACGTTAGCTAGAAGATGCTACAACATCATAGATAGTCCACCTGGACAATAAACA
1 TATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCCACCGGGACAATAAACA
* ** ** * *
15676361 TGGGATAGCCCCCCAAGACAATAATCACATAGTTATATTGTGTAAGATTATAGCTGGAATATGCT
66 TGGGATAGCCCCCCAAGACAATAATCACAGAGTTATATTGTGTAAGACCATAGCTAAAAGATACT
** * **
15676426 ACGGTATCATAGATAATCCCCCAGGACCATAAACATAGGATAATCTGTCGGGTTGGCAATCAAAA
131 ACGACATCATAGATAATCCACCAGGAAAATAAACATAGGATAATCTGTCGGGTTGGCAATCAAAA
15676491 AATTT
196 AATTT
* * * * * * *
15676496 TATTGTGTAAGACCATAGCTTGAAGAAGCTACGACATCATAGATAGTCTATCGGGATAATAAA-T
1 TATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCCACCGGGACAATAAACA
* ** * ** *
15676560 TCGGGATAGTCTGCCAGGACAATAATCATGGAGTTATATTGTGTAAGACCATGGCTAAAAGATAC
66 T-GGGATAGCCCCCCAAGACAATAATCACAGAGTTATATTGTGTAAGACCATAGCTAAAAGATAC
* * *
15676625 TATGACATCATAGATAGTCCACCAGGAAAATAAACATGGGATA
130 TACGACATCATAGATAATCCACCAGGAAAATAAACATAGGATA
15676668 GTCCACTGGG
Statistics
Matches: 138, Mismatches: 33, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
199 1 0.01
200 137 0.99
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (200 bp):
TATTATGTAAGACCATAGCTAGAAGAAGCTACAACATCATAGATAGTCCACCGGGACAATAAACA
TGGGATAGCCCCCCAAGACAATAATCACAGAGTTATATTGTGTAAGACCATAGCTAAAAGATACT
ACGACATCATAGATAATCCACCAGGAAAATAAACATAGGATAATCTGTCGGGTTGGCAATCAAAA
AATTT
Found at i:15676666 original size:100 final size:100
Alignment explanation
Indices: 15676282--15676670 Score: 323
Period size: 100 Copynumber: 3.9 Consensus size: 100
15676272 GTCGGGATAG
* * ** * *
15676282 TAATCACGGAGTTATATTATGTAAGACGTTAGCTAGAAGATGCTACAACATCATAGATAGTCCAC
1 TAATCACAGAGTTATATTGTGTAAGACCATAGCTAGAAGATACTACGACATCATAGATAGTCCAC
* * ** *
15676347 CTGGACAATAAACATGGGATAGCCCCCCAAGACAA
66 CAGGACAATAAACATGGGATAGTCTGCCAGGACAA
* ** * * * ** * *
15676382 TAATCACATAGTTATATTGTGTAAGATTATAGCTGGAATATGCTACGGTATCATAGATAATCCCC
1 TAATCACAGAGTTATATTGTGTAAGACCATAGCTAGAAGATACTACGACATCATAGATAGTCCAC
* * * * * ****
15676447 CAGGACCATAAACATAGGATAATCTGTCGGGTTGG
66 CAGGACAATAAACATGGGATAGTCTGCCAGGACAA
* * * * * * *
15676482 CAATCAAAAAATTTTATTGTGTAAGACCATAGCTTGAAGA-AGCTACGACATCATAGATAGTCTA
1 TAATCACAGAGTTATATTGTGTAAGACCATAGCTAGAAGATA-CTACGACATCATAGATAGTCCA
* * * *
15676546 TCGGGATAATAAA-TTCGGGATAGTCTGCCAGGACAA
65 CCAGGACAATAAACAT-GGGATAGTCTGCCAGGACAA
** * * *
15676582 TAATCATGGAGTTATATTGTGTAAGACCATGGCTAAAAGATACTATGACATCATAGATAGTCCAC
1 TAATCACAGAGTTATATTGTGTAAGACCATAGCTAGAAGATACTACGACATCATAGATAGTCCAC
*
15676647 CAGGAAAATAAACATGGGATAGTC
66 CAGGACAATAAACATGGGATAGTC
15676671 CACTGGGACA
Statistics
Matches: 215, Mismatches: 70, Indels: 8
0.73 0.24 0.03
Matches are distributed among these distances:
99 1 0.00
100 212 0.99
101 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (100 bp):
TAATCACAGAGTTATATTGTGTAAGACCATAGCTAGAAGATACTACGACATCATAGATAGTCCAC
CAGGACAATAAACATGGGATAGTCTGCCAGGACAA
Found at i:15676669 original size:27 final size:27
Alignment explanation
Indices: 15676637--15676698 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
15676627 TGACATCATA
*
15676637 GATAGTCCACCAGGAAAATAAACATGG
1 GATAGTCCACCAGGAAAATAAACACGG
** *
15676664 GATAGTCCACTGGGACAATAAACACGG
1 GATAGTCCACCAGGAAAATAAACACGG
*
15676691 GGTAGTCC
1 GATAGTCC
15676699 GTCGAGATAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.21, G:0.26, T:0.16
Consensus pattern (27 bp):
GATAGTCCACCAGGAAAATAAACACGG
Found at i:15680898 original size:28 final size:28
Alignment explanation
Indices: 15680866--15680926 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
15680856 TTCCATCGAG
* *
15680866 CTTACCTTGTGTTTATTGCCTTGGTAAA
1 CTTACCTCGTGTTTATTGCCTTGGCAAA
*
15680894 CTTACCTCGTGTTTATTGCCTTGGCAGA
1 CTTACCTCGTGTTTATTGCCTTGGCAAA
15680922 CTTAC
1 CTTAC
15680927 GTTCTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (28 bp):
CTTACCTCGTGTTTATTGCCTTGGCAAA
Found at i:15681016 original size:31 final size:31
Alignment explanation
Indices: 15680953--15681039 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
15680943 CAGCGAACTT
* * * * * *
15680953 TATCTATTCTATGATTATTGTTCCAGTGGAC
1 TATCTATTCTGTGTTTACTGTCCCAATAGAC
15680984 TATCTATTCTGTGTTTACTGTCCCAATAGAC
1 TATCTATTCTGTGTTTACTGTCCCAATAGAC
*
15681015 TATCTCTATTTTGTGTTTACTGTCC
1 TA--TCTATTCTGTGTTTACTGTCC
15681040 TAACGAACTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 27 0.57
33 20 0.43
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
TATCTATTCTGTGTTTACTGTCCCAATAGAC
Found at i:15682282 original size:21 final size:21
Alignment explanation
Indices: 15682258--15682299 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15682248 AGATCTAATT
15682258 AGTACTTTAAATTAGTTATAG
1 AGTACTTTAAATTAGTTATAG
*
15682279 AGTACTTTAAATTATTTATAG
1 AGTACTTTAAATTAGTTATAG
15682300 TACGAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (21 bp):
AGTACTTTAAATTAGTTATAG
Found at i:15686978 original size:68 final size:69
Alignment explanation
Indices: 15686906--15687081 Score: 177
Period size: 68 Copynumber: 2.6 Consensus size: 69
15686896 CATCATGTGT
* ** * *
15686906 ACAAGAAAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-TAC-AG-GATGTATC-C
1 ACAAGAGAGCTACGAGATA-TAAAT-GTAGCTAGGTCACATGTGTGATTACAAGTGAAGGA-CAC
15686967 CATGTAG
63 CATGTAG
* * *
15686974 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGATATAAATGTAGCTAGGTCACATGTGTGATTACAAGTGAAGGACACC
15687039 ATGTAG
64 ATGTAG
*
15687045 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATG
15687082 GGTGGTACTA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
67 6 0.07
68 32 0.35
69 8 0.09
70 8 0.09
71 25 0.27
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (69 bp):
ACAAGAGAGCTACGAGATATAAATGTAGCTAGGTCACATGTGTGATTACAAGTGAAGGACACCAT
GTAG
Found at i:15689339 original size:46 final size:45
Alignment explanation
Indices: 15689289--15689464 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 45
15689279 TGGTTGAGCA
15689289 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
15689335 TCCGAACTCGTTGAGTTGAGTCCTAGTT--C-TA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGGAA-T--G
* * *
15689380 CATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
15689428 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15689465 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
44 1 0.01
45 1 0.01
46 61 0.56
47 25 0.23
48 1 0.01
49 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:15711463 original size:26 final size:26
Alignment explanation
Indices: 15711434--15711541 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
15711424 TGGTACAAAT
* *
15711434 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
15711460 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
15711486 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
15711512 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
15711538 TGAT
1 TGAT
15711542 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:15711773 original size:20 final size:20
Alignment explanation
Indices: 15711743--15711794 Score: 95
Period size: 20 Copynumber: 2.5 Consensus size: 20
15711733 GGTAGTTTGC
15711743 TTCTATCTTGATGTTCATGAG
1 TTCT-TCTTGATGTTCATGAG
15711764 TTCTTCTTGATGTTCATGAG
1 TTCTTCTTGATGTTCATGAG
15711784 TTCTTCTTGAT
1 TTCTTCTTGAT
15711795 TCTACCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.52
Consensus pattern (20 bp):
TTCTTCTTGATGTTCATGAG
Found at i:15713182 original size:27 final size:27
Alignment explanation
Indices: 15713142--15713300 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
15713132 AGGAAGCGTC
