Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 50 of 126
Found at i:14954942 original size:25 final size:25
Alignment explanation
Indices: 14954888--14954940 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
14954878 ATGCATTTGA
14954888 ATTTT-ATTTCATTACTTTTGTTAAT
1 ATTTTAATTT-ATTACTTTTGTTAAT
*
14954913 ATTTTAATTTATTTCTTTT-TTAA-
1 ATTTTAATTTATTACTTTTGTTAAT
14954936 ATTTT
1 ATTTT
14954941 TTCAATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 4 0.15
25 13 0.50
26 4 0.15
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (25 bp):
ATTTTAATTTATTACTTTTGTTAAT
Found at i:14955514 original size:23 final size:23
Alignment explanation
Indices: 14955458--14955568 Score: 152
Period size: 23 Copynumber: 4.8 Consensus size: 23
14955448 TCATTAACAT
*
14955458 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCGATTA-A
*
14955482 TGTTCATGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
14955505 TGTTCGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
*
14955528 TGTTTGTGAACATGTTCGATTAA
1 TGTTCGTGAACATGTTCGATTAA
**
14955551 -GTTAAATGAACATGTTCG
1 TGTT-CGTGAACATGTTCG
14955569 TGAACATTAA
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
22 3 0.04
23 57 0.71
24 20 0.25
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.40
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:14955522 original size:12 final size:12
Alignment explanation
Indices: 14955453--14955545 Score: 52
Period size: 12 Copynumber: 7.8 Consensus size: 12
14955443 ATTATTCATT
14955453 AACATTGTTCGTG
1 AACA-TGTTCGTG
*
14955466 AACATGTTCAAT-
1 AACATGTTC-GTG
* * *
14955478 TATATGTTCATG
1 AACATGTTCGTG
14955490 AACATGTTCGAT-
1 AACATGTTCG-TG
*
14955502 TA-ATGTTCGTG
1 AACATGTTCGTG
14955513 AACATGTTCGAT-
1 AACATGTTCG-TG
* *
14955525 TA-ATGTTTGTG
1 AACATGTTCGTG
14955536 AACATGTTCG
1 AACATGTTCG
14955546 ATTAAGTTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 17
0.67 0.13 0.19
Matches are distributed among these distances:
10 2 0.03
11 17 0.28
12 34 0.57
13 7 0.12
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (12 bp):
AACATGTTCGTG
Found at i:14955578 original size:23 final size:23
Alignment explanation
Indices: 14955534--14955579 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
14955524 TTAATGTTTG
* *
14955534 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
14955557 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
14955580 CAAACGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:14956376 original size:20 final size:18
Alignment explanation
Indices: 14956335--14956378 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
14956325 ATGTTTATAC
* *
14956335 TTTAATTTATTATTAATC
1 TTTAATTTAATATTAATA
14956353 TTTAGATTTAATATTTAATA
1 TTTA-ATTTAATA-TTAATA
14956373 TTTAAT
1 TTTAAT
14956379 ATTATATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TTTAATTTAATATTAATA
Found at i:14961646 original size:20 final size:21
Alignment explanation
Indices: 14961621--14961676 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
14961611 GTACATTATA
*
14961621 TATTTATATTTTAT-TTTTAG
1 TATTTATATTTTATGTTTAAG
* *
14961641 TATTTAGATTTAATGTTTAAG
1 TATTTATATTTTATGTTTAAG
14961662 -A-TTATATTTTA-GTTT
1 TATTTATATTTTATGTTT
14961677 GTAAAAAACT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.13
19 8 0.27
20 13 0.43
21 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (21 bp):
TATTTATATTTTATGTTTAAG
Found at i:14965721 original size:69 final size:68
Alignment explanation
Indices: 14965639--14965991 Score: 256
Period size: 69 Copynumber: 5.1 Consensus size: 68
14965629 GATCTTAACA
* * *
14965639 TCAGAATGCCATAGTCCAGCTATGGTCTTACATCTATATACATTGTCATGGTCCAACCATGGTCT
1 TCAGAATGCCATAGCCCAGCTATGGTCTTACATCTATATACA-TGCCATAGTCCAACCATGGTCT
14965704 TACG
65 TACG
* * * * * * * *
14965708 TCAGAATGTCATAGCCTAGCTATGGTCTTA-A-C-ATCAGA-ATGTCATAGCCCAGCTATGGTTT
1 TCAGAATGCCATAGCCCAGCTATGGTCTTACATCTAT-ATACATGCCATAGTCCAACCATGGTCT
*
14965769 TACA
65 TACG
* * * * * * * * *
14965773 TCTATATACGCTGCCATGGTCCAACCATGGTCTTACGTC---AGA-ATGCCATAG-CCTAGCTAT
1 TC-AGA-A---TGCCATAGCCCAGCTATGGTCTTACATCTATATACATGCCATAGTCC-AACCAT
*
14965833 GGTCTTAACA
60 GGTCTT-ACG
* * * *
14965843 TCAGAATGCCATAGCCCAGATATGGTCTTACATCTATATACACTACCATGGTCCAACCATGATCT
1 TCAGAATGCCATAGCCCAGCTATGGTCTTACATCTATATACA-TGCCATAGTCCAACCATGGTCT
14965908 TACG
65 TACG
* *
14965912 TCAGAATGCCATAGCCCAGCTATGGTTTTATATCTATATATACACTGCCATAGTCCAACCATGGT
1 TCAGAATGCCATAGCCCAGCTATGGTCTTACATC--TATATACA-TGCCATAGTCCAACCATGGT
*
14965977 CTTATG
63 CTTACG
*
14965983 TCAAAATGC
1 TCAGAATGC
14965992 AGCCTACCTC
Statistics
Matches: 224, Mismatches: 42, Indels: 34
0.75 0.14 0.11
Matches are distributed among these distances:
65 44 0.20
66 5 0.02
67 4 0.02
68 6 0.03
69 85 0.38
70 38 0.17
71 41 0.18
72 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (68 bp):
TCAGAATGCCATAGCCCAGCTATGGTCTTACATCTATATACATGCCATAGTCCAACCATGGTCTT
ACG
Found at i:14965750 original size:33 final size:31
Alignment explanation
Indices: 14965594--14965876 Score: 188
Period size: 33 Copynumber: 8.4 Consensus size: 31
14965584 TGGCCTGACC
* * * *
14965594 ATGGTCTTACATTCATAATACCATAACCCAGTT
1 ATGGTCTTACA-TCAGAATGCCAT-AGCCAGCT
*
14965627 ATGATCTTAACATCAGAATGCCATAGTCCAGCT
1 ATGGTCTT-ACATCAGAATGCCATAG-CCAGCT
* * * * *
14965660 ATGGTCTTACATCTATATACATTGTCATGGTCCAACC
1 ATGGTCTTACATC---AGA-A-TGCCATAG-CCAGCT
* *
14965697 ATGGTCTTACGTCAGAATGTCATAGCCTAGCT
1 ATGGTCTTACATCAGAATGCCATAGCC-AGCT
*
14965729 ATGGTCTTAACATCAGAATGTCATAGCCCAGCT
1 ATGGTCTT-ACATCAGAATGCCATAG-CCAGCT
* * * * *
14965762 ATGGTTTTACATCTATATACGCTGCCATGGTCCAACC
1 ATGGTCTTACATC-AGA-A---TGCCATAG-CCAGCT
*
14965799 ATGGTCTTACGTCAGAATGCCATAGCCTAGCT
1 ATGGTCTTACATCAGAATGCCATAGCC-AGCT
*
14965831 ATGGTCTTAACATCAGAATGCCATAGCCCAGAT
1 ATGGTCTT-ACATCAGAATGCCATAG-CCAGCT
14965864 ATGGTCTTACATC
1 ATGGTCTTACATC
14965877 TATATACACT
Statistics
Matches: 200, Mismatches: 32, Indels: 37
0.74 0.12 0.14
Matches are distributed among these distances:
31 4 0.02
32 50 0.25
33 86 0.43
34 10 0.05
35 3 0.01
36 3 0.01
37 44 0.22
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (31 bp):
ATGGTCTTACATCAGAATGCCATAGCCAGCT
Found at i:14965760 original size:102 final size:102
Alignment explanation
Indices: 14965591--14965937 Score: 523
Period size: 102 Copynumber: 3.4 Consensus size: 102
14965581 CCATGGCCTG
* * * * * * * *
14965591 ACCATGGTCTTACATTCATAATACCATAACCCAGTTATGATCTTAACATCAGAATGCCATAGTCC
1 ACCATGGTCTTAC-GTCAGAATGCCATAGCCTAGCTATGGTCTTAACATCAGAATGCCATAGCCC
* *
14965656 AGCTATGGTCTTACATCTATATACATTGTCATGGTCCA
65 AGCTATGGTCTTACATCTATATACACTGCCATGGTCCA
* *
14965694 ACCATGGTCTTACGTCAGAATGTCATAGCCTAGCTATGGTCTTAACATCAGAATGTCATAGCCCA
1 ACCATGGTCTTACGTCAGAATGCCATAGCCTAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
* *
14965759 GCTATGGTTTTACATCTATATACGCTGCCATGGTCCA
66 GCTATGGTCTTACATCTATATACACTGCCATGGTCCA
14965796 ACCATGGTCTTACGTCAGAATGCCATAGCCTAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
1 ACCATGGTCTTACGTCAGAATGCCATAGCCTAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
* *
14965861 GATATGGTCTTACATCTATATACACTACCATGGTCCA
66 GCTATGGTCTTACATCTATATACACTGCCATGGTCCA
* *
14965898 ACCATGATCTTACGTCAGAATGCCATAGCCCAGCTATGGT
1 ACCATGGTCTTACGTCAGAATGCCATAGCCTAGCTATGGT
14965938 TTTATATCTA
Statistics
Matches: 222, Mismatches: 22, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
102 209 0.94
103 13 0.06
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (102 bp):
ACCATGGTCTTACGTCAGAATGCCATAGCCTAGCTATGGTCTTAACATCAGAATGCCATAGCCCA
GCTATGGTCTTACATCTATATACACTGCCATGGTCCA
Found at i:14966662 original size:16 final size:16
Alignment explanation
Indices: 14966626--14966669 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14966616 TTTAACCTCA
14966626 AGTCCTTTCAA-A-TTT
1 AGTCCTTT-AACATTTT
*
14966641 ATTCCTTTAACATTTT
1 AGTCCTTTAACATTTT
14966657 AGTCCTTTAACAT
1 AGTCCTTTAACAT
14966670 AAAAATTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 2 0.08
15 8 0.32
16 15 0.60
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (16 bp):
AGTCCTTTAACATTTT
Found at i:14969113 original size:158 final size:156
Alignment explanation
Indices: 14968714--14969159 Score: 601
Period size: 156 Copynumber: 2.8 Consensus size: 156
14968704 CAACCATATA
* * *
14968714 TGCTCACAAAAGCTATGGGTCGAGATG-TAGGGCTACACGATTCTGCTCACACGAGCTGTGGAGA
1 TGCTCACAAAAGCTGTGGGTCGAGATGTTA-GGCTACGCGATGCTGCTCACACGAGCTGTGGAGA
* ** * * *
14968778 ATCCATAATAAATGACA-GACCTCAACCATCGGTAGGACATCTAAGACTAGCACCCATATAACAT
65 ATCCAAAACCAATG-CAGGACCTCAGCCATCGGTAGGACATCTAAGACCAACACCCATATAACAT
* *
14968842 GTAATGCTCACATGAGCTGTGAAAAGTC
129 GTAATGCTCACACGAGCTGTGAAAAGCC
** *
14968870 TGCTCACATGAGCTGTGGGTCAAGATGTTAGGCTACAG-GATGCTGCTCACACGAGCTGTGGAGA
1 TGCTCACAAAAGCTGTGGGTCGAGATGTTAGGCTAC-GCGATGCTGCTCACACGAGCTGTGGAGA
* * *
14968934 ATCCACAACCAATGTAGGACCTCAGCCATCGGTAGGACATCTAAGACCAACACCCATATAACTTG
65 ATCCAAAACCAATGCAGGACCTCAGCCATCGGTAGGACATCTAAGACCAACACCCATATAACATG
*
14968999 TAATGCTCACACGAGCTGTGAAATGGGCC
130 TAATGCTCACACGAGCTGTGAAA--AGCC
* * *
14969028 TGCTCACACAAGCTGTGGGTTGAGATGTTAGGCTACGCGATGCTGCTCACACGAGCTGTGGAAAA
1 TGCTCACAAAAGCTGTGGGTCGAGATGTTAGGCTACGCGATGCTGCTCACACGAGCTGTGGAGAA
* * * *
14969093 TCTAAAACCGATGCAGGACCTCAGCCATCGGTAGGACATCTAAGACCAACACCCACATAACCTGT
66 TCCAAAACCAATGCAGGACCTCAGCCATCGGTAGGACATCTAAGACCAACACCCATATAACATGT
14969158 AA
131 AA
14969160 ATAACCCTAA
Statistics
Matches: 256, Mismatches: 28, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
155 1 0.00
156 131 0.51
157 3 0.01
158 121 0.47
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (156 bp):
TGCTCACAAAAGCTGTGGGTCGAGATGTTAGGCTACGCGATGCTGCTCACACGAGCTGTGGAGAA
TCCAAAACCAATGCAGGACCTCAGCCATCGGTAGGACATCTAAGACCAACACCCATATAACATGT
AATGCTCACACGAGCTGTGAAAAGCC
Found at i:14969301 original size:2 final size:2
Alignment explanation
Indices: 14969294--14969360 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
14969284 CATATTTTTC
14969294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14969336 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
14969361 CTTGATTTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14969847 original size:40 final size:40
Alignment explanation
Indices: 14969788--14969870 Score: 139
Period size: 40 Copynumber: 2.1 Consensus size: 40
14969778 AATTTATCTC
*
14969788 TTCGACCTTTTCATTTATTATCCTTCCAGATAATATCCTT
1 TTCGACCTTTTCATCTATTATCCTTCCAGATAATATCCTT
* *
14969828 TTCGACCTTTTCATCTATTATCCTTCCGGATAATATCTTT
1 TTCGACCTTTTCATCTATTATCCTTCCAGATAATATCCTT
14969868 TTC
1 TTC
14969871 ATTTATTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.25, G:0.06, T:0.48
Consensus pattern (40 bp):
TTCGACCTTTTCATCTATTATCCTTCCAGATAATATCCTT
Found at i:14972026 original size:30 final size:30
Alignment explanation
Indices: 14971965--14972033 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
14971955 CGCGTTGTAT
* * * *
14971965 GTGTTCACAACATGAGTGTTCGCAGCTCTA
1 GTGTTCGCAACATGAGTGCTCGCAACACTA
* *
14971995 GTGTTCGCAACGTGAGTGCTCGTAACACTA
1 GTGTTCGCAACATGAGTGCTCGCAACACTA
*
14972025 GTGCTCGCA
1 GTGTTCGCA
14972034 TCATCCTCTC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (30 bp):
GTGTTCGCAACATGAGTGCTCGCAACACTA
Found at i:14973206 original size:21 final size:21
Alignment explanation
Indices: 14973182--14973228 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
14973172 TCACTCACAC
*
14973182 TTTCATCACTCTCACTTTCTT-
1 TTTCATCACGCTCACTTT-TTG
* *
14973203 TTTCCTCACGCTCTCTTTTTG
1 TTTCATCACGCTCACTTTTTG
14973224 TTTCA
1 TTTCA
14973229 ACTTCTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.11, C:0.32, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTCATCACGCTCACTTTTTG
Found at i:14973339 original size:16 final size:16
Alignment explanation
Indices: 14973320--14973368 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
14973310 TTATCAACAA
14973320 CTCATCTTTTTTTTCT
1 CTCATCTTTTTTTTCT
** *
14973336 CTCAAGTTCTTTTTCT
1 CTCATCTTTTTTTTCT
*
14973352 CTCATTTCTTTTTTTCT
1 CTCATCT-TTTTTTTCT
14973369 TCTCCTTATT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 18 0.69
17 8 0.31
