Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 70 of 325
Found at i:21897882 original size:52 final size:52
Alignment explanation
Indices: 21897825--21897932 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
21897815 TGAAATGCCC
21897825 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
21897877 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
21897929 ATCA
1 ATCA
21897933 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:21902591 original size:33 final size:33
Alignment explanation
Indices: 21902547--21902612 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
21902537 ATCTCGCACC
* *
21902547 TCATTATTGTATGTACCTGAGTAGAACCAAGTA
1 TCATTACTGTATGTACCTGAGTAAAACCAAGTA
21902580 TCATTACTGTATGTACCTGAGTAAAACCAAGTA
1 TCATTACTGTATGTACCTGAGTAAAACCAAGTA
21902613 AACCATCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (33 bp):
TCATTACTGTATGTACCTGAGTAAAACCAAGTA
Found at i:21906929 original size:46 final size:47
Alignment explanation
Indices: 21906862--21906987 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 47
21906852 TGTGTGCTAG
* *
21906862 TGTAAGACATGTTTGAGACATGCATCAGCCAT-AG-CA-TGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCC-TCAGACATTGA-AGCCAA
* * * *
21906908 TGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCTC-AGACATTGAAGCCAA
* *
21906956 TGTAAGACATGTCTAGGACATGCATCGGCCTC
1 TGTAAGACATGTCTGGGACATGCATCAGCCTC
21906988 GCGATATACA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 1 0.01
46 27 0.39
47 2 0.03
48 37 0.54
49 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (47 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCTCAGACATTGAAGCCAA
Found at i:21906965 original size:48 final size:48
Alignment explanation
Indices: 21906902--21906994 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
21906892 ATAGCATGAG
*
21906902 AGCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTA
1 AGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTA
* *
21906950 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGCGATAT
1 AGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATAT
21906995 ACAAGCTAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (48 bp):
AGCCAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTA
Found at i:21907023 original size:48 final size:48
Alignment explanation
Indices: 21906909--21907025 Score: 135
Period size: 48 Copynumber: 2.4 Consensus size: 48
21906899 GAGAGCCAAT
* * ** *
21906909 GTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTTAAGCCAGT
1 GTAAAACATATCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGC
* * * * *
21906957 GTAAGACATGTCTAGGACATGCATCGGCCTCGCGATATACAAGCTAGC
1 GTAAAACATATCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGC
*
21907005 GTAAAACCTATCTGGGACATG
1 GTAAAACATATCTGGGACATG
21907026 GCGTCAGCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (48 bp):
GTAAAACATATCTGGGACATGCATCGGCCTCGAGATATACAAGCCAGC
Found at i:21907110 original size:49 final size:50
Alignment explanation
Indices: 21907050--21907177 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 50
21907040 TGTGTTAGTG
*
21907050 TAAGACTTGTCTGGGACAAGGCATCGACAC-CGATAGATGAAAGCCAGTA
1 TAAGACCTGTCTGGGACAAGGCATCGACACTCGATAGATGAAAGCCAGTA
* * * *
21907099 TAAGACCTGTCTAGGACATA-GCATC-AGC-CTCGCTATATGAAAGCCAGTG
1 TAAGACCTGTCTGGGACA-AGGCATCGA-CACTCGATAGATGAAAGCCAGTA
* *
21907148 TAAGACCATGTCTGGGACATGGCGTCGACA
1 TAAGACC-TGTCTGGGACAAGGCATCGACA
21907178 TCTTAACCCA
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
48 2 0.03
49 45 0.70
50 16 0.25
51 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (50 bp):
TAAGACCTGTCTGGGACAAGGCATCGACACTCGATAGATGAAAGCCAGTA
Found at i:21916548 original size:52 final size:52
Alignment explanation
Indices: 21916491--21916596 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
21916481 GTTTGAAAGG
21916491 TTGAAAATTTCAGCAACTTGTAACCCTCTCAAATAAGTGATTTTGATGGTCT
1 TTGAAAATTTCAGCAACTTGTAACCCTCTCAAATAAGTGATTTTGATGGTCT
*
21916543 TTGAAAATTTCAGCAACTTGTAACCCTTTCAAATAAGTGATTTTGATGGTCT
1 TTGAAAATTTCAGCAACTTGTAACCCTCTCAAATAAGTGATTTTGATGGTCT
21916595 TT
1 TT
21916597 CTTGATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (52 bp):
TTGAAAATTTCAGCAACTTGTAACCCTCTCAAATAAGTGATTTTGATGGTCT
Found at i:21918723 original size:99 final size:94
Alignment explanation
Indices: 21918561--21918735 Score: 253
Period size: 99 Copynumber: 1.8 Consensus size: 94
21918551 TGAGACGAGT
* * * *
21918561 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGTCACTGTAAGACCATGTCTA
1 GCTACTGTAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGCCAATGTAAGACCATGTCTA
21918626 GGACATGGCATTGGTATGGTTATGGGAAA
66 GGACATGGCATTGGTATGGTTATGGGAAA
21918655 GCTACTGTAAGACCATGTCTGGGACATGGCATCTGCCT-CGAAGATGATAGCCAATGTAAGACCA
1 GCTACTGTAAGA-CATGTCTGGGACAT-GCATC-GCCTACG-AGATG-T-GCCAATGTAAGACCA
21918719 TGTCTAGGACATGGCAT
60 TGTCTAGGACATGGCAT
21918736 CGGCACTTTA
Statistics
Matches: 71, Mismatches: 4, Indels: 7
0.87 0.05 0.09
Matches are distributed among these distances:
94 11 0.15
95 14 0.20
96 7 0.10
97 8 0.11
98 1 0.01
99 30 0.42
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
GCTACTGTAAGACATGTCTGGGACATGCATCGCCTACGAGATGTGCCAATGTAAGACCATGTCTA
GGACATGGCATTGGTATGGTTATGGGAAA
Found at i:21920330 original size:46 final size:45
Alignment explanation
Indices: 21920166--21920333 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
21920156 TGATATGTGT
**
21920166 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCGA-T-AGCATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-ATTGAG-A-GAGA
* * * *
21920212 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATTGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGA--G-A
* *
21920260 GCTACTGTAAGACATGT-TCAGGACATGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCGGCATTGAGA-GAGA
*
21920306 GCTAGTGTAAGACATGTTTGGGACATGC
1 GCTAGTGTAAGACATGTCTGGGACATGC
21920334 TTCAGCCTTG
Statistics
Matches: 100, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 57 0.57
47 6 0.06
48 35 0.35
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGAGAGA
Found at i:21920465 original size:49 final size:49
Alignment explanation
Indices: 21920169--21920525 Score: 142
Period size: 46 Copynumber: 7.5 Consensus size: 49
21920159 TATGTGTGCT
* * *
21920169 AGTGTAAGACATGTCTGGGACAT-GCAT-TA--GCGATAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAG-ATGAAAGCC
* * * *
21920215 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATATTG-AAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGA-TGAAAGCC
* * * * * * * *
21920263 ACTGTAAGACATGT-TCAGGACAT-GCATCGGCATTG--AGACGAGAGCT
1 AGTGTAAGACATGTCT-GGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * *
21920309 AGTGTAAGACATGTTTGGGACAT-GCTTC-AGCCTTGCA-ATAT-ACAAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGA-CCTCG-ATAGATGA-AAGCC
* * * * * * * * *
21920357 AGTGTAGGACCTGTCTGGGAGATGGCGTC-AGCTTG-T-GGTG--TGTC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * *
21920401 AATGTAAGACCTGTCTGGGACATGGCATTGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * * * *
21920450 AGTGTAAGACATGTCTAGAATATGGCATCGGCCTCGCTATATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
*
21920499 TGTGTAAGACTATGTCTGGGACATGGC
1 AGTGTAAGAC-ATGTCTGGGACATGGC
21920526 GTCAACATTT
Statistics
Matches: 232, Mismatches: 57, Indels: 40
0.71 0.17 0.12
Matches are distributed among these distances:
44 25 0.11
45 3 0.01
46 63 0.27
47 6 0.03
48 63 0.27
49 59 0.25
50 13 0.06
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:21922543 original size:39 final size:39
Alignment explanation
Indices: 21922484--21922566 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
21922474 ATCGTGTAGG
* *
21922484 TGCACCCCAACCCCAAGAAGTTAGAACTTGCACCCCCTA
1 TGCACCCCAACCCCAAGAAGTTAAAACCTGCACCCCCTA
* * *
21922523 TGCATCCCAACCCCAAGAAGTTAAAACCTGTACCCTCTA
1 TGCACCCCAACCCCAAGAAGTTAAAACCTGCACCCCCTA
21922562 TGCAC
1 TGCAC
21922567 AAGATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.31, C:0.39, G:0.12, T:0.18
Consensus pattern (39 bp):
TGCACCCCAACCCCAAGAAGTTAAAACCTGCACCCCCTA
Found at i:21924908 original size:5 final size:5
Alignment explanation
Indices: 21924863--21924930 Score: 52
Period size: 5 Copynumber: 13.6 Consensus size: 5
21924853 ATATTTTTAT
* * *
21924863 ATATA ATAAA ATATA A-ATA ATAT- ATACA CCATATA AAATA ATATA ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA
*
21924912 TATATA ATATA ATAAA ATA
1 -ATATA ATATA ATATA ATA
21924931 AATGCTTTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
4 8 0.16
5 37 0.74
6 1 0.02
7 4 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.32
Consensus pattern (5 bp):
ATATA
Found at i:21924912 original size:8 final size:8
Alignment explanation
Indices: 21924899--21924931 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
21924889 CACCATATAA
21924899 AATAATAT
1 AATAATAT
21924907 AATAATAT
1 AATAATAT
21924915 -ATAATAT
1 AATAATAT
*
21924922 AATAAAAT
1 AATAATAT
21924930 AA
1 AA
21924932 ATGCTTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:21925057 original size:15 final size:15
Alignment explanation
Indices: 21925039--21925071 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
21925029 TACAGTAAAT
21925039 AAAT-AATAATATTTA
1 AAATAAATAA-ATTTA
21925054 AAATAAATAAATTTA
1 AAATAAATAAATTTA
21925069 AAA
1 AAA
21925072 GTGTAAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAAATAAATTTA
Found at i:21933983 original size:3 final size:3
Alignment explanation
Indices: 21933975--21934013 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
21933965 TCAAGCCTAT
21933975 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
21934014 CTCTGAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:21934732 original size:21 final size:21
Alignment explanation
Indices: 21934706--21934749 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
21934696 AATCAAACTA
21934706 TTTAAATTTTTGGAAGTCGAC
1 TTTAAATTTTTGGAAGTCGAC
21934727 TTTAAATTTTTGGAAGTCGAC
1 TTTAAATTTTTGGAAGTCGAC
21934748 TT
1 TT
21934750 CAATAGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (21 bp):
TTTAAATTTTTGGAAGTCGAC
Found at i:21935739 original size:23 final size:23
Alignment explanation
Indices: 21935709--21935755 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
21935699 TAGTGGAGGA
21935709 GATAGATTGATATGCTAGAGCTT
1 GATAGATTGATATGCTAGAGCTT
21935732 GATAGATTGATATGCTAGAGCTT
1 GATAGATTGATATGCTAGAGCTT
21935755 G
1 G
21935756 GACACTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.34
Consensus pattern (23 bp):
GATAGATTGATATGCTAGAGCTT
Found at i:21939677 original size:22 final size:22
Alignment explanation
Indices: 21939649--21939693 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21939639 GTTCACAAGG
21939649 CTGTAACCACAAATAAAAGCAA
1 CTGTAACCACAAATAAAAGCAA
21939671 CTGTAACCACAAATAAAAGCAA
1 CTGTAACCACAAATAAAAGCAA