*
15713142 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
15713169 CTGGTGGCTCTGCCAC-ATATATCT-AT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* * *
15713195 CCTGGTGGCTATGGCATAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
15713223 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
15713250 CTAGTGGCTCTGCCACAA-TATTTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
15713277 CTGGTGACTCCGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
15713301 GCAGCCGCAC
Statistics
Matches: 109, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
26 11 0.10
27 93 0.85
28 5 0.05
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:15713222 original size:54 final size:54
Alignment explanation
Indices: 15713140--15713299 Score: 207
Period size: 54 Copynumber: 3.0 Consensus size: 54
15713130 GGAGGAAGCG
15713140 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
* * *
15713194 TCCTGGTGGCTATGGCATAATTATCTGATCTGGTGGCTCTGCCACATATATCTG
1 TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
* * * * * * *
15713248 TTCTAGTGGCTCTGCCACAA-TATTTGTATCTGGTGACTCCGTCACA-ATATCT
1 TCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
15713300 GGCAGCCGCA
Statistics
Matches: 93, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
53 11 0.12
54 82 0.88
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (54 bp):
TCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTA
Found at i:15715243 original size:55 final size:54
Alignment explanation
Indices: 15715158--15715270 Score: 140
Period size: 55 Copynumber: 2.1 Consensus size: 54
15715148 AGGAAGCGTC
* *
15715158 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTG-CTATATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGTC-ACAT-TATCTGTT
* * *
15715213 CTGGTGGCTCTGCCAC-GATTATTTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGTCACATTATCTGTT
15715267 CTGG
1 CTGG
15715271 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 19 0.37
55 31 0.61
56 1 0.02
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGTCACATTATCTGTT
Found at i:15715252 original size:28 final size:26
Alignment explanation
Indices: 15715158--15715270 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
15715148 AGGAAGCGTC
* * *
15715158 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGACTCTGCCAC--ATTATCTGTT
* * *
15715186 CTGGTGGCTCTGCTATATATATCTGTT
1 CTGGTGACTCTGCCACAT-TATCTGTT
* *
15715213 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGACTCTGCCAC-ATTATCTGT-T
*
15715241 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGACTCTGCCACATTATCTGTT
15715267 CTGG
1 CTGG
15715271 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.10
27 35 0.49
28 30 0.42
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (26 bp):
CTGGTGACTCTGCCACATTATCTGTT
Found at i:15720599 original size:64 final size:64
Alignment explanation
Indices: 15720526--15720736 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
15720516 CTGGACCAGA
*
15720526 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
15720590 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
15720652 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
15720663 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
15720727 GCCCATTTCA
1 GCCCATTTCA
15720737 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:15720738 original size:137 final size:137
Alignment explanation
Indices: 15720492--15720775 Score: 541
Period size: 137 Copynumber: 2.1 Consensus size: 137
15720482 TATTGGGCCT
*
15720492 AAGCCCATTCAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15720557 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
15720622 CATATGC
131 CATATGC
* *
15720629 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15720694 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
15720759 CATATGC
131 CATATGC
15720766 AAGCCCATTT
1 AAGCCCATTT
15720776 CGGGAGACTA
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:15721063 original size:25 final size:27
Alignment explanation
Indices: 15721026--15721078 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
15721016 TCAAACATGC
15721026 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
15721052 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
15721078 A
1 A
15721079 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:15726443 original size:64 final size:64
Alignment explanation
Indices: 15726370--15726580 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
15726360 CTGGACCAGA
*
15726370 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
15726434 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
15726496 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
15726507 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
15726571 GCCCATTTCA
1 GCCCATTTCA
15726581 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:15726582 original size:137 final size:137
Alignment explanation
Indices: 15726336--15726622 Score: 547
Period size: 137 Copynumber: 2.1 Consensus size: 137
15726326 TATTGGGCCT
**
15726336 AAGCCCATTCAGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15726401 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
15726466 CATATGC
131 CATATGC
*
15726473 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
15726538 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
15726603 CATATGC
131 CATATGC
15726610 AAGCCCATTTGGG
1 AAGCCCATTTGGG
15726623 GAGACTACTC
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 147 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGACCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:15726899 original size:26 final size:26
Alignment explanation
Indices: 15726870--15726922 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
15726860 TCAAACATGC
*
15726870 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
15726896 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
15726922 A
1 A
15726923 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:15729563 original size:13 final size:13
Alignment explanation
Indices: 15729545--15729574 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
15729535 AGCACATGGG
15729545 CATGTGACTTGGC
1 CATGTGACTTGGC
*
15729558 CATGTGGCTTGGC
1 CATGTGACTTGGC
15729571 CATG
1 CATG
15729575 AGGCATAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.23, G:0.33, T:0.30
Consensus pattern (13 bp):
CATGTGACTTGGC
Found at i:15733666 original size:29 final size:29
Alignment explanation
Indices: 15733627--15733701 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
15733617 GGTTGAGAGA
* *
15733627 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
15733656 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
15733685 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
15733702 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:15741052 original size:29 final size:29
Alignment explanation
Indices: 15741013--15741087 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
15741003 GGTTGAGAGA
* *
15741013 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
15741042 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
15741071 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
15741088 TGGTTGATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:15744310 original size:27 final size:27
Alignment explanation
Indices: 15744280--15744332 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
15744270 TCTCAACATG
15744280 AAAAAATCAATTCAAGAGTCTAAAATA