ACGTcount: A:0.08, C:0.24, G:0.02, T:0.65
Consensus pattern (16 bp):
CTCATCTTTTTTTTCT
Found at i:14973363 original size:14 final size:16
Alignment explanation
Indices: 14973329--14973364 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
14973319 ACTCATCTTT
14973329 TTTTTCTCTCAAGTTC
1 TTTTTCTCTCAAGTTC
*
14973345 TTTTTCTCTC-ATTTC
1 TTTTTCTCTCAAGTTC
14973360 TTTTT
1 TTTTT
14973365 TTCTTCTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.08, C:0.22, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTCTCTCAAGTTC
Found at i:14997881 original size:15 final size:15
Alignment explanation
Indices: 14997854--14997890 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
14997844 TTATAATTAA
14997854 ACACATA-ATATTTC
1 ACACATATATATTTC
14997868 ACACATATATATTTC
1 ACACATATATATTTC
*
14997883 TCACATAT
1 ACACATAT
14997891 TCATCATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.41, C:0.22, G:0.00, T:0.38
Consensus pattern (15 bp):
ACACATATATATTTC
Found at i:15003870 original size:13 final size:13
Alignment explanation
Indices: 15003852--15003876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15003842 CCAAGTTGGT
15003852 ATGATGCGAACAC
1 ATGATGCGAACAC
15003865 ATGATGCGAACA
1 ATGATGCGAACA
15003877 TCACGCAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (13 bp):
ATGATGCGAACAC
Found at i:15006816 original size:39 final size:37
Alignment explanation
Indices: 15006680--15007044 Score: 185
Period size: 39 Copynumber: 9.4 Consensus size: 37
15006670 GAAAATTTCG
** * *
15006680 ATCTCTTACCCCGAGCCTAAGGCAGATTGCAACCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGC-ATCAT-CA
* * * ** *
15006719 ATCTTTTACCCCGAGCTTGGGGTAGATCACCATCAACCA
1 ATCTCTTACCCCGAGCCTGGGGCAGAT-TGCATC-ATCA
* * * *
15006758 ATCTCTT-CCACCTAACCTGGGGTAGATTGCAGTCGTCTA
1 ATCTCTTACC-CCGAGCCTGGGGCAGATTGCA-TCATC-A
* **
15006797 ATCTCTTACCCCGAGCCT-GGGTAGATCACCATCAGTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGAT-TGCATCA-TCA
* * *
15006835 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCTTCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCA-TCATCA
* * ** *
15006873 ATCTCTTACCTCGAGCCTAGGGCAGATCACTATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGC-ATCA-TCA
* * * * * * *
15006912 ATCTCTTACCCCAAGACTAGGGCAAATTGTAACCATCTG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTG-CATCATC-A
* * ** *
15006951 ATCTCTTACCCCGAGCTTAGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGAT-TGCATCA-TCA
* * *
15006990 ATCTCTTACCCCGAGCCTGGGGCTGATTGCAGCCATCCG
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCA-TCAT-CA
*
15007029 ATCTTTTACCCCGAGC
1 ATCTCTTACCCCGAGC
15007045 TTAGGACAGA
Statistics
Matches: 242, Mismatches: 66, Indels: 36
0.70 0.19 0.10
Matches are distributed among these distances:
38 67 0.28
39 170 0.70
40 5 0.02
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (37 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGCATCATCA
Found at i:15006856 original size:77 final size:78
Alignment explanation
Indices: 15006680--15007078 Score: 444
Period size: 78 Copynumber: 5.1 Consensus size: 78
15006670 GAAAATTTCG
** * ** * * *
15006680 ATCTCTTACCCCGAGCCTAAGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCTTGGGGTAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTAATCTCTTACCCCGAGCTTAGGGCAGA
*
15006745 TCACCATCAACCA
66 TCACCATCAGCCA
* * * * * * *
15006758 ATCTCTT-CCACCTAACCTGGGGTAGATTGCAGTCGTCTAATCTCTTACCCCGAGCCT-GGGTAG
1 ATCTCTTACC-CCGAGCCTGGGGCAGATTGCAGCCATCTAATCTCTTACCCCGAGCTTAGGGCAG
*
15006821 ATCACCATCAGTCA
65 ATCACCATCAGCCA
* * * *
15006835 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCTTC-AATCTCTTACCTCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTAATCTCTTACCCCGAGCTTAGGGCAGA
*
15006899 TCACTATCAGCCA
66 TCACCATCAGCCA
* * * * * * *
15006912 ATCTCTTACCCCAAGACTAGGGCAAATTGTAACCATCTGATCTCTTACCCCGAGCTTAGGGCAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTAATCTCTTACCCCGAGCTTAGGGCAGA
15006977 TCACCATCAGCCA
66 TCACCATCAGCCA
* ** * *
15006990 ATCTCTTACCCCGAGCCTGGGGCTGATTGCAGCCATCCGATCTTTTACCCCGAGCTTAGGACAGA
1 ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTAATCTCTTACCCCGAGCTTAGGGCAGA
* *
15007055 TCACCGTCAGCCG
66 TCACCATCAGCCA
15007068 ATCTCTTACCC
1 ATCTCTTACCC
15007079 TGCGATAGGG
Statistics
Matches: 269, Mismatches: 48, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
76 18 0.07
77 94 0.35
78 157 0.58
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATTGCAGCCATCTAATCTCTTACCCCGAGCTTAGGGCAGA
TCACCATCAGCCA
Found at i:15007069 original size:39 final size:39
Alignment explanation
Indices: 15006797--15007078 Score: 184
Period size: 39 Copynumber: 7.3 Consensus size: 39
15006787 CAGTCGTCTA
* * * * *
15006797 ATCTCTTACCCCGAGCCT-GGGTAGATCACCATCAGTCA
1 ATCTCTTACCCCGAGCTTAGGGCAGATCACCGTCAGCCG
* *
15006835 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAGCCTTCA----
1 ATCTCTTACCCCGAGCTTAGGGCAGA-T-CA-CCGTCAGCCG
* * ** *
15006873 ATCTCTTACCTCGAGCCTAGGGCAGATCACTATCAGCCA
1 ATCTCTTACCCCGAGCTTAGGGCAGATCACCGTCAGCCG
* * * * * *
15006912 ATCTCTTACCCCAAGAC-TAGGGCAAATTGTAAC--CATCTG
1 ATCTCTTACCCCGAG-CTTAGGGCAGA-T-CACCGTCAGCCG
* *
15006951 ATCTCTTACCCCGAGCTTAGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCTTAGGGCAGATCACCGTCAGCCG
* * * ** * * *
15006990 ATCTCTTACCCCGAGCCTGGGGCTGATTGCAGCCATCCG
1 ATCTCTTACCCCGAGCTTAGGGCAGATCACCGTCAGCCG
* *
15007029 ATCTTTTACCCCGAGCTTAGGACAGATCACCGTCAGCCG
1 ATCTCTTACCCCGAGCTTAGGGCAGATCACCGTCAGCCG
15007068 ATCTCTTACCC
1 ATCTCTTACCC
15007079 TGCGATAGGG
Statistics
Matches: 185, Mismatches: 45, Indels: 27
0.72 0.18 0.11
Matches are distributed among these distances:
35 4 0.02
36 2 0.01
37 3 0.02
38 42 0.23
39 123 0.66
40 3 0.02
41 3 0.02
42 5 0.03
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCTTAGGGCAGATCACCGTCAGCCG
Found at i:15008340 original size:30 final size:30
Alignment explanation
Indices: 15008284--15008340 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
15008274 TCTATTTAAA
* * *
15008284 TATATATTAATATATTTAATATTTATTTAT
1 TATATATGAATATACTTAATAATTATTTAT
*
15008314 TATATATGAATATACTTATTAATTATT
1 TATATATGAATATACTTAATAATTATT
15008341 GTTTATTACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
TATATATGAATATACTTAATAATTATTTAT
Found at i:15009417 original size:30 final size:30
Alignment explanation
Indices: 15009296--15009695 Score: 365
Period size: 29 Copynumber: 13.6 Consensus size: 30
15009286 CGAATTTCTT
* *
15009296 AAAATAACATTTTGACCCCTAAACTTCTT--
1 AAAATCACATTTTAACCCCTAAACTT-TTCC
* * *
15009325 AAAATCACATTTTGA-CCCTAAAGTTCTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
*
15009354 AAAATCATATTTTAACCCC-AAA-TTTTCCC
1 AAAATCACATTTTAACCCCTAAACTTTT-CC
* * *
15009383 AAAATTATATTTAAACCCCTAAACTTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* * * * * *
15009413 AAAATTACATTTTGACTCTTAAAATTTT-A
1 AAAATCACATTTTAACCCCTAAACTTTTCC
15009442 AAAATCACATTTTAACCCCTAAACTTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* * **
15009472 AAAATTACA-TTTAACCCTTAAACTTTTTT
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* * *
15009501 AAAATCACATTTTAACCCTTAATCTTCTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* * *
15009531 AAAATTACATTTTAACCCCTAGACCTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
*
15009561 AAAATCATATTTTAACCCCTAAACCTTCTT--
1 AAAATCACATTTTAACCCCTAAA-CTT-TTCC
* * *
15009591 AAAATCACATTTTGA-CCTTAAACTTCTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
*
15009620 AAAATCACATTTTAA-CCCTACACTTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCC
* * *
15009649 AAAATTACATTTTTA-CCCTCAAACATTTCC
1 AAAATCACATTTTAACCCCT-AAACTTTTCC
*
15009679 AAAATTACATTTTAACC
1 AAAATCACATTTTAACC
15009696 TCGAATTCTC
Statistics
Matches: 304, Mismatches: 53, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.01
28 15 0.05
29 145 0.48
30 133 0.44
31 7 0.02
32 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAATCACATTTTAACCCCTAAACTTTTCC
Found at i:15009417 original size:59 final size:58
Alignment explanation
Indices: 15009325--15009695 Score: 322
Period size: 59 Copynumber: 6.3 Consensus size: 58
15009315 TAAACTTCTT
* * * * *
15009325 AAAATCACATTTTGA-CCCTAAAGTTCTCCAAAATCATATTTTAACCCCAAATTTTCCC
1 AAAATCACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCAAATTTT-CC
* * * * ** *
15009383 AAAATTATATTTAAACCCCTAAACTTTTCCAAAATTACATTTTGACTCTTAAAATTTT-A
1 AAAATCACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAAC-C-CCAAATTTTCC
* **
15009442 AAAATCACATTTTAACCCCTAAACTTTTCCAAAATTACA-TTTAACCCTTAAACTTTTTT
1 AAAATCACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCC-CAAA-TTTTCC
* * * **
15009501 AAAATCACATTTTAACCCTTAATCTTCTCCAAAATTACATTTTAACCCCTAGACCTTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCC-A-AATTTTCC
* * * ** *
15009561 AAAATCATATTTTAACCCCTAAACCTTCTT--AAAATCACATTTTGACCTTAAACTTCTCC
1 AAAATCACATTTTAACCCCTAAA-CTT-TTCCAAAATTACATTTTAACCCCAAA-TTTTCC
* * *
15009620 AAAATCACATTTTAA-CCCTACACTTTTCCAAAATTACATTTTTACCCTCAAACATTTCC
1 AAAATCACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCC-CAAA-TTTTCC
*
15009679 AAAATTACATTTTAACC
1 AAAATCACATTTTAACC
15009696 TCGAATTCTC
Statistics
Matches: 250, Mismatches: 47, Indels: 30
0.76 0.14 0.09
Matches are distributed among these distances:
56 2 0.01
57 7 0.03
58 42 0.17
59 138 0.55
60 49 0.20
61 11 0.04
62 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (58 bp):
AAAATCACATTTTAACCCCTAAACTTTTCCAAAATTACATTTTAACCCCAAATTTTCC
Found at i:15014747 original size:50 final size:50
Alignment explanation
Indices: 15014685--15014779 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
15014675 ATTTTTTAAA
* **
15014685 AAAATTAAGATTAAATTGA-GATCATTTATAAATTTCGAGGGTTAATTTTT
1 AAAATTAAGATTAAATTGATG-TAATTTATAAAAATCGAGGGTTAATTTTT
*
15014735 AAAATTATGATTAAATTGATGTAATTTATAAAAATCGAGGGTTAA
1 AAAATTAAGATTAAATTGATGTAATTTATAAAAATCGAGGGTTAA
15014780 ATTTATTATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
50 39 0.98
51 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (50 bp):
AAAATTAAGATTAAATTGATGTAATTTATAAAAATCGAGGGTTAATTTTT
Found at i:15018942 original size:126 final size:126
Alignment explanation
Indices: 15018710--15018974 Score: 507
Period size: 126 Copynumber: 2.1 Consensus size: 126
15018700 CTTTAATTAA
15018710 AATCTTT-AAACCCTAAACCTTAACTGAAAAACCCTAAACCCATTTCCACATGCCTTTCTTCTTC
1 AATCTTTGAAACCCTAAACCTTAACTGAAAAACCCTAAACCCATTTCCACATGCCTTTCTTCTTC
15018774 ATCTTCATCTTATTCCCTTTTGATTCCAACGTCTTTAGTTACAAATCTATCTCAAAGCTTG
66 ATCTTCATCTTATTCCCTTTTGATTCCAACGTCTTTAGTTACAAATCTATCTCAAAGCTTG
15018835 AATCTTTGAAACCCTAAACCTTAACTGAAAAACCCTAAACCCATTTCCACATGCCTTTCTTCTTC
1 AATCTTTGAAACCCTAAACCTTAACTGAAAAACCCTAAACCCATTTCCACATGCCTTTCTTCTTC
15018900 ATCTTCATCTTATTTCCC-TTTGATTCCAACGTCTTTAGTTACAAATCTATCTCAAAGCTTG
66 ATCTTCATCTTA-TTCCCTTTTGATTCCAACGTCTTTAGTTACAAATCTATCTCAAAGCTTG
15018961 AATCTTTGAAACCC
1 AATCTTTGAAACCC
15018975 ATTAACCCAA
Statistics
Matches: 138, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
125 7 0.05
126 126 0.91
127 5 0.04
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.36
Consensus pattern (126 bp):
AATCTTTGAAACCCTAAACCTTAACTGAAAAACCCTAAACCCATTTCCACATGCCTTTCTTCTTC
ATCTTCATCTTATTCCCTTTTGATTCCAACGTCTTTAGTTACAAATCTATCTCAAAGCTTG
Found at i:15021242 original size:44 final size:44
Alignment explanation
Indices: 15021206--15021296 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
15021196 TTATCCGGTT
15021206 TTTTCTCATCTTGTACGTATGTTATGTGTAAGTTTTATCCAATTC
1 TTTT-TCATCTTGTACGTATGTTATGTGTAAGTTTTATCCAATTC
* * * ** *
15021251 TTTTTTATCTTGTGCGTTTGTTATGTGTGGGTTTTATCCAGTTC
1 TTTTTCATCTTGTACGTATGTTATGTGTAAGTTTTATCCAATTC
15021295 TT
1 TT
15021297 CTCTATATTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 36 0.90
45 4 0.10
ACGTcount: A:0.14, C:0.13, G:0.18, T:0.55
Consensus pattern (44 bp):
TTTTTCATCTTGTACGTATGTTATGTGTAAGTTTTATCCAATTC
Found at i:15023883 original size:22 final size:22
Alignment explanation
Indices: 15023858--15023899 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15023848 AATTTAAGCT
15023858 TTATA-TATTTAATAAAAGAAAA
1 TTATATTATTT-ATAAAAGAAAA