21939693 C
1 C
21939694 AATCACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.24, G:0.09, T:0.13
Consensus pattern (22 bp):
CTGTAACCACAAATAAAAGCAA
Found at i:21942231 original size:33 final size:33
Alignment explanation
Indices: 21942183--21942274 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 33
21942173 GGGCTGTTAC
*
21942183 AGTTCGTATACGGCATAGCTCACATAAAAGCTG
1 AGTTCGTATATGGCATAGCTCACATAAAAGCTG
* * * * *
21942216 AGTTCCTATATGGCATAGCTCTCATACAATCTT
1 AGTTCGTATATGGCATAGCTCACATAAAAGCTG
* *
21942249 AGTTTGTATATGGCATAGCTCGCATA
1 AGTTCGTATATGGCATAGCTCACATA
21942275 TCAAGGCTCA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (33 bp):
AGTTCGTATATGGCATAGCTCACATAAAAGCTG
Found at i:21946052 original size:25 final size:25
Alignment explanation
Indices: 21946024--21946132 Score: 87
Period size: 25 Copynumber: 4.4 Consensus size: 25
21946014 AATCTTATAG
21946024 AAAGCCTTTGTAGCGTATTATCTGA
1 AAAGCCTTTGTAGCGTATTATCTGA
* * *
21946049 AAAGTCTTTGTGGCGTATTATCTAA
1 AAAGCCTTTGTAGCGTATTATCTGA
* * * *
21946074 AAAGGCTTTATATC-TAATCT-TATGA
1 AAAGCCTTTGTAGCGT-AT-TATCTGA
* * *
21946099 AAAGCCTTTGTGGTGTATTATCTGG
1 AAAGCCTTTGTAGCGTATTATCTGA
*
21946124 AATGCCTTT
1 AAAGCCTTT
21946133 ATGACTAATC
Statistics
Matches: 63, Mismatches: 17, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.03
25 59 0.94
26 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (25 bp):
AAAGCCTTTGTAGCGTATTATCTGA
Found at i:21946171 original size:49 final size:50
Alignment explanation
Indices: 21946046--21946176 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
21946036 GCGTATTATC
* ** *
21946046 TGAAAAGTCTTTGTGGCGTATTATCTAAAAAGGCTTTATATCTAATCTTA
1 TGAAAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTATATCTAATCTTA
* *
21946096 TGAAAAGCCTTTGTGGTGTATTATCTGGAATGCCTTTATGA-CTAATCTTA
1 TGAAAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTAT-ATCTAATCTTA
* *
21946146 TG-AAAGCTTTTGTGGGGTATTATCTGGAAAG
1 TGAAAAGCCTTTGTGGCGTATTATCTGGAAAG
21946177 ACTACATAAC
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 26 0.37
50 44 0.62
51 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.39
Consensus pattern (50 bp):
TGAAAAGCCTTTGTGGCGTATTATCTGGAAAGCCTTTATATCTAATCTTA
Found at i:21946502 original size:32 final size:32
Alignment explanation
Indices: 21946461--21946525 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
21946451 TGTTTGCCTA
*
21946461 GGTTAACTGGAAGATTTGGTGTGAACTGAGTT
1 GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
21946493 GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
1 GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
21946525 G
1 G
21946526 ATGACCACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.06, G:0.34, T:0.34
Consensus pattern (32 bp):
GGTTAACTGGAAGATTTGGTGTGAACTAAGTT
Found at i:21951849 original size:15 final size:16
Alignment explanation
Indices: 21951823--21951852 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21951813 TCTCTCTTGC
21951823 TTTTAGATCATATATA
1 TTTTAGATCATATATA
21951839 TTTTA-ATCATATAT
1 TTTTAGATCATATAT
21951853 GAGACAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTAGATCATATATA
Found at i:21956481 original size:8 final size:7
Alignment explanation
Indices: 21956460--21956512 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
21956450 TAAAATATTA
*
21956460 AATTATT
1 AATTTTT
*
21956467 AAGTTTT
1 AATTTTT
21956474 AAGTTTTT
1 AA-TTTTT
21956482 AATTTTTT
1 AA-TTTTT
21956490 AATTTTT
1 AATTTTT
*
21956497 TATTTTT
1 AATTTTT
*
21956504 AAATTTT
1 AATTTTT
21956511 AA
1 AA
21956513 AATTTTTTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 25 0.66
8 13 0.34
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (7 bp):
AATTTTT
Found at i:21956501 original size:15 final size:15
Alignment explanation
Indices: 21956470--21956520 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
21956460 AATTATTAAG
21956470 TTTTAAGTTTTTAATT
1 TTTTAA-TTTTTAATT
*
21956486 TTTTAATTTTTTATT
1 TTTTAATTTTTAATT
* *
21956501 TTTAAATTTTAAAATT
1 TTTTAATTTT-TAATT
21956517 TTTT
1 TTTT
21956521 GAAGATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
15 17 0.59
16 12 0.41
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTAATTTTTAATT
Found at i:21956544 original size:8 final size:8
Alignment explanation
Indices: 21956457--21956544 Score: 65
Period size: 8 Copynumber: 10.9 Consensus size: 8
21956447 GACTAAAATA
*
21956457 TTAAATTA
1 TTAAATTT
*
21956465 TT-AAGTT
1 TTAAATTT
*
21956472 TTAAGTTT
1 TTAAATTT
21956480 TT-AATTT
1 TTAAATTT
*
21956487 TTTAATTT
1 TTAAATTT
*
21956495 TT-TATTT
1 TTAAATTT
21956502 TTAAATTT
1 TTAAATTT
*
21956510 TAAAATTTT
1 TTAAA-TTT
21956519 TTGAAGATTT
1 TT-AA-ATTT
21956529 TTATAATTT
1 TTA-AATTT
21956538 TTAAATT
1 TTAAATT
21956545 AAAATATAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
7 17 0.27
8 26 0.41
9 12 0.19
10 8 0.12
11 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (8 bp):
TTAAATTT
Found at i:21957117 original size:29 final size:29
Alignment explanation
Indices: 21957062--21957118 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
21957052 TTTATATTGA
*
21957062 ATAAATATAAATATTTATGTATACAATAT
1 ATAAATATAAATATTGATGTATACAATAT
21957091 ATAAATATAAA-A-TGATGTTATATCAATA
1 ATAAATATAAATATTGATG-TATA-CAATA
21957119 ATTCTGTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 4 0.16
28 5 0.20
29 16 0.64
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.39
Consensus pattern (29 bp):
ATAAATATAAATATTGATGTATACAATAT
Found at i:21957920 original size:40 final size:39
Alignment explanation
Indices: 21957833--21957924 Score: 121
Period size: 40 Copynumber: 2.3 Consensus size: 39
21957823 TGGTTAACTT
* **
21957833 TTTGCGGCGTTTTTTGAAAAGCGCCACTAATGCTTGATC
1 TTTGCGGCGTTTTTCGAAAAGCGCCACTAATGCTCAATC
* *
21957872 TTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATTCTCAATC
1 TTT-GCGGCGTTTTTCGAAAAGCGCCACTAATGCTCAATC
21957912 TATTGCGGCGTTT
1 T-TTGCGGCGTTT
21957925 GTTTCATAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.07
40 41 0.89
41 2 0.04
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (39 bp):
TTTGCGGCGTTTTTCGAAAAGCGCCACTAATGCTCAATC
Found at i:21958455 original size:43 final size:43
Alignment explanation
Indices: 21958394--21958476 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
21958384 GGACCTTTGG
21958394 AAGATAGTATTTATACCCTCTAATTCATTTCTAACCGTTAGGT
1 AAGATAGTATTTATACCCTCTAATTCATTTCTAACCGTTAGGT
21958437 AAGATAGTATTTATACCCTCTAATTCATTTCTAACCGTTA
1 AAGATAGTATTTATACCCTCTAATTCATTTCTAACCGTTA
21958477 AGGTTGTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (43 bp):
AAGATAGTATTTATACCCTCTAATTCATTTCTAACCGTTAGGT
Found at i:21963888 original size:27 final size:27
Alignment explanation
Indices: 21963840--21963998 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
21963830 GCGAGGCTGC
* *
21963840 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
21963867 CAAATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
21963893 CAGATATGTGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
21963920 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
21963947 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
21963974 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
21963999 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:21963933 original size:54 final size:54
Alignment explanation
Indices: 21963858--21963998 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
21963848 GTGACGAAGT
* * *
21963858 CACCAGATACAAAT-ATTGTGGCAGAGCCACCAGAACAGATATGTGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* *
21963912 CACCAGATCAGATAATCGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
21963966 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
21963999 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 4 0.05
54 76 0.95
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:21965656 original size:26 final size:26
Alignment explanation
Indices: 21965620--21965779 Score: 221
Period size: 26 Copynumber: 6.2 Consensus size: 26
21965610 TGAAATTTCC
* *
21965620 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
21965646 ATTATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
21965672 ATCATGGAATATTTACCTAATCCATG
1 ATCATGGAACATTTACCTAATCCATT
*
21965698 ATAATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
21965724 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
21965750 ATCATGGAGCATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
21965776 ATCA
1 ATCA
21965780 ATTTGTACCA
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 117 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:21965705 original size:52 final size:52
Alignment explanation
Indices: 21965620--21965779 Score: 248
Period size: 52 Copynumber: 3.1 Consensus size: 52
21965610 TGAAATTTCC
* * *
21965620 ATCATGAAACATTTACCTAAACCATTATTATGGAACATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAATCCATTATAATGGAACATTTACCTAACCCATT
* * *
21965672 ATCATGGAATATTTACCTAATCCATGATAATGGAACATTTACCTAATCCATT
1 ATCATGAAATATTTACCTAATCCATTATAATGGAACATTTACCTAACCCATT
* *
21965724 ATCATGAAATATTTACCTAATCCATTATCATGGAGCATTTACCTAACCCATT
1 ATCATGAAATATTTACCTAATCCATTATAATGGAACATTTACCTAACCCATT
21965776 ATCA
1 ATCA
21965780 ATTTGTACCA
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 97 1.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (52 bp):
ATCATGAAATATTTACCTAATCCATTATAATGGAACATTTACCTAACCCATT
Found at i:21969346 original size:47 final size:47
Alignment explanation
Indices: 21969283--21969723 Score: 711
Period size: 47 Copynumber: 9.4 Consensus size: 47
21969273 GCCCTTCGGA
* * *
21969283 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
21969330 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
21969377 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
21969424 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
21969471 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
21969518 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
21969565 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
21969612 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
21969659 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
21969706 CTTATCACATATACACAC
1 CTTATCACATATATACAC
21969724 CTTGTACATC
Statistics
Matches: 369, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 369 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:21969621 original size:22 final size:22
Alignment explanation
Indices: 21969593--21969668 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
21969583 TTTCACATTC
21969593 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
21969615 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
21969639 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
21969662 ATCACAT
1 ATCACAT
21969669 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:21974431 original size:17 final size:16
