Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 232 of 343
Found at i:76435463 original size:14 final size:14
Alignment explanation
Indices: 76435446--76435473 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
76435436 TTGTTTTAAA
76435446 ATCCAAGTTTCTTC
1 ATCCAAGTTTCTTC
76435460 ATCCAAGTTTCTTC
1 ATCCAAGTTTCTTC
76435474 TGAATGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (14 bp):
ATCCAAGTTTCTTC
Found at i:76435683 original size:20 final size:20
Alignment explanation
Indices: 76435658--76435700 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
76435648 TACTCTTATT
76435658 TAAAGGTTGGACAAAGATTA
1 TAAAGGTTGGACAAAGATTA
76435678 TAAAGGTTGGACAAAGATTA
1 TAAAGGTTGGACAAAGATTA
76435698 TAA
1 TAA
76435701 GTAATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.23, T:0.26
Consensus pattern (20 bp):
TAAAGGTTGGACAAAGATTA
Found at i:76439625 original size:18 final size:18
Alignment explanation
Indices: 76439602--76439647 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
76439592 GTTTTTCTTC
76439602 AATCATG-ACTTAACGTAG
1 AATCATGCA-TTAACGTAG
76439620 AATCATGCATTAACGTAG
1 AATCATGCATTAACGTAG
76439638 AATCATGCAT
1 AATCATGCAT
76439648 AAATATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (18 bp):
AATCATGCATTAACGTAG
Found at i:76448037 original size:12 final size:12
Alignment explanation
Indices: 76448020--76448060 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
76448010 TCCACAAATA
76448020 TTTAAAACAAAC
1 TTTAAAACAAAC
76448032 TTT---A-AAAC
1 TTTAAAACAAAC
76448040 TTTAAAACAAAC
1 TTTAAAACAAAC
76448052 TTTAAAACA
1 TTTAAAACA
76448061 CAAATACTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 7 0.28
9 1 0.04
11 1 0.04
12 16 0.64
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (12 bp):
TTTAAAACAAAC
Found at i:76448043 original size:20 final size:20
Alignment explanation
Indices: 76448020--76448059 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
76448010 TCCACAAATA
76448020 TTTAAAACAAACTTTAAAAC
1 TTTAAAACAAACTTTAAAAC
76448040 TTTAAAACAAACTTTAAAAC
1 TTTAAAACAAACTTTAAAAC
76448060 ACAAATACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
TTTAAAACAAACTTTAAAAC
Found at i:76472022 original size:15 final size:15
Alignment explanation
Indices: 76471979--76472031 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
76471969 GTTAGCTAGT
76471979 AATTAAATGAAAAAA
1 AATTAAATGAAAAAA
**
76471994 AA-TATCT-AATAAAA
1 AATTAAATGAA-AAAA
76472008 AATTAAATGAAAAAA
1 AATTAAATGAAAAAA
76472023 AATCTAAAT
1 AAT-TAAAT
76472032 ATTGAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
13 2 0.07
14 9 0.30
15 12 0.40
16 7 0.23
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (15 bp):
AATTAAATGAAAAAA
Found at i:76474212 original size:16 final size:18
Alignment explanation
Indices: 76474193--76474233 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 18
76474183 AATTAATCAC
76474193 ATTTTAAAT-A-AAAATA
1 ATTTTAAATAATAAAATA
*
76474209 ATTTAAAATAATAAAATA
1 ATTTTAAATAATAAAATA
76474227 ATATTTA
1 AT-TTTA
76474234 TTGATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.40
17 1 0.05
18 8 0.40
19 3 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATTTTAAATAATAAAATA
Found at i:76474471 original size:22 final size:21
Alignment explanation
Indices: 76474445--76474515 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 21
76474435 AGAGAAAATT
*
76474445 AATTATGATTTTAATGTATTAA
1 AATTATGA-ATTAATGTATTAA
76474467 AATTATTGAATTAATGTATTAA
1 AATTA-TGAATTAATGTATTAA
*
76474489 AATTATTGAATTAA-CTATTAA
1 AATTA-TGAATTAATGTATTAA
76474510 ATATTA
1 A-ATTA
76474516 AATTTAATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 7 0.16
22 35 0.78
23 3 0.07
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (21 bp):
AATTATGAATTAATGTATTAA
Found at i:76474894 original size:18 final size:18
Alignment explanation
Indices: 76474873--76474907 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76474863 TTCAACTTCC
76474873 TAAAAAATTAAAATAAAA
1 TAAAAAATTAAAATAAAA
**
76474891 TAAAATTTTAAAATAAA
1 TAAAAAATTAAAATAAA
76474908 TGCTAATAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAAATTAAAATAAAA
Found at i:76484245 original size:7 final size:7
Alignment explanation
Indices: 76484235--76484267 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
76484225 ATATTTAATC
76484235 CTAATTA
1 CTAATTA
76484242 CTAATTA
1 CTAATTA
76484249 CTAATTA
1 CTAATTA
76484256 CTAATTA
1 CTAATTA
76484263 CTAAT
1 CTAAT
76484268 AACATAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (7 bp):
CTAATTA
Found at i:76486478 original size:22 final size:22
Alignment explanation
Indices: 76486453--76486495 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
76486443 CGTTTAAATC
* *
76486453 GATACTAAATCGAAACTACGTT
1 GATACTAAACCAAAACTACGTT
76486475 GATACTAAACCAAAACTACGT
1 GATACTAAACCAAAACTACGT
76486496 CGAAACAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.23
Consensus pattern (22 bp):
GATACTAAACCAAAACTACGTT
Found at i:76486741 original size:5 final size:5
Alignment explanation
Indices: 76486731--76486761 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
76486721 TTTTGGGGGA
76486731 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT
76486762 CCCCACTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:76492867 original size:10 final size:11
Alignment explanation
Indices: 76492852--76492880 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
76492842 TTTCGGGGGA
76492852 AAAATAAAAT-
1 AAAATAAAATC
76492862 AAAATAAAATC
1 AAAATAAAATC
76492873 AAAATAAA
1 AAAATAAA
76492881 CTCCCCACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:76493560 original size:22 final size:20
Alignment explanation
Indices: 76493525--76493571 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
76493515 AAAGTATTTT
* *
76493525 TATTTAAATTTAATTATAAA
1 TATTTAAATTTAATAAAAAA
76493545 TATTATAAATATTAATAAAAAA
1 TATT-TAAAT-TTAATAAAAAA
76493567 TATTT
1 TATTT
76493572 TTATATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 6 0.26
22 13 0.57
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTTAAATTTAATAAAAAA
Found at i:76498740 original size:21 final size:20
Alignment explanation
Indices: 76498714--76498752 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
76498704 ATGTGTTTTG
76498714 ATGTTTAATGATAGATTATTA
1 ATGTTTAATGATAG-TTATTA
*
76498735 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
76498753 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATTA
Found at i:76499864 original size:11 final size:11
Alignment explanation
Indices: 76499848--76499882 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
76499838 AGTCTATTTA
76499848 TACGAGCTTAC
1 TACGAGCTTAC
76499859 TACGAGCTTAC
1 TACGAGCTTAC
76499870 TACGAGCTTAC
1 TACGAGCTTAC
76499881 TA
1 TA
76499883 AGCTATAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (11 bp):
TACGAGCTTAC
Found at i:76506603 original size:21 final size:20
Alignment explanation
Indices: 76506577--76506615 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
76506567 ATGTGTTTTG
76506577 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
76506598 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
76506616 ACAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:76510653 original size:40 final size:39
Alignment explanation
Indices: 76510564--76510745 Score: 158
Period size: 40 Copynumber: 4.6 Consensus size: 39
76510554 TTGAATGATG
* * * *
76510564 TCCG-GCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGAGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
76510603 TCCG-GACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGAG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
76510643 TCCGAGCTAAG-CCGAAGGCATTTGCGCGAGTTACTAAA
1 TCCGAGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
76510681 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGAGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* *
76510722 -CCGGGCTATGTCCCGAAGGCATTT
1 TCCGAGCTAAGT-CCGAAGGCATTT
76510746 TGGAATGAAT
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
38 33 0.28
39 5 0.04
40 71 0.59
41 11 0.09
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (39 bp):
TCCGAGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:76523792 original size:31 final size:31
Alignment explanation
Indices: 76523744--76523821 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 31
76523734 GATATTTTGA
76523744 TATTTTA-TAAT-TATTTAACGAGATA-AATAT
1 TATTTTATTAATAT-TTTAA-GAGATATAATAT
* **
76523774 TATTTTATTAATATTTTAATAGATATTTTAT
1 TATTTTATTAATATTTTAAGAGATATAATAT
*
76523805 TATTTTATTATTATTTT
1 TATTTTATTAATATTTT
76523822 TTATTATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 12 0.29
31 28 0.68
32 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (31 bp):
TATTTTATTAATATTTTAAGAGATATAATAT
Found at i:76523823 original size:13 final size:14
Alignment explanation
Indices: 76523797--76523828 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
76523787 TTTTAATAGA
76523797 TATT-TTATTATTT
1 TATTATTATTATTT
76523810 TATTATTATT-TTT
1 TATTATTATTATTT
76523823 TATTAT
1 TATTAT
76523829 ATAAGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:76525656 original size:46 final size:46
Alignment explanation
Indices: 76525608--76525924 Score: 333
Period size: 46 Copynumber: 7.0 Consensus size: 46
76525598 GCTCTCTGAA
** * * *
76525608 ATGAAATGTGTAAGACCATGGTTGAAAGGTACCATGGCCACATGAA
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
76525654 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
76525700 ATGAAAAGAATAAGACCATGGTTGAGAGATACTATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
76525746 GGGAAATCAATAAGACCATGGTTGAAAGATACCAT-GCGAGCGGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGC-AAC-ATGAC
* *
76525793 ATGAAATG--TTAGA-CATGGTTGAAAGATACCATGGC-ACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
76525835 ATGAAAAT-AATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