*
15023880 TTATATTATTTATAAGAGAA
1 TTATATTATTTATAAAAGAA
15023900 TGTCATATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
TTATATTATTTATAAAAGAAAA
Found at i:15028957 original size:37 final size:36
Alignment explanation
Indices: 15028914--15029130 Score: 152
Period size: 37 Copynumber: 5.9 Consensus size: 36
15028904 CCAATGAACA
* *
15028914 CTGGCACAAAGCCTACTAGGCACATAACCCGAACAC
1 CTGGCACAAAGCCTGCTAGGCACATAACCCGAATAC
* * * *
15028950 GCTGGCACGAAGCTTGCTAGGCACACAACCCTAATAC
1 -CTGGCACAAAGCCTGCTAGGCACATAACCCGAATAC
* * * * *
15028987 ATCG-ACATGAAGCTTGCTAGGCACACAGCCCGAATATAC
1 CTGGCACA--AAGCCTGCTAGGCACATAACCCG-A-ATAC
* * * *
15029026 C-GACACGAAGCTTGCTAGGCACATAGCCCGAATAC
1 CTGGCACAAAGCCTGCTAGGCACATAACCCGAATAC
*
15029061 ACTGGCACAAAGCCTGCTAGACACA-AAGCCCGAATAC
1 -CTGGCACAAAGCCTGCTAGGCACATAA-CCCGAATAC
* * ** *
15029098 ATCGGCACGAAGCCTATTAGGCACATAGCCCGA
1 CT-GGCACAAAGCCTGCTAGGCACATAACCCGA
15029131 TTACTTAAAT
Statistics
Matches: 143, Mismatches: 27, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
35 6 0.04
36 6 0.04
37 123 0.86
38 2 0.01
39 6 0.04
ACGTcount: A:0.33, C:0.32, G:0.21, T:0.14
Consensus pattern (36 bp):
CTGGCACAAAGCCTGCTAGGCACATAACCCGAATAC
Found at i:15029060 original size:74 final size:74
Alignment explanation
Indices: 15028911--15029130 Score: 212
Period size: 74 Copynumber: 3.0 Consensus size: 74
15028901 AAGCCAATGA
* * * * * * *
15028911 ACACTGGCACAAAGCCTACTAGGCACATAA-CCCGAACACGCTGGCACGAAGCTTGCTAGGCACA
1 ACACTCGCACAAAGCCTGCTAGACACA-AAGCCCGAATACACCGACACGAAGCTTGCTAGGCACA
* * *
15028975 CAACCCTAAT
65 TAGCCCGAAT
* * * *
15028985 ACA-TCG-ACATGAAGCTTGCTAGGCACACAGCCCGAATATACCGACACGAAGCTTGCTAGGCAC
1 ACACTCGCACA--AAGCCTGCTAGACACAAAGCCCGAATACACCGACACGAAGCTTGCTAGGCAC
15029048 ATAGCCCGAAT
64 ATAGCCCGAAT
* * * * **
15029059 ACACTGGCACAAAGCCTGCTAGACACAAAGCCCGAATACATCGGCACGAAGCCTATTAGGCACAT
1 ACACTCGCACAAAGCCTGCTAGACACAAAGCCCGAATACACCGACACGAAGCTTGCTAGGCACAT
15029124 AGCCCGA
66 AGCCCGA
15029131 TTACTTAAAT
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
72 3 0.03
73 3 0.03
74 108 0.91
75 2 0.02
76 3 0.03
ACGTcount: A:0.34, C:0.32, G:0.20, T:0.14
Consensus pattern (74 bp):
ACACTCGCACAAAGCCTGCTAGACACAAAGCCCGAATACACCGACACGAAGCTTGCTAGGCACAT
AGCCCGAAT
Found at i:15029128 original size:111 final size:111
Alignment explanation
Indices: 15028929--15029130 Score: 271
Period size: 111 Copynumber: 1.8 Consensus size: 111
15028919 ACAAAGCCTA
* * * * *
15028929 CTAGGCACATAACCCGAACACGCTGGCACGAAGCTTGCTAGGCACACAACCCTAATACATCGACA
1 CTAGGCACATAACCCGAACACACTGGCACAAAGCCTGCTAGACACACAACCCGAATACATCGACA
* * *
15028994 TGAAGCTTGCTAGGCACACAGCCCGAATATACCGACACGAAGCTTG
66 CGAAGCCTACTAGGCACACAGCCCGAATATACCGACACGAAGCTTG
* * *
15029040 CTAGGCACATAGCCCGAATACACTGGCACAAAGCCTGCTAGACACA-AAGCCCGAATACATCGGC
1 CTAGGCACATAACCCGAACACACTGGCACAAAGCCTGCTAGACACACAA-CCCGAATACATCGAC
* *
15029104 ACGAAGCCTATTAGGCACATAGCCCGA
65 ACGAAGCCTACTAGGCACACAGCCCGA
15029131 TTACTTAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
110 2 0.03
111 75 0.97
ACGTcount: A:0.33, C:0.32, G:0.21, T:0.14
Consensus pattern (111 bp):
CTAGGCACATAACCCGAACACACTGGCACAAAGCCTGCTAGACACACAACCCGAATACATCGACA
CGAAGCCTACTAGGCACACAGCCCGAATATACCGACACGAAGCTTG
Found at i:15036659 original size:78 final size:75
Alignment explanation
Indices: 15036572--15036725 Score: 202
Period size: 75 Copynumber: 2.0 Consensus size: 75
15036562 CAACATCAAC
* * *
15036572 CCAAATAAACAA-TATGAATCCAAGTGAACAATAACAACAATACAACAAGATTATAATAAAAAAA
1 CCAAATAAACAACT-CGAATCCAAGT--A-AACAACAACAACACAACAAGATTATAATAAAAAAA
*
15036636 ACATAAGCAAAAGT
62 ACATAAACAAAAGT
* * *
15036650 CCAAGTAAACAACTCGAGTCGAAGTAAACAACAACAACACAACAAGATTATAATAAAAAAAACAT
1 CCAAATAAACAACTCGAATCCAAGTAAACAACAACAACACAACAAGATTATAATAAAAAAAACAT
15036715 AAACAAAAGT
66 AAACAAAAGT
15036725 C
1 C
15036726 TAAAATAGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
75 47 0.69
76 1 0.01
78 19 0.28
79 1 0.01
ACGTcount: A:0.59, C:0.18, G:0.08, T:0.15
Consensus pattern (75 bp):
CCAAATAAACAACTCGAATCCAAGTAAACAACAACAACACAACAAGATTATAATAAAAAAAACAT
AAACAAAAGT
Found at i:15045821 original size:27 final size:27
Alignment explanation
Indices: 15045750--15045825 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
15045740 TAAAAGAAAG
*
15045750 GTAATTATTATAAATTA-TT-TGTTTA
1 GTAATTATTATAAATTATTTATTTTTA
*
15045775 GTTTAATTTATT-TTAA--ATTTATTTTTA
1 G--TAA-TTATTATAAATTATTTATTTTTA
15045802 GTAATTATTATAAATTATTTATTT
1 GTAATTATTATAAATTATTTATTT
15045826 AATTTTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
24 5 0.12
25 8 0.20
26 2 0.05
27 20 0.50
28 5 0.12
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (27 bp):
GTAATTATTATAAATTATTTATTTTTA
Found at i:15045928 original size:296 final size:296
Alignment explanation
Indices: 15045349--15045942 Score: 750
Period size: 296 Copynumber: 2.0 Consensus size: 296
15045339 TTTTTAGTAG
* *
15045349 TAGTAATTATTATAAAATATTTTTTTAATTTTAATGTTTAATGTGATTTGTTATAATTTTATTTA
1 TAGTAATTATTATAAAATATTTTTTTAAGTTTAATGTTTAATGTGAGTTGTTATAATTTTATTTA
* * * * * * ** **
15045414 TTTAGTAAGTATATTAAGGGAAGAAAAAAATTATAAGGAAGGTAAATGTTTTGTTGTTGTTTTTT
66 TTTAGTAAGTAGATTAAAGGAAGAAAAAAACTAAAAGAAAGGTAAATATTTAATTGTTGTTTAGT
* **
15045479 TCTAGTTTAATTTAAAGTTATTTTTTAGTAATTATTATAAATTATTCGTTTTGTTTTGTTTAATT
131 TCTAATTTAATTTAAAGTTATTTTTTAGTAATTATTATAAATTATTC-TTTTAATTTGTTTAATT
15045544 TTTATGTGATTTGTTATTAATTTTGTTATTTAATAGAGTAGATTAAAGGGAAAGAAAGAAAGTTA
195 TTTATGTGATTTGTTATTAATTTTGTTATTTAATAGAGTAGATTAAAGGGAAAGAAAGAAAGTTA
15045609 AGTTTTGTTGTTGTGTTTTTAATTTAATTTAATTTTTT
260 AGTTTTGTTGTTGTGTTTTTAA-TTAATTTAATTTTTT
*
15045647 TAGTAATTATTATAAAATA-TTTTTT-AGTTTAATGTTT-ATGTGAGTTGTTATAATTGTTTTTT
1 TAGTAATTATTATAAAATATTTTTTTAAGTTTAATGTTTAATGTGAGTTGTTATAATT-TTATTT
* * * *
15045709 GTTTAGTAGGTAGATTAAAGGAAG-AAAAAACTAAAAGAAAGGTAATTATTATAAATTATTTGTT
65 ATTTAGTAAGTAGATTAAAGGAAGAAAAAAACTAAAAGAAAGGTAAATATT-T-AATT-GTTGTT
* *
15045773 TAGTT-TAATTTATTTTAAATTTA-TTTTTAGTAATTATTATAAATTATT-TATTTAATTT-TTT
127 TAGTTCTAATTTAATTTAAAGTTATTTTTTAGTAATTATTATAAATTATTCT-TTTAATTTGTTT
* * *
15045834 -ATTTTTATGTGATTTTTTATTAATTTT-TTATTTAGTAGAGTAGATTAAAGGGAGAG-AAGAAA
191 AATTTTTATGTGATTTGTTATTAATTTTGTTATTTAATAGAGTAGATTAAAGGGAAAGAAAG-AA
*
15045896 AG-TAAGTTTTGTTGTT-T-TTAATTTAATTTAA-TTAATTTTGT
255 AGTTAAGTTTTGTTGTTGTGTT--TTTAA-TTAATTTAATTTTTT
15045937 TAGTAA
1 TAGTAA
15045943 GTAAGTTTTA
Statistics
Matches: 262, Mismatches: 26, Indels: 24
0.84 0.08 0.08
Matches are distributed among these distances:
289 2 0.01
290 16 0.06
291 27 0.10
292 31 0.12
293 26 0.10
294 4 0.02
295 44 0.17
296 62 0.24
297 23 0.09
298 27 0.10
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.52
Consensus pattern (296 bp):
TAGTAATTATTATAAAATATTTTTTTAAGTTTAATGTTTAATGTGAGTTGTTATAATTTTATTTA
TTTAGTAAGTAGATTAAAGGAAGAAAAAAACTAAAAGAAAGGTAAATATTTAATTGTTGTTTAGT
TCTAATTTAATTTAAAGTTATTTTTTAGTAATTATTATAAATTATTCTTTTAATTTGTTTAATTT
TTATGTGATTTGTTATTAATTTTGTTATTTAATAGAGTAGATTAAAGGGAAAGAAAGAAAGTTAA
GTTTTGTTGTTGTGTTTTTAATTAATTTAATTTTTT
Found at i:15045956 original size:17 final size:17
Alignment explanation
Indices: 15045931--15045970 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
15045921 ATTTAATTAA
*
15045931 TTTTGTTAGTAAGTAAG
1 TTTTATTAGTAAGTAAG
15045948 TTTTATTAGTAAGTAAG
1 TTTTATTAGTAAGTAAG
15045965 TTTTAT
1 TTTTAT
15045971 AAAATAGCCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (17 bp):
TTTTATTAGTAAGTAAG
Found at i:15046095 original size:20 final size:21
Alignment explanation
Indices: 15046072--15046119 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
15046062 TTAGGTTTTT
*
15046072 ATTAATTT-TTTACCGAAATA
1 ATTAATTTATGTACCGAAATA
*
15046092 ATT-ATTTATGTACCGAACTA
1 ATTAATTTATGTACCGAAATA
15046112 ATTGAATT
1 ATT-AATT
15046120 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.17
20 16 0.70
22 3 0.13
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (21 bp):
ATTAATTTATGTACCGAAATA
Found at i:15047237 original size:43 final size:43
Alignment explanation
Indices: 15047186--15047285 Score: 173
Period size: 43 Copynumber: 2.3 Consensus size: 43
15047176 TGTTATTCCT
*
15047186 TGACATGTTATTAAATTATATTACTTGACTCGTGTTAATATCG
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCG
* *
15047229 TGGCATGTTATTAAATTATATTACTTGACCCTTGTTAATATCG
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCG
15047272 TGACATGTTATTAA
1 TGACATGTTATTAA
15047286 TTGTGCAGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (43 bp):
TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCG
Found at i:15051715 original size:13 final size:13
Alignment explanation
Indices: 15051697--15051723 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15051687 TGTATTTGAC
15051697 TATTGATGACTTT
1 TATTGATGACTTT
15051710 TATTGATGACTTT
1 TATTGATGACTTT
15051723 T
1 T
15051724 TACTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (13 bp):
TATTGATGACTTT
Found at i:15055767 original size:20 final size:20
Alignment explanation
Indices: 15055738--15055781 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15055728 TAGTAATTAC
15055738 ACTACCGGTACTACTATAGA
1 ACTACCGGTACTACTATAGA
* * *
15055758 ACTACTGGTACTATTGTAGA
1 ACTACCGGTACTACTATAGA
15055778 ACTA
1 ACTA
15055782 TCGATACGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (20 bp):
ACTACCGGTACTACTATAGA
Found at i:15058193 original size:27 final size:27
Alignment explanation
Indices: 15058149--15058250 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
15058139 CATTAGATAT
* * *
15058149 TGGCACA-GTGGTGTCGCCTCTTAGGA
1 TGGCACATTTGGTGTCGCCTATGAGGA
*
15058175 TGGCACATTTGGTGCCGCCTATGAGGA
1 TGGCACATTTGGTGTCGCCTATGAGGA
* ** **
15058202 TGGCACATTAGGTGTCGCCTACCCA-CC
1 TGGCACATTTGGTGTCGCCTA-TGAGGA
15058229 TGGCACATTTGGTGTCGCCTAT
1 TGGCACATTTGGTGTCGCCTAT
15058251 TTGACTGGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 7 0.11
27 54 0.87
28 1 0.02
ACGTcount: A:0.17, C:0.26, G:0.29, T:0.27
Consensus pattern (27 bp):
TGGCACATTTGGTGTCGCCTATGAGGA
Found at i:15058258 original size:27 final size:26
Alignment explanation
Indices: 15058149--15058262 Score: 88
Period size: 27 Copynumber: 4.3 Consensus size: 26
15058139 CATTAGATAT
* *
15058149 TGGCACA-GTGGTGTCGCCTCTTAGGA
1 TGGCACATTTGGTGTCGCCTATT-GGA
* *
15058175 TGGCACATTTGGTGCCGCCTATGAGGA
1 TGGCACATTTGGTGTCGCCTAT-TGGA
* ***
15058202 TGGCACATTAGGTGTCGCCTA-CCCA
1 TGGCACATTTGGTGTCGCCTATTGGA
*
15058227 CCTGGCACATTTGGTGTCGCCTATTTGA
1 --TGGCACATTTGGTGTCGCCTATTGGA
15058255 CTGGCACA
1 -TGGCACA
15058263 ACCCAATCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
25 1 0.01
26 7 0.10
27 61 0.87
28 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.27
Consensus pattern (26 bp):
TGGCACATTTGGTGTCGCCTATTGGA
Found at i:15060226 original size:30 final size:29
Alignment explanation
Indices: 15060171--15060242 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
15060161 TACTTCGCAT
* * *
15060171 TTTATTTTATTTATTTTTTATTTTAAGAA
1 TTTAATTTATTTATTTTTTAATTTAAAAA
15060200 TTTAATTT-TTTATTTTTTTAAATTTAAAAA
1 TTTAATTTATTTA-TTTTTT-AATTTAAAAA
*
15060230 TTCAAATTTATTT
1 TT-TAATTTATTT
15060243 GTAGTCATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.11
29 13 0.37
30 10 0.29
31 5 0.14
32 3 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (29 bp):
TTTAATTTATTTATTTTTTAATTTAAAAA
Found at i:15060357 original size:15 final size:15
Alignment explanation
Indices: 15060337--15060367 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15060327 AAAAAATTAA
15060337 AAAATTACTTATTTG
1 AAAATTACTTATTTG
15060352 AAAATTACTTATTTG
1 AAAATTACTTATTTG
15060367 A
1 A
15060368 GTTTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (15 bp):
AAAATTACTTATTTG
Found at i:15062178 original size:13 final size:13
Alignment explanation
Indices: 15062160--15062185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15062150 GGACTAAAAC
15062160 TCACACATGACGA
1 TCACACATGACGA
15062173 TCACACATGACGA
1 TCACACATGACGA
15062186 AACTCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.31, G:0.15, T:0.15
Consensus pattern (13 bp):
TCACACATGACGA
Found at i:15065368 original size:23 final size:24