Alignment explanation
Indices: 21974399--21974429 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21974389 TTTTCGCAAA
*
21974399 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
21974415 AAAATCTTTGTTTTT
1 AAAATCTTTGTTTTT
21974430 TGTAAACCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:21975450 original size:27 final size:28
Alignment explanation
Indices: 21975408--21975546 Score: 168
Period size: 27 Copynumber: 5.2 Consensus size: 28
21975398 GTGACGAAGT
21975408 CACCAGATACAG--ATATTGTGGCA-AGC
1 CACCAGA-ACAGATATATTGTGGCAGAGC
21975434 CACCAGAACAGATATA-TGTGGCAGAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* * *
21975461 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
21975488 CACCAGAA-AGATATA-TGTGGCAGAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
* *
21975514 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATATTGTGGCAGAGC
21975541 CACCAG
1 CACCAG
21975547 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.04
26 37 0.38
27 57 0.58
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CACCAGAACAGATATATTGTGGCAGAGC
Found at i:21975467 original size:53 final size:53
Alignment explanation
Indices: 21975408--21975546 Score: 237
Period size: 53 Copynumber: 2.6 Consensus size: 53
21975398 GTGACGAAGT
21975408 CACCAGATACAGAT-ATTGTGGCA-AGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA-AGATATATGTGGCAGAGC
*
21975461 CACCAGATCAGATAATCGTGGCATAGCCACCAGAAAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAAAGATATATGTGGCAGAGC
21975514 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
21975547 GACGCTTCCT
Statistics
Matches: 82, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
52 5 0.06
53 66 0.80
54 11 0.13
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (53 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAAAGATATATGTGGCAGAGC
Found at i:21977208 original size:26 final size:26
Alignment explanation
Indices: 21977152--21977257 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
21977142 TGAAATGCCC
21977152 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
21977177 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21977203 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21977229 ATCAT-GAACATTTACCT-ACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21977253 ATCAT
1 ATCAT
21977258 TCCTAATTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
24 11 0.14
25 31 0.41
26 34 0.45
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21977222 original size:51 final size:50
Alignment explanation
Indices: 21977152--21977257 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 50
21977142 TGAAATGCCC
21977152 ATCATGGAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATTATCAT-GAACATTTACCT-ACCCATT
*
21977203 ATCATGGAATATTTACCTAATCCATTATCATGAACATTTACCTACCCATT
1 ATCATGGAACATTTACCTAATCCATTATCATGAACATTTACCTACCCATT
21977253 ATCAT
1 ATCAT
21977258 TCCTAATTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
50 12 0.23
51 31 0.58
52 10 0.19
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (50 bp):
ATCATGGAACATTTACCTAATCCATTATCATGAACATTTACCTACCCATT
Found at i:21979515 original size:18 final size:18
Alignment explanation
Indices: 21979477--21979515 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21979467 GTGTGATGCG
*
21979477 TCACTGTACACAGTAAAA
1 TCACTGTACACAATAAAA
*
21979495 TCACTGTACACAATAAGA
1 TCACTGTACACAATAAAA
21979513 TCA
1 TCA
21979516 TATTGGGGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (18 bp):
TCACTGTACACAATAAAA
Found at i:21980886 original size:4 final size:4
Alignment explanation
Indices: 21980870--21980911 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
21980860 ACCCGGGCCC
* *
21980870 ATAA ATTA ATAA ATAA ATAA ATAA ATAA A-AA ATAA AAAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
21980912 GTCCATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:21981069 original size:16 final size:17
Alignment explanation
Indices: 21981048--21981086 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
21981038 TCAATGGCCC
21981048 AAACAAGACCCAA-CCT
1 AAACAAGACCCAAGCCT
*
21981064 AAACAAGGCCCAATGCCT
1 AAACAAGACCCAA-GCCT
21981082 AAACA
1 AAACA
21981087 GAATCTGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
18 8 0.40
ACGTcount: A:0.49, C:0.33, G:0.10, T:0.08
Consensus pattern (17 bp):
AAACAAGACCCAAGCCT
Found at i:21982146 original size:21 final size:23
Alignment explanation
Indices: 21982111--21982170 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
21982101 AATTCTTTAA
*
21982111 TTTAATTCAATTTT-AAT-CTTTT
1 TTTAATT-TATTTTAAATACTTTT
21982133 TTTAATTTATTTTAAATACTTTT
1 TTTAATTTATTTTAAATACTTTT
*
21982156 TATATTATTTATTTT
1 T-T-TAATTTATTTT
21982171 TATAAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 5 0.16
22 10 0.31
23 6 0.19
24 1 0.03
25 10 0.31
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAATTTATTTTAAATACTTTT
Found at i:21982215 original size:27 final size:26
Alignment explanation
Indices: 21982159--21982224 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
21982149 TACTTTTTAT
***
21982159 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTACCC
* *
21982185 ATTATTTTTTATTTATATATATTACCC
1 ATTATTTATT-TTTATAAATATTACCC
21982212 ATTATATTATTTT
1 ATTAT-TTATTTT
21982225 ATTGTATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 9 0.28
27 19 0.59
28 4 0.12
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTACCC
Found at i:21982262 original size:17 final size:18
Alignment explanation
Indices: 21982229--21982264 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
21982219 TATTTTATTG
21982229 TATATTTTATCTATAAAT
1 TATATTTTATCTATAAAT
21982247 TATATTTTAT-TATAAAT
1 TATATTTTATCTATAAAT
21982264 T
1 T
21982265 TCATTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TATATTTTATCTATAAAT
Found at i:21982285 original size:12 final size:12
Alignment explanation
Indices: 21982247--21982290 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
21982237 ATCTATAAAT
*
21982247 TATATTTTATTA
1 TATATTTCATTA
*
21982259 TAAATTTCATTA
1 TATATTTCATTA
*
21982271 TATATTTCCTTA
1 TATATTTCATTA
21982283 TATTATTT
1 TA-TATTT
21982291 TTATGTATCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
12 22 0.81
13 5 0.19
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTTCATTA
Found at i:21982380 original size:23 final size:23
Alignment explanation
Indices: 21982352--21982406 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
21982342 TTATTAATAG
*
21982352 ATAATATTATCTTT-ATTTATAT
1 ATAATATTATATTTCATTTATAT
21982374 AATAATATTCATATTTCATTTATAT
1 -ATAATATT-ATATTTCATTTATAT
21982399 AT-ATATTA
1 ATAATATTA
21982407 CACATTCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 13 0.45
24 7 0.24
25 8 0.28
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (23 bp):
ATAATATTATATTTCATTTATAT
Found at i:21982417 original size:29 final size:29
Alignment explanation
Indices: 21982355--21982418 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
21982345 TTAATAGATA
* *
21982355 ATATTATC-TTTATTTATATAATAATATTC
1 ATATT-TCATTTATATATATAATAACATTC
*
21982384 ATATTTCATTTATATATATATTACACATTC
1 ATATTTCATTTATATATATAATA-ACATTC
21982414 -TATTT
1 ATATTT
21982419 TCTTATATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.07
29 23 0.77
30 5 0.17
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (29 bp):
ATATTTCATTTATATATATAATAACATTC
Found at i:21990954 original size:33 final size:33
Alignment explanation
Indices: 21990908--21990976 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
21990898 GTGACATTTC
* *
21990908 AACCTTGCGTTGCAACATTGGGAGTAATGCACT
1 AACCTTGCATTGCAACATTGGGAGTAATACACT
21990941 AACCTTGCATTGCAACATTGGGAGTAATACACT
1 AACCTTGCATTGCAACATTGGGAGTAATACACT
21990974 AAC
1 AAC
21990977 TCATTGGCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (33 bp):
AACCTTGCATTGCAACATTGGGAGTAATACACT
Found at i:21993484 original size:64 final size:65
Alignment explanation
Indices: 21993367--21993487 Score: 174
Period size: 64 Copynumber: 1.9 Consensus size: 65
21993357 TATCGATATT
* * *
21993367 TTTAAATATTTTTCACATATATATTTATAATCTAATTTTTAGTTTTATGATAAATTATATAAACA
1 TTTAAATATTTTTCACACACATATTTATAATCTAATTTTTAGTTTTATAATAAATTATATAAACA
* *
21993432 TTTAAATATTTTT-ACACACATATTTATAGTCTAATTTTTGGTTTCT-TAATAAATTA
1 TTTAAATATTTTTCACACACATATTTATAATCTAATTTTTAGTTT-TATAATAAATTA
21993488 AATATTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 36 0.72
65 14 0.28
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.51
Consensus pattern (65 bp):
TTTAAATATTTTTCACACACATATTTATAATCTAATTTTTAGTTTTATAATAAATTATATAAACA
Found at i:22001992 original size:14 final size:14
Alignment explanation
Indices: 22001973--22002004 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
22001963 GAGGTTCTAC
22001973 TGTTATTTTTTGAG
1 TGTTATTTTTTGAG
22001987 TGTTATTTTTTGAG
1 TGTTATTTTTTGAG
22002001 TGTT
1 TGTT
22002005 TCCAATGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.22, T:0.66
Consensus pattern (14 bp):
TGTTATTTTTTGAG
Found at i:22010451 original size:12 final size:12
Alignment explanation
Indices: 22010436--22010466 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22010426 TTCTCTTTTA
22010436 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
22010448 TTTTTCTTTCTC
1 TTTTTCTTTCCC
22010460 TTTTTCT
1 TTTTTCT
22010467 CCCATGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:22010864 original size:15 final size:14
Alignment explanation
Indices: 22010846--22010876 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
22010836 TTAATTTATT
22010846 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
22010861 TAATAATAATCTAA
1 TAATAATAATCTAA
22010875 TA
1 TA
22010877 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:22018429 original size:530 final size:529
Alignment explanation
Indices: 22017404--22018465 Score: 1917
Period size: 530 Copynumber: 2.0 Consensus size: 529
22017394 ATAGTGTTAA
* * *
22017404 ATGGCCATGGATTATAAATAGGGGTATTTAAAGTGCAAATAGACCATAGGATGGTGCTTGACCAA
1 ATGGCCATGGATTATAAATAGGGCTATTTAAAGTGAAAATAGACCATAAGATGGTGCTTGACCAA
22017469 CCATGAGACAAGGAAATTAAAATAGTCAAATGTTAGGTGAAGTTTGGTGACTTATTTGGACAAAA
66 CCATGAGACAAGGAAATTAAAATAGTCAAATGTTAGGTGAAGTTTGGTGACTTATTTGGACAAAA
* *
22017534 AGAAAATAAAAGAAAAGAAAGATGATATCATCCCTTTTTCATCTTCTTCTCCACCGAAAAACACC
131 AGAAAATAAAAGAAAAGAAAGATGATATCATCACTTTTTCATCTTCTTCTCCACCAAAAAACACC
*
22017599 AGCAAAATAGAGGTTTGAAAGCTTAAAAATTTCAGCAGCTTGTAACCGTCACAAATCAAGAAATA
196 AGCAAAATAGAGGTTTGAAAGCTTAAAAATTTCAGCAGCTTGTAACCCTCACAAATCAAGAAATA
22017664 CAAAATCCGAACCTAGATTGAGGGAAGGCCAAGCAAGTAGATTAAATCGTCTAGTCGCCTACATT
261 CAAAATCCGAACCTAGATTGAGGGAAGGCCAAGCAAGTAGATTAAATCGTCTAGTCGCCTACATT
* *
22017729 TTGTAATCTGAGGTAAGTTGTATTTTAATAGTGCAACTATATTGCTATGATGTATGATTGAATTG