76525881 A-GAAAATGAGTAAGACCATAGTTGAAAGACACAATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
76525925 TCAAAGATAA
Statistics
Matches: 230, Mismatches: 32, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
42 7 0.03
43 5 0.02
44 23 0.10
45 36 0.16
46 151 0.66
47 8 0.03
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:76525858 original size:135 final size:138
Alignment explanation
Indices: 76525618--76525918 Score: 423
Period size: 135 Copynumber: 2.2 Consensus size: 138
76525608 ATGAAATGTG
*
76525618 TAAGACCATGGTTGAAAGGTACCATGGCCACATGAAATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCCACATGAAATGAAATGTGTAAGACCATGGTTGAAAGA
* * *
76525683 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAGAGATACTATGGCAACATGACGG
66 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
76525748 GAAATCAA
131 AAAATCAA
* * *
76525756 TAAGACCATGGTTGAAAGATACCAT-GCGAGCGGTGATATGAAATGT-T-AGA-CATGGTTGAAA
1 TAAGACCATGGTTGAAAGATACCATGGCCA-C-ATGAAATGAAATGTGTAAGACCATGGTTGAAA
*
76525817 GATACCATGGC-ACGTGACATGAAAATAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
64 GATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
76525881 AGAAAATGAG
129 AGAAAATCAA
* * *
76525891 TAAGACCATAGTTGAAAGACACAATGGC
1 TAAGACCATGGTTGAAAGATACCATGGC
76525919 ATCATGTCAA
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
135 78 0.53
136 24 0.16
137 6 0.04
138 26 0.18
139 12 0.08
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCCACATGAAATGAAATGTGTAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
AAAATCAA
Found at i:76528703 original size:26 final size:26
Alignment explanation
Indices: 76528674--76528724 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
76528664 CTCGAAATTT
*
76528674 AGATCTTGCCTAACCTCAATCTCCTC
1 AGATCTAGCCTAACCTCAATCTCCTC
*
76528700 AGATCTAGCCTAACTTCAATCTCCT
1 AGATCTAGCCTAACCTCAATCTCCT
76528725 TAGTCGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.35, G:0.08, T:0.31
Consensus pattern (26 bp):
AGATCTAGCCTAACCTCAATCTCCTC
Found at i:76532041 original size:21 final size:21
Alignment explanation
Indices: 76531998--76532041 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
76531988 TTGACCAGGG
***
76531998 CCTCTCGGTGGCTGCTGAATA
1 CCTCTCGGTGGCTGAACAATA
*
76532019 CCTCTCGGTGGCTGAACAGTA
1 CCTCTCGGTGGCTGAACAATA
76532040 CC
1 CC
76532042 CCGACCTGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.27, T:0.25
Consensus pattern (21 bp):
CCTCTCGGTGGCTGAACAATA
Found at i:76534173 original size:40 final size:40
Alignment explanation
Indices: 76534111--76534239 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 40
76534101 GCTTTAGTGG
* *
76534111 AAGATTGAGAATTAGCGACACTTTCTGAAAAACGCCGCTA
1 AAGATCGAGAATTAGCGGCACTTTCTGAAAAACGCCGCTA
* * *
76534151 AAGATCGAGTATTAGTGGCACTTTCTGAAAAACGCCACTA
1 AAGATCGAGAATTAGCGGCACTTTCTGAAAAACGCCGCTA
* ** * * *
76534191 AAGATTGAGCCTTAGCAGTACTTT-TCGAAAAACACCGCTA
1 AAGATCGAGAATTAGCGGCACTTTCT-GAAAAACGCCGCTA
76534231 AAGATCGAG
1 AAGATCGAG
76534240 CATTTGCGAC
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.23
Consensus pattern (40 bp):
AAGATCGAGAATTAGCGGCACTTTCTGAAAAACGCCGCTA
Found at i:76534579 original size:14 final size:14
Alignment explanation
Indices: 76534560--76534601 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
76534550 TTAGAGTCCT
*
76534560 GAGTTTTGGGTTTA
1 GAGTTTAGGGTTTA
*
76534574 GAGTTTAGAGTTT-
1 GAGTTTAGGGTTTA
76534587 GTAGTTTAGGGTTTA
1 G-AGTTTAGGGTTTA
76534602 TTGTTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 22 0.96
ACGTcount: A:0.19, C:0.00, G:0.33, T:0.48
Consensus pattern (14 bp):
GAGTTTAGGGTTTA
Found at i:76534807 original size:21 final size:21
Alignment explanation
Indices: 76534783--76534829 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
76534773 TTAGGGTGGA
* *
76534783 GGTTTATGGTCTAAGATTTAT
1 GGTTTATGATCTAAGATTTAG
* *
76534804 GGTTTATGATTTAGGATTTAG
1 GGTTTATGATCTAAGATTTAG
76534825 GGTTT
1 GGTTT
76534830 GGGGTTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.02, G:0.28, T:0.49
Consensus pattern (21 bp):
GGTTTATGATCTAAGATTTAG
Found at i:76535708 original size:8 final size:8
Alignment explanation
Indices: 76535674--76535744 Score: 78
Period size: 8 Copynumber: 8.9 Consensus size: 8
76535664 TATATTTTAC
76535674 TTTAAAAA
1 TTTAAAAA
76535682 TTATAAAAA
1 TT-TAAAAA
76535691 TCTTCAAAAAA
1 T-TT--AAAAA
76535702 TTT-AAAA
1 TTTAAAAA
76535709 TTT-AAAA
1 TTTAAAAA
76535716 TTTAAAAA
1 TTTAAAAA
76535724 --TAAAAA
1 TTTAAAAA
76535730 TTTAAAAA
1 TTTAAAAA
76535738 TTTAAAA
1 TTTAAAA
76535745 CTTAAAACTT
Statistics
Matches: 56, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
6 6 0.11
7 14 0.25
8 19 0.34
9 8 0.14
10 3 0.05
11 6 0.11
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (8 bp):
TTTAAAAA
Found at i:76535710 original size:7 final size:7
Alignment explanation
Indices: 76535698--76535783 Score: 91
Period size: 7 Copynumber: 12.0 Consensus size: 7
76535688 AAATCTTCAA
76535698 AAAATTT
1 AAAATTT
76535705 AAAATTT
1 AAAATTT
76535712 AAAATTT
1 AAAATTT
* *
76535719 AAAAATA
1 AAAATTT
76535726 AAAATTT
1 AAAATTT
76535733 AAAAATTT
1 -AAAATTT
*
76535741 AAAACTT
1 AAAATTT
*
76535748 AAAACTT
1 AAAATTT
*
76535755 AAAACTT
1 AAAATTT
*
76535762 AAAACTT
1 AAAATTT
76535769 AAAACTTT
1 AAAA-TTT
*
76535777 AATATTT
1 AAAATTT
76535784 TAGTCCATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
7 58 0.83
8 12 0.17
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (7 bp):
AAAATTT
Found at i:76535729 original size:21 final size:21
Alignment explanation
Indices: 76535705--76535783 Score: 77
Period size: 22 Copynumber: 3.7 Consensus size: 21
76535695 CAAAAAATTT
76535705 AAAATTTAAAATTTAAAAATA
1 AAAATTTAAAATTTAAAAATA
* *
76535726 AAAATTTAAAAATTTAAAACTT
1 AAAATTT-AAAATTTAAAAATA
* * *
76535748 AAAACTTAAAACTTAAAACTTA
1 AAAATTTAAAATTTAAAA-ATA
* *
76535770 AAACTTTAATATTT
1 AAAATTTAAAATTT
76535784 TAGTCCATAT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 17 0.37
22 29 0.63
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAATTTAAAATTTAAAAATA
Found at i:76535808 original size:39 final size:39
Alignment explanation
Indices: 76535760--76535843 Score: 159
Period size: 39 Copynumber: 2.2 Consensus size: 39
76535750 AACTTAAAAC
*
76535760 TTAAAACTTAAAACTTTAATATTTTAGTCCATATTTCAG
1 TTAAAACTTAAAACTTTAATATTTTAGTCCACATTTCAG
76535799 TTAAAACTTAAAACTTTAATATTTTAGTCCACATTTCAG
1 TTAAAACTTAAAACTTTAATATTTTAGTCCACATTTCAG
76535838 TTAAAA
1 TTAAAA
76535844 AGTTCAATAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.42
Consensus pattern (39 bp):
TTAAAACTTAAAACTTTAATATTTTAGTCCACATTTCAG
Found at i:76538713 original size:39 final size:39
Alignment explanation
Indices: 76538668--76538897 Score: 361
Period size: 39 Copynumber: 5.9 Consensus size: 39
76538658 ATGCAAGACA
* *
76538668 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
76538707 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* *
76538746 CTGGAAATATATCCGGGCCAAAGTTCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
76538785 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
76538824 CTAGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* ** *
76538863 CGGGAAATGTATCCGGGTTAAAGTCCCGTAGGCTT
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTT
76538898 TGTACTGGTA
Statistics
Matches: 177, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 177 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:76543973 original size:17 final size:16
Alignment explanation
Indices: 76543951--76543982 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
76543941 TCTCATCTGG
76543951 TTATCTATTATTTTTCC
1 TTATCTATT-TTTTTCC
76543968 TTATCTATTTTTTTC
1 TTATCTATTTTTTTC
76543983 TTTTTTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATCTATTTTTTTCC
Found at i:76544761 original size:15 final size:16
Alignment explanation
Indices: 76544741--76544771 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
76544731 GTTTTTGTCT
76544741 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
76544756 TATATATGATCTAAAA
1 TATATATGATCTAAAA
76544772 GTAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:76545371 original size:13 final size:13
Alignment explanation
Indices: 76545353--76545378 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76545343 ACCAGTTTGA
76545353 TTTTGACATGAGT
1 TTTTGACATGAGT
76545366 TTTTGACATGAGT
1 TTTTGACATGAGT
76545379 CCCTTAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
TTTTGACATGAGT
Found at i:76545986 original size:16 final size:16
Alignment explanation
Indices: 76545965--76546015 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 16
76545955 TTATGGGTTT
76545965 ACTTTTTACTGATTTC
1 ACTTTTTACTGATTTC
*
76545981 AC-TTTTA-TGGGTTT-
1 ACTTTTTACT-GATTTC
76545995 ACTTTTTACTGATTTC
1 ACTTTTTACTGATTTC
76546011 ACTTT
1 ACTTT
76546016 CATTACAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 3 0.10
15 18 0.62
16 8 0.28
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.57
Consensus pattern (16 bp):
ACTTTTTACTGATTTC
Found at i:76545990 original size:30 final size:30
Alignment explanation
Indices: 76545955--76546015 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
76545945 AGTTTTTTTA
76545955 TTATGGGTTTACTTTTTACTGATTTCACTT
1 TTATGGGTTTACTTTTTACTGATTTCACTT
76545985 TTATGGGTTTACTTTTTACTGATTTCACTT
1 TTATGGGTTTACTTTTTACTGATTTCACTT
76546015 T
1 T
76546016 CATTACAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.13, G:0.13, T:0.57
Consensus pattern (30 bp):
TTATGGGTTTACTTTTTACTGATTTCACTT
Found at i:76546001 original size:15 final size:15
Alignment explanation
Indices: 76545955--76546002 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
76545945 AGTTTTTTTA
76545955 TTATGGGTTTACTTT
1 TTATGGGTTTACTTT
*
76545970 TTACT-GATTTCAC-TT
1 TTA-TGGGTTT-ACTTT
76545985 TTATGGGTTTACTTT
1 TTATGGGTTTACTTT
76546000 TTA
1 TTA
76546003 CTGATTTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 3 0.11