Alignment explanation
Indices: 15065324--15065368 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
15065314 AATATTCATA
* * *
15065324 TTTATATTATTAAAATATTTATCT
1 TTTATACTATTAAAAAAATTATCT
15065348 TTTATACTA-TAAAAAAATTAT
1 TTTATACTATTAAAAAAATTAT
15065369 AAGTAAATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 10 0.56
24 8 0.44
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTATACTATTAAAAAAATTATCT
Found at i:15070114 original size:30 final size:30
Alignment explanation
Indices: 15070078--15070275 Score: 179
Period size: 30 Copynumber: 6.6 Consensus size: 30
15070068 AATTTTTCAT
* *
15070078 AAATTCAAATTAGACCCTCAAACTTTCTAG
1 AAATTCAAATTAGACCCTCAAACTTTCCAA
* *
15070108 AAATTCAAATTTGACCCTTAAACTTTCCAA
1 AAATTCAAATTAGACCCTCAAACTTTCCAA
*
15070138 AAATTCAAATTTA-A-CCTCTAAACTTTTCAA
1 AAATTCAAA-TTAGACCCTC-AAACTTTCCAA
* * *
15070168 AAATTCAAATTTA-ACCCCCGAACTTTCTAA
1 AAATTCAAA-TTAGACCCTCAAACTTTCCAA
* * *
15070198 AAATTTGAATTTA-ACCCTTAAACTTTCCAA
1 AAA-TTCAAATTAGACCCTCAAACTTTCCAA
* ** *
15070228 AAATTTCAAATTTGACCCTTGAAGTTTCCAA
1 AAA-TTCAAATTAGACCCTCAAACTTTCCAA
*
15070259 AAATTCAAATTTGACCC
1 AAATTCAAATTAGACCC
15070276 GGTTTTAATG
Statistics
Matches: 141, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
29 3 0.02
30 111 0.79
31 27 0.19
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (30 bp):
AAATTCAAATTAGACCCTCAAACTTTCCAA
Found at i:15070147 original size:60 final size:59
Alignment explanation
Indices: 15070078--15070269 Score: 217
Period size: 60 Copynumber: 3.2 Consensus size: 59
15070068 AATTTTTCAT
* *
15070078 AAATTCAAATTAGACCCTCAAACTTTCTAGAAATTCAAATTTGACCCTTAAACTTTCCAA
1 AAATTCAAATTA-ACCCTCAAACTTTCTAAAAATTCAAATTTGACCCTTGAACTTTCCAA
* ** *
15070138 AAATTCAAATTTAA-CCTCTAAACTTT-TCAAAAATTCAAATTTAACCCCCGAACTTTCTAA
1 AAATTCAAA-TTAACCCTC-AAACTTTCT-AAAAATTCAAATTTGACCCTTGAACTTTCCAA
* * * * *
15070198 AAATTTGAATTTAACCCTTAAACTTTCCAAAAATTTCAAATTTGACCCTTGAAGTTTCCAA
1 AAA-TTCAAATTAACCCTCAAACTTTCTAAAAA-TTCAAATTTGACCCTTGAACTTTCCAA
15070259 AAATTCAAATT
1 AAATTCAAATT
15070270 TGACCCGGTT
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
59 5 0.05
60 68 0.63
61 35 0.32
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (59 bp):
AAATTCAAATTAACCCTCAAACTTTCTAAAAATTCAAATTTGACCCTTGAACTTTCCAA
Found at i:15070172 original size:90 final size:90
Alignment explanation
Indices: 15070057--15070275 Score: 271
Period size: 90 Copynumber: 2.4 Consensus size: 90
15070047 AAGATTATAT
* * * * *
15070057 TTTAACCCCTAAATTTTTCATAAATTCAAATTAGACCCTCAAACTTTCTAGAAATTCAAATTTGA
1 TTTAA-CCCTAAACTTTTCAAAAATTCAAATTAGACCCCCAAACTTTCTAAAAATTCAAATTTAA
15070122 CCCTTAAACTTTCCAAAAA-TTCAAA
65 CCCTTAAACTTTCCAAAAATTTCAAA
* **
15070147 TTTAACCTCTAAACTTTTCAAAAATTCAAATTTA-ACCCCCGAACTTTCTAAAAATTTGAATTTA
1 TTTAACC-CTAAACTTTTCAAAAATTCAAA-TTAGACCCCCAAACTTTCTAAAAATTCAAATTTA
15070211 ACCCTTAAACTTTCCAAAAATTTCAAA
64 ACCCTTAAACTTTCCAAAAATTTCAAA
* * * * *
15070238 TTTGACCCTTGAAGTTTCCAAAAATTCAAATTTGACCC
1 TTTAACCC-TAAACTTTTCAAAAATTCAAATTAGACCC
15070276 GGTTTTAATG
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
89 2 0.02
90 72 0.65
91 37 0.33
ACGTcount: A:0.39, C:0.22, G:0.04, T:0.35
Consensus pattern (90 bp):
TTTAACCCTAAACTTTTCAAAAATTCAAATTAGACCCCCAAACTTTCTAAAAATTCAAATTTAAC
CCTTAAACTTTCCAAAAATTTCAAA
Found at i:15082130 original size:80 final size:79
Alignment explanation
Indices: 15082025--15082193 Score: 218
Period size: 79 Copynumber: 2.1 Consensus size: 79
15082015 TACAGCCCCA
* * * *
15082025 AATCTTTTACCCTAATTAGAGGGCAGATTGAAAACATCATCTGATCTCTTACC-CGACCATAAGG
1 AATCTTTTACCCCAATCAGAGGGCAGATTGAAAAC--CATCCGATCTCTTACCTAGACCATAAGG
15082089 AAGATTGTA-GCAATCC
64 AAGATTG-AGGCAATCC
* *
15082105 AATCTTTTACCCCAATCATG-GGGCAGATTGAAAACCATCCGATCTCTTACCTAGACCATGAGGC
1 AATCTTTTACCCCAATCA-GAGGGCAGATTGAAAACCATCCGATCTCTTACCTAGACCATAAGGA
*
15082169 AGATTGAGGCAGTCC
65 AGATTGAGGCAATCC
15082184 AATCTTTTAC
1 AATCTTTTAC
15082194 ACCTAAAGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
78 16 0.20
79 31 0.39
80 31 0.39
81 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (79 bp):
AATCTTTTACCCCAATCAGAGGGCAGATTGAAAACCATCCGATCTCTTACCTAGACCATAAGGAA
GATTGAGGCAATCC
Found at i:15082170 original size:40 final size:39
Alignment explanation
Indices: 15082046--15082175 Score: 102
Period size: 40 Copynumber: 3.3 Consensus size: 39
15082036 CTAATTAGAG
* * *
15082046 GGCAGATTGAAAACATCATCTGATCTCTTACCCGACCATAA
1 GGCAGATTGAAAAC--CATCCGATCTCTTACCAGACCATGA
* * * * * * * *
15082087 GGAAGATTG-TAGCAATCCAATCTTTTACCCCA-ATCATGG
1 GGCAGATTGAAAACCATCCGATCTCTTA--CCAGACCATGA
15082126 GGCAGATTGAAAACCATCCGATCTCTTACCTAGACCATGA
1 GGCAGATTGAAAACCATCCGATCTCTTACC-AGACCATGA
15082166 GGCAGATTGA
1 GGCAGATTGA
15082176 GGCAGTCCAA
Statistics
Matches: 65, Mismatches: 19, Indels: 11
0.68 0.20 0.12
Matches are distributed among these distances:
38 12 0.18
39 13 0.20
40 32 0.49
41 8 0.12
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (39 bp):
GGCAGATTGAAAACCATCCGATCTCTTACCAGACCATGA
Found at i:15082287 original size:50 final size:49
Alignment explanation
Indices: 15082191--15082299 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 49
15082181 TCCAATCTTT
* * * * *
15082191 TACACCTAAAGTTGTAGAGTGCAGATTGAAGCCGCAATGGCAAATCTCA
1 TACACCTGAAGCTGTAGAGAGCAGATTAAAGCCGCAAGGGCAAATCTCA
* *
15082240 TACACCTGAAGCTGTAGAGGAGCAGATTAAAGCCGCAAGGGCGAATCTTA
1 TACACCTGAAGCTGTAGA-GAGCAGATTAAAGCCGCAAGGGCAAATCTCA
*
15082290 TACTCCTGAA
1 TACACCTGAA
15082300 ATTGGAAAAG
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 16 0.31
50 35 0.69
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.21
Consensus pattern (49 bp):
TACACCTGAAGCTGTAGAGAGCAGATTAAAGCCGCAAGGGCAAATCTCA
Found at i:15084328 original size:29 final size:30
Alignment explanation
Indices: 15084224--15084523 Score: 252
Period size: 30 Copynumber: 10.1 Consensus size: 30
15084214 AAAATTATGT
* * **
15084224 TTTGACCTTTAAATTTTCCATCAATTCAAA
1 TTTGACCCTTAAACTTTCCAAAAATTCAAA
* **
15084254 TTAGACCCCCCAAACTTTCCAAAAATTCAAA
1 TTTGA-CCCTTAAACTTTCCAAAAATTCAAA
* *
15084285 TTAGACCCTCAAACTTTCC-AAAATTCAAA
1 TTTGACCCTTAAACTTTCCAAAAATTCAAA
*
15084314 TTTG-CCTCTTGAAC-TTCCAAAAATTCAAA
1 TTTGACC-CTTAAACTTTCCAAAAATTCAAA
* *
15084343 TTTGACCCTTTAACTTTCCAAAAATTCGAA
1 TTTGACCCTTAAACTTTCCAAAAATTCAAA
** **
15084373 TAAGACCCTTAAACTTTCCAAAAATTTGAA
1 TTTGACCCTTAAACTTTCCAAAAATTCAAA
* * **
15084403 TTTGACCAC-TAAACTTT-TAGAAATTTGAA
1 TTTGACC-CTTAAACTTTCCAAAAATTCAAA
* * *
15084432 TTTGACCCCTAAATTTTCCAAAAATTCCAA
1 TTTGACCCTTAAACTTTCCAAAAATTCAAA
** * * *
15084462 TTTGACCCTCGAATTTTTCAAAAATTCCAA
1 TTTGACCCTTAAACTTTCCAAAAATTCAAA
* *
15084492 TTTGACACC-TGAAGTTTCCAAAAATTCAAA
1 TTTGAC-CCTTAAACTTTCCAAAAATTCAAA
15084522 TT
1 TT
15084524 GACTGACTCG
Statistics
Matches: 227, Mismatches: 34, Indels: 18
0.81 0.12 0.06
Matches are distributed among these distances:
28 7 0.03
29 62 0.27
30 131 0.58
31 27 0.12
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (30 bp):
TTTGACCCTTAAACTTTCCAAAAATTCAAA
Found at i:15084350 original size:89 final size:87
Alignment explanation
Indices: 15084246--15084523 Score: 268
Period size: 89 Copynumber: 3.1 Consensus size: 87
15084236 ATTTTCCATC
* *
15084246 AATTCAAATTAGACCCCCCAAACTTTCCAAAAATTCAAATTAGACCCTCAAACTTTCCAAAATTC
1 AATTCAAATTTGA-CCCCTAAACTTTCCAAAAATTCAAATTAGACCCTCAAACTTTCCAAAATTC
*
15084311 AAATTTGCCTCTTGAACTTCCAAA
65 AAATTTGCCAC-TGAACTTCCAAA
* * * * * *
15084335 AATTCAAATTTGACCCTTTAACTTTCCAAAAATTCGAATAAGACCCTTAAACTTTCCAAAAATTT
1 AATTCAAATTTGACCCCTAAACTTTCCAAAAATTCAAATTAGACCCTCAAACTTTCC-AAAATTC
* * ** *
15084400 GAATTTGACCACTAAACTTTTAGA
65 AAATTTG-CCACTGAACTTCCAAA
** * * * ** *
15084424 AATTTGAATTTGACCCCTAAATTTTCCAAAAATTCCAATTTGACCCTCGAATTTTTCAAAAATTC
1 AATTCAAATTTGACCCCTAAACTTTCCAAAAATTCAAATTAGACCCTC-AAACTTTCCAAAATTC
* * *
15084489 CAATTTGACACCTGAAGTTTCCAAA
65 AAATTTGCCA-CTGAA-CTTCCAAA
15084514 AATTCAAATT
1 AATTCAAATT
15084524 GACTGACTCG
Statistics
Matches: 148, Mismatches: 36, Indels: 9
0.77 0.19 0.05
Matches are distributed among these distances:
88 40 0.27
89 87 0.59
90 21 0.14
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.32
Consensus pattern (87 bp):
AATTCAAATTTGACCCCTAAACTTTCCAAAAATTCAAATTAGACCCTCAAACTTTCCAAAATTCA
AATTTGCCACTGAACTTCCAAA
Found at i:15096623 original size:26 final size:24
Alignment explanation
Indices: 15096558--15096623 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 24
15096548 GTATTTATAA
15096558 TTTTCTAATTTTTTTAATTTTCAAG
1 TTTT-TAATTTTTTTAATTTTCAAG
15096583 TTTTTAATTTCTTTTAAATTTT-ATGAG
1 TTTTTAATTT-TTTT-AATTTTCA--AG
*
15096610 TTTTTAGTTTTTTT
1 TTTTTAATTTTTTT
15096624 TTTCAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 6 0.17
25 9 0.25
26 10 0.28
27 11 0.31
ACGTcount: A:0.21, C:0.05, G:0.06, T:0.68
Consensus pattern (24 bp):
TTTTTAATTTTTTTAATTTTCAAG
Found at i:15096624 original size:27 final size:25
Alignment explanation
Indices: 15096558--15096624 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
15096548 GTATTTATAA
15096558 TTTTCTAA-TTTTTTTAATTTTCAAG
1 TTTT-TAATTTTTTTTAATTTTCAAG
*
15096583 TTTTTAATTTCTTTTAAATTTT-ATGAG
1 TTTTTAATTT-TTTTTAATTTTCA--AG
*
15096610 TTTTTAGTTTTTTTT
1 TTTTTAATTTTTTTT
15096625 TTCAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
24 3 0.09
25 7 0.20
26 14 0.40
27 11 0.31
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (25 bp):
TTTTTAATTTTTTTTAATTTTCAAG
Found at i:15097844 original size:22 final size:21
Alignment explanation
Indices: 15097796--15097845 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
15097786 CCCTAAATTT
15097796 TTAAA-TTTAAAAATAAAAAA
1 TTAAATTTTAAAAATAAAAAA
* *
15097816 TTAAAATTTTAATAATAAAATA
1 TT-AAATTTTAAAAATAAAAAA
15097838 TATAAATT
1 T-TAAATT
15097846 AAATTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 19 0.76
23 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAATTTTAAAAATAAAAAA
Found at i:15097849 original size:27 final size:27
Alignment explanation
Indices: 15097805--15097884 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
15097795 TTTAAATTTA
* *
15097805 AAAATA-AAAAATTAAAATTTTAATAAT
1 AAAATATATAAATT-AAATTTTAAAAAT
*
15097832 AAAATATATAAATTAAATTTCAAAAAT
1 AAAATATATAAATTAAATTTTAAAAAT
* *
15097859 AACATATTATAACTTTTAAATTTTAA
1 AAAATA-TATAA--ATTAAATTTTAA
15097885 CTATTTAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.51
28 11 0.26
30 10 0.23
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAATATATAAATTAAATTTTAAAAAT
Found at i:15097869 original size:28 final size:28
Alignment explanation
Indices: 15097805--15097870 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
15097795 TTTAAATTTA
* * *
15097805 AAAATA-AAAAATTAAAATTTTAATAAT
1 AAAATATATAAATTAAAATTTCAAAAAT
15097832 AAAATATATAAATT-AAATTTCAAAAAT
1 AAAATATATAAATTAAAATTTCAAAAAT
*
15097859 AACATATTATAA
1 AAAATA-TATAA
15097871 CTTTTAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 22 0.67
28 11 0.33
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (28 bp):
AAAATATATAAATTAAAATTTCAAAAAT
Found at i:15098541 original size:27 final size:29
Alignment explanation
Indices: 15098478--15098555 Score: 90
Period size: 31 Copynumber: 2.7 Consensus size: 29
15098468 ATAAAAATTT
15098478 TAAAAAAATTAATTTACTTTTTAATTTAATA
1 TAAAAAAATTAATTTA-TTTTT-ATTTAATA
*
15098509 TAAAAAAATTAATTTATTTATT-TTTGA-A
1 TAAAAAAATTAATTTATTT-TTATTTAATA
*
15098537 TAAAAAAA-TAATATATTTT
1 TAAAAAAATTAATTTATTTT
15098556 CCTTTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 1 0.02
27 9 0.20
28 9 0.20
29 4 0.09
30 3 0.07
31 18 0.41
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (29 bp):
TAAAAAAATTAATTTATTTTTATTTAATA
Found at i:15099393 original size:65 final size:65
Alignment explanation
Indices: 15099268--15099393 Score: 157
Period size: 65 Copynumber: 1.9 Consensus size: 65
15099258 TTAATCCTTT
* *
15099268 GTAAACATCTGAACATGAACCATTGATTTTCGTTAATTTATTGCATATAAACTATTAAACCGTTA
1 GTAAACATCTGAACATGAACCACTGATTTTCGTTAATTTATTGCATATAAACTATGAAACCGTTA
** * * *
15099333 GTAAACA-CGTGAACATGAATTACTGATTTTTTGTTAATTTATTG-ATATAAATTGTGAAACC
1 GTAAACATC-TGAACATGAACCACTGA-TTTTCGTTAATTTATTGCATATAAACTATGAAACC