1 AAAAAATCAATTCAAGAGTCTAAAATA
15744307 AAAAAATCAATTCAAGAGTCTAAAAT
1 AAAAAATCAATTCAAGAGTCTAAAAT
15744333 GAGTTTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.23
Consensus pattern (27 bp):
AAAAAATCAATTCAAGAGTCTAAAATA
Found at i:15746425 original size:27 final size:26
Alignment explanation
Indices: 15746354--15746464 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
15746344 ATGGCTGCCG
* *
15746354 GAACAGATAATGTGAC-GAGTCACCA
1 GAACAGATAATGTGGCAGAGCCACCA
*
15746379 GATACAAATAATCGTGGCAGAGCCACCA
1 GA-ACAGATAAT-GTGGCAGAGCCACCA
15746407 GAACAGATATATGTGGCAGAGCCACCA
1 GAACAGATA-ATGTGGCAGAGCCACCA
* * *
15746434 GATCAGATATTTGTGGCATAGCCACCA
1 GAACAGATA-ATGTGGCAGAGCCACCA
15746461 GAAC
1 GAAC
15746465 GCTTCCTCCA
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.03
26 8 0.11
27 52 0.70
28 12 0.16
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
GAACAGATAATGTGGCAGAGCCACCA
Found at i:15746450 original size:54 final size:53
Alignment explanation
Indices: 15746354--15746464 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 53
15746344 ATGGCTGCCG
*
15746354 GAACAGATAATGTGACGAGTCACCAGATACAAATAATCGTGGCAGAGCCACCA
1 GAACAGATAATGTGACGAGCCACCAGATACAAATAATCGTGGCAGAGCCACCA
* * * * *
15746407 GAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCACCA
1 GAACAGATA-ATGTGAC-GAGCCACCAGATACAAATAATCGTGGCAGAGCCACCA
15746461 GAAC
1 GAAC
15746465 GCTTCCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
53 9 0.18
54 30 0.60
55 11 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (53 bp):
GAACAGATAATGTGACGAGCCACCAGATACAAATAATCGTGGCAGAGCCACCA
Found at i:15748120 original size:26 final size:26
Alignment explanation
Indices: 15748082--15748165 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
15748072 CATGAAATTC
* *
15748082 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
15748108 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
15748134 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
15748160 TTATCA
1 TTATCA
15748166 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:15751428 original size:2 final size:2
Alignment explanation
Indices: 15751421--15751460 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
15751411 TTAGTGAAGG
15751421 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15751461 GCTTCAAAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15763185 original size:40 final size:40
Alignment explanation
Indices: 15763119--15763285 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
15763109 AAATTGAATG
* * *
15763119 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
15763158 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
15763198 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
15763238 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
15763278 ATATCCGG
1 ATATCCGG
15763286 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:15769915 original size:40 final size:40
Alignment explanation
Indices: 15769849--15770015 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
15769839 AAATTGAATG
* * *
15769849 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
15769888 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
15769928 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
15769968 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
15770008 ATATCCGG
1 ATATCCGG
15770016 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:15783295 original size:43 final size:43
Alignment explanation
Indices: 15783219--15783370 Score: 232
Period size: 43 Copynumber: 3.5 Consensus size: 43
15783209 GCTGGTATTA
* * * *
15783219 TATTCGGGCCTTCGTGGCTAGTATGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
15783262 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
15783305 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* * *
15783348 TATTTGGGCCTTTGAGCCTAGCA
1 TATTCGGGCCTTCGTGCCTAGCA
15783371 TGCTATAATG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 100 1.00
ACGTcount: A:0.11, C:0.23, G:0.33, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:15787312 original size:23 final size:23
Alignment explanation
Indices: 15787268--15787312 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
15787258 ATTCATATGG
* **
15787268 CCAAATTCATTAACAAGTTATAA
1 CCAAAATCATTAACAACCTATAA
*
15787291 CCAAAATCATTATCAACCTATA
1 CCAAAATCATTAACAACCTATA
15787313 TTCAAAATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (23 bp):
CCAAAATCATTAACAACCTATAA
Found at i:15788726 original size:20 final size:20
Alignment explanation
Indices: 15788701--15788739 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15788691 AGGGACTAAA
* *
15788701 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
15788721 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
15788740 TATTAATACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:15790249 original size:11 final size:11
Alignment explanation
Indices: 15790233--15790262 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
15790223 CTAAGCCATA
15790233 TATGAACACAT
1 TATGAACACAT
15790244 TATGAACACAT
1 TATGAACACAT
15790255 TATGAACA
1 TATGAACA
15790263 TCCAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (11 bp):
TATGAACACAT
Found at i:15790918 original size:43 final size:43
Alignment explanation
Indices: 15790836--15790960 Score: 114
Period size: 43 Copynumber: 2.9 Consensus size: 43
15790826 GAAAAGCTCG
***
15790836 TACAATGCCAAC-ATCCCAGAC-GTGGTCTTACATGTAATCAAA
1 TACAATGCCAACTATCCCAGACAG-GGTCTTACACAAAATCAAA
* *
15790878 TATTAATGCC-ACTATCCCAGACAGGGTCTTACACAAAATCATA
1 TA-CAATGCCAACTATCCCAGACAGGGTCTTACACAAAATCAAA
* * * *
15790921 TACGATGCCGA-TGTCCCAGACATGGTCTTACACATAAATC
1 TACAATGCCAACTATCCCAGACAGGGTCTTACACA-AAATC
15790961 TCAAGTCGAC
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
42 30 0.43
43 38 0.55
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
TACAATGCCAACTATCCCAGACAGGGTCTTACACAAAATCAAA
Found at i:15794554 original size:12 final size:12
Alignment explanation
Indices: 15794537--15794567 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
15794527 TCCCGGTACT
15794537 AACTCAATACCA
1 AACTCAATACCA
15794549 AACTCAATACCA
1 AACTCAATACCA
15794561 AACTCAA
1 AACTCAA
15794568 CTTCTCGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (12 bp):
AACTCAATACCA
Found at i:15800226 original size:14 final size:13
Alignment explanation
Indices: 15800189--15800230 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
15800179 CCCATGATTG
15800189 ATATATATATA-C
1 ATATATATATAGC
15800201 ATATATTCATATAGC
1 ATATA-T-ATATAGC
15800216 ATAATATATATAGC
1 AT-ATATATATAGC
15800230 A
1 A
15800231 AAAACACCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 13 0.50
15 4 0.15
16 3 0.12
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (13 bp):
ATATATATATAGC
Found at i:15800261 original size:23 final size:23
Alignment explanation
Indices: 15800235--15800308 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 23
15800225 ATAGCAAAAA
15800235 CACCGACTTAACCTTCATGCAAT
1 CACCGACTTAACCTTCATGCAAT
** *
15800258 CACCGTGTTGAAACATAGATCATGCAAT
1 CACCGACTT--AACCT---TCATGCAAT
* *
15800286 GACCGACTTGACCTTCATGCAAT
1 CACCGACTTAACCTTCATGCAAT
15800309 ATTTATTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
23 16 0.42
25 4 0.11
26 3 0.08
28 15 0.39
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (23 bp):
CACCGACTTAACCTTCATGCAAT
Found at i:15801872 original size:21 final size:21
Alignment explanation