326 TTGTAATCCGAGGTAAGTTGTATGTTAATAGTGCAACTATATTGCTATGATGTATGATTGAATTG
* *
22017794 ATATTGCATGAATTGTTGGATTTTGATTATGAGAATGCATGTCGAGAAATTAATGTAGTAAAGAC
391 ATATTGCATGAATTGTTGGATTATGATTATGAGAATGCATGTCGAGAAATTAATGTAATAAAGAC
22017859 TTCCGATTGAACATTTGGAATAGACTTGGATATTCGTACCATGACATTGAATGGTATGTGAGCCA
456 TTCCGATTGAACATTTGGAATAGACTTGGATATTCGTACCATGACATTGAATGGTATGTGAGCCA
22017924 GTGTAAAAC
521 GTGTAAAAC
* *
22017933 ATGGCCATGGATTATAAAGTAGGGCTATTTAAAGTGAAAATAGACCCTAAGATGGTGCTTGGCCA
1 ATGGCCATGGATTATAAA-TAGGGCTATTTAAAGTGAAAATAGACCATAAGATGGTGCTTGACCA
* *
22017998 GCCATGAGACAAGGAAATTAAAATAGTCAAATGTTAGGTGAAGTTTGGTGACTTATTTGGCCAAA
65 ACCATGAGACAAGGAAATTAAAATAGTCAAATGTTAGGTGAAGTTTGGTGACTTATTTGGACAAA
22018063 AAGAAAATAAAAGAAAAGAAAGATGATATCATCACTTTTTCATCTTCTTCTCCACCAAAAAACAC
130 AAGAAAATAAAAGAAAAGAAAGATGATATCATCACTTTTTCATCTTCTTCTCCACCAAAAAACAC
* * *
22018128 TAGCAAGATAGAGGTTTGAAAGCTTGAAAATTTCAGCAGCTTGTAACCCTCACAAATCAAGAAAT
195 CAGCAAAATAGAGGTTTGAAAGCTTAAAAATTTCAGCAGCTTGTAACCCTCACAAATCAAGAAAT
* *
22018193 ACAAAATCTGAACCTAGATTGAGGGAAGGCCAAGTAAGTAGATTAAATCGTCTAGTCGCCTACAT
260 ACAAAATCCGAACCTAGATTGAGGGAAGGCCAAGCAAGTAGATTAAATCGTCTAGTCGCCTACAT
22018258 TTTGTAATCCGAGGTAAGTTGTATGTTAATAGTGCAACTATATTGCTATGATGTATGATTGAATT
325 TTTGTAATCCGAGGTAAGTTGTATGTTAATAGTGCAACTATATTGCTATGATGTATGATTGAATT
22018323 GATATTGCATGAATTGTTGGATTATGATTATGAGAATGCATGTCGAGAAATTAATGTAATAAAGA
390 GATATTGCATGAATTGTTGGATTATGATTATGAGAATGCATGTCGAGAAATTAATGTAATAAAGA
* **
22018388 CTTCCGGTTGAACATTTGGAATAGACTTGGATATTCGTACCATGACATTGGGTGGTATGTGAGCC
455 CTTCCGATTGAACATTTGGAATAGACTTGGATATTCGTACCATGACATTGAATGGTATGTGAGCC
22018453 AGTGTAAAAC
520 AGTGTAAAAC
22018463 ATG
1 ATG
22018466 TCTGAGACAT
Statistics
Matches: 510, Mismatches: 22, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
529 18 0.04
530 492 0.96
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (529 bp):
ATGGCCATGGATTATAAATAGGGCTATTTAAAGTGAAAATAGACCATAAGATGGTGCTTGACCAA
CCATGAGACAAGGAAATTAAAATAGTCAAATGTTAGGTGAAGTTTGGTGACTTATTTGGACAAAA
AGAAAATAAAAGAAAAGAAAGATGATATCATCACTTTTTCATCTTCTTCTCCACCAAAAAACACC
AGCAAAATAGAGGTTTGAAAGCTTAAAAATTTCAGCAGCTTGTAACCCTCACAAATCAAGAAATA
CAAAATCCGAACCTAGATTGAGGGAAGGCCAAGCAAGTAGATTAAATCGTCTAGTCGCCTACATT
TTGTAATCCGAGGTAAGTTGTATGTTAATAGTGCAACTATATTGCTATGATGTATGATTGAATTG
ATATTGCATGAATTGTTGGATTATGATTATGAGAATGCATGTCGAGAAATTAATGTAATAAAGAC
TTCCGATTGAACATTTGGAATAGACTTGGATATTCGTACCATGACATTGAATGGTATGTGAGCCA
GTGTAAAAC
Found at i:22018515 original size:46 final size:44
Alignment explanation
Indices: 22018443--22018572 Score: 145
Period size: 46 Copynumber: 2.9 Consensus size: 44
22018433 CATTGGGTGG
* * *
22018443 TATGTGAGCCAGTGTAAAACATGTCTGAGACATGCATCGGCCATAT
1 TATGAGAGCCAGTGTAAGACATGTCTGAGACATGCATC-GACAT-T
*
22018489 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACATT
1 TATGAGAGCCAGTGTAAGACATGTCTGAGACATGCATCGACATT
* * *
22018533 TAGACGAGAGTCAGTGTAAGATATGTCT-AGGACATGCATC
1 T--ATGAGAGCCAGTGTAAGACATGTCTGA-GACATGCATC
22018573 AACCTCGAGA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
44 2 0.03
45 4 0.05
46 67 0.92
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (44 bp):
TATGAGAGCCAGTGTAAGACATGTCTGAGACATGCATCGACATT
Found at i:22020293 original size:14 final size:14
Alignment explanation
Indices: 22020274--22020304 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
22020264 TGTTACACCT
22020274 TCTCCCCTTTCCCC
1 TCTCCCCTTTCCCC
22020288 TCTCCCCTTTCCCC
1 TCTCCCCTTTCCCC
22020302 TCT
1 TCT
22020305 TTCTTGTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (14 bp):
TCTCCCCTTTCCCC
Found at i:22020614 original size:18 final size:16
Alignment explanation
Indices: 22020547--22020616 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 16
22020537 TCCTCTTTTC
22020547 TTTTTTATTTTTATTTCAT
1 TTTTTTATTTTTA--T-AT
* *
22020566 ATTTTTTCTTATTAATAT
1 -TTTTTTATT-TTTATAT
22020584 TTTTTTATTTTTATAT
1 TTTTTTATTTTTATAT
22020600 TTTCTTTATTTTT-TAT
1 TTT-TTTATTTTTATAT
22020616 T
1 T
22020617 CTTAGTTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 13 0.30
17 17 0.39
18 2 0.05
19 1 0.02
20 8 0.18
21 3 0.07
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTTTATAT
Found at i:22020627 original size:18 final size:17
Alignment explanation
Indices: 22020580--22020616 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
22020570 TTTCTTATTA
22020580 ATATTTT-TTTATTTTT
1 ATATTTTCTTTATTTTT
22020596 ATATTTTCTTTATTTTT
1 ATATTTTCTTTATTTTT
22020613 -TATT
1 ATATT
22020617 CTTAGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
ATATTTTCTTTATTTTT
Found at i:22023546 original size:23 final size:23
Alignment explanation
Indices: 22023520--22023567 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
22023510 GAATTATATG
*
22023520 ATAAATACTTGTTCTTATTTTTA
1 ATAAATACTTGTTCTTATTCTTA
22023543 ATAAATACTTGTTCTTATTCTTA
1 ATAAATACTTGTTCTTATTCTTA
22023566 AT
1 AT
22023568 TGTAAGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.54
Consensus pattern (23 bp):
ATAAATACTTGTTCTTATTCTTA
Found at i:22027311 original size:45 final size:44
Alignment explanation
Indices: 22027213--22027384 Score: 194
Period size: 45 Copynumber: 3.9 Consensus size: 44
22027203 CTGAATTCAT
* * *
22027213 TCACCGGCATT-TCA-CCTGCTAGGCTCGAA-GCCCG-ATATCATT
1 TCACCGGCATTAT-AGCCTTCTAGGCTCAAAGGCCCGAATAT-ATC
22027255 TCACCGGCATTATAGCCTTCTAGGCTCGAAA-GCCCGAATACTATC
1 TCACCGGCATTATAGCCTTCTAGGCTC-AAAGGCCCGAATA-TATC
* *
22027300 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTTCTAGGCTCAAAGGCCCGAATA-TATC
*
22027345 TCACCGGCATTATAG-CTTGCTAGGTTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTT-CTAGGCTCAAAGGCCCGAATA
22027385 ATACTGTGCG
Statistics
Matches: 114, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
42 12 0.11
43 12 0.11
44 12 0.11
45 77 0.68
46 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTTCTAGGCTCAAAGGCCCGAATATATC
Found at i:22028248 original size:47 final size:47
Alignment explanation
Indices: 22028193--22028334 Score: 232
Period size: 47 Copynumber: 3.0 Consensus size: 47
22028183 AAAATTTTGT
* *
22028193 TTAACTAAGTAACTTATCCGGAAATAATAAGGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
* *
22028240 TTAACTAAGTAACTTATCCGAAAATATTAAGAGAAAATTTAACAAAC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
*
22028287 TTAACTAAGTAACTTATCCGGAAATATTAAGAG-CAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
22028333 TT
1 TT
22028335 TAAATTCAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
46 13 0.15
47 75 0.85
ACGTcount: A:0.46, C:0.13, G:0.12, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
Found at i:22030839 original size:3 final size:3
Alignment explanation
Indices: 22030831--22030897 Score: 55
Period size: 3 Copynumber: 20.3 Consensus size: 3
22030821 ATTTTCTTTA
*
22030831 ATT ATT ATT CTTT ATT ATT ATT -TCT ATT ATTT ATTT ATTT ATTT ATTT
1 ATT ATT ATT -ATT ATT ATT ATT AT-T ATT A-TT A-TT A-TT A-TT A-TT
22030879 ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
22030898 CCATTTCTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 1 0.02
3 35 0.60
4 22 0.38
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:22030839 original size:16 final size:16
Alignment explanation
Indices: 22030820--22030884 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
22030810 CTTGTTCCCC
22030820 TATTTTCTTTAATTAT
1 TATTTTCTTTAATTAT
22030836 TA--TTCTTT-ATTAT
1 TATTTTCTTTAATTAT
*
22030849 TA-TTTCTATTATTTAT
1 TATTTTCT-TTAATTAT
* *
22030865 T-TATTTATTTATTTAT
1 TAT-TTTCTTTAATTAT
22030881 TATT
1 TATT
22030885 ATTATTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
13 7 0.17
14 10 0.24
15 2 0.05
16 17 0.41
17 5 0.12
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTTCTTTAATTAT
Found at i:22030866 original size:4 final size:4
Alignment explanation
Indices: 22030857--22030881 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22030847 ATTATTTCTA
22030857 TTAT TTAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT T
22030882 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:22037839 original size:1 final size:1
Alignment explanation
Indices: 22037824--22037925 Score: 60
Period size: 1 Copynumber: 102.0 Consensus size: 1
22037814 TTGATTTTAG
* * * * * * * * * * *
22037824 TTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTA
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * *
22037889 TTTTTATTTTTATTTTTATTTTTATTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
22037926 AGTGTTAGTT
Statistics
Matches: 69, Mismatches: 32, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 69 1.00
ACGTcount: A:0.15, C:0.01, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:22037925 original size:6 final size:6
Alignment explanation
Indices: 22037818--22037917 Score: 191
Period size: 6 Copynumber: 16.7 Consensus size: 6
22037808 AGACCATTGA
*
22037818 TTTTAG TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
22037866 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
22037914 TTTT
1 TTTT
22037918 TTTCTTTTAG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 93 1.00
ACGTcount: A:0.16, C:0.00, G:0.01, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:22047185 original size:22 final size:23
Alignment explanation
Indices: 22047158--22047210 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 23
22047148 TCACAACTCT
22047158 TTTTCTTTTCTCTCTCATTTTC-
1 TTTTCTTTTCTCTCTCATTTTCA
* *
22047180 TTTTC-TTTCTTTTTCATTTTCA
1 TTTTCTTTTCTCTCTCATTTTCA
*
22047202 CTTTCTTTT
1 TTTTCTTTT
22047211 TCCACTCTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 14 0.54
22 9 0.35
23 3 0.12
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTCTTTTCTCTCTCATTTTCA
Found at i:22052638 original size:43 final size:43
Alignment explanation
Indices: 22052468--22052639 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 43
22052458 ACATAGGATC
* *
22052468 CAATATGTG-TTATCGTGTAAGACCACATCTGGGACGTTGGCAT
1 CAATATTTGATTA-CGTGTAAGACCACATCTGGGACATTGGCAT
* * * ** *
22052511 CGACT-TATGATTTATGTGTAAGATGACGTCTGGGACATTGGCAT
1 C-AATATTTGA-TTACGTGTAAGACCACATCTGGGACATTGGCAT
* * *
22052555 C-GTATTTGATTTCGTGTAAGACC-CTATCTGGGACAATGGCAT
1 CAATATTTGATTACGTGTAAGACCAC-ATCTGGGACATTGGCAT
* *
22052597 CAATATTTGATTACATGTAAGACCACATCTGGGACCTTGGCAT
1 CAATATTTGATTACGTGTAAGACCACATCTGGGACATTGGCAT
22052640 TGTACGAGCT
Statistics
Matches: 102, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
41 1 0.01
42 27 0.26
43 42 0.41
44 29 0.28
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
CAATATTTGATTACGTGTAAGACCACATCTGGGACATTGGCAT
Found at i:22056562 original size:31 final size:31
Alignment explanation
Indices: 22056524--22056585 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
22056514 CCTCGAAAAG
**
22056524 ATTCATCCTTTAATCTTGTATTTGATTGAAT
1 ATTCATCCTCAAATCTTGTATTTGATTGAAT
22056555 ATTCATCCTCAAATCTTGTATTTGATTGAAT
1 ATTCATCCTCAAATCTTGTATTTGATTGAAT