15099394 ATTAATTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 1 0.02
65 35 0.67
66 16 0.31
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (65 bp):
GTAAACATCTGAACATGAACCACTGATTTTCGTTAATTTATTGCATATAAACTATGAAACCGTTA
Found at i:15100015 original size:14 final size:14
Alignment explanation
Indices: 15099998--15100033 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
15099988 AGTGATAATT
15099998 ATTTATTAGTAGAG
1 ATTTATTAGTAGAG
*
15100012 ATTTATTATTAGAG
1 ATTTATTAGTAGAG
*
15100026 ATCTATTA
1 ATTTATTA
15100034 AAAACTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (14 bp):
ATTTATTAGTAGAG
Found at i:15104335 original size:22 final size:21
Alignment explanation
Indices: 15104289--15104347 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
15104279 TGATGCAGAC
*
15104289 TTCTACCGATACAAGTGTCAG
1 TTCTACCGATACAAGTGACAG
*
15104310 TTCTACCCGATACAGGTGACTA-
1 TTCTA-CCGATACAAGTGAC-AG
* *
15104332 TTCTATCGAAACAAGT
1 TTCTACCGATACAAGT
15104348 CTTACTTCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 13 0.42
22 17 0.55
23 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAG
Found at i:15105110 original size:25 final size:25
Alignment explanation
Indices: 15105082--15105174 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 25
15105072 ATATCATTCA
15105082 TACGAGCCAGACAGAATTACTCTCT
1 TACGAGCCAGACAGAATTACTCTCT
** *
15105107 TACGAGATAGACAGAATTA-TACTAT
1 TACGAGCCAGACAGAATTACT-CTCT
* * * * *
15105132 TACAAGCCAAACAGAATTTCGCTCG
1 TACGAGCCAGACAGAATTACTCTCT
15105157 TACGAGCCAGACAGAATT
1 TACGAGCCAGACAGAATT
15105175 TCCTTGTCTT
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.98
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (25 bp):
TACGAGCCAGACAGAATTACTCTCT
Found at i:15105175 original size:25 final size:25
Alignment explanation
Indices: 15105063--15105176 Score: 95
Period size: 25 Copynumber: 4.6 Consensus size: 25
15105053 TCAAATGAGC
* * * *
15105063 CCAGACAAAATATCATTCATACGAG
1 CCAGACAGAATTTCACTCTTACGAG
* *
15105088 CCAGACAGAATTACTCTCTTACGAG
1 CCAGACAGAATTTCACTCTTACGAG
** * *
15105113 ATAGACAGAATTAT-ACTATTACAAG
1 CCAGACAGAATT-TCACTCTTACGAG
* * *
15105138 CCAAACAGAATTTCGCTCGTACGAG
1 CCAGACAGAATTTCACTCTTACGAG
15105163 CCAGACAGAATTTC
1 CCAGACAGAATTTC
15105177 CTTGTCTTCT
Statistics
Matches: 67, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
24 1 0.01
25 66 0.99
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.23
Consensus pattern (25 bp):
CCAGACAGAATTTCACTCTTACGAG
Found at i:15110074 original size:16 final size:16
Alignment explanation
Indices: 15110053--15110084 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15110043 GAAGTTTATT
15110053 TTTTTTATTTGTTTTG
1 TTTTTTATTTGTTTTG
*
15110069 TTTTTTTTTTGTTTTG
1 TTTTTTATTTGTTTTG
15110085 GACCGGATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTTTATTTGTTTTG
Found at i:15110331 original size:46 final size:46
Alignment explanation
Indices: 15110162--15110516 Score: 384
Period size: 46 Copynumber: 7.8 Consensus size: 46
15110152 AGTCTGCTCC
* * * * *
15110162 TCTGCCCCTCTAGATTTTGAGGTAAAAGATTGGATGGTGGCTTCAA
1 TCTGCCTCTCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTTAA
* * * *
15110208 TCTGCCTCTCTTGATTTA-GGTTAAAAGATTAGATGATGGCTTTAA
1 TCTGCCTCTCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTTAA
** ** *
15110253 TCTG-CTCTCTTAATTTAGGCATAAAAGATTGGATGGTGGCTTCAA
1 TCTGCCTCTCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTTAA
*
15110298 TCTGGTCCT-T-TGGATTTAGTGGTAAACA-ATTGGATGGTGGCTTTAA
1 TCT-G-CCTCTCTGGATTTAGGGGTAAA-AGATTGGATGGTGGCTTTAA
* *
15110344 TCTACCTCTCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTCAA
1 TCTGCCTCTCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTTAA
* * *
15110390 TCTACC-CTTCTTGATTTAGGGGTAAAAGATTGGATGATGGCTTTAA
1 TCTGCCTC-TCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTTAA
* *
15110436 TCTGCCTCTCTTGATTTAGGGGTAAAAGATTGGATAGTGGCTTTAA
1 TCTGCCTCTCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTTAA
* * *
15110482 TCTACC-CTTATTGATTTA-GGGTAAAAGATTGGATG
1 TCTGCCTC-TCTGGATTTAGGGGTAAAAGATTGGATG
15110517 TAGTGATGTA
Statistics
Matches: 266, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
44 15 0.06
45 71 0.27
46 175 0.66
47 3 0.01
48 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (46 bp):
TCTGCCTCTCTGGATTTAGGGGTAAAAGATTGGATGGTGGCTTTAA
Found at i:15110387 original size:92 final size:89
Alignment explanation
Indices: 15110182--15110516 Score: 440
Period size: 92 Copynumber: 3.7 Consensus size: 89
15110172 TAGATTTTGA
* *
15110182 GGTAAAAGATTGGATGGTGGCTTCAATCTGCCTCTCTTGATTTAGGTTAAAAGATTAGATGATGG
1 GGTAAAAGATTGGATGGTGGCTTCAATCTGCCT-TCTTGATTTAGGGTAAAAGATTGGATGATGG
* *
15110247 CTTTAATCTGCTCTCTTAATTTAGG
65 CTTTAATCTCCTCTCTTGATTTAGG
** * *
15110272 CATAAAAGATTGGATGGTGGCTTCAATCTGGTCCTT-TGGATTTAGTGGTAAACA-ATTGGATGG
1 GGTAAAAGATTGGATGGTGGCTTCAATCT-G-CCTTCTTGATTTAG-GGTAAA-AGATTGGATGA
*
15110335 TGGCTTTAATCTACCTCTCTGGATTTAGG
62 TGGCTTTAATCT-CCTCTCTTGATTTAGG
*
15110364 GGTAAAAGATTGGATGGTGGCTTCAATCTACCCTTCTTGATTTAGGGGTAAAAGATTGGATGATG
1 GGTAAAAGATTGGATGGTGGCTTCAATCT-GCCTTCTTGATTTA-GGGTAAAAGATTGGATGATG
15110429 GCTTTAATCTGCCTCTCTTGATTTAGG
64 GCTTTAATCT-CCTCTCTTGATTTAGG
* * * *
15110456 GGTAAAAGATTGGATAGTGGCTTTAATCTACCCTTATTGATTTAGGGTAAAAGATTGGATG
1 GGTAAAAGATTGGATGGTGGCTTCAATCT-GCCTTCTTGATTTAGGGTAAAAGATTGGATG
15110517 TAGTGATGTA
Statistics
Matches: 217, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
90 35 0.16
91 48 0.22
92 133 0.61
93 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (89 bp):
GGTAAAAGATTGGATGGTGGCTTCAATCTGCCTTCTTGATTTAGGGTAAAAGATTGGATGATGGC
TTTAATCTCCTCTCTTGATTTAGG
Found at i:15110460 original size:138 final size:136
Alignment explanation
Indices: 15110162--15110516 Score: 430
Period size: 138 Copynumber: 2.6 Consensus size: 136
15110152 AGTCTGCTCC
* * * *
15110162 TCTGCCCCTCTAGATTTTGAGGTAAAAGATTGGATGGTGGCTTCAATCTGCCTCTCTTGATTTAG
1 TCTGCCTCTCTAGATTTAGAGGTAAAAGATTGGATGGTGGCTTTAATCTACCTCTCTTGATTTAG
* * * * * *
15110227 GTTAAAAGATTAGATGATGGCTTTAATCTGCTCTCTTAATTTAGGCATAAAAGATTGGATGGTGG
66 GGTAAAAGATTGGATGATGGCTTCAATCTACCCTCTTAATTTAGGCATAAAAGATTGGATGATGG
15110292 CTTCAA
131 CTTCAA
* * *
15110298 TCTGGTCCT-T-TGGATTTAGTGGTAAACA-ATTGGATGGTGGCTTTAATCTACCTCTCTGGATT
1 TCT-G-CCTCTCTAGATTTAGAGGTAAA-AGATTGGATGGTGGCTTTAATCTACCTCTCTTGATT
* * **
15110360 TAGGGGTAAAAGATTGGATGGTGGCTTCAATCTACCCTTCTTGATTTAGGGGTAAAAGATTGGAT
63 TA-GGGTAAAAGATTGGATGATGGCTTCAATCTACCC-TCTTAATTTAGGCATAAAAGATTGGAT
*
15110425 GATGGCTTTAA
126 GATGGCTTCAA
* * * *
15110436 TCTGCCTCTCTTGATTTAGGGGTAAAAGATTGGATAGTGGCTTTAATCTACC-CTTATTGATTTA
1 TCTGCCTCTCTAGATTTAGAGGTAAAAGATTGGATGGTGGCTTTAATCTACCTC-TCTTGATTTA
15110500 GGGTAAAAGATTGGATG
65 GGGTAAAAGATTGGATG
15110517 TAGTGATGTA
Statistics
Matches: 187, Mismatches: 23, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
136 52 0.28
137 52 0.28
138 83 0.44
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (136 bp):
TCTGCCTCTCTAGATTTAGAGGTAAAAGATTGGATGGTGGCTTTAATCTACCTCTCTTGATTTAG
GGTAAAAGATTGGATGATGGCTTCAATCTACCCTCTTAATTTAGGCATAAAAGATTGGATGATGG
CTTCAA
Found at i:15115137 original size:22 final size:21
Alignment explanation
Indices: 15115084--15115137 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
15115074 TTGTATGGTG
* *
15115084 TGAACAAAAATGTTTGTCAAA
1 TGAACAAAAATATTTGCCAAA
*
15115105 TGAACTTAAAATATTTGCCAAA
1 TGAAC-AAAAATATTTGCCAAA
15115127 TGAGACAAAAA
1 TGA-ACAAAAA
15115138 AATGCATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 20 0.74
23 2 0.07
ACGTcount: A:0.50, C:0.11, G:0.13, T:0.26
Consensus pattern (21 bp):
TGAACAAAAATATTTGCCAAA
Found at i:15126601 original size:5 final size:6
Alignment explanation
Indices: 15126588--15126629 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
15126578 ATGTTGAGTG
15126588 AGAAAA AG-AAA AG-AAA AGAGAAA AGAAAA AGAAAA AGAAAA A
1 AGAAAA AGAAAA AGAAAA AGA-AAA AGAAAA AGAAAA AGAAAA A
15126630 TTGCTAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 10 0.29
6 18 0.53
7 6 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:15141748 original size:73 final size:73
Alignment explanation
Indices: 15141564--15143085 Score: 1408
Period size: 73 Copynumber: 20.8 Consensus size: 73
15141554 TCGACCTTTA
* * * * **
15141564 AAAAAGGTTGGGATAGGCCTTGTCCAAGGCAACTTTTTAAAAAAAGGTTGGAATAGACC-CATCT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAAC-CTTT--AAAAAGGTTGGGATAGACCTTGTCT
15141628 AAGGCAACCTT
63 AAGGCAACCTT
** * *
15141639 AAAAAGGTTACGATAGACC-TGTCTAAGGCAATCTTTAAAAAGGTTGGGATAAACCTTGTCTAAG
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAG
15141703 GCAACCTT
66 GCAACCTT
* * * * * *
15141711 AAAATGATTGGGATATACCTTGTCTAAGGCAACCTTTAAAAAAGCTTGGGATA-AACATGTCTGA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTT-AAAAAGGTTGGGATAGACCTTGTCT-A
*
15141775 A-GCAACATT
64 AGGCAACCTT
* * * *
15141784 TAAAAGGTTGGGATAGATCTTGTCT-AGGCAACCTTTTAAAAAAGGTTGGGATAGA-GTCGTCTA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTT-AAAAAGGTTGGGATAGACCTTGTCTA
*
15141847 AGGTAACCTT
64 AGGCAACCTT
* *
15141857 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTTAAATAGGTTGGGATAGACATTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAA
*
15141922 GGCAACATTTT
65 GGCAAC--CTT
* * * * * **
15141933 AAAAAGTTTGGGATAAACCTTTTCTAAGGTAACCTTTTAAAAGGTTGGGATAGGTCTTGTCTAAG
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAG
*
15141998 CCAACCTTTT
66 GCAACC--TT
* * * *
15142008 AAAAAAGGTTGGGATAAACC-CGTCTAAGGCAACC-TTAAAAAGGTTAGGATAGA-CTCGTCTAA
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAA
*
15142070 GGCAACCGT
65 GGCAACCTT
* * * * *
15142079 AAAAAGATTGGGATAAACCTTGTCTAAGGCAACCTTTTAAATAGGTTGGGATAAAACTTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAA
15142144 GGCAACCTTTT
65 GGCAACC--TT
* *
15142155 AAAAAGCTTGGGATAGACCTTGTCTAAGGCAACCTTTTAAAAAGGTTGGGATA-AGTCTTGTCTA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTTAAAAAGGTTGGGATAGA-CCTTGTCTA
*
15142219 AGTCAACCTTAT
64 AGGCAACC-T-T
* * * *
15142231 AAAAAAAGGTTGGGATAGGCC-CGTCTAAGGCAACC-TTAAAAAGGTTAGGATAAACCTTGTCTA
1 --AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTA
15142294 AGGCAACCTTTT
64 AGGCAACC--TT
* ** * *
15142306 AAAAATGTTGGGATAGGTCTTGTCTAAGCCAACCTTTTAAAAAGGATGGGATAGA-CTTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAA
15142370 GGCAACCTT
65 GGCAACCTT
** * * *
15142379 AAAAAGGTTATGATAGACCTTGT-TGAGGCAACCTTGAAAAAAGGTTGGGATAAACCTTGTCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT-TAAAAAGGTTGGGATAGACCTTGTCTAA
*
15142443 GGCAACATT
65 GGCAACCTT
* * * * * *
15142452 AAAATGGTTGGGATATACATTGTCTAAGGCAACCTTTAAAAAGGTTGCGATAGA-CATGTCTAAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAG
15142516 GCAACCTT
66 GCAACCTT
* * * * * *
15142524 TAAAAGGTTGGGATATATCTTATCTAAGGCAACCTTTTAAAAAAGGTTGGAATAGAGCCAT-T-T
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTT-AAAAAGGTTGGGATAGA-CCTTGTCT
15142587 AAGGCAACCTT
63 AAGGCAACCTT
* * * * *
15142598 AAAAAGGTTGGGATAGACCTTGTTTAAGGCAACCTTTTAAATAGGTTGGGATAAACTTTGGCTAA
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAA
15142663 GGCAACCTTTT
65 GGCAACC--TT
* * * * * *
15142674 AAAAATGTTGGGATAGACTTTATCTAAGGTAACCTTTAAAAAAGTTGAGATAGACCTTGTCTAAG
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAG
15142739 GCAACCTTT
66 GCAACC-TT
* **
15142748 AAAAAAGGTTGGAATAGACC-CATCTAAGGCAACC-TTAAAAAGGTTGGGATAGACCTTGTCTAA
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAA
15142811 GGCAACCTTT
65 GGCAACC-TT
* **
15142821 AAAAAAGGTTGGGATCGACC-CATCTAAGGCAACC-TTAAAAAGGTTGGGATAGACCTTGTCTAA
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAA
** *
15142884 AACAACTTTT
65 GGCAAC-CTT
* * *
15142894 AAATACGGTTGGGATAGA-CTTGTCTAAGGTAACC-TTAAAAATGTTAGGG-TAGACAC--GTCT
1 AAA-AAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTT-GGGATAGAC-CTTGTCT
* *
15142954 AAAGAAACCTT
63 AAGGCAACCTT
* * * * * *
15142965 AAAAA-GTTAGGTTAGACAC--GTCTAAAGAAACC-TTAAAAAGGTTATGG-TAGA-C-TATCTA
1 AAAAAGGTTGGGATAGAC-CTTGTCTAAGGCAACCTTTAAAAAGGTT-GGGATAGACCTTGTCTA
* ** *
15143023 AAGTGAGCTT