Indices: 15801846--15801898 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
15801836 ATATTTCTTA
15801846 TTTTTTTAACAAGTTTTAA-TT
1 TTTTTTTAA-AAGTTTTAAGTT
* *
15801867 TTTTTTTCAAATTTTTAAGGTT
1 TTTTTTTAAAAGTTTTAA-GTT
15801889 TTTTTTTAAA
1 TTTTTTTAAA
15801899 TTTTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.30
21 8 0.30
22 11 0.41
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTTTTTAAAAGTTTTAAGTT
Found at i:15801882 original size:20 final size:20
Alignment explanation
Indices: 15801859--15801903 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
15801849 TTTTAACAAG
15801859 TTTTAA-TTTTTTTTTCAAAT
1 TTTTAAGTTTTTTTTT-AAAT
15801879 TTTTAAGGTTTTTTTTTAAAT
1 TTTTAA-GTTTTTTTTTAAAT
15801900 TTTT
1 TTTT
15801904 TTAAAGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 8 0.35
22 9 0.39
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTAAGTTTTTTTTTAAAT
Found at i:15802780 original size:86 final size:89
Alignment explanation
Indices: 15802675--15802849 Score: 268
Period size: 86 Copynumber: 2.0 Consensus size: 89
15802665 TTATTATGTC
*
15802675 ATGTTTAATAGTATAAATTGTAATTACACAATTATATAATTTATAT-T-TTTTT-AAAATATTAA
1 ATGTTTAATAGTATAAATTGTAATTACACAATTACATAATTTATATATATTTTTAAAAATATTAA
*
15802737 TTATTATAAAAATTATTAGTATGA
66 TTACTATAAAAATTATTAGTATGA
* * *
15802761 ATGTTTAGTAGTACT-AATTGTAATTGCACAGTTACATAATTTATATATATTTTTAAAAATATTA
1 ATGTTTAATAGTA-TAAATTGTAATTACACAATTACATAATTTATATATATTTTTAAAAATATTA
15802825 ATTACTATAAAAATTATTAGTATGA
65 ATTACTATAAAAATTATTAGTATGA
15802850 TAAATATAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
86 40 0.50
87 2 0.03
88 5 0.06
89 33 0.41
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (89 bp):
ATGTTTAATAGTATAAATTGTAATTACACAATTACATAATTTATATATATTTTTAAAAATATTAA
TTACTATAAAAATTATTAGTATGA
Found at i:15811845 original size:38 final size:37
Alignment explanation
Indices: 15811802--15812010 Score: 256
Period size: 38 Copynumber: 5.4 Consensus size: 37
15811792 AGTTTAAAGA
* *
15811802 CCCGCAGGCTATATGCCGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TGTGCTGGTATTATATCCGGGTTAAAT
*
15811840 CCCGCAGGCTTTGTGCTGGTAATATATCCGGGTTAAAT
1 CCCGCAGGC-TTGTGCTGGTATTATATCCGGGTTAAAT
* * *
15811878 CCCGCAAGCTTTGTGCTGGTAATATATCCGAGTTAAAT
1 CCCGCAGGC-TTGTGCTGGTATTATATCCGGGTTAAAT
15811916 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTT-GTGCTGGTATTATATCCGGGTTAAAT
* * *
15811954 CCTGCAGGCTTAGTGCTGGTATTATATTCGAGCTTAAAGT
1 CCCGCAGGCTT-GTGCTGGTATTATATCCG-GGTTAAA-T
*
15811994 CCCGCAGGTTTTGTGCT
1 CCCGCAGG-CTTGTGCT
15812011 AGTGACTGGA
Statistics
Matches: 152, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.01
38 128 0.84
39 7 0.05
40 13 0.09
41 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (37 bp):
CCCGCAGGCTTGTGCTGGTATTATATCCGGGTTAAAT
Found at i:15818492 original size:38 final size:37
Alignment explanation
Indices: 15818435--15818559 Score: 135
Period size: 38 Copynumber: 3.3 Consensus size: 37
15818425 ATAAATTAGA
* *
15818435 TGGTAATATATTCGGGTTAAATTCTGCAAGCTTTGTGC
1 TGGTAATATA-TCAGGTTAAATTCTGCAAGCTTAGTGC
* * *
15818473 TGGTAATATATCAGCGTTAAATCCCGCAAGCTTCGTGC
1 TGGTAATATATCAG-GTTAAATTCTGCAAGCTTAGTGC
* *
15818511 TGGTATTATATCCAGGTTAAA-TCTAGCAGGCTTAGTGC
1 TGGTAATATAT-CAGGTTAAATTCT-GCAAGCTTAGTGC
*
15818549 TGGTATTATAT
1 TGGTAATATAT
15818560 TCGAGCTTAA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
37 4 0.05
38 68 0.91
39 3 0.04
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (37 bp):
TGGTAATATATCAGGTTAAATTCTGCAAGCTTAGTGC
Found at i:15821343 original size:43 final size:43
Alignment explanation
Indices: 15821179--15821341 Score: 161
Period size: 43 Copynumber: 3.8 Consensus size: 43
15821169 CATTAGGATT
* *
15821179 ATCGAGATGTGATTACATGTAAGACCATGTCTGAGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* *
15821222 ATTGA-ATTGTTATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATA-TGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* * * * * * * **
15821265 ATCG-T-TATGATTTCGTATAAGACCCTGTTTGGGATAGCGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
* *
15821306 ATCGATATGTGATAACATGTAAGACCATATCTGGGA
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGA
15821342 TATGGAATTG
Statistics
Matches: 94, Mismatches: 22, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
41 30 0.32
42 2 0.02
43 62 0.66
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
Found at i:15826339 original size:42 final size:41
Alignment explanation
Indices: 15826232--15826382 Score: 128
Period size: 44 Copynumber: 3.5 Consensus size: 41
15826222 CGATATGTGT
* * *
15826232 TTTCGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTATGAA
1 TTTCATGTAAGACCCTGTCTGGGAAG-TGGCATCGTA-TT-TG-A
* * *
15826276 TTGCATGTAAGACAAC-GTCTGGGATGCTGGCATCGTATTTGA
1 TTTCATGTAAGAC-CCTGTCTGGGAAG-TGGCATCGTATTTGA
*
15826318 TTTCATGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGA
1 TTTCATGTAAGACCCTGTCTGGGA-AGTGGCATCG-TATTTGA
*
15826361 TTACATGTAAGACCAC-GTCTGG
1 TTTCATGTAAGACC-CTGTCTGG
15826383 AACGTTGACA
Statistics
Matches: 89, Mismatches: 12, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.31
43 28 0.31
44 31 0.35
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TTTCATGTAAGACCCTGTCTGGGAAGTGGCATCGTATTTGA
Found at i:15826372 original size:43 final size:43
Alignment explanation
Indices: 15826237--15826382 Score: 149
Period size: 43 Copynumber: 3.4 Consensus size: 43
15826227 TGTGTTTTCG
* * *
15826237 TGTAAGACCATGTCTGGGACGTTGGCATCGAT-TTATGAATTGCA
1 TGTAAGACCCTGTCTGGGACGCTGGCATCGATATT-TG-ATTACA
* * *
15826281 TGTAAGACAAC-GTCTGGGATGCTGGCATCG-TATTTGATTTCA
1 TGTAAGAC-CCTGTCTGGGACGCTGGCATCGATATTTGATTACA
*
15826323 TGTAAGACCCTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTCTGGGAC-GCTGGCATCGATATTTGATTACA
15826366 TGTAAGACCAC-GTCTGG
1 TGTAAGACC-CTGTCTGG
15826383 AACGTTGACA
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
41 1 0.01
42 28 0.33
43 29 0.34
44 28 0.33
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCCTGTCTGGGACGCTGGCATCGATATTTGATTACA
Found at i:15827153 original size:10 final size:10
Alignment explanation
Indices: 15827113--15827155 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
15827103 TATTGTAACA
*
15827113 TATGCTTTGG
1 TATGATTTGG
15827123 TATGATGTTGG
1 TATGAT-TTGG
*
15827134 TTTAGATTTGG
1 TAT-GATTTGG
15827145 TATGATTTGG
1 TATGATTTGG
15827155 T
1 T
15827156 TGGTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 13 0.46
11 12 0.43
12 3 0.11
ACGTcount: A:0.16, C:0.02, G:0.30, T:0.51
Consensus pattern (10 bp):
TATGATTTGG
Found at i:15830184 original size:42 final size:41
Alignment explanation
Indices: 15830106--15830184 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
15830096 TTTGGGATGT
*** * *
15830106 TGGCATCGTATTTGATTTTGTGTAAGACCCTTTCTGGACAG
1 TGGCATCGTATTTGATTACATGTAAGACCATGTCTGGACAG
15830147 TGGCATCGATATTTGATTACATGTAAGACCATGTCTGG
1 TGGCATCG-TATTTGATTACATGTAAGACCATGTCTGG
15830185 GACGTTGGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
41 8 0.25
42 24 0.75
ACGTcount: A:0.23, C:0.16, G:0.24, T:0.37
Consensus pattern (41 bp):
TGGCATCGTATTTGATTACATGTAAGACCATGTCTGGACAG
Found at i:15832286 original size:41 final size:41
Alignment explanation
Indices: 15832226--15832349 Score: 178
Period size: 41 Copynumber: 3.0 Consensus size: 41
15832216 ATAATAATGA
* *
15832226 TGAATT-GCACATACATGCCCCTGTTTGTACTTCGGTACCCT
1 TGAATTAG-ACATACATGCCCTTATTTGTACTTCGGTACCCT
* * *
15832267 TGAATTAGACATACGTGCCCTTATTTGTAGTTCAGTACCCT
1 TGAATTAGACATACATGCCCTTATTTGTACTTCGGTACCCT