15 21 0.78
16 3 0.11
ACGTcount: A:0.17, C:0.10, G:0.15, T:0.58
Consensus pattern (15 bp):
TTATGGGTTTACTTT
Found at i:76546737 original size:44 final size:44
Alignment explanation
Indices: 76546570--76546758 Score: 221
Period size: 44 Copynumber: 4.4 Consensus size: 44
76546560 TAATTTTTTT
* *
76546570 AAAGGTCATGA-CTTTTAGCGGCGTTTGTAGGAAAAGTGTCGCTA
1 AAAGGTCATGATC-TTTAGCGGCGTTTGTGGGAAAAGCGTCGCTA
* * *
76546614 AAA-GTCATGTTCTTTAGCGGCGTTTTTGGGAAAAGTGTCGCTA
1 AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTA
* *
76546657 AACA-GTCATGATCTTTAGCGGCATTTGTGGGAAAAGCGCCGCTA
1 AA-AGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTA
* *
76546701 AAAGGTCATGATCTTTAGTGGCGTTTCTGGGAAAAGCG-C-C--
1 AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTA
*
76546741 AAAGGTCATGACCTTTAG
1 AAAGGTCATGATCTTTAG
76546759 TGCCATTTTT
Statistics
Matches: 130, Mismatches: 12, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
40 17 0.13
42 1 0.01
43 39 0.30
44 73 0.56
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (44 bp):
AAAGGTCATGATCTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTA
Found at i:76549542 original size:29 final size:29
Alignment explanation
Indices: 76549507--76549580 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
76549497 GTTGTGAGAT
* *
76549507 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
76549536 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
76549565 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
76549581 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:76552806 original size:21 final size:20
Alignment explanation
Indices: 76552781--76552819 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
76552771 ACCTACTCTA
76552781 CCACCCACTC-TCTCTCTTTGG
1 CCACCC-CTCTTCT-TCTTTGG
76552802 CCACCCCTCTTCTTCTTT
1 CCACCCCTCTTCTTCTTT
76552820 CTCCATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.08, C:0.49, G:0.05, T:0.38
Consensus pattern (20 bp):
CCACCCCTCTTCTTCTTTGG
Found at i:76557469 original size:293 final size:288
Alignment explanation
Indices: 76556804--76557471 Score: 693
Period size: 293 Copynumber: 2.3 Consensus size: 288
76556794 GGGTTTCTAG
* * *
76556804 TTAAAATAAGTTATATTATTCAATGGTACTTTAGTATTTT-TATTTAAAACAGCTAATAAAAACA
1 TTAAAATAAGTTATATTATTCGA-GGTACTTTAGTATTTTAT-TTTAAAAAAGCTAATAAAAATA
* * * * * * * *
76556868 TACATATGGTGAGATTTGAACCCAAACCAATTGTATTAGTAAAACCTTTAAGTTACCATGCAACT
64 TGCATGTGATGGGATTTAAACCCAAACCAATTGTATCAGTAAAAACTTTAAGTTACCATGAAACT
* * *
76556933 AAAATTTTATTTTAATATTTTTATATATTCTAATTTTATTATGGACACTTTATTACTTTAATCAA
129 AAAACTTTATTTTAATATTTTTATACATTCTAATTTTATTATGCACACTTTATTACTTTAATCAA
* * * *
76556998 TTGTACATTTATACAATTTTTTAAGTTCCTAACTGAGTTGATGTCACCTCAACCGGGTCATCAGT
194 TTATACATTTATACAATTATTTAAGATCCTAACTGAGTTGATGTCACCTCAACCGGGTCATCAAT
* **
76557063 GAGGGAAATTACGGAAATGCCTTTTCATAA
259 GAGAGAAATTACAAAAATGCCTTTTCATAA
* *
76557093 TTAAAATAAGTTATATCATT-GAAGGCACTTTAGTATTTTTTTTTATTTTAAAAAAGGCTAATAA
1 TTAAAATAAGTTATATTATTCG-AGGTACTTTAGTA-----TTTTATTTTAAAAAA-GCTAATAA
* * * * * *
76557157 AAATATGAACGTCATGGGATTTAAACTCAATCCAATT-TCAGTCA-TAAAAACTTTAATTTACCA
59 AAATATGCATGTGATGGGATTTAAACCCAAACCAATTGT-A-TCAGTAAAAACTTTAAGTTACCA
* * *
76557220 CT-AAACTAAAACTTTATTTTGATA-TTTTATACATTCTAATTTTATTATGCACTCTTTATTATT
122 -TGAAACTAAAACTTTATTTTAATATTTTTATACATTCTAATTTTATTATGCACACTTTATTACT
* * * * * * * * *
76557283 TTCATGAATTATATATTTGTACTATTATTTAAGATCCTAATTTAGTTGGTGTCACCTTCAACTGG
186 TTAATCAATTATACATTTATACAATTATTTAAGATCCTAACTGAGTTGATGTCACC-TCAACCGG
* * **
76557348 GTCACCAATTCAATTAGAGAAATTACAAAAATGTCTTTTTGTAA
250 GT---C-A-TCAATGAGAGAAATTACAAAAATGCCTTTTCATAA
*
76557392 TTAAAATAAGTTATATTATTCGAGGTTACTTTAGTATTTTATTTTAAAAAACCT-ATAAAAATAT
1 TTAAAATAAGTTATATTATTCGAGG-TACTTTAGTATTTTATTTTAAAAAAGCTAATAAAAATAT
*
76557456 GCTTGTGATGGGATTT
65 GCATGTGATGGGATTT
76557472 CAATCTATAC
Statistics
Matches: 308, Mismatches: 52, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
288 11 0.04
289 20 0.06
293 115 0.37
294 83 0.27
295 18 0.06
297 1 0.00
298 1 0.00
299 49 0.16
300 10 0.03
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (288 bp):
TTAAAATAAGTTATATTATTCGAGGTACTTTAGTATTTTATTTTAAAAAAGCTAATAAAAATATG
CATGTGATGGGATTTAAACCCAAACCAATTGTATCAGTAAAAACTTTAAGTTACCATGAAACTAA
AACTTTATTTTAATATTTTTATACATTCTAATTTTATTATGCACACTTTATTACTTTAATCAATT
ATACATTTATACAATTATTTAAGATCCTAACTGAGTTGATGTCACCTCAACCGGGTCATCAATGA
GAGAAATTACAAAAATGCCTTTTCATAA
Found at i:76557938 original size:18 final size:17
Alignment explanation
Indices: 76557915--76557948 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
76557905 CTCGGCCTGT
*
76557915 AAATAAATAAATAAAAAC
1 AAATAAA-AAACAAAAAC
76557933 AAATAAAAAACAAAAA
1 AAATAAAAAACAAAAA
76557949 ACAATAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAAACAAAAAC
Found at i:76558037 original size:31 final size:31
Alignment explanation
Indices: 76557975--76558037 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
76557965 AGTCCATGTA
*
76557975 CAAAGCCCAAGACCCGATTACATCTTTAGCC
1 CAAAGCCCAAGACCCGATTACATCTTAAGCC
* * *
76558006 CAAAGCCCTATACTCGATTACA-CTCTAAGCC
1 CAAAGCCCAAGACCCGATTACATCT-TAAGCC
76558037 C
1 C
76558038 TTAGCCCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (31 bp):
CAAAGCCCAAGACCCGATTACATCTTAAGCC
Found at i:76558990 original size:11 final size:12
Alignment explanation
Indices: 76558974--76559007 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
76558964 TTTTTCAGAA
76558974 ATTTTTAATTTC
1 ATTTTTAATTTC
*
76558986 ATTTTTAATTTT
1 ATTTTTAATTTC
*
76558998 ATTTTAAATT
1 ATTTTTAATT
76559008 GGCCCTAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
ATTTTTAATTTC
Found at i:76559300 original size:12 final size:12
Alignment explanation
Indices: 76559283--76559393 Score: 59
Period size: 12 Copynumber: 9.1 Consensus size: 12
76559273 TTTTTCTTTG
76559283 TATATTATTTAT
1 TATATTATTTAT
76559295 TATATTA-TTAT
1 TATATTATTTAT
*
76559306 ATATTATTATATAT
1 -TA-TATTATTTAT
**
76559320 TATATTACCTA-
1 TATATTATTTAT
* *
76559331 CATTTTATTATAT
1 TATATTATT-TAT
76559344 ATATATTATTT-T
1 -TATATTATTTAT
*
76559356 ATATATTACTTAT
1 -TATATTATTTAT
* *
76559369 CATATTGTTTA-
1 TATATTATTTAT
*
76559380 TATTATTATATAT
1 TA-TATTATTTAT
76559393 T
1 T
76559394 TCGTTTATGA
Statistics
Matches: 74, Mismatches: 16, Indels: 17
0.69 0.15 0.16
Matches are distributed among these distances:
11 10 0.14
12 44 0.59
13 10 0.14
14 10 0.14
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:76559368 original size:16 final size:16
Alignment explanation
Indices: 76559283--76559361 Score: 51
Period size: 16 Copynumber: 5.1 Consensus size: 16
76559273 TTTTTCTTTG
76559283 TATATTA-TTTAT-TA
1 TATATTATTTTATATA
76559297 TATTATTATATATTAT-TA
1 TA-TATTAT-T-TTATATA
* **
76559315 TATATTATATTACCTA
1 TATATTATTTTATATA
* *
76559331 CAT-TT-TATTATATA
1 TATATTATTTTATATA
76559345 TATATTATTTTATATA
1 TATATTATTTTATATA
76559361 T
1 T
76559362 TACTTATCAT
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
14 11 0.22
15 12 0.24
16 13 0.25
17 7 0.14
18 8 0.16
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (16 bp):
TATATTATTTTATATA
Found at i:76559394 original size:40 final size:43
Alignment explanation
Indices: 76559292--76559394 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 43
76559282 GTATATTATT
*
76559292 TATTATATTATTATATATTATTATATATTATATTACCTACATTT
1 TATTATATTATTATATATT-TTATATATTATATTACCTACATTG
* * *
76559336 TATTATA-TA-TATATTATTTTATATATTA-CTTATC-ATATTG
1 TATTATATTATTATA-TATTTTATATATTATATTACCTACATTG
76559376 T-TTATATTATTATATATTT
1 TATTATATTATTATATATTT
76559395 CGTTTATGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
39 5 0.10
40 12 0.23
41 8 0.15
42 14 0.27
43 6 0.12
44 7 0.13
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (43 bp):
TATTATATTATTATATATTTTATATATTATATTACCTACATTG
Found at i:76567302 original size:36 final size:36
Alignment explanation
Indices: 76567262--76567342 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
76567252 TACCCCGTGA
76567262 GAAAGAGGTAATAGAGAATGTAGCCTTGGAGGAAGG
1 GAAAGAGGTAATAGAGAATGTAGCCTTGGAGGAAGG
*
76567298 GAAAGAGGCAATAGAGAATGTAGCCTTGGAGGAAGG
1 GAAAGAGGTAATAGAGAATGTAGCCTTGGAGGAAGG
*
76567334 GAAGGAGGT
1 GAAAGAGGT
76567343 GAAAATTGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.38, C:0.06, G:0.41, T:0.15
Consensus pattern (36 bp):
GAAAGAGGTAATAGAGAATGTAGCCTTGGAGGAAGG
Found at i:76571565 original size:44 final size:43
Alignment explanation
Indices: 76571506--76571935 Score: 540
Period size: 44 Copynumber: 9.8 Consensus size: 43
76571496 ATCACCGGTG
* * *
76571506 ACAGATTTGGCGTCTCTATATTATCAGAGAGCAGATCGAAGGT
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
* * * * *
76571549 GACAGGTTTGGTGTCTCCGTATTGACAGAGAGCAGATTGAAGAT
1 -ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
** *
76571593 AACAGATTTGGAATCTTTGTATTGTCAGAGAGCAGATCGAAGAT
1 -ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
* *
76571637 AGCAGATTTGGCGTCTCTGTATTGTCAGTA-AGCAAATTGAAGAT
1 A-CAGATTTGGCGTCTCTGTATTGTCAG-AGAGCAGATCGAAGAT
* * * *
76571681 AGTAGATTTGGTGTCTCTGTATTGTCAGAGAGTAGATAGAAGAT
1 A-CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
* * *
76571725 AGTAGATTTGGTGTCTTTGTATTGTCAGAGAGCAGATCGAAGAT
1 A-CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
76571769 AACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
1 -ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
*
76571813 AGAAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
1 A-CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
*
76571857 AACGGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATC-AAGGAT
1 -ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA-GAT
*
76571901 AGCAGATTTGGCATCTCTGTATTGTCAGAGAGCAG
1 A-CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAG
76571936 GTTTGAATAT
Statistics
Matches: 341, Mismatches: 37, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
43 6 0.02
44 332 0.97
45 3 0.01