64 AGGCAACCTT
* *
15143033 AAAAAGGTTGTGG-TAGACC--ATCTAAAGCAACC-TTAAAAAGGTTGGGATAGACC
1 AAAAAGGTTG-GGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC
15143086 CATATATAAA
Statistics
Matches: 1221, Mismatches: 173, Indels: 112
0.81 0.11 0.07
Matches are distributed among these distances:
67 3 0.00
68 43 0.04
69 46 0.04
70 21 0.02
71 39 0.03
72 121 0.10
73 396 0.32
74 194 0.16
75 158 0.13
76 170 0.14
77 13 0.01
78 17 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (73 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAG
GCAACCTT
Found at i:15141834 original size:38 final size:37
Alignment explanation
Indices: 15141557--15143085 Score: 1435
Period size: 38 Copynumber: 41.7 Consensus size: 37
15141547 GTCAAGGTCG
* *
15141557 ACCTTTAAAAAAGGTTGGGATAGGCCTTGTCCAAGGCA
1 ACCTTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * **
15141595 ACTTTTTAAAAAAAGGTTGGAATAGACC-CATCTAAGGCA
1 AC-CTTT--AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
**
15141634 ACC-TTAAAAAGGTTACGATAGACC-TGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15141669 ATCTTTAAAAAGGTTGGGATAAACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15141706 ACC-TTAAAATGATTGGGATATACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15141742 ACCTTTAAAAAAGCTTGGGATA-AACATGTCTGAA-GCA
1 ACCTTT-AAAAAGGTTGGGATAGACCTTGTCT-AAGGCA
* *
15141779 ACATTT-AAAAGGTTGGGATAGATCTTGTCT-AGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15141814 ACCTTTTAAAAAAGGTTGGGATAGA-GTCGTCTAAGGTA
1 ACC-TTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
15141852 ACC-TTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15141888 ACCTTTTAAATAGGTTGGGATAGACATTGTCTAAGGCA
1 ACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * * *
15141926 ACATTTTAAAAAGTTTGGGATAAACCTTTTCTAAGGTA
1 AC-CTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* ** *
15141964 ACCTTTTAAAAGGTTGGGATAGGTCTTGTCTAAGCCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15142001 ACCTTTTAAAAAAGGTTGGGATAAACC-CGTCTAAGGCA
1 ACC-TTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15142039 ACC-TTAAAAAGGTTAGGATAGA-CTCGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15142074 ACC-GTAAAAAGATTGGGATAAACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15142110 ACCTTTTAAATAGGTTGGGATAAAACTTGTCTAAGGCA
1 ACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
*
15142148 ACCTTTTAAAAAGCTTGGGATAGACCTTGTCTAAGGCA
1 ACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15142186 ACCTTTTAAAAAGGTTGGGATA-AGTCTTGTCTAAGTCA
1 ACC-TTTAAAAAGGTTGGGATAGA-CCTTGTCTAAGGCA
* *
15142224 ACCTTATAAAAAAAGGTTGGGATAGGCC-CGTCTAAGGCA
1 ACCTT-T--AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15142263 ACC-TTAAAAAGGTTAGGATAAACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* ** *
15142299 ACCTTTTAAAAATGTTGGGATAGGTCTTGTCTAAGCCA
1 ACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
*
15142337 ACCTTTTAAAAAGGATGGGATAGA-CTTGTCTAAGGCA
1 ACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
** *
15142374 ACC-TTAAAAAGGTTATGATAGACCTTGT-TGAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15142409 ACCTTGAAAAAAGGTTGGGATAAACCTTGTCTAAGGCA
1 ACCTT-TAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * *
15142447 A-CATTAAAATGGTTGGGATATACATTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15142483 ACCTTTAAAAAGGTTGCGATAGA-CATGTCTAAAGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15142519 ACCTTT-AAAAGGTTGGGATATATCTTATCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15142555 ACCTTTTAAAAAAGGTTGGAATAGAGCCAT-T-TAAGGCA
1 ACC-TTT-AAAAAGGTTGGGATAGA-CCTTGTCTAAGGCA
*
15142593 ACC-TTAAAAAGGTTGGGATAGACCTTGTTTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * *
15142629 ACCTTTTAAATAGGTTGGGATAAACTTTGGCTAAGGCA
1 ACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * * *
15142667 ACCTTTTAAAAATGTTGGGATAGACTTTATCTAAGGTA
1 ACC-TTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* *
15142705 ACCTTTAAAAAAGTTGAGATAGACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* **
15142742 ACCTTTAAAAAAGGTTGGAATAGACC-CATCTAAGGCA
1 ACCTTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
15142779 ACC-TTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* **
15142815 ACCTTTAAAAAAGGTTGGGATCGACC-CATCTAAGGCA
1 ACCTTT-AAAAAGGTTGGGATAGACCTTGTCTAAGGCA
**
15142852 ACC-TTAAAAAGGTTGGGATAGACCTTGTCTAAAACA
1 ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15142888 ACTTTTAAATACGGTTGGGATAGA-CTTGTCTAAGGTA
1 ACCTTTAAA-AAGGTTGGGATAGACCTTGTCTAAGGCA
* * *
15142925 ACC-TTAAAAATGTTAGGG-TAGACAC--GTCTAAAGAA
1 ACCTTTAAAAAGGTT-GGGATAGAC-CTTGTCTAAGGCA
* * * *
15142960 ACC-TTAAAAA-GTTAGGTTAGACAC--GTCTAAAGAA
1 ACCTTTAAAAAGGTTGGGATAGAC-CTTGTCTAAGGCA
* * * **
15142994 ACC-TTAAAAAGGTTATGG-TAGA-C-TATCTAAAGTG
1 ACCTTTAAAAAGGTT-GGGATAGACCTTGTCTAAGGCA
* * *
15143028 AGC-TTAAAAAGGTTGTGG-TAGACC--ATCTAAAGCA
1 ACCTTTAAAAAGGTTG-GGATAGACCTTGTCTAAGGCA
15143062 ACC-TTAAAAAGGTTGGGATAGACC
1 ACCTTTAAAAAGGTTGGGATAGACC
15143086 CATATATAAA
Statistics
Matches: 1250, Mismatches: 179, Indels: 128
0.80 0.11 0.08
Matches are distributed among these distances:
33 5 0.00
34 89 0.07
35 248 0.20
36 217 0.17
37 206 0.16
38 394 0.32
39 55 0.04
40 36 0.03
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (37 bp):
ACCTTTAAAAAGGTTGGGATAGACCTTGTCTAAGGCA
Found at i:15142981 original size:34 final size:35
Alignment explanation
Indices: 15142778--15143084 Score: 190
Period size: 34 Copynumber: 8.7 Consensus size: 35
15142768 CATCTAAGGC
* *
15142778 AACCTTAAAAAGGTT-GGGATAGAC-CTTGTCTAAGGC
1 AACCTTAAAAAGGTTAGGG-TAGACAC--GTCTAAAGA
* * * * *
15142814 AACCTTTAAAAAAGGTT-GGGATCGACCCATCTAAGGC
1 AACC-TT-AAAAAGGTTAGGG-TAGACACGTCTAAAGA
15142851 AACCTTAAAAAGGTT-GGGATAGAC-CTTGTCTAAA-A
1 AACCTTAAAAAGGTTAGGG-TAGACAC--GTCTAAAGA
* * ** * *
15142886 CAACTTTTAAATACGGTT-GGGATAGACTTGTCTAAGGT
1 -AAC-CTTAAA-AAGGTTAGGG-TAGACACGTCTAAAGA
*
15142924 AACCTTAAAAATGTTAGGGTAGACACGTCTAAAGA
1 AACCTTAAAAAGGTTAGGGTAGACACGTCTAAAGA
*
15142959 AACCTTAAAAA-GTTAGGTTAGACACGTCTAAAGA
1 AACCTTAAAAAGGTTAGGGTAGACACGTCTAAAGA
* *
15142993 AACCTTAAAAAGGTTATGGTAGACTA--TCTAAAGT
1 AACCTTAAAAAGGTTAGGGTAGAC-ACGTCTAAAGA
* * * *
15143027 GAGCTTAAAAAGGTT-GTGGTAGAC-CATCTAAAGC
1 AACCTTAAAAAGGTTAG-GGTAGACACGTCTAAAGA
15143061 AACCTTAAAAAGGTT-GGGATAGAC
1 AACCTTAAAAAGGTTAGGG-TAGAC
15143085 CCATATATAA
Statistics
Matches: 226, Mismatches: 28, Indels: 36
0.78 0.10 0.12
Matches are distributed among these distances:
33 2 0.01
34 87 0.38
35 54 0.24
36 23 0.10
37 28 0.12
38 31 0.14
39 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (35 bp):
AACCTTAAAAAGGTTAGGGTAGACACGTCTAAAGA
Found at i:15143269 original size:22 final size:21
Alignment explanation
Indices: 15143234--15143291 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 21
15143224 AGACGATATT
* *
15143234 AATTGAGCAAATAAATAACATA
1 AATTGACCATATAAATAACA-A
*
15143256 AATTGATCATATAAAT-ACAA
1 AATTGACCATATAAATAACAA
15143276 AATT-ACCAT-TAAATAA
1 AATTGACCATATAAATAA
15143292 TTAAGTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 5 0.16
19 5 0.16
20 5 0.16
21 3 0.09
22 14 0.44
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.28
Consensus pattern (21 bp):
AATTGACCATATAAATAACAA
Found at i:15143748 original size:94 final size:94
Alignment explanation
Indices: 15143641--15143833 Score: 305
Period size: 94 Copynumber: 2.1 Consensus size: 94
15143631 CAGTACATCC
*
15143641 CAAACAATGAAGACATCAAATAAGACCCTAACACTCAGTTACAAACACAATGAAATAGCCAAATA
1 CAAACAATGAAGACATCAAATAAGAACCTAACACTCAGTTACAAACACAATGAAATAGCCAAATA
*
15143706 AAAACAATCAATTTCTAATAAACCATCAA
66 AAAACAATCAATGTCTAATAAACCATCAA
* * * **
15143735 CAAACAATGAAGACATCAAATAGGAACCTAACAGTCAGTTACAAACATAATGAAATAGTGAAATA
1 CAAACAATGAAGACATCAAATAAGAACCTAACACTCAGTTACAAACACAATGAAATAGCCAAATA
* *
15143800 ACAACAATCAATGTCTAGTAAACCATCAA
66 AAAACAATCAATGTCTAATAAACCATCAA
15143829 CAAAC
1 CAAAC
15143834 TTATTGACAA
Statistics
Matches: 90, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 90 1.00
ACGTcount: A:0.52, C:0.21, G:0.09, T:0.18
Consensus pattern (94 bp):
CAAACAATGAAGACATCAAATAAGAACCTAACACTCAGTTACAAACACAATGAAATAGCCAAATA
AAAACAATCAATGTCTAATAAACCATCAA
Found at i:15148177 original size:18 final size:18
Alignment explanation
Indices: 15148148--15148191 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
15148138 AAATGTACTA
*
15148148 ACAAAT-AAAATGCGATG
1 ACAAATAAAAATGCAATG
15148165 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
*
15148183 ACAACTAAA
1 ACAAATAAA
15148192 TGAGATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.59, C:0.14, G:0.11, T:0.16
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:15148320 original size:18 final size:19
Alignment explanation
Indices: 15148293--15148331 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
15148283 GGCTCTCATC
*
15148293 TTTGTACTT-CTTTTTCTT
1 TTTGTACTTCCTCTTTCTT
*
15148311 TTTGTCCTTCCTCTTTCTT
1 TTTGTACTTCCTCTTTCTT
15148330 TT
1 TT
15148332 CTTGTCCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.03, C:0.23, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTGTACTTCCTCTTTCTT
Found at i:15155936 original size:41 final size:41
Alignment explanation
Indices: 15155827--15156025 Score: 213
Period size: 41 Copynumber: 4.8 Consensus size: 41
15155817 GGTGTATAAA
** * * * ** *
15155827 AAGGAAGACTCATGTCTCGGGTTGAGCATAAGAAATTGTATA
1 AAGGAAGACTCATGTCTCAAGATGAGAATGAGATTTTG-ATT
*
15155869 AATGGAATACTCATGTCTCGAA-ATGAGAATGAGATTTTGATT
1 AA-GGAAGACTCATGTCTC-AAGATGAGAATGAGATTTTGATT
* *
15155911 AAGGAAGACTCATGTCTCAAGATGAGAATGAGATTATGAAT
1 AAGGAAGACTCATGTCTCAAGATGAGAATGAGATTTTGATT
* *
15155952 AAGAAAAACTCATGTCTCGAA-ATGAGAATGAGATTTTGATT
1 AAGGAAGACTCATGTCTC-AAGATGAGAATGAGATTTTGATT
* *
15155993 AAGGAAGACTCGTGTCTCGAGATGAGAATGAGA
1 AAGGAAGACTCATGTCTCAAGATGAGAATGAGA
15156026 ATATGGTTAA
Statistics
Matches: 132, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.02
41 94 0.71
42 8 0.06
43 27 0.20
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (41 bp):
AAGGAAGACTCATGTCTCAAGATGAGAATGAGATTTTGATT
Found at i:15155976 original size:82 final size:82
Alignment explanation
Indices: 15155877--15156030 Score: 281
Period size: 82 Copynumber: 1.9 Consensus size: 82
15155867 TAAATGGAAT
15155877 ACTCATGTCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCAAGATGAGAATGA
1 ACTCATGTCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCAAGATGAGAATGA
*
15155942 GATTATGAATAAGAAAA
66 GAATATGAATAAGAAAA
* *
15155959 ACTCATGTCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCGTGTCTCGAGATGAGAATGA
1 ACTCATGTCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCAAGATGAGAATGA
15156024 GAATATG
66 GAATATG
15156031 GTTAAAGGAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.27
Consensus pattern (82 bp):
ACTCATGTCTCGAAATGAGAATGAGATTTTGATTAAGGAAGACTCATGTCTCAAGATGAGAATGA
GAATATGAATAAGAAAA
Found at i:15163035 original size:41 final size:40
Alignment explanation
Indices: 15162979--15163163 Score: 226
Period size: 41 Copynumber: 4.5 Consensus size: 40
15162969 TTGTATAAAT
15162979 AGAAGACTCATGTCTCGAAATGAGAATGAGATGTTGATTAA
1 AGAAGACTCATGTCTCGAAATGAGAATGAGAT-TTGATTAA
* *
15163020 AGAAGACTCATGTCTCGAGATGAGAATGAGATTATGAATAA
1 AGAAGACTCATGTCTCGAAATGAGAATGAGATT-TGATTAA
* *
15163061 GGAAGACTCGTGTCTCGAAATGAGAATGAGATTTTGATTAA
1 AGAAGACTCATGTCTCGAAATGAGAATGAGA-TTTGATTAA
* * * * *
15163102 GGAAGACTCGTGTCTCGAGATGAGAATGAGAATATGGTTAA
1 AGAAGACTCATGTCTCGAAATGAGAATGAG-ATTTGATTAA
* *
15163143 AGGAAGACTTATGACTCGAAA
1 A-GAAGACTCATGTCTCGAAA
15163164 GAGCAAAAGG
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
40 1 0.01
41 107 0.85
42 18 0.14
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.25
Consensus pattern (40 bp):
AGAAGACTCATGTCTCGAAATGAGAATGAGATTTGATTAA
Found at i:15163078 original size:82 final size:83
Alignment explanation
Indices: 15162937--15163163 Score: 287
Period size: 82 Copynumber: 2.7 Consensus size: 83
15162927 GTATAAAAAG
* * * * * *
15162937 GAAGACTCATGTCTCGGGTTGAGCATAAGAA-ATTGTATAAATAGAAGACTCATGTCTCGAAATG
1 GAAGACTCATGTCTCGAGATGAGAATGAGAATA-TGAATAAA-GGAAGACTCATGTCTCGAAATG