15832308 TGAATTAGACATACATGCCCTTATTTGTACTTCGGTAGCCCT
1 TGAATTAGACATACATGCCCTTATTTGTACTTCGGTA-CCCT
15832350 AGATGTACTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
41 68 0.93
42 5 0.07
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (41 bp):
TGAATTAGACATACATGCCCTTATTTGTACTTCGGTACCCT
Found at i:15835068 original size:14 final size:14
Alignment explanation
Indices: 15835049--15835077 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
15835039 AAACATAGCT
15835049 AAGCAACTATTCCA
1 AAGCAACTATTCCA
15835063 AAGCAACTATTCCA
1 AAGCAACTATTCCA
15835077 A
1 A
15835078 CTCAAATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.28, G:0.07, T:0.21
Consensus pattern (14 bp):
AAGCAACTATTCCA
Found at i:15848652 original size:41 final size:42
Alignment explanation
Indices: 15848592--15848707 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 42
15848582 AAGAATAATG
* * *
15848592 ATGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTA-CCC
1 ATGAATTGCACATACGTGCCCCTGTTTGTACTTCGGCATCCA
* * * *
15848633 CTGAATTGCACATACGTG-CCCTATTTGTAGTTCAGCATCCA
1 ATGAATTGCACATACGTGCCCCTGTTTGTACTTCGGCATCCA
*
15848674 AT-AATTGCACATACGTGCCCCTGTCTGTACTTCG
1 ATGAATTGCACATACGTGCCCCTGTTTGTACTTCG
15848708 ATACACTTGG
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
40 30 0.49
41 31 0.51
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.33
Consensus pattern (42 bp):
ATGAATTGCACATACGTGCCCCTGTTTGTACTTCGGCATCCA
Found at i:15851224 original size:720 final size:720
Alignment explanation
Indices: 15849846--15851777 Score: 3596
Period size: 720 Copynumber: 2.7 Consensus size: 720
15849836 GTCACACGTA
** * * * *
15849846 TAACACCCTTAACCCGTATCTATCACCGAAATAGGGATTC-GAAGTATTACCAAAATTTACAAAT
1 TAACACCCTTAACCCGTATCCGTCGCTGGAATAGGGATTCAG-AGTATTACCAAAATTTACAGAT
* *
15849910 CATTTAACAAAAATTTCGCTTCACATAACATTCATACCTGAAATCAGTCAAATTTAATCATAGTG
65 CATTTAACAAAAATTCCGCTTCACATAACATTCATACCTGAAATCAATCAAATTTAATCATAGTG
* *
15849975 TCCCTTATGTGAGCCATCGAGGCCCAGAATATAGATATCGAGACTTAACCGAGAACTTAGAAAAT
130 TCCCTTATGTGAGCCATCGAGGCCCAGAATATAGATATCGGGACTTAACCGAGAACTCAGAAAAT
*
15850040 TTTTCGAAAATATTTAAAATTTTTCAACACTGCAAGGGATCACAGGCTGTGTGGTCAGATCGTGT
195 TTTTCGAAAATATTTAAAATTTTTCAACACTGCAAGGGGTCACAGGCTGTGTGGTCAGATCGTGT
*
15850105 GGTTCACACAATATTCACAAAGTTATCATCAATTCATATGAAATAACACATCATGAAATTCATAA
260 GGTTCACACAATATTCACGAAGTTATCATCAATTCATATGAAATAACACATCATGAAATTCATAA
*
15850170 AATTAATAAATGGCCACTAAAATTTAGTTATACAAACTCATAAGTACGATTTTTGTATTTTAACG
325 AATTAATAAATGGCCACTAAAATTTAGTTATACAAACTCATAAGTACGATTTTTGTATTATAACG
15850235 ATAATCATAATTTCATAATAAATATTCCAAATAAAATATTATATCATTTCTAATTCAACATTTAT
390 ATAATCATAATTTCATAATAAATATTCCAAATAAAATATTATATCATTTCTAATTCAACATTTAT
15850300 CAATTATAATCGGGCATGTGATCAATTTATACACAAGTTTCAACTCATCATAAACACATTCTTAC
455 CAATTATAATCGGGCATGTGATCAATTTATACACAAGTTTCAACTCATCATAAACACATTCTTAC
15850365 TCAGACACATTAGTGTCACTTTCAACACTTTCTGAAATAACTCGATCAAAAAGTATTTCTGTCTA
520 TCAGACACATTAGTGTCACTTTCAACACTTTCTGAAATAACTCGATCAAAAAGTATTTCTGTCTA
15850430 TAAGTAAAAAAAAAAAAATTGATCAGATTACACACATCACTCTATCACAGATTTATATGGCATGT
585 TAAGTAAAAAAAAAAAAATTGATCAGATTACACACATCACTCTATCACAGATTTATATGGCATGT
15850495 ATCTCTAAACACTTTACACATCTCATTTGATCCGAGAGTCGGCTAAACCGAAGCTTTGATACCAC
650 ATCTCTAAACACTTTACACATCTCATTTGATCCGAGAGTCGGCTAAACCGAAGCTTTGATACCAC
15850560 TAAATG
715 TAAATG
*
15850566 TAACACCCTTAACCCGTATCCGTCGTTGGAATAGGGATTCAGAGTATTACCAAAATTTACAGATC
1 TAACACCCTTAACCCGTATCCGTCGCTGGAATAGGGATTCAGAGTATTACCAAAATTTACAGATC
*
15850631 ATTTAACAAAAATTCCGCTTCACATAACATTCATACTTGAAATCAATCAAATTTAATCATAGTGT
66 ATTTAACAAAAATTCCGCTTCACATAACATTCATACCTGAAATCAATCAAATTTAATCATAGTGT
*
15850696 CCCTTATGTGAGCCATTGAGGCCCAGAATATAGATATCGGGACTTAACCGAGAACTCAGAAAATT
131 CCCTTATGTGAGCCATCGAGGCCCAGAATATAGATATCGGGACTTAACCGAGAACTCAGAAAATT
*
15850761 TTTCGAAAATATTTAAAATTTTTCAACACTGCAAGGGGTCATAGGCTGTGTGGTCAGATCGTGTG
196 TTTCGAAAATATTTAAAATTTTTCAACACTGCAAGGGGTCACAGGCTGTGTGGTCAGATCGTGTG
15850826 GTTCACACAATATTCACGAAGTTATCATCAATTCATATGAAATAACACATCATGAAATTCATAAA
261 GTTCACACAATATTCACGAAGTTATCATCAATTCATATGAAATAACACATCATGAAATTCATAAA
15850891 ATTAATAAATGGCCACTAAAATTTAGTTATACAAACTCATAAGTACGATTTTTGTATTATAACGA
326 ATTAATAAATGGCCACTAAAATTTAGTTATACAAACTCATAAGTACGATTTTTGTATTATAACGA
** *
15850956 TAATCATAATTTCATAATAAATATTCCAAATAAAACGTTATATCAATTCTAATTCAACATTTATC
391 TAATCATAATTTCATAATAAATATTCCAAATAAAATATTATATCATTTCTAATTCAACATTTATC
15851021 AATTATAATCGGGCATGTGATCAATTTATACACAAGTTTCAACTCATCATAAACACATTCTTACT
456 AATTATAATCGGGCATGTGATCAATTTATACACAAGTTTCAACTCATCATAAACACATTCTTACT
15851086 CAGACACATTAGTGTCACTTTCAACACTTTCTGAAATAACTCGATCAAAAAGTATTTCTGTCTAT
521 CAGACACATTAGTGTCACTTTCAACACTTTCTGAAATAACTCGATCAAAAAGTATTTCTGTCTAT
*
15851151 AAGTAAAAAAAAAAAAATTGATCGGATTACACACATCACTCTATCACAGATTTATATGGCATGTA
586 AAGTAAAAAAAAAAAAATTGATCAGATTACACACATCACTCTATCACAGATTTATATGGCATGTA
15851216 TCTCTAAACACTTTACACATCTCATTTGATCCGAGAGTCGGCTAAACCGAAGCTTTGATACCACT
651 TCTCTAAACACTTTACACATCTCATTTGATCCGAGAGTCGGCTAAACCGAAGCTTTGATACCACT
15851281 AAATG
716 AAATG
15851286 TAACACCCTTAACCCGTATCCGTCGCTGGAATAGGGATTCAGAGTATTACCAAAATTTACAGATC
1 TAACACCCTTAACCCGTATCCGTCGCTGGAATAGGGATTCAGAGTATTACCAAAATTTACAGATC
15851351 ATTTAACAAAAATTCCGCTTCACATAACATTCATACCTGAAATCAATCAAATTTAATCATAGTGT
66 ATTTAACAAAAATTCCGCTTCACATAACATTCATACCTGAAATCAATCAAATTTAATCATAGTGT
*
15851416 CCCTTATGTGAGCCATCGAGGCCCAGAATATAGATATCGGGACTTAACCGAAAACTCAGAAAATT
131 CCCTTATGTGAGCCATCGAGGCCCAGAATATAGATATCGGGACTTAACCGAGAACTCAGAAAATT
* * *
15851481 TTTCGAAAATATTTAAAATTTTCCAACACTGCAAGGGGTCACAAGCTATGTGGTCAGATCGTGTG
196 TTTCGAAAATATTTAAAATTTTTCAACACTGCAAGGGGTCACAGGCTGTGTGGTCAGATCGTGTG
15851546 GTTCACACAATATTCACGAAGTTATCATCAATTCATATGAAATAACACATCATGAAATTCATAAA
261 GTTCACACAATATTCACGAAGTTATCATCAATTCATATGAAATAACACATCATGAAATTCATAAA
* *
15851611 ATTAATAAATGGCCACTAAAATTTAGTTATACAAACTCGTAAGTACGATTTTTGTATTATAATGA
326 ATTAATAAATGGCCACTAAAATTTAGTTATACAAACTCATAAGTACGATTTTTGTATTATAACGA
15851676 TAATCATAATTTCATAATAAATATTCCAAATAAAATATTATATCATTTCTAATTCAACATTTATC
391 TAATCATAATTTCATAATAAATATTCCAAATAAAATATTATATCATTTCTAATTCAACATTTATC
*
15851741 AATTATAATCTGGCATGTGATCAATTTATACACAAGT
456 AATTATAATCGGGCATGTGATCAATTTATACACAAGT
15851778 CATTCATATA
Statistics
Matches: 1176, Mismatches: 35, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
720 1175 1.00
721 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (720 bp):
TAACACCCTTAACCCGTATCCGTCGCTGGAATAGGGATTCAGAGTATTACCAAAATTTACAGATC
ATTTAACAAAAATTCCGCTTCACATAACATTCATACCTGAAATCAATCAAATTTAATCATAGTGT
CCCTTATGTGAGCCATCGAGGCCCAGAATATAGATATCGGGACTTAACCGAGAACTCAGAAAATT
TTTCGAAAATATTTAAAATTTTTCAACACTGCAAGGGGTCACAGGCTGTGTGGTCAGATCGTGTG
GTTCACACAATATTCACGAAGTTATCATCAATTCATATGAAATAACACATCATGAAATTCATAAA
ATTAATAAATGGCCACTAAAATTTAGTTATACAAACTCATAAGTACGATTTTTGTATTATAACGA
TAATCATAATTTCATAATAAATATTCCAAATAAAATATTATATCATTTCTAATTCAACATTTATC
AATTATAATCGGGCATGTGATCAATTTATACACAAGTTTCAACTCATCATAAACACATTCTTACT
CAGACACATTAGTGTCACTTTCAACACTTTCTGAAATAACTCGATCAAAAAGTATTTCTGTCTAT
AAGTAAAAAAAAAAAAATTGATCAGATTACACACATCACTCTATCACAGATTTATATGGCATGTA
TCTCTAAACACTTTACACATCTCATTTGATCCGAGAGTCGGCTAAACCGAAGCTTTGATACCACT
AAATG
Found at i:15852988 original size:15 final size:16
Alignment explanation
Indices: 15852961--15852990 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15852951 AGATATTGCA
15852961 ATTTAGTCCCATTTTT
1 ATTTAGTCCCATTTTT
15852977 ATTTAG-CCCATTTT
1 ATTTAGTCCCATTTT
15852991 GGTAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (16 bp):
ATTTAGTCCCATTTTT
Found at i:15854780 original size:43 final size:42
