Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
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: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 70 of 73
Found at i:16098989 original size:22 final size:22
Alignment explanation
Indices: 16098964--16099011 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
16098954 GATTTAATAC
16098964 TAATGATTTAATAATAATAATT
1 TAATGATTTAATAATAATAATT
* * *
16098986 TAATGATTTGATACTAATGATT
1 TAATGATTTAATAATAATAATT
16099008 TAAT
1 TAAT
16099012 AATGATTACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (22 bp):
TAATGATTTAATAATAATAATT
Found at i:16099026 original size:13 final size:11
Alignment explanation
Indices: 16098896--16099029 Score: 69
Period size: 14 Copynumber: 11.1 Consensus size: 11
16098886 AATGCTATTA
*
16098896 ATTTAATAATA
1 ATTTAATAATG
16098907 ATTACTAATAATG
1 ATT--TAATAATG
16098920 ATTTAATATTAATG
1 ATTT-A-A-TAATG
*
16098934 ATTTAATAATA
1 ATTTAATAATG
16098945 ATATT--TAATG
1 AT-TTAATAATG
16098955 ATTTAATACTAATG
1 ATTT-A-A-TAATG
16098969 ATTTAATAAT-
1 ATTTAATAATG
*
16098979 A-ATAATTTAATG
1 ATTTAA--TAATG
16098991 ATTTGATACTAATG
1 ATTT-A-A-TAATG
16099005 ATTTAATAATG
1 ATTTAATAATG
16099016 ATTACTAATAATG
1 ATT--TAATAATG
16099029 A
1 A
16099030 AATTATAATA
Statistics
Matches: 98, Mismatches: 6, Indels: 36
0.70 0.04 0.26
Matches are distributed among these distances:
9 5 0.05
10 7 0.07
11 26 0.27
12 7 0.07
13 24 0.24
14 28 0.29
15 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.44
Consensus pattern (11 bp):
ATTTAATAATG
Found at i:16099396 original size:20 final size:21
Alignment explanation
Indices: 16099360--16099399 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16099350 GAATTGTTAA
*
16099360 AAATATTAATGTTTTAGGTAG
1 AAATAATAATGTTTTAGGTAG
16099381 AAATAATAAT-TTTTAGGTA
1 AAATAATAATGTTTTAGGTA
16099400 ATTTTTTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (21 bp):
AAATAATAATGTTTTAGGTAG
Found at i:16099574 original size:7 final size:7
Alignment explanation
Indices: 16099564--16099657 Score: 56
Period size: 7 Copynumber: 14.0 Consensus size: 7
16099554 TATAATTTTC
16099564 TATTTAA
1 TATTTAA
**
16099571 TATTTTT
1 TATTTAA
16099578 TATTTTAA
1 TA-TTTAA
16099586 TATTTAA
1 TATTTAA
**
16099593 -ATGAAA
1 TATTTAA
*
16099599 TCTTTAA
1 TATTTAA
16099606 T-TTT-A
1 TATTTAA
16099611 TATTTTAA
1 TA-TTTAA
16099619 TATTTAA
1 TATTTAA
*
16099626 -ATTAAA
1 TATTTAA
*
16099632 TCTTTAA
1 TATTTAA
*
16099639 T-TTTTA
1 TATTTAA
16099645 T-TTTAA
1 TATTTAA
16099651 TATTTAA
1 TATTTAA
16099658 ATATAAAGTT
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
5 2 0.03
6 22 0.33
7 34 0.52
8 8 0.12
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (7 bp):
TATTTAA
Found at i:16099581 original size:14 final size:15
Alignment explanation
Indices: 16099558--16099590 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16099548 AAAAAATATA
16099558 ATTTTCTA-TTTAAT
1 ATTTTCTATTTTAAT
*
16099572 ATTTTTTATTTTAAT
1 ATTTTCTATTTTAAT
16099587 ATTT
1 ATTT
16099591 AAATGAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTCTATTTTAAT
Found at i:16099606 original size:20 final size:19
Alignment explanation
Indices: 16099581--16099644 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 19
16099571 TATTTTTTAT
16099581 TTTAATATTTAAATGAAATC
1 TTTAATATTTAAAT-AAATC
16099601 TTTAAT-TTT--AT--AT-
1 TTTAATATTTAAATAAATC
16099614 TTTAATATTTAAATTAAATC
1 TTTAATATTTAAA-TAAATC
*
16099634 TTTAATTTTTA
1 TTTAATATTTA
16099645 TTTTAATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 6 0.17
14 5 0.14
16 1 0.03
17 3 0.08
19 5 0.14
20 16 0.44
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAATATTTAAATAAATC
Found at i:16099650 original size:20 final size:19
Alignment explanation
Indices: 16099605--16099661 Score: 51