22056586 CTTGGTTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (31 bp):
ATTCATCCTCAAATCTTGTATTTGATTGAAT
Found at i:22058787 original size:11 final size:11
Alignment explanation
Indices: 22058771--22058797 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
22058761 GGGTGGCTAT
22058771 AGAAATTTGAG
1 AGAAATTTGAG
22058782 AGAAATTTGAG
1 AGAAATTTGAG
22058793 AGAAA
1 AGAAA
22058798 AAGTGAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.22
Consensus pattern (11 bp):
AGAAATTTGAG
Found at i:22058952 original size:12 final size:12
Alignment explanation
Indices: 22058935--22058969 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
22058925 ATTTTCATAA
22058935 TAAAATATTAAT
1 TAAAATATTAAT
*
22058947 TAAAAT-CTAAT
1 TAAAATATTAAT
22058958 TAAAATATTAAT
1 TAAAATATTAAT
22058970 ATTATAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (12 bp):
TAAAATATTAAT
Found at i:22066538 original size:27 final size:26
Alignment explanation
Indices: 22066507--22066567 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
22066497 TATTTTCTTG
*
22066507 AAATTTTACCACG-GGCAATATCATCAA
1 AAATTTTACCA-GTGGCAAAATCATC-A
* *
22066534 AAATTTTATCAGTGGCAAAATCGTCA
1 AAATTTTACCAGTGGCAAAATCATCA
22066560 AAATTTTA
1 AAATTTTA
22066568 TTGGGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 10 0.33
27 20 0.67
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAGTGGCAAAATCATCA
Found at i:22069283 original size:30 final size:30
Alignment explanation
Indices: 22069237--22069294 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22069227 CTGGGCATTT
* *
22069237 CCACACAGGCTGGCCACACGGCCATGTGAG
1 CCACACAGGCTAGCCACACGCCCATGTGAG
* *
22069267 CCACACGGGCTAGCCACATGCCCATGTG
1 CCACACAGGCTAGCCACACGCCCATGTG
22069295 CCAGTCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.38, G:0.28, T:0.12
Consensus pattern (30 bp):
CCACACAGGCTAGCCACACGCCCATGTGAG
Found at i:22072287 original size:26 final size:26
Alignment explanation
Indices: 22072256--22072363 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22072246 TGAAATGCCC
*
22072256 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22072282 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22072308 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22072334 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22072360 ATCA
1 ATCA
22072364 ATTTGTACCA
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:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22073041 original size:35 final size:35
Alignment explanation
Indices: 22072995--22073064 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
22072985 AATTAGAAAG
22072995 AGATTTCAATTAATCAACCTAGAGTCAGTTGTTCT
1 AGATTTCAATTAATCAACCTAGAGTCAGTTGTTCT
22073030 AGATTTCAATTAATCAACCTAGAGTCAGTTGTTCT
1 AGATTTCAATTAATCAACCTAGAGTCAGTTGTTCT
22073065 TAGTCTCGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (35 bp):
AGATTTCAATTAATCAACCTAGAGTCAGTTGTTCT
Found at i:22085002 original size:26 final size:26
Alignment explanation
Indices: 22084947--22085002 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
22084937 ATCAATTTTG
*
22084947 AAAATAAACAAATTGATCTGTATCTG
1 AAAATAAACAAATTGATCTGTATCTC
22084973 AAAATAAACAAATTGATC-GCTATCTC
1 AAAATAAACAAATTGATCTG-TATCTC
22084999 AAAA
1 AAAA
22085003 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.50, C:0.14, G:0.09, T:0.27
Consensus pattern (26 bp):
AAAATAAACAAATTGATCTGTATCTC
Found at i:22085061 original size:20 final size:20
Alignment explanation
Indices: 22085010--22085080 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
22085000 AAAAAATAAA
22085010 AAAAATT-TCAAAATAATTTT
1 AAAAATTCT-AAAATAATTTT
* *
22085030 CAAAATTTTAAAATAATTTT
1 AAAAATTCTAAAATAATTTT
*
22085050 TAAAATTCT-AAAT-ATTTAT
1 AAAAATTCTAAAATAATTT-T
22085069 AAAAATTCTAAA
1 AAAAATTCTAAA
22085081 TTTTATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.09
19 13 0.30
20 26 0.59
21 1 0.02
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTCTAAAATAATTTT
Found at i:22085071 original size:18 final size:18
Alignment explanation
Indices: 22085040--22085087 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
22085030 CAAAATTTTA
*
22085040 AAATAATTTTTAAAATTCT
1 AAAT-ATTTATAAAATTCT
22085059 AAATATTTATAAAAATTCT
1 AAATATTTAT-AAAATTCT
22085078 AAAT-TTTATA
1 AAATATTTATA
22085088 TTTTTTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 10 0.37
19 16 0.59
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATATTTATAAAATTCT
Found at i:22085073 original size:19 final size:18
Alignment explanation
Indices: 22085051--22085087 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
22085041 AATAATTTTT
22085051 AAAATTCTAAATATTTATA
1 AAAATTCTAAAT-TTTATA
22085070 AAAATTCTAAATTTTATA
1 AAAATTCTAAATTTTATA
22085088 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTCTAAATTTTATA
Found at i:22090356 original size:22 final size:20
Alignment explanation
Indices: 22090320--22090364 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
22090310 AAATTTTTTA
* *
22090320 ATTCATCTGATATATCTATTAT
1 ATTCATCTAAAATAT-TA-TAT
22090342 ATTCATCTAAAATATTATAT
1 ATTCATCTAAAATATTATAT
22090362 ATT
1 ATT
22090365 AACAGGAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 2 0.10
22 13 0.62
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.49
Consensus pattern (20 bp):
ATTCATCTAAAATATTATAT
Found at i:22095170 original size:20 final size:20
Alignment explanation
Indices: 22095145--22095185 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
22095135 ATCCCAATCC
22095145 AAGG-AAATTATTTTCTAAAA
1 AAGGAAAATTATTTT-TAAAA
22095165 AAGGAAAAATTATTTTTAAAA
1 AAGG-AAAATTATTTTTAAAA
22095186 TAAATCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 5 0.26
22 10 0.53
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.34
Consensus pattern (20 bp):
AAGGAAAATTATTTTTAAAA
Found at i:22099450 original size:16 final size:16
Alignment explanation
Indices: 22099429--22099459 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22099419 AAAAATATAT
22099429 AAAATGAATAAAATAA
1 AAAATGAATAAAATAA
*
22099445 AAAATGAATAGAATA
1 AAAATGAATAAAATA
22099460 CATAATAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
AAAATGAATAAAATAA
Found at i:22099590 original size:13 final size:13
Alignment explanation
Indices: 22099572--22099616 Score: 58
Period size: 12 Copynumber: 3.5 Consensus size: 13
22099562 AATAATAATA
22099572 AAATAAACCAAAC
1 AAATAAACCAAAC
*
22099585 AAAT-AACATAAAC
1 AAATAAAC-CAAAC
22099598 AAATAAA-CAAAC
1 AAATAAACCAAAC
22099610 AAATAAA
1 AAATAAA
22099617 TAAGACAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
12 14 0.50
13 12 0.43
14 2 0.07
ACGTcount: A:0.73, C:0.16, G:0.00, T:0.11
Consensus pattern (13 bp):
AAATAAACCAAAC
Found at i:22099614 original size:25 final size:26
Alignment explanation
Indices: 22099572--22099629 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
22099562 AATAATAATA
22099572 AAATAAACCAAACAAATAACATAA-AC
1 AAATAAACCAAACAAATAA-ATAAGAC
22099598 AAATAAA-CAAACAAATAAATAAGAC
1 AAATAAACCAAACAAATAAATAAGAC
*
22099623 AAGTAAA
1 AAATAAA
22099630 TGATTCTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 4 0.13
25 19 0.63
26 7 0.23
ACGTcount: A:0.71, C:0.14, G:0.03, T:0.12
Consensus pattern (26 bp):
AAATAAACCAAACAAATAAATAAGAC
Found at i:22104996 original size:18 final size:19
Alignment explanation
Indices: 22104973--22105017 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
22104963 CCGAAACAGT
22104973 AAAAAAAA-ACTGAAAA-A
1 AAAAAAAACACTGAAAACA
22104990 GAAAAAAAACACTGAAAACA
1 -AAAAAAAACACTGAAAACA
22105010 AAAAAAAA
1 AAAAAAAA
22105018 TAAAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.32
19 16 0.64
20 1 0.04
ACGTcount: A:0.80, C:0.09, G:0.07, T:0.04
Consensus pattern (19 bp):
AAAAAAAACACTGAAAACA
Found at i:22105072 original size:27 final size:27
Alignment explanation
Indices: 22105041--22105107 Score: 134
Period size: 27 Copynumber: 2.5 Consensus size: 27
22105031 ATGTTGGTGC
22105041 CAGAGGCGGCACCAGTGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCTGG
22105068 CAGAGGCGGCACCAGTGTTGCCTCTGG
1 CAGAGGCGGCACCAGTGTTGCCTCTGG
22105095 CAGAGGCGGCACC
1 CAGAGGCGGCACC
22105108 GGTGCCAGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.16, C:0.31, G:0.37, T:0.15
Consensus pattern (27 bp):
CAGAGGCGGCACCAGTGTTGCCTCTGG
Found at i:22105222 original size:3 final size:3
Alignment explanation
Indices: 22105214--22105262 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
22105204 TTCGGGAACA
* *
22105214 AAG AAG AAG AAG AAA AAG AGAG AAG AAG GA- AAG AAG -AG AAG AAG
1 AAG AAG AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG
22105258 AAG AA
1 AAG AA
22105263 AGAAAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 3 0.08
3 33 0.85
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:22105239 original size:16 final size:16
Alignment explanation
Indices: 22105213--22105263 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 16
22105203 TTTCGGGAAC
22105213 AAAGA-AGAAGAAGAA
1 AAAGAGAGAAGAAGAA
22105228 AAAGAGAGAAGAAGGAA
1 AAAGAGAGAAGAA-GAA
22105245 AGAAGAGAAGAAGAAGAA
1 A-AAGAG-AGAAGAAGAA
22105263 A
1 A
22105264 GAAAAAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.16
16 7 0.22
17 4 0.12
18 9 0.28
19 7 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
AAAGAGAGAAGAAGAA
Found at i:22105359 original size:14 final size:14
Alignment explanation
Indices: 22105318--22105372 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
22105308 GAAAAAACAA
22105318 AAAGAAAAAGAGAAGG
1 AAAG-AAAA-AGAAGG
* *
22105334 AGAAGAAGAAGAGGG
1 A-AAGAAAAAGAAGG
*
22105349 AAGGAAAAAGAAGG
1 AAAGAAAAAGAAGG
22105363 AAAGAAAAAG
1 AAAGAAAAAG
22105373 GTATTTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 19 0.59
15 6 0.19
16 4 0.12
17 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAGG
Found at i:22105779 original size:17 final size:17
Alignment explanation
Indices: 22105742--22105780 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
22105732 CATATTAATT
* * *
22105742 AAAAAATAAAATATGAG
1 AAAAAATAAAAAACGAA
22105759 AAAAAATAAAAAACGAA
1 AAAAAATAAAAAACGAA
22105776 AAAAA
1 AAAAA
22105781 CTTTTTTGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (17 bp):
AAAAAATAAAAAACGAA
Found at i:22105968 original size:131 final size:133
Alignment explanation
Indices: 22105830--22106950 Score: 439
Period size: 141 Copynumber: 8.1 Consensus size: 133
22105820 AATAATATAA
** * * * *
22105830 AAAATAAAATATGAAAATAGTATATTTTAAAAAA-AACCGAAAATAAAAAATATGAACAAGGTGC
1 AAAATAAAATACCAAAATAATATATTTTAAAAAATAACAGAAAA-AAAAAATACGAACAAAGTGC
* ** * *
22105894 CAAAGTCA-AGTTATTTATTAAATTAATATAAAAAA-ACTTAAATAATACATTTGAAAGATTTTA
65 CAAAATCAGAGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATA
*
22105957 TGCT
130 TACT
* * ** * *
22105961 AAAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACCAAAATAATATATTTTAAAAAATAACAGAAAAAAAAAATACGAACAAAGTGCC