Alignment explanation
Indices: 15854714--15854875 Score: 121
Period size: 43 Copynumber: 3.8 Consensus size: 42
15854704 AGCTCGTACA
** *
15854714 ATGCCAATGTCCCAGACGTGGTCTTACATGTAACCAAATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACATGAAACCAAATA-CG
* *
15854757 ATGCCACTGTCCCAGACAAGGTCTTACATGAAATCAAATACG
1 ATGCCAATGTCCCAGACAAGGTCTTACATGAAACCAAATACG
* * * * * * *
15854799 ATACCGATGTGCCAGGCATGATCTTACACAT-AAATCATAAGT-CG
1 ATGCCAATGTCCCAGACAAGGTCTT--ACATGAAACCA-AA-TACG
* ** *
15854843 ATGCCAACGTCCCAGACGTGGTCTTACACGAAA
1 ATGCCAATGTCCCAGACAAGGTCTTACATGAAA
15854876 ACACATATCG
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
42 23 0.24
43 44 0.47
44 26 0.28
45 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAAGGTCTTACATGAAACCAAATACG
Found at i:15855741 original size:34 final size:34
Alignment explanation
Indices: 15855703--15855770 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
15855693 TCTTTTAATT
15855703 ATTATAAGTTTATTTTCATATTTACTTATTTAAC
1 ATTATAAGTTTATTTTCATATTTACTTATTTAAC
15855737 ATTATAAGTTTATTTTCATATTTACTTATTTAAC
1 ATTATAAGTTTATTTTCATATTTACTTATTTAAC
15855771 CTTTGTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.56
Consensus pattern (34 bp):
ATTATAAGTTTATTTTCATATTTACTTATTTAAC
Found at i:15856678 original size:6 final size:5
Alignment explanation
Indices: 15856664--15856749 Score: 50
Period size: 6 Copynumber: 15.6 Consensus size: 5
15856654 TAATTAGGTA
*
15856664 ATTTT ATTGTT ATTGTT ATTCTT AGTTTT ATTTT ATTTT A-TAT ATTTTT
1 ATTTT ATT-TT ATT-TT ATT-TT A-TTTT ATTTT ATTTT ATTTT A-TTTT
*
15856713 AGTATT ATTATT ATTGTT ATTTT -TTATT ATTTCT ATT
1 A-TTTT ATT-TT ATT-TT ATTTT ATT-TT ATTT-T ATT
15856750 ATCTTTATTA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
4 5 0.08
5 19 0.29
6 40 0.61
7 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:15856711 original size:9 final size:8
Alignment explanation
Indices: 15856696--15856759 Score: 58
Period size: 9 Copynumber: 7.4 Consensus size: 8
15856686 TAGTTTTATT
15856696 TTATTTTA
1 TTATTTTA
15856704 TATATTTTTA
1 T-TA-TTTTA
*
15856714 GTATTATTA
1 TTATT-TTA
15856723 TTATTGTTA
1 TTATT-TTA
15856732 TT-TTTTA
1 TTATTTTA
15856739 TTATTTCTA
1 TTATTT-TA
15856748 TTATCTTTA
1 TTAT-TTTA
15856757 TTA
1 TTA
15856760 CCATTTTTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 5 0.11
8 8 0.17
9 27 0.57
10 7 0.15
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (8 bp):
TTATTTTA
Found at i:15856714 original size:26 final size:28
Alignment explanation
Indices: 15856680--15856732 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
15856670 TTGTTATTGT
*
15856680 TATTCTTAGTTTTATT-TTATT-TTATA
1 TATTCTTAGTATTATTATTATTGTTATA
*
15856706 TATTTTTAGTATTATTATTATTGTTAT
1 TATTCTTAGTATTATTATTATTGTTAT
15856733 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 14 0.61
27 5 0.22
28 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.68
Consensus pattern (28 bp):
TATTCTTAGTATTATTATTATTGTTATA
Found at i:15858572 original size:12 final size:12
Alignment explanation
Indices: 15858557--15858596 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
15858547 TATCTAGTCA
*
15858557 TGTGTTTGCCCG
1 TGTGTCTGCCCG
*
15858569 TGTGTCTGCCCA
1 TGTGTCTGCCCG
*
15858581 TGTGTCTGCACG
1 TGTGTCTGCCCG
15858593 TGTG
1 TGTG
15858597 GAAAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.05, C:0.25, G:0.33, T:0.38
Consensus pattern (12 bp):
TGTGTCTGCCCG
Found at i:15860975 original size:16 final size:16
Alignment explanation
Indices: 15860962--15860993 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15860952 AGAATGGTCA
15860962 TGGCATAAAATGGTAT
1 TGGCATAAAATGGTAT
15860978 TGGCATAAAATGGTAT
1 TGGCATAAAATGGTAT
15860994 GTGATTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
TGGCATAAAATGGTAT
Found at i:15869526 original size:30 final size:30
Alignment explanation
Indices: 15869481--15869540 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15869471 ATTTAATACG
*
15869481 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
15869511 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
15869541 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:15875827 original size:30 final size:30
Alignment explanation
Indices: 15875782--15875841 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15875772 ATTTAATACG
*
15875782 AACTTTGGCAAAATTACATTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
15875812 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
15875842 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:15878667 original size:26 final size:27
Alignment explanation
Indices: 15878644--15878886 Score: 109
Period size: 27 Copynumber: 9.0 Consensus size: 27
15878634 TTAGAATACT
*
15878644 TTAGTTTACCAAATTACTGAAATACCC
1 TTAGTTTACAAAATTACTGAAATACCC
15878671 TTAGTTTACAAAATTACTG-AATACCC
1 TTAGTTTACAAAATTACTGAAATACCC
* * * **
15878697 -TCGATTAGAAAAATTACCAAAATACCC
1 TTAGTTTA-CAAAATTACTGAAATACCC
* * ** **
15878724 CTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTACAAAATTACTGAAATACCC
* ** **
15878751 CTAGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTACAAAATTACTGAAATACCC
* * **
15878778 CTGGTTTGTAAAATTAC-GAAAATACCC
1 TTAGTTTACAAAATTACTG-AAATACCC
*** *
15878805 TT-GATTTGTGAAATTACTAAAATACCC
1 TTAG-TTTACAAAATTACTGAAATACCC
* *** *
15878832 TCAACCTATAAAATTACTGAAATA-CC
1 TTAGTTTACAAAATTACTGAAATACCC
* ** *
15878858 TTCGACCTATAAAATTACTGAAATACCC
1 TTAG-TTTACAAAATTACTGAAATACCC
15878886 T
1 T
15878887 CGACTTGCAA
Statistics
Matches: 181, Mismatches: 26, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
25 5 0.03
26 19 0.10
27 150 0.83
28 7 0.04
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTAGTTTACAAAATTACTGAAATACCC
Found at i:15878736 original size:27 final size:27
Alignment explanation
Indices: 15878706--15878831 Score: 198
Period size: 27 Copynumber: 4.7 Consensus size: 27
15878696 CTCGATTAGA
15878706 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
15878733 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
15878760 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
15878787 AAAATTACGAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
15878814 GAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
15878832 TCAACCTATA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:15878768 original size:54 final size:54
Alignment explanation
Indices: 15878690--15878831 Score: 205
Period size: 54 Copynumber: 2.6 Consensus size: 54
15878680 AAAATTACTG
* * *
15878690 AATACCCTCGATTAGAAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AATACCCTAGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
*
15878744 AATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACGAA
1 AATA-CCCTAGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
* * *
15878798 AATACCCTTGATTTGTGAAATTACTAAAATACCC
1 AATACCCTAGATTTGTAAAATTACCAAAATACCC
15878832 TCAACCTATA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 5 0.06
54 69 0.87
55 5 0.06
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (54 bp):
AATACCCTAGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
Found at i:15878832 original size:27 final size:27
Alignment explanation
Indices: 15878690--15878919 Score: 176
Period size: 27 Copynumber: 8.5 Consensus size: 27
15878680 AAAATTACTG
* * *
15878690 AATACCCTCGATTAGAAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
15878717 AATACCCCTGGTTTGTAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
*
15878744 AATACCCCT-AGTTTGTAAAATTACCAA