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (43 bp):
ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
Found at i:76571659 original size:88 final size:88
Alignment explanation
Indices: 76571506--76571957 Score: 604
Period size: 88 Copynumber: 5.1 Consensus size: 88
76571496 ATCACCGGTG
* * * * * *
76571506 ACAGATTTGGCGTCTCTATATTATCAGAGAGCAGATCGAAGGT-GACAGGTTTGGTGTCTCCGTA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTGTA
*
76571570 TTGACAGAGAGCAGATTGAAGATA
65 TTGTCAGAGAGCAGATTGAAGATA
** *
76571594 ACAGATTTGGAATCTTTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
*
76571659 TGTCAGTA-AGCAAATTGAAGATA
66 TGTCAG-AGAGCAGATTGAAGATA
** * * * * * *
76571682 GTAGATTTGGTGTCTCTGTATTGTCAGAGAGTAGATAGAAGATAGTAGATTTGGTGTCTTTGTAT
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
*
76571747 TGTCAGAGAGCAGATCGAAGATA
66 TGTCAGAGAGCAGATTGAAGATA
*
76571770 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTAT
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
*
76571835 TGTCAGAGAGCAGATCGAAGATA
66 TGTCAGAGAGCAGATTGAAGATA
* *
76571858 ACGGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATC-AAGGATAGCAGATTTGGCATCTCTGTA
1 ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA-GATAGCAGATTTGGCGTCTCTGTA
* *
76571922 TTGTCAGAGAGCAGGTTTGAATATA
65 TTGTCAGAGAGCA-GATTGAAGATA
*
76571947 ACAGATCTGGC
1 ACAGATTTGGC
76571958 ATTCCTGAGT
Statistics
Matches: 320, Mismatches: 39, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
87 3 0.01
88 298 0.93
89 19 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (88 bp):
ACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAT
TGTCAGAGAGCAGATTGAAGATA
Found at i:76571744 original size:132 final size:132
Alignment explanation
Indices: 76571507--76571935 Score: 612
Period size: 132 Copynumber: 3.2 Consensus size: 132
76571497 TCACCGGTGA
* * * * *
76571507 CAGATTTGGCGTCTCTATATTATCAGAGAGCAGATCGAAGGT-GACAGGTTTGGTGTCTCCGTAT
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGA-AGATTTGGTGTCTCTGTAT
* * *
76571571 TGACAGAGAGCAGATTGAAGATAACAGATTTGGAATCTTTGTATTGTCAGAGAGCAGATCGAAGA
65 TGTCAGAGAGCAGATAGAAGATAACAGATTTGGAGTCTTTGTATTGTCAGAGAGCAGATCGAAGA
76571636 TAG
130 TAG
* * *
76571639 CAGATTTGGCGTCTCTGTATTGTCAGTA-AGCAAATTGAAGATAGTAGATTTGGTGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTGTCAG-AGAGCAGATCGAAGATAGAAGATTTGGTGTCTCTGTAT
* ** *
76571703 TGTCAGAGAGTAGATAGAAGATAGTAGATTTGGTGTCTTTGTATTGTCAGAGAGCAGATCGAAGA
65 TGTCAGAGAGCAGATAGAAGATAACAGATTTGGAGTCTTTGTATTGTCAGAGAGCAGATCGAAGA
*
76571768 TAA
130 TAG
*
76571771 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGAAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGAAGATTTGGTGTCTCTGTATT
* * * *
76571836 GTCAGAGAGCAGATCGAAGATAACGGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATC-AAGGA
66 GTCAGAGAGCAGATAGAAGATAACAGATTTGGAGTCTTTGTATTGTCAGAGAGCAGATCGAA-GA
76571900 TAG
130 TAG
*
76571903 CAGATTTGGCATCTCTGTATTGTCAGAGAGCAG
1 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAG
76571936 GTTTGAATAT
Statistics
Matches: 264, Mismatches: 29, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
131 3 0.01
132 259 0.98
133 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (132 bp):
CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGAAGATTTGGTGTCTCTGTATT
GTCAGAGAGCAGATAGAAGATAACAGATTTGGAGTCTTTGTATTGTCAGAGAGCAGATCGAAGAT
AG
Found at i:76573605 original size:16 final size:17
Alignment explanation
Indices: 76573530--76573598 Score: 52
Period size: 19 Copynumber: 3.8 Consensus size: 17
76573520 TGTATATTAT
*
76573530 TTATTATATTACTATATA
1 TTATTTTATTA-TATATA
76573548 TTATTATATATTATAT-TA
1 TTATT-T-TATTATATATA
*
76573566 CCTACATTTTATTATATATA
1 --T-TATTTTATTATATATA
76573586 TTATTTTA-TATAT
1 TTATTTTATTATAT
76573599 TACTTATCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
16 5 0.12
17 6 0.14
18 8 0.19
19 11 0.26
20 9 0.21
21 3 0.07
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTTTATTATATATA
Found at i:76573605 original size:28 final size:29
Alignment explanation
Indices: 76573524--76573610 Score: 66
Period size: 28 Copynumber: 3.3 Consensus size: 29
76573514 TTTCTTTGTA
*
76573524 TATTAT-T-TATTATATTACTATA-TA-T
1 TATTATATATATTATTTTACTATATTACT
* *
76573549 TA-T-TATATATTATATTACCTACATT--T
1 TATTATATATATTATTTTA-CTATATTACT
76573575 TATTATATATATTATTTTA-TATATTACT
1 TATTATATATATTATTTTACTATATTACT
*
76573603 TATCATAT
1 TATTATAT
76573611 TGTTTATATT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 12 0.24
26 12 0.24
27 2 0.04
28 21 0.42
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (29 bp):
TATTATATATATTATTTTACTATATTACT
Found at i:76573610 original size:14 final size:12
Alignment explanation
Indices: 76573522--76573629 Score: 70
Period size: 12 Copynumber: 9.1 Consensus size: 12
76573512 TTTTTCTTTG
76573522 TATATTATT-TA
1 TATATTATTATA
76573533 T-TA-TATTACTA
1 TATATTATTA-TA
76573544 TATATTATTATA
1 TATATTATTATA
76573556 TAT-TATATTACCTA
1 TATAT-TATTA--TA
* *
76573570 CATTTTATTATA
1 TATATTATTATA
*
76573582 TATATTATTTTA
1 TATATTATTATA
76573594 TATATTACTTATCA
1 TATATTA-TTAT-A
76573608 TAT-TGT-TTATA
1 TATAT-TATTATA
76573619 T-TATTA-TATA
1 TATATTATTATA
76573629 T
1 T
76573630 TTCGTTTATG
Statistics
Matches: 79, Mismatches: 5, Indels: 27
0.71 0.05 0.24
Matches are distributed among these distances:
9 4 0.05
10 9 0.11
11 8 0.10
12 34 0.43
13 9 0.11
14 14 0.18
15 1 0.01
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (12 bp):
TATATTATTATA
Found at i:76576723 original size:11 final size:11
Alignment explanation
Indices: 76576685--76576748 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
76576675 GATGATGGTG
76576685 ATATTTTAA-A
1 ATATTTTAATA
* *
76576695 TTATTTAAATA
1 ATATTTTAATA
*
76576706 TTATTTTAATA
1 ATATTTTAATA
*
76576717 ATATTTT-TTA
1 ATATTTTAATA
76576727 GATATTTT-ATGA
1 -ATATTTTAAT-A
76576739 ATATTTTAAT
1 ATATTTTAAT
76576749 TATTTGAAGT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
10 9 0.20
11 32 0.73
12 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (11 bp):
ATATTTTAATA
Found at i:76579504 original size:43 final size:43
Alignment explanation
Indices: 76579440--76579525 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
76579430 TATATGATTG
76579440 ATATTAAAATGGAAAAGATGAGAAATGAATATAAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAATGAATATAAGATGAGAAA
* * * *
76579483 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTAAAATGGAAAAGATGAGAAATGAATATAAGATGAGAAA
76579526 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.55, C:0.00, G:0.22, T:0.23
Consensus pattern (43 bp):
ATATTAAAATGGAAAAGATGAGAAATGAATATAAGATGAGAAA
Found at i:76581121 original size:5 final size:5
Alignment explanation
Indices: 76581111--76581173 Score: 65
Period size: 5 Copynumber: 12.6 Consensus size: 5
76581101 GATTATATAT
* * * * *
76581111 TATCA TATCA TAACG TATCA TAACA TATCA TAACA TATCA -ATTCA TAGCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TA-TCA TATCA
76581161 TATCA TATCA TAT
1 TATCA TATCA TAT
76581174 TATAACATGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
4 1 0.02
5 44 0.96
6 1 0.02
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.35
Consensus pattern (5 bp):
TATCA
Found at i:76581472 original size:6 final size:6
Alignment explanation
Indices: 76581453--76581547 Score: 73
Period size: 6 Copynumber: 15.5 Consensus size: 6
76581443 TCTATGGCAT
* * * * *
76581453 ACACAC ACAAGC ACACGC ACACGT ATACGC ACACGC ACACGC ACACTC
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
* * * * * *
76581501 ACGCGCAC ACACGC ACACAC ACACAC ACACAC ACACAC ACACAC ACA
1 ACACG--C ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACA
76581548 TTTTCATACA
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
6 70 0.93
8 5 0.07
ACGTcount: A:0.41, C:0.46, G:0.09, T:0.03
Consensus pattern (6 bp):
ACACGC
Found at i:76581513 original size:10 final size:10
Alignment explanation
Indices: 76581464--76581547 Score: 78
Period size: 10 Copynumber: 8.0 Consensus size: 10
76581454 CACACACAAG
76581464 CACACGCACA
1 CACACGCACA
*
76581474 CGTATACGCACA
1 C--ACACGCACA
76581486 CGCACACGCACA
1 --CACACGCACA
* *
76581498 CTCACGCGCA
1 CACACGCACA
76581508 CACACGCACA
1 CACACGCACA
*
76581518 CACACACACA
1 CACACGCACA
*
76581528 CACACACACA
1 CACACGCACA
*
76581538 CACACACACA
1 CACACGCACA
76581548 TTTTCATACA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
10 46 0.73
12 16 0.25
14 1 0.02
ACGTcount: A:0.39, C:0.48, G:0.10, T:0.04
Consensus pattern (10 bp):
CACACGCACA
Found at i:76581519 original size:2 final size:2
Alignment explanation
Indices: 76581482--76581547 Score: 78
Period size: 2 Copynumber: 33.0 Consensus size: 2
76581472 CACGTATACG
* * * * * *
76581482 CA CA CG CA CA CG CA CA CT CA CG CG CA CA CA CG CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
76581524 CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA
76581548 TTTTCATACA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.41, C:0.50, G:0.08, T:0.02
Consensus pattern (2 bp):
CA
Found at i:76585727 original size:44 final size:42
Alignment explanation
Indices: 76585677--76585833 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
76585667 TGTGTTATCA
* *
76585677 TGTAAGACCATGTCTGGGACGTTGGCATCG-ACTTATGATTTACG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGTA-TT-TGATTT-CG
* * *
76585721 TGTAAGACTACGTCTAGGAGGTTGGCATCGTATTTGATTTTG
1 TGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTTCG
* * *
76585763 TGTAAGACC-CTGT-TAGAGACAG-TGGCATCGATATTGGATTACA
1 TGTAAGACCAC-GTCTAG-GAC-GTTGGCATCG-TATTTGATTTCG
* * *
76585806 TCTAAGACCACATCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTAGGACGTTGGCAT
76585834 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 4 0.04
42 22 0.24
43 33 0.36
44 31 0.34
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTAGGACGTTGGCATCGTATTTGATTTCG
Found at i:76590473 original size:137 final size:137
Alignment explanation