*
22106026 AAAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
66 AAAATCAGAGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAAC---A--T
*
22106091 ACTAAAATAATACAA
126 --T---AT-ATAC-T
* * *
22106106 AGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGA
1 A-AAATAAAATACCAAAATAATATATTTTAAAAAAT-A-ACA-G-AAA-AAAAAAA-TACGAACA
*** * ** *
22106171 AAGTATAAAAATCAGAGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTGAAA
59 AAGTGCCAAAATCAGAGTTATTTATTAAAAAAATATAAA-AAACACTTAAATAATACATTTGAAA
**
22106236 TTTTTTTGCTAAAATAATA-T
123 --------C-ATTAT-ATACT
** * * * ** * *
22106256 AAAAATAAAATAAGAAAATAATATATTTTTAAAAATAATATACGAAAAAAATACAAATAAAGTGC
1 -AAAATAAAATACCAAAATAATATATTTTAAAAAATAACAGAAAAAAAAAATACGAACAAAGTGC
* * * * *
22106321 TAAAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATG
65 CAAAATCAGAGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATA
22106386 TACT
130 TACT
* * * * *** *
22106390 AAAATAATATGA--AGAAATAA-A-A---TACGAAAATAATATG-AAGAAAGTGT-C-AAAATCA
1 AAAATAAAAT-ACCA-AAATAATATATTTTA-AAAAATAACA-GAAAAAAAAAATACGAACA--A
** ** * * * * *
22106445 AG-GTTATTTATTA-AATTA-GTA-TAAAAAAACACTTACATAATATAC-CTAATACATTTGAA-
60 AGTGCCA-AAATCAGAGTTATTTATTAAAAAAATA--TA-A-AA-A-ACACT--TA-A-AT-AAT
* **
22106504 ACATTTTTTGCTAAA-ATAATATAAA
113 ACA---TTTG--AAACATTATATACT
** * * ** * *
22106529 AAAATAAAATAAGAAAATAATATATTTTAAAAAATAATA-TATGAAAAAATACGAATAAAGTGCT
1 AAAATAAAATACCAAAATAATATATTTTAAAAAATAACAGAAAAAAAAAATACGAACAAAGTGCC
* *
22106593 AAAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGT
66 AAAATCAGAGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATAT
22106657 ACT
131 ACT
* ** **
22106660 AAAATAATATAAAGAAATAAATACGAAAATAATATATTTT-AAAAA-AA-ATTACGAAAAAATAC
1 ---A-AA-AT------A-AAATACCAAAATAATATATTTTAAAAAATAACAGAAAAAAAAAATAC
* * * * *
22106722 AAATAAAGTGCTAAAATTAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTT
54 GAACAAAGTGCCAAAATCAGAGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTT
*
22106786 GAAACATTATGTACT
119 GAAACATTATATACT
* ** **
22106801 AAAATAATATAAAGAAATAAATACGAAAATAATATATTTT-AAAAA-AA-ATTACGAAAAAATAC
1 ---A-AA-AT------A-AAATACCAAAATAATATATTTTAAAAAATAACAGAAAAAAAAAATAC
* * * *
22106863 GAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATAAAAAAAACACTTAAATAATACATT
54 GAACAAAGTGCCAAAATCAGAGTTATTTATTAAAAAA-ATATAAAAAACACTTAAATAATACATT
*
22106928 TGAAACATTATGTACT
118 TGAAACATTATATACT
22106944 AAAATAA
1 AAAATAA
22106951 GGGTTTTAAA
Statistics
Matches: 793, Mismatches: 109, Indels: 176
0.74 0.10 0.16
Matches are distributed among these distances:
126 8 0.01
127 5 0.01
128 10 0.01
129 20 0.03
130 5 0.01
131 65 0.08
132 36 0.05
133 40 0.05
134 9 0.01
135 11 0.01
136 6 0.01
137 2 0.00
138 10 0.01
139 26 0.03
140 10 0.01
141 184 0.23
142 25 0.03
143 103 0.13
144 54 0.07
145 9 0.01
146 34 0.04
147 1 0.00
148 6 0.01
149 1 0.00
150 33 0.04
151 8 0.01
152 45 0.06
153 24 0.03
159 2 0.00
161 1 0.00
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (133 bp):
AAAATAAAATACCAAAATAATATATTTTAAAAAATAACAGAAAAAAAAAATACGAACAAAGTGCC
AAAATCAGAGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATAT
ACT
Found at i:22106208 original size:152 final size:144
Alignment explanation
Indices: 22105962--22107128 Score: 1100
Period size: 141 Copynumber: 8.1 Consensus size: 144
22105952 TTTTATGCTA
*
22105962 AAATAAAATACCAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
22106027 AAATCAGGGTTATTTATTAAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
66 AAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
22106092 CTAAAATAATACAAAG
130 CTAAAATAATA-AAAG
*
22106108 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAAAAAATTACGAAGAAA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACG-----AAAAAAA-TACGAATAAA
* * * * *
22106173 GT-ATAAAAATCAGAGTTATTTAGTAAATTAATATAAAGAAACACTTAAGTAATACATTTGAAA-
60 GTGCT-AAAATCAGGGTTATTTATTAAA-AAATATAAA-AAACACTTAAATAATACATTTGAAAC
* * * * *
22106236 TTTTTTTGCTAAAATAATATAA-
122 ATTATGTACTAAAATAATAAAAG
* * *
22106258 AAATAAAATAAGAAAATAATATATTTTTAAAAATAATATACGAAAAAAATACAAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
*
22106323 AAATCAGGGTTATTTATTGAAAAAATATAAAAAATACTTAAATAATACATTTGAAACATTATGTA
66 AAATCAGGGTTATTTATT-AAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTA
*
22106388 CTAAAATAATATGAAG
130 CTAAAATAATA-AAAG
** *** * **** ** * *
22106404 AAATAAAATACGAAAATAATATGA--AGAAAGTGTCAAAAT-C-AAGGTTAT-TTATTAAATTAG
1 AAATAAAATACGAAAATAATAT-ATTTTAAAAAAT-AATATACGAAAAAAATACGAATAAAGT-G
**** * * * * *** * * * **
22106464 -TATAAA--A-AAACACTTA-CATAATATACCTAATACATTTGAAA-CAT-TTTTTGCTAAA-A-
63 CTA-AAATCAGGGTTATTTATTAAAAAATATAAAAAACACTT-AAATAATACATTTG--AAACAT
* *
22106520 TA-ATA-T-AAA-AA-AATA-
124 TATGTACTAAAATAATAAAAG
*
22106535 AAAT---A-A-GAAAATAATATATTTTAAAAAATAATATATG-AAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
22106594 AAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
66 AAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
22106659 TAAAATAATATAAAG
131 TAAAATAATA-AAAG
*
22106674 AAAT-AAATACGAAAATAATATATTTTAAAAAA-AAT-TACG-AAAAAATACAAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
*
22106735 AAATTAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
66 AAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
22106800 TAAAATAATATAAAG
131 TAAAATAATA-AAAG
22106815 AAAT-AAATACGAAAATAATATATTTTAAAAAA-AAT-TACG-AAAAAATACGAATAAAGTGCTA
1 AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
22106876 AAATCAGGGTTATTTATTAAAAAATATAAAAAAAACACTTAAATAATACATTTGAAACATTATGT
66 AAATCAGGGTTATTTATTAAAAAATAT--AAAAAACACTTAAATAATACATTTGAAACATTATGT
*
22106941 ACTAAAATAAGGGTTTTAAAAT
129 ACTAAAATAA------TAAAAG
* * ** * *
22106963 AAA-ATAATACGAAAGTAATATATTTTAAAAAATAAGATATGAAAATAAAAAAATATGAAAAAAG
1 AAATAAAATACGAAAATAATATATTTTAAAAAAT-A-ATAT---ACGAAAAAAATACGAATAAAG
* * * * **
22107027 TGCCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAACATTTCCATAATACATTTGAAACAT
61 TGCTAAAATCAGGGTTATTTATTAAA-AAATAT-AAAAAACACTTAAATAATACATTTGAAACAT
* * *
22107092 T-TTTGCTAAAATAATATAA-
124 TATGTACTAAAATAATAAAAG
*
22107111 AAATAATATACGAAAATA
1 AAATAAAATACGAAAATA
22107129 TTTTACTTAT
Statistics
Matches: 836, Mismatches: 120, Indels: 127
0.77 0.11 0.12
Matches are distributed among these distances:
125 1 0.00
126 15 0.02
127 12 0.01
128 9 0.01
129 1 0.00
130 10 0.01
131 20 0.02
132 7 0.01
133 3 0.00
134 3 0.00
135 6 0.01
136 3 0.00
137 3 0.00
138 8 0.01
139 19 0.02
140 6 0.01
141 194 0.23
142 5 0.01
143 99 0.12
144 58 0.07
145 17 0.02
146 66 0.08
147 1 0.00
148 35 0.04
149 17 0.02
150 41 0.05
151 15 0.02
152 52 0.06
153 24 0.03
155 12 0.01
156 69 0.08
157 5 0.01
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (144 bp):
AAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAAAAATACGAATAAAGTGCTA
AAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATAATACATTTGAAACATTATGTAC
TAAAATAATAAAAG
Found at i:22106276 original size:296 final size:290
Alignment explanation
Indices: 22105817--22107128 Score: 1333
Period size: 296 Copynumber: 4.6 Consensus size: 290
22105807 ATTTTTTTGT
* * *
22105817 TAAAATAATATAAA-AAATAAAATATGAAAATAGTATATTTT-AAAAAAA-A-CCGAAAAT-AAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAAAATATACGAAAATAAAA
* * *** *
22105877 AAATATGAACAAGGTGCCAAAGTCA-AGTTATTTATTAAATTAATATAAA-AAA-ACTTAAATAA
66 AAATACGAA-AAAGTATAAAAATCAGAGTTATTTATTAAATTAATATAAAGAAACACTT-AATAA
** ** *
22105939 TACATTTGAAA-GATTT--T---AT--GCT-AAAATAAAATACCAAAATAATATATTTTAAAAAA
129 TACATTTGAAATTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAAAAAA
22105995 TAATATACGAAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAA
194 TAATATACG-AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAA
22106060 ACACTTAAATAATACATTTGAAACATTATGTAC
258 ACACTTAAATAATACATTTGAAACATTATGTAC
*
22106093 TAAAATAATACAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAATATACGAAAATAAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAA-AATATACGAAAATAAA
*
22106158 AAAATTACGAAGAAAGTATAAAAATCAGAGTTATTTAGTAAATTAATATAAAGAAACACTTAAGT
65 AAAA-TACGAA-AAAGTATAAAAATCAGAGTTATTTATTAAATTAATATAAAGAAACACTTAA-T
* *
22106223 AATACATTTGAAATTTTTTTGCTAAAATAATATAAAAATAAAATAAGAAAATAATATATTTTTAA
127 AATACATTTGAAA-TTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAAA
* *
22106288 AAATAATATACGAAAAAAATACAAATAAAGTGCTAAAATCAGGGTTATTTATTGAAAAAATATAA
191 AAATAATATACG-AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAA
*
22106353 AAAATACTTAAATAATACATTTGAAACATTATGTAC
255 AAAACACTTAAATAATACATTTGAAACATTATGTAC
* * * * *
22106389 TAAAATAATATGAAGAAATAAAATACGAAAAT-A-ATA---TGAAGAAAGTGT-C-AAAATCAAG
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAAAATATACGAAAAT-AA-
** ** ** * * * *
22106447 GTTATTTATTAAATTAGTATAAAAA--A-A--CA---CTTACA-TAATAT------AC-C----T
64 -AAAAATACGAAA-AAGTATAAAAATCAGAGTTATTTATTAAATTAATATAAAGAAACACTTAAT
*
22106492 AATACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAAGAAAATAATATATTTT
127 AATACATTTG-AA-ATTTTTTGCTAAAATAATAT--AAAAATAAAATACGAAAATAATATATTTT
*
22106557 AAAAAATAATATATGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATT-AAAAAATAT
188 AAAAAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATAT
22106621 AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
253 AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
22106659 TAAAATAATATAAAGAAAT-AAATACGAAAATAATATATTTTAAAAAAAAT-TACG------AAA
1 TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAAAATATACGAAAATAAAA
* * * * *
22106716 AAATACAAATAAAGTGCT-AAAATTAGGGTTATTTATTAAA-AAATATAAA-AAACACTTAAATA
66 AAATACGAA-AAAGT-ATAAAAATCAGAGTTATTTATTAAATTAATATAAAGAAACACTT-AATA
* * *
22106778 ATACATTTGAAACATTATGTACTAAAATAATATAAAGAA-ATAAATACGAAAATAATATATTTTA
128 ATACATTTG-AA-ATTTTTTGCTAAAATAATATAAA-AATA-AAATACGAAAATAATATATTTTA
*
22106842 AAAAA-AAT-TACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATAA
189 AAAAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAA-ATAT
22106905 AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
253 AAAAAACACTTAAATAATACATTTGAAACATTATGTAC
* * * *
22106943 TAAAATAAGGGTTTTAAA-ATAA-AATAATACGAAAGTAATATATTTTAAAAAATAAGATATGAA
1 TAAAATAA----TATAAAGA-AATAA-AATACGAAAATAATATATTTTAAAAAA-AATATACGAA
* *** * * *
22107006 AATAAAAAAATATGAAAAAAGTGCCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAACATT
59 AATAAAAAAATACG-AAAAAGTATAAAAATCAGAGTTATTTATTAAATTAATATAAAGAAACACT
* * *
22107071 TCCATAATACATTTGAAACATTTTTGCTAAAATAATATAAAAATAATATACGAAAATA
123 T-AATAATACATTTGAAA-TTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATA
22107129 TTTTACTTAT
Statistics
Matches: 869, Mismatches: 85, Indels: 143
0.79 0.08 0.13
Matches are distributed among these distances:
266 12 0.01
267 2 0.00
268 2 0.00
269 23 0.03
270 86 0.10
271 44 0.05
272 42 0.05
273 1 0.00
274 18 0.02
275 2 0.00
276 13 0.01
277 25 0.03