1 AATACCCTTGA-TTTGTAAAATTACCAA
* * *
15878771 AATACCCCTGGTTTGTAAAATTACGAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
15878798 AATACCCTTGATTTGTGAAATTACTAA
1 AATACCCTTGATTTGTAAAATTACCAA
** ** * **
15878825 AATACCCTCAACCTATAAAATTACTGA
1 AATACCCTTGATTTGTAAAATTACCAA
** * **
15878852 AATA-CCTTCGACCTATAAAATTACTGA
1 AATACCCTT-GATTTGTAAAATTACCAA
* * *
15878879 AATACCCTCGACTTGCAAAATTACCAA
1 AATACCCTTGATTTGTAAAATTACCAA
* *
15878906 AGTACCCCTGATTT
1 AATACCCTTGATTT
15878920 ACAGAATTAT
Statistics
Matches: 168, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
26 3 0.02
27 162 0.96
28 3 0.02
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (27 bp):
AATACCCTTGATTTGTAAAATTACCAA
Found at i:15878965 original size:27 final size:27
Alignment explanation
Indices: 15878815--15878965 Score: 110
Period size: 27 Copynumber: 5.6 Consensus size: 27
15878805 TTGATTTGTG
* * * *
15878815 AAATTACTAAAATACCCTCAACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
* * *
15878842 AAATTACTGAAATACCTTCGACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
*
15878869 AAATTACTGAAATACCCTCGACTTGCA
1 AAATTACTGAAATACCCTCGACTTACA
* *
15878896 AAATTAC-CAAAGTACCC-CTGATTTACA
1 AAATTACTGAAA-TACCCTC-GACTTACA
* *** *
15878923 GAATTA-TCGTTTTACCCTCGATTTACA
1 AAATTACT-GAAATACCCTCGACTTACA
*
15878950 AAATTATTGAAATACC
1 AAATTACTGAAATACC
15878966 TCTGTAGGGT
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
26 4 0.04
27 93 0.94
28 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:15878979 original size:27 final size:27
Alignment explanation
Indices: 15878949--15879091 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
15878939 CTCGATTTAC
*
15878949 AAAATTATTGAAATA-CCTCTGTAGGGT
1 AAAATTACTGAAATACCCT-TGTAGGGT
*
15878976 AAAATTACTGAAATACCCCTGTAGGGT
1 AAAATTACTGAAATACCCTTGTAGGGT
* **
15879003 AGAATTACCAAAATACCCTTGTAGGGT
1 AAAATTACTGAAATACCCTTGTAGGGT
*
15879030 AGAAA-TACCGAAATACCCTTGTAGGGT
1 A-AAATTACTGAAATACCCTTGTAGGGT
* * *
15879057 AGAATTACTGAGATACCCTTGTGGGGT
1 AAAATTACTGAAATACCCTTGTAGGGT
15879084 AAAATTAC
1 AAAATTAC
15879092 CATTTTGCCC
Statistics
Matches: 100, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 94 0.94
28 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.27
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGTAGGGT
Found at i:15879531 original size:22 final size:22
Alignment explanation
Indices: 15879479--15879543 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
15879469 GCCAAGTATT
* * *
15879479 CTGATTATGGCTTTGCGCCAAT
1 CTGATTATGGCTCTGTGCCAAC
*
15879501 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
15879523 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
15879544 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:15879886 original size:6 final size:6
Alignment explanation
Indices: 15879875--15879976 Score: 57
Period size: 6 Copynumber: 16.5 Consensus size: 6
15879865 CTATTCACAA
* * * *
15879875 TCTGAT TCTGAT CCTG-T TACCTGAT ACTGAT TCTGAT TCTG-T CACCTAAT
1 TCTGAT TCTGAT TCTGAT T--CTGAT TCTGAT TCTGAT TCTGAT --TCTGAT
* * * *
15879925 TCTGAT TCTGAT TCTG-T CACCTGAT TCTGAT TTTGAT TCTCAT TTTGAT
1 TCTGAT TCTGAT TCTGAT --TCTGAT TCTGAT TCTGAT TCTGAT TCTGAT
15879974 TCT
1 TCT
15879977 AGTTTTGATA
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
5 3 0.04
6 57 0.80
7 8 0.11
8 3 0.04
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.47
Consensus pattern (6 bp):
TCTGAT
Found at i:15879904 original size:25 final size:25
Alignment explanation
Indices: 15879875--15879964 Score: 135
Period size: 25 Copynumber: 3.6 Consensus size: 25
15879865 CTATTCACAA
* *
15879875 TCTGATTCTGATCCTGTTACCTGAT
1 TCTGATTCTGATTCTGTCACCTGAT
* *
15879900 ACTGATTCTGATTCTGTCACCTAAT
1 TCTGATTCTGATTCTGTCACCTGAT
15879925 TCTGATTCTGATTCTGTCACCTGAT
1 TCTGATTCTGATTCTGTCACCTGAT
*
15879950 TCTGATTTTGATTCT
1 TCTGATTCTGATTCT
15879965 CATTTTGATT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (25 bp):
TCTGATTCTGATTCTGTCACCTGAT
Found at i:15892008 original size:45 final size:44
Alignment explanation
Indices: 15891959--15892217 Score: 214
Period size: 45 Copynumber: 5.8 Consensus size: 44
15891949 ATTCTCGTTT
* * * * *
15891959 TGATGCCATACTGTCTTTCAACCATGGTCTTATTCCTTTGATTCG
1 TGATGCCATAATGTCTTTCAGCCATGGTCTTACTCGTTAGATT-G
** ** *
15892004 TGATGCCATAGCGTCTTTCAGCTTTGGTCTTACTCGTTAGAATAG
1 TGATGCCATAATGTCTTTCAGCCATGGTCTTACTCGTTAG-ATTG
* * * *
15892049 TGATGCCATAATGCCTTTTAGTCATGGTCTTACTCGATAGAATTG
1 TGATGCCATAATGTCTTTCAGCCATGGTCTTACTCGTTAG-ATTG
* * **
15892094 TGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
1 TGATGCCATAATGTCTTTCAGCCATGGTCTTACTCGTTAG-ATTG
* ** * ** *
15892139 TGATGCCATAAAT-TCTATCAATCATGGTCTAACTCAATAGAATCG
1 TGATGCCAT-AATGTCTTTCAGCCATGGTCTTACTCGTTAG-ATTG
* *
15892184 TGATGCCATAACGTCTTTCAGTCATGGTCTTACT
1 TGATGCCATAATGTCTTTCAGCCATGGTCTTACT
15892218 TGTTTCTTGT
Statistics
Matches: 180, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
44 2 0.01
45 173 0.96
46 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (44 bp):
TGATGCCATAATGTCTTTCAGCCATGGTCTTACTCGTTAGATTG
Found at i:15892238 original size:90 final size:90
Alignment explanation
Indices: 15892001--15892217 Score: 287
Period size: 90 Copynumber: 2.4 Consensus size: 90
15891991 TTCCTTTGAT
* * * *
15892001 TCGTGATGCCATAGCGTCTTTCAG-CTTTGGTCTTACTCGTTAGAAT-AGTGATGCCAT-AATGC
1 TCGTGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCA-TGATGCCATAAAT-T
* * * * *
15892063 CTTTTAGTCATGGTCTTACTCGATAGAA
63 CTATCAATCATGGTCTAACTCAATAGAA
* *
15892091 TTGTGATGCCATAATGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAAATTCTA
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAAATTCTA
15892156 TCAATCATGGTCTAACTCAATAGAA
66 TCAATCATGGTCTAACTCAATAGAA
15892181 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
1 TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACT
15892218 TGTTTCTTGT
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
90 106 0.95
91 5 0.05
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (90 bp):
TCGTGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCATGATGCCATAAATTCTA
TCAATCATGGTCTAACTCAATAGAA
Found at i:15894232 original size:48 final size:47
Alignment explanation
Indices: 15894113--15894235 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 47
15894103 TTGATAAGTT
* * * *
15894113 CCTATACAATGGCCTGTAGCCAAATCAAGGTAACTTATCTCGGAGTA
1 CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCGAAATA
* * * *
15894160 CCTATACCATGGCTCGCAGCCAAATCAAGGTAACTTCTCTTGAAAATA
1 CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCG-AAATA
* *
15894208 CTTATACCATGGCCCATAGCCAAATCAA
1 CCTATACCATGGCCCGTAGCCAAATCAA
15894236 TGTATAACCT
Statistics
Matches: 63, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 36 0.57
48 27 0.43
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (47 bp):
CCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCGAAATA
Found at i:15894375 original size:21 final size:22
Alignment explanation
Indices: 15894349--15894398 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
15894339 TTTCCAATAC
15894349 CAAATCA-TAGTCGAATCATT-T
1 CAAATCACT-GTCGAATCATTGT
*
15894370 CAAATCACTGTTGAATCATTGT
1 CAAATCACTGTCGAATCATTGT
*
15894392 CGAATCA
1 CAAATCA
15894399 AGTTCATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (22 bp):
CAAATCACTGTCGAATCATTGT
Found at i:15897974 original size:21 final size:22
Alignment explanation
Indices: 15897948--15897994 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