Indices: 76590227--76590503 Score: 482
Period size: 137 Copynumber: 2.0 Consensus size: 137
76590217 TAACCCAAGG
* * * *
76590227 TAAGTTGTATGTAAATAATACAACTACATTGTTATTATATGTTTTTGGATTGCTGTGGCATGAGT
1 TAAGTTGTATGTAAATAATACAACTACATCGTTATTATATGTTTTTGGATTGCTATAGCATGAAT
** *
76590292 TGCTTGATTTTGGAATTGAGAATGCATGATGATAATTGAGATAGTAGAATATCCTGTTTGAACCA
66 TGCTTGATCATGGAATTAAGAATGCATGATGATAATTGAGATAGTAGAATATCCTGTTTGAACCA
76590357 TAGGAAA
131 TAGGAAA
*
76590364 TAAGTTGTATGTAAATAATACAACTACATCGTTATTATATGTTTTTGGATTGTTATAGCATGAAT
1 TAAGTTGTATGTAAATAATACAACTACATCGTTATTATATGTTTTTGGATTGCTATAGCATGAAT
76590429 TGCTTGATCATGGAATTAAGAATGCATGATGATAATTGAGATAGTAGAATATCCTGTTTGAACCA
66 TGCTTGATCATGGAATTAAGAATGCATGATGATAATTGAGATAGTAGAATATCCTGTTTGAACCA
76590494 TAGGAAA
131 TAGGAAA
76590501 TAA
1 TAA
76590504 ATTAGATATT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.37
Consensus pattern (137 bp):
TAAGTTGTATGTAAATAATACAACTACATCGTTATTATATGTTTTTGGATTGCTATAGCATGAAT
TGCTTGATCATGGAATTAAGAATGCATGATGATAATTGAGATAGTAGAATATCCTGTTTGAACCA
TAGGAAA
Found at i:76590631 original size:46 final size:47
Alignment explanation
Indices: 76590540--76590806 Score: 171
Period size: 46 Copynumber: 5.7 Consensus size: 47
76590530 GGTTATTATG
* *
76590540 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-A
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGAGACGTA
* * * *
76590587 GATCTAGTGTAAGACATGTCTGGGATAT-GCATCAGCCTCGAGACGTA
1 -AGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGTA
** *
76590634 AGCCAGTGTAAGACATGTCTGAAACAT-GCATC-GACTAT-GAGATGT-
1 AGCCAGTGTAAGACATGTCTGGGACATGGCATCAG-C-ATCGAGACGTA
* * * * *
76590679 -GTCAGTGTAAGACCATGTCTGGGACATGACGTCGGCGTCGATGACG-A
1 AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGA-GACGTA
* * * *
76590726 TAGTCAGTGTAAGACCATATCTGGGACATGGCATCGGC-TTGAGA--TA
1 -AGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCATCGAGACGTA
* *
76590772 GGAGCCAATGTAAGACCTAG-CTGGGACATGGCATC
1 --AGCCAGTGTAAGACAT-GTCTGGGACATGGCATC
76590807 GACATTCTAC
Statistics
Matches: 176, Mismatches: 29, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
44 11 0.06
45 14 0.08
46 72 0.41
47 32 0.18
48 14 0.08
49 33 0.19
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCATCGAGACGTA
Found at i:76590734 original size:93 final size:93
Alignment explanation
Indices: 76590540--76590769 Score: 229
Period size: 94 Copynumber: 2.5 Consensus size: 93
76590530 GGTTATTATG
** *
76590540 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGATCTAGTGTAAGACATG
1 AGCCAGTGTAAGA-CATGTCTGAAACATGGCATCGACATTGAGACGAGATCTAGTGTAAGACATG
*
76590605 TCTGGGATATGCATCAGCCTCGAGACGTA
65 TCTGGGACATGCATCAGCCTCGAGACGTA
* *
76590634 AGCCAGTGTAAGACATGTCTGAAACAT-GCATCGAC-TATGAGATGTG-TC-AGTGTAAGACCAT
1 AGCCAGTGTAAGACATGTCTGAAACATGGCATCGACAT-TGAGACGAGATCTAGTGTAAGA-CAT
* * *
76590695 GTCTGGGACATGACGTCGGCGTCGATGACG-A
64 GTCTGGGACATG-CATCAGCCTCGA-GACGTA
* * ** *
76590726 TAGTCAGTGTAAGACCATATCTGGGACATGGCATCGGC-TTGAGA
1 -AGCCAGTGTAAGA-CATGTCTGAAACATGGCATCGACATTGAGA
76590770 TAGGAGCCAA
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
90 9 0.08
91 17 0.15
92 24 0.21
93 28 0.24
94 29 0.25
95 8 0.07
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (93 bp):
AGCCAGTGTAAGACATGTCTGAAACATGGCATCGACATTGAGACGAGATCTAGTGTAAGACATGT
CTGGGACATGCATCAGCCTCGAGACGTA
Found at i:76596975 original size:39 final size:39
Alignment explanation
Indices: 76596921--76597046 Score: 216
Period size: 39 Copynumber: 3.2 Consensus size: 39
76596911 TTCAGTGATG
76596921 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
76596960 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
76596999 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
76597038 TATGTCCGG
1 TATATCCGG
76597047 GCTAAAGTCT
Statistics
Matches: 83, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 83 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:76597061 original size:39 final size:39
Alignment explanation
Indices: 76596921--76597084 Score: 206
Period size: 39 Copynumber: 4.2 Consensus size: 39
76596911 TTCAGTGATG
* *
76596921 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
76596960 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
76596999 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
76597038 TATGTCCGGGC-TAAAGTCTCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGTC-CGCAGGCTACGTGCTGGAAT
76597077 TATA-CCGG
1 TATATCCGG
76597085 GTTTAAATTC
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 10 0.09
39 103 0.91
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:76599617 original size:39 final size:39
Alignment explanation
Indices: 76599459--76599679 Score: 249
Period size: 40 Copynumber: 5.7 Consensus size: 39
76599449 GCTCCTCGTT
* *
76599459 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-T-TAGTAACTCGCA
*
76599499 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
76599539 CAAATGCCTTCGGGA-TTA-CCCGGA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
* *
76599575 CAAATGCCTTC-GGATCTTAGTCCGGATTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTAGTAACTCGCA
* * * *
76599614 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
76599655 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
76599680 CATCATTCAA
Statistics
Matches: 163, Mismatches: 10, Indels: 16
0.86 0.05 0.08
Matches are distributed among these distances:
35 3 0.02
36 23 0.14
37 3 0.02
38 11 0.07
39 41 0.25
40 67 0.41
41 15 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:76607563 original size:81 final size:78
Alignment explanation
Indices: 76607447--76607618 Score: 247
Period size: 81 Copynumber: 2.2 Consensus size: 78
76607437 GCTCCTCGTT
* *
76607447 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGTAACTAACCCG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGCT---TAACCCG
*
76607512 GATTTAGTAACTCGCA
63 GAATTAGTAACTCGCA
* *
76607528 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGCTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGCTTAACCCGGA
*
76607592 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
76607606 CAAATGCCTTCGG
1 CAAATGCCTTCGG
76607619 ATCTTAGTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
78 33 0.39
81 49 0.58
82 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGCTTAACCCGGAA
TTAGTAACTCGCA
Found at i:76607631 original size:78 final size:78
Alignment explanation
Indices: 76607447--76607671 Score: 258
Period size: 78 Copynumber: 2.8 Consensus size: 78
76607437 GCTCCTCGTT
* * *
76607447 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGTAACTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGCT---TAGCCC
*
76607511 GGATTTAGTAACTCGCA
62 GGAATTAGTAACTCGCA
*
76607528 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGCTTAGCCCGGAA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGCTTAGCCCGGAA
*
76607593 TTAGTATCTCGCA
66 TTAGTAACTCGCA
* * * * *
76607606 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTC-GG-CTTAGCCC
76607669 GGA
62 GGA
76607672 CATCATTCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
77 3 0.02
78 52 0.41
79 10 0.08
80 11 0.09
81 49 0.39
82 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGCTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:76607671 original size:40 final size:40
Alignment explanation
Indices: 76607447--76607671 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
76607437 GCTCCTCGTT
* *
76607447 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
76607487 CAAATGCCTTCGGGTAAC-TAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG--ACTTAGCCCGGATATAGTAACTCGCA
* *
76607528 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
76607568 CAAATGCCTTC-GG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
76607606 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
76607647 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
76607672 CATCATTCAA
Statistics
Matches: 164, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
38 34 0.21
39 4 0.02
40 78 0.48
41 46 0.28
42 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:76615435 original size:38 final size:38
Alignment explanation
Indices: 76615389--76615476 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
76615379 CTCGTTCAAC
* *
76615389 AATGCCTTCGGGACATAGCCCG-TTATTAATATCGCACA
1 AATGCCTTCGGGACATAACCCGATTAGTAA-ATCGCACA
* *
76615427 AATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACATAACCCGA-TTAGTAAATCGCACA
76615466 AATGCCTTCGG
1 AATGCCTTCGG
76615477 ATCTTAGTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 20 0.45
39 18 0.41
40 6 0.14
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (38 bp):
AATGCCTTCGGGACATAACCCGATTAGTAAATCGCACA
Found at i:76615503 original size:40 final size:40
Alignment explanation
Indices: 76615420--76615650 Score: 340
Period size: 40 Copynumber: 5.8 Consensus size: 40
76615410 GTTATTAATA
* *
76615420 TCGCACAAATGCCTTCGGGA-CTTA-ACCCGATTTAGTAAC
1 TCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAAC
*
76615459 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTATC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
* * * *
76615499 TCGCACAAATGCCTTCAGATCTTAGTCTGGATATGGTAAC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
* * *
76615539 TCGTACAAATGCCTTCGGATCTTAGTCCGGATATGGTAAC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
*
76615579 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTATC
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
76615619 TCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 TCGCACAAATGCCTTCGGATCTTAGTCCGGAT
76615651 ATGTCGACAC
Statistics
Matches: 175, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
38 3 0.02
39 20 0.11
40 152 0.87
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC
Found at i:76615589 original size:120 final size:119
Alignment explanation
Indices: 76615424--76615653 Score: 381
Period size: 120 Copynumber: 1.9 Consensus size: 119
76615414 TTAATATCGC
*