278 5 0.01
279 4 0.00
280 2 0.00
281 13 0.01
282 52 0.06
283 27 0.03
284 101 0.12
285 38 0.04
286 18 0.02
287 2 0.00
288 17 0.02
289 30 0.03
290 20 0.02
291 9 0.01
293 2 0.00
294 3 0.00
295 2 0.00
296 156 0.18
297 48 0.06
298 31 0.04
299 19 0.02
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.29
Consensus pattern (290 bp):
TAAAATAATATAAAGAAATAAAATACGAAAATAATATATTTTAAAAAAAATATACGAAAATAAAA
AAATACGAAAAAGTATAAAAATCAGAGTTATTTATTAAATTAATATAAAGAAACACTTAATAATA
CATTTGAAATTTTTTGCTAAAATAATATAAAAATAAAATACGAAAATAATATATTTTAAAAAATA
ATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAAATATAAAAAACA
CTTAAATAATACATTTGAAACATTATGTAC
Found at i:22106409 original size:13 final size:13
Alignment explanation
Indices: 22106391--22106432 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
22106381 TTATGTACTA
22106391 AAATAATATGAAG
1 AAATAATATGAAG
* *
22106404 AAATAAAAT-ACG
1 AAATAATATGAAG
22106416 AAAATAATATGAAG
1 -AAATAATATGAAG
22106430 AAA
1 AAA
22106433 GTGTCAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (13 bp):
AAATAATATGAAG
Found at i:22106534 original size:13 final size:13
Alignment explanation
Indices: 22106516--22106552 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
22106506 ATTTTTTGCT
22106516 AAAATAATATAAA
1 AAAATAATATAAA
* *
22106529 AAAATAAAATAAG
1 AAAATAATATAAA
22106542 AAAATAATATA
1 AAAATAATATA
22106553 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:22106575 original size:15 final size:15
Alignment explanation
Indices: 22106516--22106579 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
22106506 ATTTTTTGCT
22106516 AAAATAATATA--AA
1 AAAATAATATATGAA
* *
22106529 AAAATAAAATAAGAA
1 AAAATAATATATGAA
* *
22106544 AATAAT-ATATTTTAA
1 AA-AATAATATATGAA
22106559 AAAATAATATATGAA
1 AAAATAATATATGAA
22106574 AAAATA
1 AAAATA
22106580 CGAATAAAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
13 10 0.25
14 3 0.08
15 24 0.60
16 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (15 bp):
AAAATAATATATGAA
Found at i:22106938 original size:284 final size:291
Alignment explanation
Indices: 22106430--22107128 Score: 893
Period size: 284 Copynumber: 2.4 Consensus size: 291
22106420 TAATATGAAG
* * * *
22106430 AAAGTGTCAAAATCAAGGTTATTTATTAAATTAGTATAAAAAAACACTTACATAATATACCTAAT
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAAACAC-T---T-A-A-A--TAAT
*
22106495 ACATTTGAAACATTTTTTGCTAAAATAATATAAAAAAATAAAATAAGAAAATAATATATTTTAAA
57 ACATTTGAAACA-TTTTTGCTAAAATAATAT-AAAAAAT-AAATACGAAAATAATATATTTTAAA
*
22106560 AAATAATATATGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATAAAA
119 AAATAATATACGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATAAAA
*
22106625 AACACTTAAATAATACATTTGAAACATTATGTACTAAAATAA-TAT-AAA-GAAATAAATACGAA
184 AACACTTAAATAATACATTTGAAACATTATGTACTAAAATAAGTATAAAATAAAAT-AATACGAA
* * *
22106687 AATAATATATTTTAAAAAA-AA-TTACGAAAA-AATACAA-AT-
248 AATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATATA
* *
22106726 AAAGTGCTAAAATTAGGGTTATTTATTAAA-AAATAT-AAAAAACACTTAAATAATACATTTGAA
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAAACACTTAAATAATACATTTGAA
* *
22106789 ACATTATGTACTAAAATAATATAAAGAAATAAATACGAAAATAATATATTTTAAAAAA-AAT-TA
66 ACATT-TTTGCTAAAATAATATAAA-AAATAAATACGAAAATAATATATTTTAAAAAATAATATA
22106852 CGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATAAAAAAAACACTTA
129 CGAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATAT--AAAAAACACTTA
* *
22106917 AATAATACATTTGAAACATTATGTACTAAAATAAGGGTTTTAAAATAAAATAATACGAAAGTAAT
192 AATAATACATTTGAAACATTATGTACTAAAATAA--G-TATAAAATAAAATAATACGAAAATAAT
*
22106982 ATATTTTAAAAAATAAGATATGAAAATAAAAAAATATGAAA
254 ATATTTTAAAAAATAAGATACGAAAATAAAAAAATAT---A
* * * **
22107023 AAAGTGCCAAAATCAGTGTTATTTATTAAATTAATATAAAAAAACATTTCCATAATACATTTGAA
1 AAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAAACACTTAAATAATACATTTGAA
22107088 ACATTTTTGCTAAAATAATAT-AAAAATAATATACGAAAATA
66 ACATTTTTGCTAAAATAATATAAAAAATAA-ATACGAAAATA
22107129 TTTTACTTAT
Statistics
Matches: 356, Mismatches: 26, Indels: 41
0.84 0.06 0.10
Matches are distributed among these distances:
282 52 0.15
283 3 0.01
284 78 0.22
285 34 0.10
287 1 0.00
288 3 0.01
289 30 0.08
290 7 0.02
291 7 0.02
292 5 0.01
293 3 0.01
294 9 0.03
295 4 0.01
296 32 0.09
297 40 0.11
298 19 0.05
299 29 0.08
ACGTcount: A:0.56, C:0.07, G:0.08, T:0.30
Consensus pattern (291 bp):
AAAGTGCCAAAATCAGGGTTATTTATTAAATAAATATAAAAAAACACTTAAATAATACATTTGAA
ACATTTTTGCTAAAATAATATAAAAAATAAATACGAAAATAATATATTTTAAAAAATAATATACG
AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTAAAAAATATAAAAAACACTTAAATA
ATACATTTGAAACATTATGTACTAAAATAAGTATAAAATAAAATAATACGAAAATAATATATTTT
AAAAAATAAGATACGAAAATAAAAAAATATA
Found at i:22110341 original size:49 final size:49
Alignment explanation
Indices: 22110286--22110670 Score: 614
Period size: 49 Copynumber: 8.1 Consensus size: 49
22110276 ATGTACAAGA
22110286 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
22110335 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
22110382 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
22110429 TATGTATATGTGATAAGGCCGAATGGCCAAT-TGGATGAATGTGAAGGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGT-GATGAATGTGAAAGTG
22110478 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
22110527 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
22110576 TATG--TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--G
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
22110621 TA--TATATATGAAAAGGCCGAATGGTCAATGTGATGGAA-GTGGAAGTG
1 TATGTATATGTGATAAGGCCGAATGGCCAATGTGAT-GAATGTGAAAGTG
22110668 TAT
1 TAT
22110671 AACTGTGATA
Statistics
Matches: 320, Mismatches: 6, Indels: 21
0.92 0.02 0.06
Matches are distributed among these distances:
45 35 0.11
46 3 0.01
47 136 0.43
48 1 0.00
49 144 0.45
50 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.28
Consensus pattern (49 bp):
TATGTATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:22110343 original size:25 final size:25
Alignment explanation
Indices: 22110315--22110393 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
22110305 CGAATGGCCA
22110315 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
* * * *
22110340 ATGTGAT-AAGGCCGAATG-GCCA---
1 ATGTGATGAATG-TGAAAGTG-TATGT
22110362 ATGTGATGAATGTGAAAGTGTATGT
1 ATGTGATGAATGTGAAAGTGTATGT
22110387 ATGTGAT
1 ATGTGAT
22110394 AAGGCCGAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 14
0.64 0.13 0.23
Matches are distributed among these distances:
22 12 0.31
23 4 0.10
24 4 0.10
25 19 0.49
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATGT
Found at i:22113852 original size:72 final size:72
Alignment explanation
Indices: 22113760--22113899 Score: 237
Period size: 72 Copynumber: 1.9 Consensus size: 72
22113750 GTCCGAGCGA
* *
22113760 TCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACTATTTCCTGGG
1 TCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCCCGGG
22113825 CTCGTCG
66 CTCGTCG
*
22113832 TCGCATTCACATTC-AGCTGATACTTCTTATCATCCGGATTTGGCGGGCAATGACAATTTCCCGG
1 TCGCATTCACATTCGA-CTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCCCGG
22113896 GCTC
65 GCTC
22113900 ATCGGGGGGC
Statistics
Matches: 64, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
71 1 0.02
72 63 0.98
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (72 bp):
TCGCATTCACATTCGACTGATACTTCTTATCATCCGGATTTGGCAGGCAATGACAATTTCCCGGG
CTCGTCG
Found at i:22119085 original size:38 final size:39
Alignment explanation
Indices: 22119014--22119110 Score: 124
Period size: 38 Copynumber: 2.5 Consensus size: 39
22119004 GTTTTTTTTT
** **
22119014 ACAATAATAATAACTAACAATAATTATGGTTTTTTACTA
1 ACAATAATAATAACTAACAATAACAATAATTTTTTACTA
*
22119053 ACAATAATAATAAC-AATAATAACAATAATTTTTTACTA
1 ACAATAATAATAACTAACAATAACAATAATTTTTTACTA
* *
22119091 ACAATATTAATAACTCACAA
1 ACAATAATAATAACTAACAA
22119111 CAAAAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 32 0.65
39 17 0.35
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.34
Consensus pattern (39 bp):
ACAATAATAATAACTAACAATAACAATAATTTTTTACTA
Found at i:22119227 original size:19 final size:18
Alignment explanation
Indices: 22119194--22119234 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
22119184 AAAAATTATA
22119194 CCTTC-TTTTTTCCTTCT
1 CCTTCTTTTTTTCCTTCT
22119211 CCTTCTTTTTCTTCCTTCT
1 CCTTCTTTTT-TTCCTTCT
22119230 -CTTCT
1 CCTTCT
22119235 CCTTTCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 9 0.41
19 8 0.36
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (18 bp):
CCTTCTTTTTTTCCTTCT
Found at i:22119240 original size:19 final size:19
Alignment explanation
Indices: 22119194--22119242 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
22119184 AAAAATTATA
22119194 CCTTCT-TTT-TTCCTTCT
1 CCTTCTCTTTCTTCCTTCT
*
22119211 CCTTCTTTTTCTTCCTTCT
1 CCTTCTCTTTCTTCCTTCT
22119230 -CTTCTCCTTTCTT
1 CCTTCT-CTTTCTT
22119243 TCCCTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 8 0.29
19 14 0.50
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (19 bp):
CCTTCTCTTTCTTCCTTCT
Found at i:22119405 original size:19 final size:18
Alignment explanation
Indices: 22119381--22119429 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
22119371 CACTTTTTTA
*
22119381 TTTTTTTTGTTTTCAGTGT
1 TTTTTTTTGTTTTCAAT-T
22119400 TTTTTTTCT-TTTTCAATT
1 TTTTTTT-TGTTTTCAATT
22119418 TTTTTTATTGTT
1 TTTTTT-TTGTT
22119430 GCGACTGTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTTTTTTGTTTTCAATT
Found at i:22122559 original size:79 final size:79
Alignment explanation
Indices: 22122376--22122932 Score: 772
Period size: 79 Copynumber: 7.1 Consensus size: 79
22122366 AATTAAAGGT
* * * * *
22122376 AAATAAAATCCATTTCGGGATTGATTCCC-ACTGTTCAATGATTTTATTCCAAATTTTA-TTTAT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGTC-GTTTAACGATTTTATTCCAAATTTTATTTTAT
*
22122439 TT-CTAAAATCGAGTA
65 TTCCAAAAAT-GAGTA
* * *
22122454 AAATAAAATCCATTTCGGGATTGATTCCTGTCGTTTAACGATTTTATTCCAAATTTTATTTTATT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATT
22122519 TCCAAAAATGAGTA
66 TCCAAAAATGAGTA
* ** * *
22122533 AAATAAAATCCGTTTCGGGATTGATTCGTGTCGTTTAACAATTTTATTCCAAATTTTGTTTTATT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATT
22122598 TCCAAAAATGAGTA
66 TCCAAAAATGAGTA
22122612 AAATAAAATCCGTTTCGAGATTGATTCCCG-CTGTTTAACGATTTTATTCCAAATTTTATTTTAT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGTC-GTTTAACGATTTTATTCCAAATTTTATTTTAT
22122676 TTCCAAAAATGAGTA
65 TTCCAAAAATGAGTA
* *
22122691 AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTCATTCCAAATTTTGTTTTATT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATT
*
22122756 TCCAAAAAGGAGTA
66 TCCAAAAATGAGTA
* *
22122770 AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTCATTCCAAATTTTGTTTTATT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATT
*
22122835 TCCAAAAACGAGTA
66 TCCAAAAATGAGTA
* *