15163001 AGAATGAGATGTTGATTAAA
64 AGAATGAGATGTTGATTAAA
* *
15163021 GAAGACTCATGTCTCGAGATGAGAATGAGATTATGAAT-AAGGAAGACTCGTGTCTCGAAATGAG
1 GAAGACTCATGTCTCGAGATGAGAATGAGAATATGAATAAAGGAAGACTCATGTCTCGAAATGAG
* *
15163085 AATGAGATTTTGATTAAG
66 AATGAGATGTTGATTAAA
* ** * *
15163103 GAAGACTCGTGTCTCGAGATGAGAATGAGAATATGGTTAAAGGAAGACTTATGACTCGAAA
1 GAAGACTCATGTCTCGAGATGAGAATGAGAATATGAATAAAGGAAGACTCATGTCTCGAAA
15163164 GAGCAAAAGG
Statistics
Matches: 124, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
82 72 0.58
83 21 0.17
84 30 0.24
85 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (83 bp):
GAAGACTCATGTCTCGAGATGAGAATGAGAATATGAATAAAGGAAGACTCATGTCTCGAAATGAG
AATGAGATGTTGATTAAA
Found at i:15172646 original size:13 final size:13
Alignment explanation
Indices: 15172615--15172667 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
15172605 AGTTTAGCAT
15172615 TGCTTTTAAGAAA-
1 TGCTTTTAA-AAAG
15172628 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
* *
15172641 TTCTTTGAAAAAG
1 TGCTTTTAAAAAG
* *
15172654 TGATTTTGAAAAG
1 TGCTTTTAAAAAG
15172667 T
1 T
15172668 TTGGTTTAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 3 0.09
13 30 0.91
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:15173861 original size:63 final size:63
Alignment explanation
Indices: 15173745--15173863 Score: 143
Period size: 63 Copynumber: 1.9 Consensus size: 63
15173735 AAATAACATG
*
15173745 AGTATTTAAACTCGCAAACACCCACTTAAACATTTCATCAGCAACATATAAGGCAACAACCCA
1 AGTATTTAAACTCGCAAACACCCACTTAAACATTTCATCAGCAACATAAAAGGCAACAACCCA
* * * * * *
15173808 AGTATTTAAACTTGCATATA-CCATTTAGACATTTCATCTA-CAATGATAAAAGGCAA
1 AGTATTTAAACTCGCAAACACCCACTTAAACATTTCATC-AGCAA-CATAAAAGGCAA
15173864 TGCCAAATAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
62 19 0.40
63 28 0.60
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (63 bp):
AGTATTTAAACTCGCAAACACCCACTTAAACATTTCATCAGCAACATAAAAGGCAACAACCCA
Found at i:15175598 original size:13 final size:13
Alignment explanation
Indices: 15175575--15175606 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
15175565 CAGGTTTGAT
15175575 GTTTAATATTTAAG
1 GTTT-ATATTTAAG
15175589 GTTTATATTTAAG
1 GTTTATATTTAAG
15175602 GTTTA
1 GTTTA
15175607 AGGATTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (13 bp):
GTTTATATTTAAG
Found at i:15176760 original size:36 final size:36
Alignment explanation
Indices: 15176698--15176997 Score: 254
Period size: 36 Copynumber: 8.3 Consensus size: 36
15176688 TTATTGAATG
* *
15176698 GTTGGGATAGA-CTCGTCTAAGACAACTTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* *
15176733 ATTGGGATAGGCCTTGTCTAAGGCAACTTTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAAC-TTTAAAAAA
* * *
15176770 GGTTGAGATAAACC-TGTCTAAGGCAGCTTTTAAAAAA
1 -GTTGGGATAGACCTTGTCTAAGGCAAC-TTTAAAAAA
* *
15176807 GGTTGGGATAGA-CTTGTCTAAGGCAACCTTAAAAAG
1 -GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * * *
15176843 GTTGAGG-TAAACCTTGTCTAAGGAAACCTTAAAAAG
1 GTTG-GGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * * * *
15176879 GTTGGGATA-AACTCGTCTAAGGTAATTTTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
* * * * *
15176914 GTT-GGATAGACCCTATTTGAGACAACCTTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTT-AAAAAA
* *
15176951 GTTGGGATAGACTTTATCTAAGGCAA-TATTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACT-TTAAAAAA
15176987 GTTGGGATAGA
1 GTTGGGATAGA
15176998 TCTTTCAATT
Statistics
Matches: 217, Mismatches: 36, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
34 5 0.02
35 50 0.23
36 73 0.34
37 63 0.29
38 26 0.12
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (36 bp):
GTTGGGATAGACCTTGTCTAAGGCAACTTTAAAAAA
Found at i:15176946 original size:71 final size:71
Alignment explanation
Indices: 15176725--15176997 Score: 221
Period size: 71 Copynumber: 3.8 Consensus size: 71
15176715 TAAGACAACT
* * * * *
15176725 TTAAAAAA-ATTGGGATAGGCCTTGTCTAAGGCAACTTTTAAAAAAGGTTGAGATA-AACCTGTC
1 TTAAAAAAGGTTGGGATA-GACTTGTCTAAGGCAA-TATT-AAAAAGGTTG-GATAGACCCTATC
* * *
15176788 TAAGGCAGCTT
62 TAAGGAAAC-C
** * * * *
15176799 TTAAAAAAGGTTGGGATAGACTTGTCTAAGGCAACCTTAAAAAGGTTGAGGTAAACCTTGTCTAA
1 TTAAAAAAGGTTGGGATAGACTTGTCTAAGGCAATATTAAAAAGGTTG-GATAGACCCTATCTAA
15176864 GGAAACC
65 GGAAACC
* * * * * *
15176871 TT-AAAAAGGTTGGGATAAACTCGTCTAAGGTAATTTTAAAAAGGTTGGATAGACCCTATTTGA-
1 TTAAAAAAGGTTGGGATAGACTTGTCTAAGGCAATATTAAAAAGGTTGGATAGACCCTATCTAAG
15176934 GACAACC
66 GA-AACC
* * *
15176941 TTTAAAAAAAGTTGGGATAGACTTTATCTAAGGCAATATTAAAAAAGTTGGGATAGA
1 -TTAAAAAAGGTTGGGATAGAC-TTGTCTAAGGCAATATTAAAAAGGTT-GGATAGA
15176998 TCTTTCAATT
Statistics
Matches: 164, Mismatches: 28, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
69 2 0.01
70 14 0.09
71 42 0.26
72 32 0.20
73 36 0.22
74 30 0.18
75 8 0.05
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.28
Consensus pattern (71 bp):
TTAAAAAAGGTTGGGATAGACTTGTCTAAGGCAATATTAAAAAGGTTGGATAGACCCTATCTAAG
GAAACC
Found at i:15176949 original size:108 final size:108
Alignment explanation
Indices: 15176697--15176995 Score: 286
Period size: 108 Copynumber: 2.8 Consensus size: 108
15176687 TTTATTGAAT
* * * **
15176697 GGTTGGGATAGA-CTCGTCTAAGACAACTTTAAAAAAATTGGGATAGGCCTTGTCTAAGGCAACT
1 GGTTGGGATAGACCT-ATCTAAGACAACCTTAAAAAAGTTGGGATAAACCTTGTCTAAGGCAAC-
* * *
15176761 TTTAAAAAAGGTTGAGATAAACCTGTCTAAGGCAGCTTTTAAAAAA
64 ATT-AAAAAGGTTGGGATAAACCTGTCTAAGGCAGATTTTAAAAAA
* * * * * *
15176807 GGTTGGGATAGACTTGTCTAAGGCAACCTTAAAAAGGTTGAGG-TAAACCTTGTCTAAGGAAACC
1 GGTTGGGATAGACCTATCTAAGACAACCTTAAAAAAGTTG-GGATAAACCTTGTCTAAGGCAACA
*
15176871 TTAAAAAGGTTGGGATAAA-CTCGTCTAAGGTA-ATTTT-AAAAA
65 TTAAAAAGGTTGGGATAAACCT-GTCTAAGGCAGATTTTAAAAAA
* * * * *
15176913 GGTT-GGATAGACCCTATTTGAGACAACCTTTAAAAAAAGTTGGGATAGACTTTATCTAAGGCAA
1 GGTTGGGATAGA-CCTATCTAAGACAACC-TT-AAAAAAGTTGGGATAAACCTTGTCTAAGGCAA
* *
15176977 TATTAAAAAAGTTGGGATA
63 CATTAAAAAGGTTGGGATA
15176996 GATCTTTCAA
Statistics
Matches: 157, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
105 7 0.04
106 20 0.13
107 10 0.06
108 65 0.41
109 2 0.01
110 50 0.32
111 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.28
Consensus pattern (108 bp):
GGTTGGGATAGACCTATCTAAGACAACCTTAAAAAAGTTGGGATAAACCTTGTCTAAGGCAACAT
TAAAAAGGTTGGGATAAACCTGTCTAAGGCAGATTTTAAAAAA
Found at i:15177190 original size:21 final size:21
Alignment explanation
Indices: 15177166--15177217 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 21
15177156 CCAAATCAAT
15177166 AATAAATAAAATATAAG-TATA
1 AATAAATAAAAT-TAAGATATA
*
15177187 AAT-AATATAATTAAGAATATA
1 AATAAATAAAATTAAG-ATATA
15177208 AATAACATAA
1 AATAA-ATAA
15177218 TTTAAGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 4 0.16
20 7 0.28
21 10 0.40
22 1 0.04
23 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (21 bp):
AATAAATAAAATTAAGATATA
Found at i:15177218 original size:21 final size:22
Alignment explanation
Indices: 15177183--15177224 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
15177173 AAAATATAAG
*
15177183 TATAAATAATATAA-TTAAGAA
1 TATAAATAACATAATTTAAGAA
15177204 TATAAATAACATAATTTAAGA
1 TATAAATAACATAATTTAAGA
15177225 GGAGAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (22 bp):
TATAAATAACATAATTTAAGAA
Found at i:15178355 original size:21 final size:22
Alignment explanation
Indices: 15178297--15178407 Score: 122
Period size: 21 Copynumber: 5.2 Consensus size: 22
15178287 ATTATATTGT
*
15178297 TGTTTTGG-TGCTGTTTTTTTAC
1 TGTTTTGGTTGCT-ATTTTTTAC
*
15178319 TGTTTTGGTTGCTATTTTTTGC
1 TGTTTTGGTTGCTATTTTTTAC
*
15178341 TGTTTTTGTTG-TATTTTTTAC
1 TGTTTTGGTTGCTATTTTTTAC
* * *
15178362 TATTTTGG-TGCTTTTTTTTAT
1 TGTTTTGGTTGCTATTTTTTAC
*
15178383 TGTTTTGGTTGTTA-TTTTTAC
1 TGTTTTGGTTGCTATTTTTTAC
15178404 TGTT
1 TGTT
15178408 ATTTTTGTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
20 2 0.03
21 40 0.54
22 28 0.38
23 4 0.05
ACGTcount: A:0.07, C:0.06, G:0.19, T:0.68
Consensus pattern (22 bp):
TGTTTTGGTTGCTATTTTTTAC
Found at i:15178380 original size:42 final size:44
Alignment explanation
Indices: 15178311--15178401 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 44
15178301 TTGGTGCTGT
* * *
15178311 TTTTTTACTGTTTTGGTTGCTATTTTTTGCTGTTTTTGTTG-TA
1 TTTTTTACTATTTTGGTTGCTATTTTTTACTGTTTTGGTTGTTA
* *
15178354 TTTTTTACTATTTTGG-TGCTTTTTTTTATTGTTTTGGTTGTTA
1 TTTTTTACTATTTTGGTTGCTATTTTTTACTGTTTTGGTTGTTA
15178397 TTTTT
1 TTTTT
15178402 ACTGTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 20 0.48
43 22 0.52
ACGTcount: A:0.08, C:0.05, G:0.16, T:0.70
Consensus pattern (44 bp):
TTTTTTACTATTTTGGTTGCTATTTTTTACTGTTTTGGTTGTTA
Found at i:15178400 original size:12 final size:12
Alignment explanation
Indices: 15178385--15178519 Score: 88
Period size: 12 Copynumber: 11.9 Consensus size: 12
15178375 TTTTTTATTG
*
15178385 TTTTGGTTGTTA
1 TTTTTGTTGTTA
**
15178397 TTTTTACTGTTA
1 TTTTTGTTGTTA
** *
15178409 TTTTTGTTACTG
1 TTTTTGTTGTTA
15178421 TTTTTG-TGTTA
1 TTTTTGTTGTTA
*
15178432 TTTTTGCTGTTA
1 TTTTTGTTGTTA
*
15178444 TTTTTGTTGCTA
1 TTTTTGTTGTTA
15178456 -TTTTGTTG---
1 TTTTTGTTGTTA
**
15178464 TTTTTAATGTTA
1 TTTTTGTTGTTA
*
15178476 --TTTGCTGTTA
1 TTTTTGTTGTTA
* *
15178486 TTTTTGCTGCTA
1 TTTTTGTTGTTA
15178498 -TTTTGTTGTTA
1 TTTTTGTTGTTA
*
15178509 TTTTTATTGTT
1 TTTTTGTTGTT
15178520 TAGATGTTAT
Statistics
Matches: 94, Mismatches: 21, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
9 6 0.06
10 8 0.09
11 25 0.27
12 55 0.59
ACGTcount: A:0.10, C:0.05, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:15178431 original size:35 final size:36
Alignment explanation
Indices: 15178373--15178519 Score: 118
Period size: 35 Copynumber: 4.0 Consensus size: 36
15178363 ATTTTGGTGC
* *
15178373 TTTTTTTTATTGTTTTGGTTGTTATTTTTACTGTTA
1 TTTTTGTTACTGTTTTGGTTGTTATTTTTACTGTTA
* *
15178409 TTTTTGTTACTGTTTTTG-TGTTATTTTTGCTGTTA
1 TTTTTGTTACTGTTTTGGTTGTTATTTTTACTGTTA
* * * *
15178444 TTTTTGTTGCTATTTTGTTGTTTTTAATGTTATTTGCTGTTA
1 TTTTTGTTACTGTTTTG--GTTGTT-A--TT-TTTACTGTTA
* * * *
15178486 TTTTTGCTGCTATTTT-GTTGTTATTTTTATTGTT
1 TTTTTGTTACTGTTTTGGTTGTTATTTTTACTGTT
15178520 TAGATGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
35 37 0.40
36 17 0.18
37 1 0.01
38 4 0.04
39 6 0.07
41 2 0.02
42 25 0.27
ACGTcount: A:0.10, C:0.05, G:0.16, T:0.69
Consensus pattern (36 bp):
TTTTTGTTACTGTTTTGGTTGTTATTTTTACTGTTA
Found at i:15178447 original size:23 final size:22
Alignment explanation
Indices: 15178344--15178513 Score: 93
Period size: 23 Copynumber: 7.7 Consensus size: 22
15178334 TTTTTGCTGT
**
15178344 TTTTGTTG-TATTTTT-TACTA
1 TTTTGTTGTTATTTTTGTGTTA
* * *
15178364 TTTTGGTGCTT-TTTTT-TATTG
1 TTTTGTTG-TTATTTTTGTGTTA
*
15178385 TTTTGGTTGTTATTTTTACTGTTA
1 TTTT-GTTGTTATTTTT-GTGTTA
** *
15178409 TTTTTGTTACTGTTTTTGTGTTA
1 -TTTTGTTGTTATTTTTGTGTTA
* *
15178432 TTTTTGCTGTTATTTTTGTTGCTA
1 -TTTTGTTGTTATTTTTG-TGTTA
**
15178456 TTTTGTTG-T-TTTTAATGTTA
1 TTTTGTTGTTATTTTTGTGTTA
* *
15178476 -TTTGCTGTTATTTTTGCTGCTA
1 TTTTGTTGTTATTTTTG-TGTTA
15178498 TTTTGTTGTTATTTTT
1 TTTTGTTGTTATTTTT
15178514 ATTGTTTAGA
Statistics
Matches: 114, Mismatches: 24, Indels: 21
0.72 0.15 0.13
Matches are distributed among these distances:
19 6 0.05
20 12 0.11
21 22 0.19
22 14 0.12
23 40 0.35
24 16 0.14
25 4 0.04
ACGTcount: A:0.10, C:0.05, G:0.16, T:0.69
Consensus pattern (22 bp):
TTTTGTTGTTATTTTTGTGTTA
Found at i:15178467 original size:20 final size:20
Alignment explanation
Indices: 15178439--15178504 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
15178429 TTATTTTTGC
*
15178439 TGTTATTTTTGTTGCTATTT
1 TGTTATTTTTGATGCTATTT
* * *
15178459 TGTTGTTTTTAATGTTATTT
1 TGTTATTTTTGATGCTATTT
*
15178479 GCTGTTATTTTTGCTGCTATTT
1 --TGTTATTTTTGATGCTATTT
15178501 TGTT
1 TGTT
15178505 GTTATTTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 20 0.56
22 16 0.44
ACGTcount: A:0.11, C:0.06, G:0.17, T:0.67
Consensus pattern (20 bp):
TGTTATTTTTGATGCTATTT
Found at i:15183507 original size:40 final size:40
Alignment explanation
Indices: 15183416--15183497 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
15183406 CTTAGGAATA
*
15183416 TTAACAAGTGGATGTGGGATTAGTTTATGACTATTTAAGG