76615424 ACAAATGCCTTCGGGACTTAACCCGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 ACAAATGCCTTCGGGACTTAACCCGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
*
76615489 ATTTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCTGGATATGGTAACTCGT
66 ATTTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCGGATATGGTAACTCGT
* * *
76615543 ACAAATGCCTTC-GGATCTTAGTCCGGATATGGTAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAATGCCTTCGGGA-CTTA-ACCCGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC
*
76615607 GGATTTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATG
64 GGATTTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCGGATATG
76615654 TCGACACCTT
Statistics
Matches: 103, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
118 3 0.03
119 16 0.16
120 84 0.82
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (119 bp):
ACAAATGCCTTCGGGACTTAACCCGATATAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
ATTTAGTATCTCGCACAAATGCCTTCAGATCTTAGTCCGGATATGGTAACTCGT
Found at i:76622710 original size:39 final size:39
Alignment explanation
Indices: 76622656--76622781 Score: 189
Period size: 39 Copynumber: 3.2 Consensus size: 39
76622646 TTCAGTGATG
*
76622656 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
76622695 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * * *
76622734 TATATCCTGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
76622773 TATGTCCGG
1 TATATCCGG
76622782 GCTAAAGTCC
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:76622797 original size:39 final size:39
Alignment explanation
Indices: 76622656--76622819 Score: 179
Period size: 39 Copynumber: 4.2 Consensus size: 39
76622646 TTCAGTGATG
* * *
76622656 TATATCTGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* *
76622695 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * *
76622734 TATATCCTGACTTAAGGTCTGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
76622773 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
76622812 TATA-CCGG
1 TATATCCGG
76622820 GTTTAAATTC
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 9 0.08
39 99 0.92
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:76626663 original size:25 final size:25
Alignment explanation
Indices: 76626635--76626728 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
76626625 CTCTTTTAAT
* *
76626635 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
76626660 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
76626685 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
76626710 AACT-GGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
76626729 AGCACTTCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
24 14 0.22
25 51 0.78
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:76626665 original size:50 final size:50
Alignment explanation
Indices: 76626622--76626728 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
76626612 CTGGAGGCCT
* *
76626622 AGCCTCTTTT-AAT-AACTGGGGCAAAGCCCTTTTTGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAACCCTTTTCGATAAACTGGGGCAA
** *
76626671 AGCCCTTTTCGGTAAACTGGGGCAAAACCCTTTTCGGTAAACT-GGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAAAACCCTTTTCGATAAACTGGGGCAA
76626720 AGCCCTTTT
1 AGCCCTTTT
76626729 AGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
48 5 0.10
49 20 0.39
50 26 0.51
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAACCCTTTTCGATAAACTGGGGCAA
Found at i:76626985 original size:27 final size:27
Alignment explanation
Indices: 76626948--76627176 Score: 368
Period size: 27 Copynumber: 8.5 Consensus size: 27
76626938 TTTTACCCAT
*
76626948 GGGTATCTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
76626975 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
76627002 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
76627029 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
76627056 GGGTATTTCGGTAATTCTACCTTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
76627083 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
76627110 GGGTATTTCGGTACTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
76627137 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
76627164 GGGTATTTCGGTA
1 GGGTATTTCGGTA
76627177 TTTTACAAAT
Statistics
Matches: 183, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:76627217 original size:27 final size:27
Alignment explanation
Indices: 76627164--76627315 Score: 164
Period size: 27 Copynumber: 5.7 Consensus size: 27
76627154 TACCCTACAG
* * *
76627164 GGGTATTTCGGT-ATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
*
76627190 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAA
* *
76627217 GGGTATTTTAGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAA
***
76627244 GGGTATTTTGGTAATTTTATTGA-TCAA
1 GGGTATTTTGGTAATTTTACAAACT-AA
** *
76627271 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAA
*
76627298 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
76627316 GTAAATCGAG
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.10
27 97 0.90
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAA
Found at i:76627339 original size:27 final size:27
Alignment explanation
Indices: 76627309--76627380 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
76627299 GGTATTTTAG
76627309 TAATTTTGTAAATCGAGGGTAAAACAC
1 TAATTTTGTAAATCGAGGGTAAAACAC
* * ***
76627336 TAATTCTGTAAATTGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACAC
*
76627363 TAATTTTATAAATCGAGG
1 TAATTTTGTAAATCGAGG
76627381 ATATTTGGGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAACAC
Found at i:76627340 original size:81 final size:81
Alignment explanation
Indices: 76627190--76627340 Score: 176
Period size: 81 Copynumber: 1.9 Consensus size: 81
76627180 TACAAATTAG
* * ******
76627190 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTAAAACAC
76627255 TAATTTTATTGATCAA
66 TAATTTTATTGATCAA
** ** * *
76627271 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAC
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTAAAACAC
76627336 TAATT
66 TAATT
76627341 CTGTAAATTG
Statistics
Matches: 56, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 56 1.00
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTAAAACAC
TAATTTTATTGATCAA
Found at i:76627391 original size:27 final size:27
Alignment explanation
Indices: 76627360--76627424 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
76627350 GAGGGTAAAA
*
76627360 TGGTAATTTTATAAATCGAGGATA-TT
1 TGGTAATTTTATAAACCGAGGATACTT
* * *
76627386 TGGGTAGTTTTATAAACCGGGGGTACTT
1 T-GGTAATTTTATAAACCGAGGATACTT
76627414 TGGTAATTTTA
1 TGGTAATTTTA
76627425 CAATTGGGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.03
27 28 0.88
28 3 0.09
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.42
Consensus pattern (27 bp):
TGGTAATTTTATAAACCGAGGATACTT
Found at i:76630247 original size:40 final size:40
Alignment explanation
Indices: 76630202--76630433 Score: 299
Period size: 40 Copynumber: 5.8 Consensus size: 40
76630192 ATAACCACAA
* * *
76630202 GCACAATTGCCTTCGGGTCTTCA-CCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTT-AGCCCGGATATATCAACTC
*
76630242 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
76630282 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
76630322 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * *
76630362 GCATAAATGCCTTCGGGACTTAGCTCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
76630402 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
76630434 CATTCAAATG
Statistics
Matches: 178, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.01
40 172 0.97
41 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:76640395 original size:29 final size:28
Alignment explanation
Indices: 76640362--76640443 Score: 101
Period size: 29 Copynumber: 2.9 Consensus size: 28
76640352 TGAATATGGC
*
76640362 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGA-T
* *
76640391 TGGGCCTAATGGGCCATATGAATATGAT
1 TGGGCCTAATGGGCCATATAAATGTGAT
* * *
76640419 TGGGCTTAATGGGCCAGATACATGT
1 TGGGCCTAATGGGCCATATAAATGT
76640444 ATGCGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 21 0.47
29 24 0.53
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (28 bp):
TGGGCCTAATGGGCCATATAAATGTGAT
Found at i:76640430 original size:28 final size:28
Alignment explanation
Indices: 76640349--76640434 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
76640339 GTGAGCATGA
** *
76640349 ATATGAATATGGCTGGGCCTAACGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
* *
76640377 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATATGA-TTGGGCCTAATGGGCC
*
76640406 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATATGATTGGGCCTAATGGGCC
76640434 A
1 A
76640435 GATACATGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 25 0.51
29 24 0.49
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATGAATATGATTGGGCCTAATGGGCC
Found at i:76648475 original size:40 final size:41
Alignment explanation
Indices: 76648386--76648535 Score: 203
Period size: 41 Copynumber: 3.7 Consensus size: 41
76648376 CGCTGACTCA
* *
76648386 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACATTGGCCC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
* * * * * *
76648427 GAAGGCCCTTCGAAACTAGGTTCGG-TTATGACACTGGCTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
**
76648467 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTAACTC
1 AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
76648508 AAAAGCCCTTCGAGACCAAGCTCGGATT
1 AAAAGCCCTTCGAGACCAAGCTCGGATT
76648536 TAAACCCCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
40 32 0.35
41 60 0.65
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (41 bp):
AAAAGCCCTTCGAGACCAAGCTCGGATTATGACACTGGCTC
Found at i:76650346 original size:21 final size:21
Alignment explanation
Indices: 76650320--76650373 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
76650310 GGACTACAGT
*
76650320 ACGGGCGTGTCCTAAGTTCAC