22122849 AAATAAAATCCGTTTCGAGATTGATTCCCG-CTGTTCAACGGA-TTTATT--ACATTTTGATTTT
1 AAATAAAATCCGTTTCGAGATTGATTCCCGTC-GTTTAAC-GATTTTATTCCAAATTTT-ATTTT
* *
22122910 GTTACCAAAAATGAG-A
63 ATTTCCAAAAATGAGTA
*
22122926 AATTAAA
1 AAATAAA
22122933 TTAAATAAAA
Statistics
Matches: 445, Mismatches: 26, Indels: 17
0.91 0.05 0.03
Matches are distributed among these distances:
77 13 0.03
78 70 0.16
79 353 0.79
80 9 0.02
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (79 bp):
AAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATT
TCCAAAAATGAGTA
Found at i:22122877 original size:158 final size:158
Alignment explanation
Indices: 22122288--22122878 Score: 778
Period size: 158 Copynumber: 3.7 Consensus size: 158
22122278 TATTAAAACT
* * * * *
22122288 AATAAAATCTGTTTC-AGGATTTATTCCAGCCGTTCAACAGATTTTATTCCATTAATTTTATTTT
1 AATAAAATCCGTTTCGA-GATTGATTCCCGTCGTTTAAC-GATTTTATTCCA--AATTTTATTTT
* * * * * *
22122352 ATTTCCAAACGGGAAATTAAAGGT-AAATAAAATCCATTTCGGGATTGATTCCC-ACTGTTCAAT
62 ATTTCC-AA----AAA-T-GA-GTAAAATAAAATCCGTTTCGAGATTGATTCCCGTC-GTTTAAC
* * *
22122415 GATTTTATTCCAAATTTT-ATTTATTTCTAAAATCGAGTAA
118 GATTTTATTCCAAATTTTGTTTTATTTCCAAAAACGAGTAA
* * *
22122455 AATAAAATCCATTTCGGGATTGATTCCTGTCGTTTAACGATTTTATTCCAAATTTTATTTTATTT
1 AATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATTT
* ** *
22122520 CCAAAAATGAGTAAAATAAAATCCGTTTCGGGATTGATTCGTGTCGTTTAACAATTTTATTCCAA
66 CCAAAAATGAGTAAAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAA
*
22122585 ATTTTGTTTTATTTCCAAAAATGAGTAA
131 ATTTTGTTTTATTTCCAAAAACGAGTAA
22122613 AATAAAATCCGTTTCGAGATTGATTCCCG-CTGTTTAACGATTTTATTCCAAATTTTATTTTATT
1 AATAAAATCCGTTTCGAGATTGATTCCCGTC-GTTTAACGATTTTATTCCAAATTTTATTTTATT
*
22122677 TCCAAAAATGAGTAAAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTCATTCCA
65 TCCAAAAATGAGTAAAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCA
*
22122742 AATTTTGTTTTATTTCCAAAAAGGAGTAA
130 AATTTTGTTTTATTTCCAAAAACGAGTAA
* *
22122771 AATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTCATTCCAAATTTTGTTTTATTT
1 AATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATTT
*
22122836 CCAAAAACGAGTAAAATAAAATCCGTTTCGAGATTGATTCCCG
66 CCAAAAATGAGTAAAATAAAATCCGTTTCGAGATTGATTCCCG
22122879 CTGTTCAACG
Statistics
Matches: 387, Mismatches: 31, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
156 2 0.01
157 50 0.13
158 270 0.70
159 4 0.01
163 2 0.01
164 17 0.04
166 12 0.03
167 30 0.08
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (158 bp):
AATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAAATTTTATTTTATTT
CCAAAAATGAGTAAAATAAAATCCGTTTCGAGATTGATTCCCGTCGTTTAACGATTTTATTCCAA
ATTTTGTTTTATTTCCAAAAACGAGTAA
Found at i:22131002 original size:23 final size:23
Alignment explanation
Indices: 22130972--22131016 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
22130962 AAATATAGTA
22130972 TTAATAGTTAATTAATACATTAT
1 TTAATAGTTAATTAATACATTAT
* *
22130995 TTAATAGTTGATTAGTACATTA
1 TTAATAGTTAATTAATACATTA
22131017 AAAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (23 bp):
TTAATAGTTAATTAATACATTAT
Found at i:22145188 original size:21 final size:21
Alignment explanation
Indices: 22145162--22145202 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22145152 ATCTGCTCAA
* *
22145162 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
22145183 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
22145203 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:22154830 original size:41 final size:41
Alignment explanation
Indices: 22154784--22154861 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
22154774 TTTGATCTCT
22154784 AAAAAGGATTTAGTCATACTTTTTGACGCCATTCTTAGATA
1 AAAAAGGATTTAGTCATACTTTTTGACGCCATTCTTAGATA
22154825 AAAAAGGATTTAGTCATACTTTTTGACGCCATTCTTA
1 AAAAAGGATTTAGTCATACTTTTTGACGCCATTCTTA
22154862 CTCCCACCTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (41 bp):
AAAAAGGATTTAGTCATACTTTTTGACGCCATTCTTAGATA
Found at i:22157819 original size:27 final size:27
Alignment explanation
Indices: 22157525--22157821 Score: 330
Period size: 27 Copynumber: 11.0 Consensus size: 27
22157515 ATACCCCTAG
* *
22157525 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTGTAAAATTACCAAAATACCCTTGA
*
22157552 TTTGTGAAATTACCAAAATATCCC-TGA
1 TTTGTAAAATTACCAAAATA-CCCTTGA
* * * *
22157579 TTTGTGAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCTTGA
*
22157606 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTGTAAAATTACCAAAATACCCTTGA
* * *
22157633 TTTGTAAAATTATCGAAATACCCTCGA
1 TTTGTAAAATTACCAAAATACCCTTGA
* * *
22157660 CTTGTAAAATAACCAAAATACCCTAGA
1 TTTGTAAAATTACCAAAATACCCTTGA
* *
22157687 TTTATAAAATTACCAAAATACCCCTGA
1 TTTGTAAAATTACCAAAATACCCTTGA
* *
22157714 TTTTGAAAAATTACTAAAATACCCTTGA
1 -TTTGTAAAATTACCAAAATACCCTTGA
* *
22157742 TTTGGAAAATTA-CAGAAATACCAC-TGG
1 TTTGTAAAATTACCA-AAATACC-CTTGA
*
22157769 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTACCAAAATACCCTTGA
* *
22157796 TTTGTAAATTTACCAAAACACCCTTG
1 TTTGTAAAATTACCAAAATACCCTTG
22157822 TAGGGTGAAA
Statistics
Matches: 229, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.02
27 195 0.85
28 29 0.13
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
TTTGTAAAATTACCAAAATACCCTTGA
Found at i:22158116 original size:41 final size:41
Alignment explanation
Indices: 22158058--22158140 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
22158048 TGGAGGAAGA
*
22158058 AATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* * *
22158099 AATTGAGGATCGCATGGTTGCTTGATGATCGTGGATTCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
22158140 A
1 A
22158141 GTGGCTTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:22158645 original size:11 final size:11
Alignment explanation
Indices: 22158629--22158654 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22158619 ATTGCATGTA
22158629 TGATATTATTG
1 TGATATTATTG
22158640 TGATATTATTG
1 TGATATTATTG
22158651 TGAT
1 TGAT
22158655 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:22161380 original size:27 final size:28
Alignment explanation
Indices: 22161358--22161690 Score: 217
Period size: 27 Copynumber: 12.3 Consensus size: 28
22161348 AGAATTACTG
*
22161358 AAATACCTCTAG-TTTGTAAAATTACCA
1 AAATACCCCTAGATTTGTAAAATTACCA
* * * *
22161385 AAATACCCCTA-ATTTTTGAAATTATCG
1 AAATACCCCTAGATTTGTAAAATTACCA
* ** *
22161412 AAATA-CCCTCGAGCTGTAAAATTACCG
1 AAATACCCCTAGATTTGTAAAATTACCA
* * * *
22161439 AGATA-CCCTCGACTTGTAAAGTTACCA
1 AAATACCCCTAGATTTGTAAAATTACCA
*
22161466 AAATACCCCT-GATTTGTAAAATTATCA
1 AAATACCCCTAGATTTGTAAAATTACCA
* *
22161493 AAATA-CCCTCGACTTGTAAAATTACCA
1 AAATACCCCTAGATTTGTAAAATTACCA
* *
22161520 AAATACCCCTA-ATTTGAAAAATTACCG
1 AAATACCCCTAGATTTGTAAAATTACCA
* * *
22161547 AAATA-CCCTTGATTTGGAAAATTACAA
1 AAATACCCCTAGATTTGTAAAATTACCA
**
22161574 AAATACCCCT-GATTTACAAAATTA-CA
1 AAATACCCCTAGATTTGTAAAATTACCA
* * ** *
22161600 GAAATACTCTTA-ACTTTCAAAAATCA-CA
1 -AAATACCCCTAGA-TTTGTAAAATTACCA
* * *
22161628 GAAATA-CCATTGGTTTGTAAAATTACCA
1 -AAATACCCCTAGATTTGTAAAATTACCA
* * * *
22161656 AAATA-CCCTTGTTTTGTAGATTTACCA
1 AAATACCCCTAGATTTGTAAAATTACCA
*
22161683 AAACACCC
1 AAATACCC
22161691 TTGTAGTGTG
Statistics
Matches: 243, Mismatches: 50, Indels: 25
0.76 0.16 0.08
Matches are distributed among these distances:
26 13 0.05
27 197 0.81
28 33 0.14
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (28 bp):
AAATACCCCTAGATTTGTAAAATTACCA
Found at i:22161464 original size:81 final size:81
Alignment explanation
Indices: 22161371--22161581 Score: 248
Period size: 81 Copynumber: 2.6 Consensus size: 81
22161361 TACCTCTAGT
* * *
22161371 TTGTAAAATTACCAAAATACCCCTAATTTTTGAAATTATCGAAATACCCTCGAGC-TGTAAAATT
1 TTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCTCGA-CTTGTAAAATT
* *
22161435 ACCGAGATACCCTCGAC
65 ACCAAAATACCCTCGAC
* *
22161452 TTGTAAAGTTACCAAAATACCCCTGATTTGTAAAATTATCAAAATACCCTCGACTTGTAAAATTA
1 TTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCTCGACTTGTAAAATTA
* *
22161517 CCAAAATACCC-CTAAT
66 CCAAAATACCCTC-GAC
* * * * *
22161533 TTGAAAAATTACCGAAATACCCTTGATTTGGAAAATTA-CAAAAATACCC
1 TTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATC-AAAATACCC
22161582 CTGATTTACA
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
80 3 0.03
81 110 0.97
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.28
Consensus pattern (81 bp):
TTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTATCAAAATACCCTCGACTTGTAAAATTA
CCAAAATACCCTCGAC
Found at i:22161988 original size:41 final size:41
Alignment explanation
Indices: 22161931--22162051 Score: 206
Period size: 41 Copynumber: 3.0 Consensus size: 41
22161921 GGAGGAAGAA
*
22161931 ATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
22161972 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
22162013 ATTAAGGATTGCATGGTTGCTTGACGACCGTGGATCCAC
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
22162052 TGGTGGTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:22162238 original size:22 final size:22
Alignment explanation
Indices: 22162210--22162258 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
22162200 ATAGTTTTGC
22162210 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTCTGT
* *
22162232 GCCAACCTGATTATGGCTGTGT
1 GCCAACCTGAATATGGCTCTGT
22162254 GCCAA
1 GCCAA
22162259 ACGTATTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTCTGT
Found at i:22162558 original size:11 final size:11
Alignment explanation
Indices: 22162542--22162567 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
22162532 ATTGCGTGTA
22162542 TGATATTATTG
1 TGATATTATTG
22162553 TGATATTATTG
1 TGATATTATTG
22162564 TGAT
1 TGAT
22162568 GTGGGCTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:22171630 original size:40 final size:40
Alignment explanation
Indices: 22171495--22171633 Score: 203
Period size: 40 Copynumber: 3.5 Consensus size: 40
22171485 AAGCCAAGTA
* * *
22171495 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
22171533 CCTTCGGGACATAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
22171573 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
22171613 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
22171634 TATCATCCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
38 12 0.13
39 16 0.18
40 63 0.69
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:22185884 original size:27 final size:27
Alignment explanation
Indices: 22185856--22185928 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
22185846 TTAACCTTAG
* *
22185856 GGGTATATCAGTAATTTTGCTCCTA-A
1 GGGTATATCAGTAATTTTCCACCTATA
* *
22185882 GGGTAAATCTGTAAATTTTCCACCTATAA
1 GGGTATATCAGT-AATTTTCCACCTAT-A
* *
22185911 AGGTATTTCAGTAATTTT
1 GGGTATATCAGTAATTTT
22185929 ATTAGTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 10 0.28
27 11 0.31
28 6 0.17
29 9 0.25
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (27 bp):
GGGTATATCAGTAATTTTCCACCTATA
Done.