15897938 TATATACATT
*
15897948 CAAAATTAATCCATTTAAT-CA
1 CAAAATTAATCAATTTAATCCA
* *
15897969 CAAAATTATTCAATTTCATCCA
1 CAAAATTAATCAATTTAATCCA
15897991 CAAA
1 CAAA
15897995 CACATATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (22 bp):
CAAAATTAATCAATTTAATCCA
Found at i:15904950 original size:21 final size:22
Alignment explanation
Indices: 15904924--15904973 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
15904914 TTTCCAATAC
*
15904924 CAAATCA-TAGTCGAGTCATT-T
1 CAAATCACTA-TCGAATCATTGT
15904945 CAAATCACTATCGAATCATTGT
1 CAAATCACTATCGAATCATTGT
*
15904967 CGAATCA
1 CAAATCA
15904974 AGTTCATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (22 bp):
CAAATCACTATCGAATCATTGT
Found at i:15905920 original size:15 final size:15
Alignment explanation
Indices: 15905900--15905930 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15905890 TAGAATGCAA
15905900 CTTTTGCATTTTACG
1 CTTTTGCATTTTACG
15905915 CTTTTGCATTTTACG
1 CTTTTGCATTTTACG
15905930 C
1 C
15905931 GATTTAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.52
Consensus pattern (15 bp):
CTTTTGCATTTTACG
Found at i:15908785 original size:27 final size:27
Alignment explanation
Indices: 15908755--15908923 Score: 99
Period size: 27 Copynumber: 6.3 Consensus size: 27
15908745 CGACTTGTAA
15908755 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAGTAC-CCTCGATTTACAG
****
15908782 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
*** * **
15908809 AATTACCATTTTACCCTTGATTTTTAG
1 AATTACCAAAGTACCCTCGATTTACAG
****
15908836 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
* ****
15908863 AATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCAAAGTACCCTCGA-TTTACAG
* ***
15908890 AATTACTATTTTACCCTCGATTTACAG
1 AATTACCAAAGTACCCTCGATTTACAG
15908917 AATTACC
1 AATTACC
15908924 GTTTTACCCT
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.02
27 118 0.97
28 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (27 bp):
AATTACCAAAGTACCCTCGATTTACAG
Found at i:15908928 original size:27 final size:27
Alignment explanation
Indices: 15908772--15909019 Score: 327
Period size: 27 Copynumber: 9.2 Consensus size: 27
15908762 AAAGTACTCC
15908772 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
15908799 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
15908826 TGATTTTTAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
15908853 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
15908880 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
15908907 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * **
15908934 CGATTTGTAAAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
15908961 TGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
15908988 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
15909015 TGATT
1 CGATT
15909020 GTGAAATTAC
Statistics
Matches: 191, Mismatches: 28, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 189 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:15909210 original size:27 final size:27
Alignment explanation
Indices: 15909024--15909219 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
15909014 TTGATTGTGA
* *
15909024 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
15909051 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
15909078 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15909105 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
15909132 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
15909159 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* ** * *
15909186 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
15909213 AATTACC
1 AATTACC
15909220 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:15909449 original size:27 final size:26
Alignment explanation
Indices: 15909418--15909498 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
15909408 CGGAGGAAGC
*
15909418 GTTCTGGTTGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
15909445 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * **
15909471 GTATCTGGTGACTCTGTTACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
15909498 G
1 G
15909499 GTGACTCTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:15909496 original size:21 final size:21
Alignment explanation
Indices: 15909472--15909524 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
15909462 ACAATATCTG
* *
15909472 TATCTGGTGACTCTGTTACAA
1 TATCTGGTGACTCTATCACAA
15909493 TATCTGGTGACTCTATCACAA
1 TATCTGGTGACTCTATCACAA
*
15909514 TATCTGTTGAC
1 TATCTGGTGAC
15909525 CGATCGATGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (21 bp):
TATCTGGTGACTCTATCACAA
Found at i:15909641 original size:22 final size:22
Alignment explanation
Indices: 15909609--15909667 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
15909599 CCCGTTATTA
*
15909609 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
15909631 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
15909653 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
15909668 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:15909854 original size:27 final size:27
Alignment explanation
Indices: 15909824--15909900 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
15909814 TATTCTGTTA
* *
15909824 GGTGGCTTTGCCACATTATCTGAT-TCT
1 GGTGGCTCTGCCACAATATCT-ATATCT
15909851 GGTGGCTCTGCCACAATATCTATATCT
1 GGTGGCTCTGCCACAATATCTATATCT
* * *
15909878 GGTGACTCTGTCACGATATCTAT
1 GGTGGCTCTGCCACAATATCTAT
15909901 TTTGGCAGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTGGCTCTGCCACAATATCTATATCT
Found at i:15910018 original size:6 final size:6
Alignment explanation
Indices: 15910007--15910192 Score: 134
Period size: 6 Copynumber: 30.7 Consensus size: 6
15909997 CTGGATTGGG
* * *
15910007 TTCTGA TTCTGA TTCTG- TCACCTAA TTTTGA TTCTGA TTCTGA TTCTG-
1 TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA
* *
15910055 TTACTAA TACTGA TTCTGA TTCTGA TTCT-A TTACTGA TTCTGA TTCTGA
1 TT-CTGA TTCTGA TTCTGA TTCTGA TTCTGA TT-CTGA TTCTGA TTCTGA
* * * *
15910104 TTCTG- TCACCTAA TTTTGA TTCTGA TTCTGA TTCTG- TTACTAA TAT-TGA
1 TTCTGA T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA TT-CTGA T-TCTGA
* * *
15910153 TTCTAA TTCTGA TTCTG- TTATTGG TTCTGA TTCTGA TTCT
1 TTCTGA TTCTGA TTCTGA TT-CTGA TTCTGA TTCTGA TTCT
15910193 CATTTTGGTT
Statistics
Matches: 141, Mismatches: 23, Indels: 32
0.72 0.12 0.16
Matches are distributed among these distances:
5 12 0.09
6 115 0.82
7 11 0.08
8 3 0.02
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (6 bp):
TTCTGA
Found at i:15910069 original size:30 final size:30
Alignment explanation
Indices: 15910007--15910192 Score: 204
Period size: 30 Copynumber: 6.3 Consensus size: 30
15909997 CTGGATTGGG
* **
15910007 TTCTGATTCTGATTCTGTCACCTAATTTTGA
1 TTCTGATTCTGATTCTGTTA-CTAATACTGA
15910038 TTCTGATTCTGATTCTGTTACTAATACTGA
1 TTCTGATTCTGATTCTGTTACTAATACTGA
15910068 TTCTGATTCTGATTC---TA-T--TACTGA
1 TTCTGATTCTGATTCTGTTACTAATACTGA
* **
15910092 TTCTGATTCTGATTCTGTCACCTAATTTTGA
1 TTCTGATTCTGATTCTGTTA-CTAATACTGA
*
15910123 TTCTGATTCTGATTCTGTTACTAATATTGA
1 TTCTGATTCTGATTCTGTTACTAATACTGA
* * ** *
15910153 TTCTAATTCTGATTCTGTTATTGGTTCTGA
1 TTCTGATTCTGATTCTGTTACTAATACTGA
15910183 TTCTGATTCT
1 TTCTGATTCT
15910193 CATTTTGGTT
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
24 21 0.16
26 1 0.01
27 3 0.02
29 1 0.01
30 65 0.49
31 42 0.32
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.50
Consensus pattern (30 bp):
TTCTGATTCTGATTCTGTTACTAATACTGA
Done.