1 TTAACAAGTGGACGTGGGATTAGTTTATGACTATTTAAGG
15183456 TTAACAAGTGGACGTGGGATTAGTTTATGACTATTTAAGG
1 TTAACAAGTGGACGTGGGATTAGTTTATGACTATTTAAGG
15183496 TT
1 TT
15183498 TCTTAGTGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.29, C:0.06, G:0.27, T:0.38
Consensus pattern (40 bp):
TTAACAAGTGGACGTGGGATTAGTTTATGACTATTTAAGG
Found at i:15186212 original size:13 final size:13
Alignment explanation
Indices: 15186194--15186247 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
15186184 AACATTTATT
15186194 ATAAATAAATTTC
1 ATAAATAAATTTC
*
15186207 ATAAATAAAATT-
1 ATAAATAAATTTC
* *
15186219 AAAAATAAATTTT
1 ATAAATAAATTTC
* *
15186232 ATAAACATATTTC
1 ATAAATAAATTTC
15186245 ATA
1 ATA
15186248 TGTGTTTAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
12 10 0.30
13 23 0.70
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAATAAATTTC
Found at i:15190036 original size:14 final size:15
Alignment explanation
Indices: 15190009--15190039 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
15189999 ACTTGATTAT
15190009 AATAAAACTAATAAA
1 AATAAAACTAATAAA
15190024 AATAAAA-TAATAAA
1 AATAAAACTAATAAA
15190038 AA
1 AA
15190040 ATGAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AATAAAACTAATAAA
Found at i:15198282 original size:3 final size:3
Alignment explanation
Indices: 15198274--15198316 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
15198264 CTCAAGTATC
15198274 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
15198317 GCTTTGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15198635 original size:17 final size:18
Alignment explanation
Indices: 15198603--15198637 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15198593 GTCTGAAGAA
*
15198603 TTTTGTGTTTACGTTTTT
1 TTTTGGGTTTACGTTTTT
15198621 TTTTGGGTTTA-GTTTTT
1 TTTTGGGTTTACGTTTTT
15198638 ATCTCCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.06, C:0.03, G:0.20, T:0.71
Consensus pattern (18 bp):
TTTTGGGTTTACGTTTTT
Found at i:15199980 original size:26 final size:26
Alignment explanation
Indices: 15199948--15199998 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
15199938 TACCATTTAC
15199948 AGTTTACCATTTA-TCTTTCAGTATTT
1 AGTTTACCATTTACT-TTTCAGTATTT
15199974 AGTTTACCATTTACTTTTCAGTATT
1 AGTTTACCATTTACTTTTCAGTATT
15199999 ATTTATTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.24, C:0.16, G:0.08, T:0.53
Consensus pattern (26 bp):
AGTTTACCATTTACTTTTCAGTATTT
Found at i:15202592 original size:13 final size:12
Alignment explanation
Indices: 15202542--15202595 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 12
15202532 GTACTAAAAA
15202542 TAATTAAATATTT
1 TAATT-AATATTT
*
15202555 AAATTACATATTT
1 TAATTA-ATATTT
15202568 ATAATT-ATATTT
1 -TAATTAATATTT
15202580 TAATTAATAATTT
1 TAATTAAT-ATTT
15202593 TAA
1 TAA
15202596 AATTGTCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 5 0.14
12 9 0.26
13 17 0.49
14 4 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATTAATATTT
Found at i:15203696 original size:2 final size:2
Alignment explanation
Indices: 15203691--15203721 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
15203681 CGTATCTCTC
15203691 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15203722 AGTTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15204172 original size:69 final size:69
Alignment explanation
Indices: 15204060--15204211 Score: 214
Period size: 69 Copynumber: 2.2 Consensus size: 69
15204050 TAACCTGTAA
* * * * * *
15204060 TGCTCACACAAGCTGTGAAGTGGGCCTGCTCACATAAGATGTGGGTCGAGATGTTAGGCTACATG
1 TGCTCATACGAGCTATGAAGTGGGCCTACTCACACAAGATGTGGGTCGAGATGTTAGGCTACACG
15204125 AAGC
66 AAGC
* * *
15204129 TGCTCATACGAGCTATGAAGTGGTCCTACTCACACGAGTTGTGGGTCGAGATGTTAGGCTACACG
1 TGCTCATACGAGCTATGAAGTGGGCCTACTCACACAAGATGTGGGTCGAGATGTTAGGCTACACG
*
15204194 ATGC
66 AAGC
15204198 TGCTCATACGAGCT
1 TGCTCATACGAGCT
15204212 GTAAAGAATC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
69 73 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (69 bp):
TGCTCATACGAGCTATGAAGTGGGCCTACTCACACAAGATGTGGGTCGAGATGTTAGGCTACACG
AAGC
Found at i:15208775 original size:25 final size:26
Alignment explanation
Indices: 15208741--15208794 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
15208731 AGAAAATAAC
* * *
15208741 AAAAATAAAATCTACTCTAA-AAAGA
1 AAAAAGAAAACCTAATCTAAGAAAGA
*
15208766 AAAAAGAAAACCTAATCTAAGAATGA
1 AAAAAGAAAACCTAATCTAAGAAAGA
15208792 AAA
1 AAA
15208795 GAAAAGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.65, C:0.11, G:0.07, T:0.17
Consensus pattern (26 bp):
AAAAAGAAAACCTAATCTAAGAAAGA
Found at i:15208798 original size:5 final size:5
Alignment explanation
Indices: 15208790--15208820 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
15208780 ATCTAAGAAT
15208790 GAAAA GAAAA GAAAA GGAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA -GAAAA GAAAA GAAAA
15208821 CCTAACCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:15208811 original size:16 final size:16
Alignment explanation
Indices: 15208790--15208820 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15208780 ATCTAAGAAT
15208790 GAAAAGAAAAGAAAAG
1 GAAAAGAAAAGAAAAG
15208806 GAAAAGAAAAGAAAA
1 GAAAAGAAAAGAAAA
15208821 CCTAACCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAAAGAAAAGAAAAG
Found at i:15212465 original size:57 final size:58
Alignment explanation
Indices: 15212402--15212529 Score: 150
Period size: 64 Copynumber: 2.1 Consensus size: 58
15212392 TCCATAAGAT
* * *
15212402 TGTACCAAGT-ATGCATGATTCATTTTAATCACATTTTCTGTCATCAATTTATAAAAA
1 TGTACCAAATCATACATGATTCATTTTAATCACATTTTCTATCATCAATTTATAAAAA
*
15212459 TGTACCATTTGCAAATCATACATGATTCATTTTAATTACATTTTCTATCATCAATTTATAAAAA
1 TGTA-C-----CAAATCATACATGATTCATTTTAATCACATTTTCTATCATCAATTTATAAAAA
*
15212523 TATACCA
1 TGTACCA
15212530 TTTACATATC
Statistics
Matches: 59, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
57 4 0.07
58 3 0.05
63 5 0.08
64 47 0.80
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (58 bp):
TGTACCAAATCATACATGATTCATTTTAATCACATTTTCTATCATCAATTTATAAAAA
Found at i:15212540 original size:32 final size:31
Alignment explanation
Indices: 15212442--15212540 Score: 76
Period size: 32 Copynumber: 3.1 Consensus size: 31
15212432 ACATTTTCTG
* *
15212442 TCATCAATTTATAAAAATGTACCATTTGCAAA
1 TCATCAATTTATAAAAAT-TACCATTTACATA
* *** *
15212474 TCATACATGATTCATTTTAATTA-CATTTTC-TA
1 TCAT-CA--ATTTATAAAAATTACCATTTACATA
15212506 TCATCAATTTATAAAAATATACCATTTACATA
1 TCATCAATTTATAAAAAT-TACCATTTACATA
15212538 TCA
1 TCA
15212541 AACTTTCAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
29 8 0.16
30 2 0.04
31 8 0.16
32 14 0.28
33 8 0.16
34 2 0.04
35 8 0.16
ACGTcount: A:0.40, C:0.16, G:0.03, T:0.40
Consensus pattern (31 bp):
TCATCAATTTATAAAAATTACCATTTACATA
Found at i:15214533 original size:23 final size:23
Alignment explanation
Indices: 15214507--15214587 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 23
15214497 TTCATATTTT
15214507 AAATAAAAATTTATAATTTAAAA
1 AAATAAAAATTTATAATTTAAAA
* *
15214530 AAATGAAAA-TTATAATATGAAAA
1 AAATAAAAATTTATAAT-TTAAAA
* * * *
15214553 AAA-ATATATTTA-AAATTCAAA
1 AAATAAAAATTTATAATTTAAAA
15214574 AAATAAATAATTTA
1 AAATAAA-AATTTA
15214588 AAAATAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
21 7 0.16
22 13 0.30
23 24 0.55
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATAAAAATTTATAATTTAAAA
Found at i:15214588 original size:23 final size:22
Alignment explanation
Indices: 15214549--15214598 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
15214539 TTATAATATG
*
15214549 AAAAAAAATATATTTAAAATTCA
1 AAAAAAAATATATTTAAAAAT-A
15214572 AAAAATAAATA-ATTTAAAAATA
1 AAAAA-AAATATATTTAAAAATA
15214594 AAAAA
1 AAAAA
15214599 GTTTCAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 14 0.56
24 5 0.20
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAAAATATATTTAAAAATA
Found at i:15215051 original size:29 final size:29
Alignment explanation
Indices: 15214992--15215049 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
15214982 ATTATTTTTT
*
15214992 TTATATTTTAAAGAAAAAAAGTTTAAAAA
1 TTATATTTTAAAGAAAAAAAATTTAAAAA
15215021 TTATATTTTAAA-AATGAAAAAATTTAAAA
1 TTATATTTTAAAGAA--AAAAAATTTAAAA
15215050 TTCAAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 12 0.46
30 12 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
TTATATTTTAAAGAAAAAAAATTTAAAAA
Found at i:15215276 original size:24 final size:23
Alignment explanation
Indices: 15215240--15215290 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
15215230 AATGGGATCG
*
15215240 ATTTTATAATTTTATAATATTTTT
1 ATTTTATAATTTTATAATA-ATTT
*
15215264 ATTTT-TAATTTTTTTAATAATTT
1 ATTTTATAA-TTTTATAATAATTT
15215287 ATTT
1 ATTT
15215291 GCTTTGAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTTATAATTTTATAATAATTT
Found at i:15215507 original size:37 final size:38
Alignment explanation
Indices: 15215443--15215518 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 38
15215433 TTGAATTTTG
* *
15215443 GAATTTTTATATTTTAAAATCATTTTTTTAAATTTTAAA
1 GAATTTTTATATTTTAAAATCA-TTTTTAAAAATTTAAA
*
15215482 GAATTTTTATTTTTTAATAA-C-TTTTTAAAAATTTAAA
1 GAATTTTTATATTTTAA-AATCATTTTTAAAAATTTAAA
15215519 AAGTTATCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
39 17 0.52
40 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (38 bp):
GAATTTTTATATTTTAAAATCATTTTTAAAAATTTAAA
Found at i:15215703 original size:13 final size:13
Alignment explanation
Indices: 15215685--15215709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15215675 CGTTAACTTT
15215685 AACGGAAAAATTA
1 AACGGAAAAATTA
15215698 AACGGAAAAATT
1 AACGGAAAAATT
15215710 GAGATTATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.08, G:0.16, T:0.16
Consensus pattern (13 bp):
AACGGAAAAATTA
Found at i:15220011 original size:3 final size:3
Alignment explanation
Indices: 15220003--15220046 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
15219993 AATGAAATAC
15220003 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15220047 CAATTTAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15220184 original size:25 final size:24
Alignment explanation
Indices: 15220142--15220262 Score: 72
Period size: 25 Copynumber: 5.0 Consensus size: 24
15220132 AATCAAAATT
*
15220142 AATAAAATACTAAATTGAATTTGAA
1 AATAAAATACTAAATTGAAATT-AA
**
15220167 AATAAAATACTAGTTTGAAATTAA
1 AATAAAATACTAAATTGAAATTAA
* * *
15220191 AATTATAGT-TTAAATTTGAAATTAA
1 AA-TAAAATACTAAA-TTGAAATTAA
* * *
15220216 AATTGAAAT--TACATTTGAAATGAA
1 AA-TAAAATACTA-AATTGAAATTAA
*
15220240 AATTAAATA--AAATTGAAATTAA
1 AATAAAATACTAAATTGAAATTAA
15220262 A
1 A
15220263 GTTGAAAAGA
Statistics
Matches: 76, Mismatches: 16, Indels: 11
0.74 0.16 0.11
Matches are distributed among these distances:
22 11 0.14
23 6 0.08
24 19 0.25
25 40 0.53
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (24 bp):
AATAAAATACTAAATTGAAATTAA
Found at i:15220195 original size:6 final size:6
Alignment explanation
Indices: 15220184--15220282 Score: 51
Period size: 6 Copynumber: 16.7 Consensus size: 6
15220174 TACTAGTTTG
** * * * * * *
15220184 AAATTA AAATTA TAGTTTA AATTTG AAATTA AAATTG AAATTA CATTTG
1 AAATTA AAATTA -AAATTA AAATTA AAATTA AAATTA AAATTA AAATTA
* * * *
15220233 AAATGA AAATT- AAA-TA AAATTG AAATTA AAGTTGA AAA-GA AAATTA
1 AAATTA AAATTA AAATTA AAATTA AAATTA AAATT-A AAATTA AAATTA
15220279 AAAT
1 AAAT
15220283 CCGAATTAAA
Statistics
Matches: 66, Mismatches: 22, Indels: 10
0.67 0.22 0.10
Matches are distributed among these distances:
4 1 0.02
5 10 0.15
6 48 0.73
7 7 0.11
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (6 bp):
AAATTA
Found at i:15220214 original size:19 final size:19
Alignment explanation
Indices: 15220161--15220206 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
15220151 CTAAATTGAA
*
15220161 TTTGAAAATAAAA-TACTAG
1 TTTGAAATTAAAATTA-TAG
15220180 TTTGAAATTAAAATTATAG
1 TTTGAAATTAAAATTATAG
15220199 TTT-AAATT
1 TTTGAAATT
15220207 TGAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 5 0.20
19 18 0.72
20 2 0.08
ACGTcount: A:0.48, C:0.02, G:0.09, T:0.41
Consensus pattern (19 bp):
TTTGAAATTAAAATTATAG
Done.