1 ACGGGCGTGTCCTAAGGTCAC
* *
76650341 ACGGGCGTGTCATAGGGTCAC
1 ACGGGCGTGTCCTAAGGTCAC
*
76650362 ACAGGCGTGTCC
1 ACGGGCGTGTCC
76650374 CTTGGACCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (21 bp):
ACGGGCGTGTCCTAAGGTCAC
Found at i:76668954 original size:15 final size:15
Alignment explanation
Indices: 76668934--76668968 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
76668924 TTTTGAAAAT
76668934 AAGCCAACTCTAAGC
1 AAGCCAACTCTAAGC
76668949 AAGCCAACTCTAAGC
1 AAGCCAACTCTAAGC
*
76668964 TAGCC
1 AAGCC
76668969 TATACATGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.34, G:0.14, T:0.14
Consensus pattern (15 bp):
AAGCCAACTCTAAGC
Found at i:76674653 original size:13 final size:13
Alignment explanation
Indices: 76674635--76674661 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
76674625 GTTTTAGTTT
76674635 TTTTTTGAATAAA
1 TTTTTTGAATAAA
76674648 TTTTTTGAATAAA
1 TTTTTTGAATAAA
76674661 T
1 T
76674662 CCTTGTCTCA
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:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTTTTTGAATAAA
Found at i:76678256 original size:42 final size:42
Alignment explanation
Indices: 76678197--76678279 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
76678187 ATATATATAT
76678197 ATATATAGCCGAAGCTATCTTC-ATCTCGCACACTAAATGCAA
1 ATATATAGCCGAAGCTATC-TCAATCTCGCACACTAAATGCAA
* *
76678239 ATATATAGCCGAAGCTATCTCAATTTCGCACACTAAGTGCA
1 ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAATGCA
76678280 CATTATTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 2 0.05
42 36 0.95
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (42 bp):
ATATATAGCCGAAGCTATCTCAATCTCGCACACTAAATGCAA
Found at i:76685581 original size:21 final size:22
Alignment explanation
Indices: 76685555--76685605 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
76685545 TCTACAACAC
**
76685555 GGGCGTGT-CCTAGGGTCACAT
1 GGGCGTGTCCCTAGGACCACAT
*
76685576 GGGCGTGTCCCTTGGACCACAT
1 GGGCGTGTCCCTAGGACCACAT
76685598 GGGCGTGT
1 GGGCGTGT
76685606 GAACCCTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.12, C:0.25, G:0.39, T:0.24
Consensus pattern (22 bp):
GGGCGTGTCCCTAGGACCACAT
Found at i:76689344 original size:40 final size:40
Alignment explanation
Indices: 76689251--76689427 Score: 279
Period size: 40 Copynumber: 4.5 Consensus size: 40
76689241 AAGCCAAGTA
* * *
76689251 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
76689289 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
76689329 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
76689369 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
76689409 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
76689428 TTATCATCCA
Statistics
Matches: 130, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
38 12 0.09
39 17 0.13
40 101 0.78
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:76697474 original size:80 final size:79
Alignment explanation
Indices: 76697341--76697518 Score: 204
Period size: 80 Copynumber: 2.2 Consensus size: 79
76697331 AAGCCAAGTA
* * * *
76697341 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAATGCCTTCGGGACATAGCCCGGATA-TAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAATGCCTTCGGGACATAGCCCAGA-ACTAG
76697404 TAACTCAAAC-C-AATG
65 TAACT--AACGCAAATG
*
76697419 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCAGAACTA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCAC-AATGCCTTCGGGACATAGCCCAGAACTA
* *
76697483 GTCACTAGCGCAAAATG
64 GTAACTAACGC-AAATG
76697500 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
76697519 TTATCATCCA
Statistics
Matches: 86, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
78 15 0.17
79 19 0.22
80 29 0.34
81 23 0.27
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAATGCCTTCGGGACATAGCCCAGAACTAGT
AACTAACGCAAATG
Found at i:76697511 original size:41 final size:40
Alignment explanation
Indices: 76697341--76697516 Score: 182
Period size: 40 Copynumber: 4.4 Consensus size: 40
76697331 AAGCCAAGTA
* * * *
76697341 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCAGATATAG-TAACTCGCACAAATG
* * ** *
76697379 CCTTCGGGACATAGCCCGGATATAGTAACTCAAACCAATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
*
76697419 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
*
76697459 CCTTCGGGACTTAGCCCAGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCAGATA-TAGTAACT--CGCACAAATG
76697500 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
76697517 GGTTATCATC
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
38 12 0.10
39 16 0.13
40 66 0.55
41 22 0.18
42 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
Found at i:76700571 original size:27 final size:27
Alignment explanation
Indices: 76700556--76700615 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
76700546 GTGAGACTTT
76700556 GGTGCAAATAAATGATAATGACACATC
1 GGTGCAAATAAATGATAATGACACATC
* *
76700583 GGTGCAACTCAATGATAATGGAC-C-TC
1 GGTGCAAATAAATGATAAT-GACACATC
76700609 GGTGCAA
1 GGTGCAA
76700616 TTCAGTGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 9 0.30
27 18 0.60
28 3 0.10
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTGCAAATAAATGATAATGACACATC
Found at i:76700624 original size:26 final size:28
Alignment explanation
Indices: 76700556--76700629 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 28
76700546 GTGAGACTTT
* *
76700556 GGTGCAAATAAATGATAAT-GACACATC
1 GGTGCAACTCAATGATAATGGACACATC
76700583 GGTGCAACTCAATGATAATGGAC-C-TC
1 GGTGCAACTCAATGATAATGGACACATC
* *
76700609 GGTGCAATTCAGTGATAATGG
1 GGTGCAACTCAATGATAATGG
76700630 TTCTTCAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 21 0.50
27 18 0.43
28 3 0.07
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (28 bp):
GGTGCAACTCAATGATAATGGACACATC
Found at i:76703825 original size:82 final size:82
Alignment explanation
Indices: 76703688--76703851 Score: 319
Period size: 82 Copynumber: 2.0 Consensus size: 82
76703678 GTTCATTACA
*
76703688 GTATAAAAGAAGATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
76703753 TAAATCTTGTAAATCAT
66 TAAATCTTGTAAATCAT
76703770 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
1 GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
76703835 TAAATCTTGTAAATCAT
66 TAAATCTTGTAAATCAT
76703852 AGTAAAAGTC
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.38
Consensus pattern (82 bp):
GTATAAAAGAAAATTAGTTCTCTGGTCACTAGTGTTGGCCTTTCCAGTGATTCCTAGTGATGATT
TAAATCTTGTAAATCAT
Found at i:76706290 original size:18 final size:19
Alignment explanation
Indices: 76706267--76706302 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
76706257 ATTGTTTTCA
76706267 TACCTT-TAGGTATATCAC
1 TACCTTGTAGGTATATCAC
76706285 TACCTTGTAGGTATATCA
1 TACCTTGTAGGTATATCA
76706303 TTAATATCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (19 bp):
TACCTTGTAGGTATATCAC
Found at i:76707330 original size:20 final size:20
Alignment explanation
Indices: 76707305--76707344 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
76707295 CAGTCCACCG
76707305 TTGTTTCTAATCTCACCGCT
1 TTGTTTCTAATCTCACCGCT
76707325 TTGTTTCTAATCTCACCGCT
1 TTGTTTCTAATCTCACCGCT
76707345 ACAGTATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.30, G:0.10, T:0.45
Consensus pattern (20 bp):
TTGTTTCTAATCTCACCGCT
Found at i:76707359 original size:21 final size:21
Alignment explanation
Indices: 76707333--76707385 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
76707323 CTTTGTTTCT
*
76707333 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
76707354 AATCTCACTGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
76707375 AATCTCACCGC
1 AATCTCACCGC
76707386 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:76713161 original size:32 final size:32
Alignment explanation
Indices: 76713125--76713188 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
76713115 ACATATTAGG
76713125 GAAAACGAAAGAGTCTGAACAACATAGGATAA
1 GAAAACGAAAGAGTCTGAACAACATAGGATAA
76713157 GAAAACGAAAGAGTCTGAACAACATAGGATAA
1 GAAAACGAAAGAGTCTGAACAACATAGGATAA
76713189 TGTTATCCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.53, C:0.12, G:0.22, T:0.12
Consensus pattern (32 bp):
GAAAACGAAAGAGTCTGAACAACATAGGATAA
Found at i:76715333 original size:92 final size:92
Alignment explanation
Indices: 76715218--76715401 Score: 341
Period size: 92 Copynumber: 2.0 Consensus size: 92
76715208 AAGACATGCA
*
76715218 ACGGTATATGATATGGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
1 ACGGTATATGATATAGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
* *
76715283 TGAATTATCAGGTATAAAATTCACTTT
66 TGAAGTATCAGGTATAAAACTCACTTT
76715310 ACGGTATATGATATAGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
1 ACGGTATATGATATAGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
76715375 TGAAGTATCAGGTATAAAACTCACTTT
66 TGAAGTATCAGGTATAAAACTCACTTT
76715402 CTCTTTGCTT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.30
Consensus pattern (92 bp):
ACGGTATATGATATAGGAAAAAATAGAAAATAACTTGAAACATGATTATGATATAATAAAATATA
TGAAGTATCAGGTATAAAACTCACTTT
Found at i:76719232 original size:21 final size:22
Alignment explanation
Indices: 76719203--76719249 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
76719193 CAGAAGGAGT
*
76719203 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
76719225 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
76719246 GAGT
1 GAGT
76719250 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:76726684 original size:13 final size:13
Alignment explanation
Indices: 76726663--76726699 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
76726653 TTAATAATAA
*
76726663 TTTATAAAAAAAT
1 TTTAAAAAAAAAT
76726676 TTTAAAAAAAAAT
1 TTTAAAAAAAAAT
76726689 TTTAAAAAAAA
1 TTTAAAAAAAA
76726700 CTTACGCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTAAAAAAAAAT
Found at i:76726738 original size:24 final size:24
Alignment explanation
Indices: 76726711--76726772 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
76726701 TTACGCAATT
* *
76726711 TAATGAATAATAAAAGAATATATA
1 TAATGAATAATAAAAGAAAAAATA
** * *
76726735 TAATTTATAATAAAATAAAAAATG
1 TAATGAATAATAAAAGAAAAAATA
*
76726759 TAAGGAATAATAAA
1 TAATGAATAATAAA
76726773 TGTAGTAAAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
TAATGAATAATAAAAGAAAAAATA
Found at i:76726791 original size:21 final size:20
Alignment explanation
Indices: 76726765--76726821 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
76726755 AATGTAAGGA
76726765 ATAATAAATGTAGTAAAATTT
1 ATAATAAATGTA-TAAAATTT
*
76726786 ATAATATATG-ATAAAATTT
1 ATAATAAATGTATAAAATTT
76726805 ATAAATAAAATGTATAA
1 AT-AAT-AAATGTATAA
76726822 TAATATAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 10 0.32
20 4 0.13
21 13 0.42
22 4 0.13
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
ATAATAAATGTATAAAATTT
Found at i:76729032 original size:44 final size:44
Alignment explanation
Indices: 76728493--76729023 Score: 765
Period size: 44 Copynumber: 12.1 Consensus size: 44
76728483 TGAGATCTAC
* * * *
76728493 TATCTTCGATATGCTCTCTGTCAATACAGAAATGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* * * * *
76728537 TATCTTTGATCTGCTCTCTGCCAATATAGACACGCCAAATCTGC
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* *
76728581 TATCTTCGATATGCTTTCTGACAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* * *
76728625 TATCTTCGATCTGCTCTCTGACAATACAGAGACACCGAATTTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* * * *
76728669 CATCTTCGATCTGCTCTCTGACAATATAGAGACACCGAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* * *
76728713 CATCTTCGATCTGCTCTTTGACAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
*
76728757 TATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
*
76728801 CATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* * *
76728845 TATCTTTGATCTGCTCTCTGATAATACAGAGACACCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* *
76728889 CATCTTCGATCTGCTCTCTGAGAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* * *
76728933 TATCTTCGATCTACTCTCTGACAATACAGATACACCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
* *
76728977 CATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
76729021 TAT
1 TAT
76729024 TGGTGATCTA
Statistics
Matches: 435, Mismatches: 52, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 435 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGT
Found at i:76734342 original size:79 final size:81
Alignment explanation
Indices: 76734209--76734388 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 81
76734199 AATGATGTCT
* * * *
76734209 GGGCTAAGTCCCGAAGGC-TTTGTGCTTAGTGACTATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGT
*
76734273 GCGAGTTACTA-ATTCC
66 GCGAGTTACTACA-ACC
**
76734289 GGGCTAAG-CCCGAAGGCATTGGTGC-GAGTCACTAAATCCGGGTTAAG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGAT-CCGAAGGCATTTG
76734351 TGCGAGTTACTACAACC
65 TGCGAGTTACTACAACC
* *
76734368 GAGCTATGTCCCGAAGGCATT
1 GGGCTAAGTCCCGAAGGCATT
76734389 TGAACGAGTA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.68
80 27 0.31
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTGGTGCTGAGTCACTAAATCCGGACTAAGATCCGAAGGCATTTGT
GCGAGTTACTACAACC
Found at i:76734397 original size:40 final size:39
Alignment explanation
Indices: 76734209--76734390 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 39
76734199 AATGATGTCT
* * *
76734209 GGGCTAAGTCCCGAAGGC-TTTGTGCTTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AACC
* *
76734249 GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-ACC
* *
76734289 GGGCTAAG-CCCGAAGGCATTGGTGCGAGTCACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA-CC
*
76734328 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AACC
* *
76734368 GAGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
76734391 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACC
Found at i:76734412 original size:79 final size:77
Alignment explanation
Indices: 76734240--76734423 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 77
76734230 GTGCTTAGTG
* * *
76734240 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGG
**
76734305 CATTGGTGCGAGTC
64 CATTGGAACGAGTC
* *
76734319 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTACA-ACCGAGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-ATACCGAGCTAAG-CCCGAA
*
76734383 GGCATTTGAACGAGT-
62 GGCATTGGAACGAGTC
*
76734398 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
76734424 TACGTGATTC
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGAGCTAAGCCCGAAGGCA
TTGGAACGAGTC
Found at i:76743882 original size:23 final size:23
Alignment explanation
Indices: 76743855--76743922 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 23
76743845 AAATCACACA
76743855 ATATACATTAACATTTCATGCAT
1 ATATACATTAACATTTCATGCAT
* * ** *
76743878 ATATA-ATCACAAATAACATGAAT
1 ATATACATTA-ACATTTCATGCAT
* *
76743901 ATACACATTATCATTTCATGCA
1 ATATACATTAACATTTCATGCA
76743923 AAAATACAAA
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
22 3 0.10
23 25 0.81
24 3 0.10
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.34
Consensus pattern (23 bp):
ATATACATTAACATTTCATGCAT
Found at i:76744507 original size:12 final size:13
Alignment explanation
Indices: 76744490--76744536 Score: 53
Period size: 12 Copynumber: 3.7 Consensus size: 13
76744480 AACAAAATGT
76744490 ATAATAAT-ATAA
1 ATAATAATAATAA
*
76744502 ATAAT-ATAATGA
1 ATAATAATAATAA
76744514 ATAATATATAATAA
1 ATAATA-ATAATAA
*
76744528 AAAATAATA
1 ATAATAATA
76744537 TCTATACTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 2 0.07
12 13 0.45
13 3 0.10
14 11 0.38
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (13 bp):
ATAATAATAATAA
Found at i:76744511 original size:17 final size:16
Alignment explanation
Indices: 76744489--76744537 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 16
76744479 AAACAAAATG
76744489 TATAATAATATAAATAA
1 TATAATAA-ATAAATAA
*
76744506 TATAATGAAT-AAT-A
1 TATAATAAATAAATAA
76744520 TATAATAAA-AAATAA
1 TATAATAAATAAATAA
76744535 TAT
1 TAT
76744538 CTATACTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 12 0.43
15 7 0.25
16 2 0.07
17 7 0.25
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
TATAATAAATAAATAA
Found at i:76750376 original size:40 final size:40
Alignment explanation
Indices: 76750319--76750554 Score: 192
Period size: 40 Copynumber: 5.9 Consensus size: 40
76750309 GGATATAGCT
* * *
76750319 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
76750359 ACTGGCACAATTGCCTTCGGGACTTAGCCCGAATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GTTATAGTA
* * * * *
76750399 ATTCGCAAAAATGCCTTCGAGACGT-GCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * *
76750438 ACTTGCACAAAGGCCTTCGGGACTTAGCCTGGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCC-CGGTTATAGTA
* * * * * **
76750479 GCTCGCACGAATGCCTTTGAGACTTAGCCCGG-AATTAGCC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
76750519 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
76750555 CATCCGAACA
Statistics
Matches: 151, Mismatches: 38, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
38 1 0.01
39 32 0.21
40 82 0.54
41 36 0.24
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:76750495 original size:80 final size:79
Alignment explanation
Indices: 76750307--76750511 Score: 223
Period size: 80 Copynumber: 2.6 Consensus size: 79
76750297 CGGAATTTAA
* * * **
76750307 CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTGGCACAATTG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGAGACATAGCCCGGATAGAGTAACTGGCACAAAGG
76750372 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* * * * * * *
76750387 CCGAATTTAGTAATTCGCAAAAATGCCTTCGAGACGT-GCCCGGATATAGTAACTTGCACAAAGG
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGAGACATAGCCCGGATAGAGTAACTGGCACAAAGG
76750451 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* * * *
76750466 CTGGGATATAGTAGCTCGCACGAATGCCTTTGAGACTTAGCCCGGA
1 C-CGGATATAGTA-CTCGCACAAATGCCTTCGAGACATAGCCCGGA
76750512 ATTAGCCACT
Statistics
Matches: 101, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
79 40 0.40
80 54 0.53
81 7 0.07
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGAGACATAGCCCGGATAGAGTAACTGGCACAAAGGC
CTTCGGGACTTAGC
Found at i:76751891 original size:10 final size:10
Alignment explanation
Indices: 76751873--76751909 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
76751863 AACATGAGAG
76751873 CTTTCTTTTT
1 CTTTCTTTTT
*
76751883 CTTTTTTTTT
1 CTTTCTTTTT
76751893 CTTTCTTTTT
1 CTTTCTTTTT
76751903 CTTTCTT
1 CTTTCTT
76751910 CTATTCGGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:76751899 original size:14 final size:14
Alignment explanation
Indices: 76751880--76751909 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
76751870 GAGCTTTCTT
*
76751880 TTTCTTTTTTTTTC
1 TTTCTTTTTCTTTC
76751894 TTTCTTTTTCTTTC
1 TTTCTTTTTCTTTC
76751908 TT
1 TT
76751910 CTATTCGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTCTTTTTCTTTC
Found at i:76753891 original size:16 final size:16
Alignment explanation
Indices: 76753864--76753934 Score: 106
Period size: 16 Copynumber: 4.4 Consensus size: 16
76753854 GTTTGGTTCA
*
76753864 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
* *
76753880 CTATAATTGAATAGAG
1 CTGTAATGGAATAGAG
*
76753896 TTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
76753912 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
76753928 CTGTAAT
1 CTGTAAT
76753935 CAGTAATTCA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.30
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:76754117 original size:25 final size:26
Alignment explanation
Indices: 76754089--76754139 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
76754079 ATAATTATTG
*
76754089 TTATTGTT-ATTAAATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
*
76754114 TTATTGTTAAATATATTTTAATAAAA
1 TTATTGTTAAATAAATTTTAATAAAA
76754140 ATAAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAAA
Done.