Period size: 20 Copynumber: 2.9 Consensus size: 19
16099595 GAAATCTTTA
*
16099605 ATTTTATATTTTAATATTT
1 ATTTTAAATTTTAATATTT
** *
16099624 AAATTAAATCTTTAATTTTT
1 ATTTTAAAT-TTTAATATTT
*
16099644 ATTTTAATATTTAAATAT
1 ATTTTAA-ATTTTAATAT
16099662 AAAGTTCATT
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 6 0.21
20 20 0.71
21 2 0.07
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTAAATTTTAATATTT
Found at i:16099652 original size:32 final size:32
Alignment explanation
Indices: 16099574--16099664 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 32
16099564 TATTTAATAT
*
16099574 TTTTTATTTTAATATTTAAATGAAATCTTTAA
1 TTTTTATTTTAATATTTAAATTAAATCTTTAA
16099606 TTTTATATTTTAATATTTAAATTAAATCTTTAA
1 TTTT-TATTTTAATATTTAAATTAAATCTTTAA
16099639 TTTTTATTTTAATATTTAAATATAAA
1 TTTTTATTTTAATATTTAAAT-TAAA
16099665 GTTCATTGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
32 21 0.38
33 35 0.62
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (32 bp):
TTTTTATTTTAATATTTAAATTAAATCTTTAA
Found at i:16102611 original size:2 final size:2
Alignment explanation
Indices: 16102604--16102629 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16102594 TGTTTGTTTG
16102604 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
16102630 TTATTAGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16107978 original size:2 final size:2
Alignment explanation
Indices: 16107971--16107999 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16107961 TTATTTTGAT
16107971 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16108000 CATACCAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16116239 original size:17 final size:17
Alignment explanation
Indices: 16116214--16116248 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16116204 TTTTAAATCA
16116214 CAAAATAACCAAAAGAC
1 CAAAATAACCAAAAGAC
* *
16116231 CAAATTAACCGAAAGAC
1 CAAAATAACCAAAAGAC
16116248 C
1 C
16116249 CCTCTACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.26, G:0.09, T:0.09
Consensus pattern (17 bp):
CAAAATAACCAAAAGAC
Found at i:16119995 original size:38 final size:36
Alignment explanation
Indices: 16119903--16120001 Score: 155
Period size: 36 Copynumber: 2.7 Consensus size: 36
16119893 GTTAATATTC
*
16119903 AATAAG-AAAATACCCAAATTTCTTATGAAACCTTT
1 AATAAGAAAAATACTCAAATTTCTTATGAAACCTTT
*
16119938 AATAAGAAAAATACTCAAATTTCTTATGAAACTTTT
1 AATAAGAAAAATACTCAAATTTCTTATGAAACCTTT
16119974 AATAAGAAAAAAATACTCAAATTTCTTA
1 AATAAG--AAAAATACTCAAATTTCTTA
16120002 CAAAACCTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
35 6 0.10
36 33 0.56
38 20 0.34
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.32
Consensus pattern (36 bp):
AATAAGAAAAATACTCAAATTTCTTATGAAACCTTT
Found at i:16124534 original size:17 final size:18
Alignment explanation
Indices: 16124508--16124542 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
16124498 TGATGTTTAA
*
16124508 CAAAATAAAATAA-TTTT
1 CAAAAGAAAATAACTTTT
16124525 CAAAAGAAAATAACTTTT
1 CAAAAGAAAATAACTTTT
16124543 TATTACTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (18 bp):
CAAAAGAAAATAACTTTT
Found at i:16125826 original size:56 final size:56
Alignment explanation
Indices: 16125740--16125851 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
16125730 GAACGATTGA
* * *
16125740 AGATCAACATTCTCCATGCTTTCCAATTCTCTAAGTAGCAGATTAAGAATCAACAT
1 AGATCAACATTCTCCATGCTTTCCAATTCTCTAAGAAGAAGATTAAGAAACAACAT
16125796 AGATCAACATTCTCCATGCTTTCCAATTCTCTAAGAAGAAGATTAAGAAACAACAT
1 AGATCAACATTCTCCATGCTTTCCAATTCTCTAAGAAGAAGATTAAGAAACAACAT
16125852 TCCCCATACT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (56 bp):
AGATCAACATTCTCCATGCTTTCCAATTCTCTAAGAAGAAGATTAAGAAACAACAT
Found at i:16127775 original size:141 final size:141
Alignment explanation
Indices: 16127521--16127798 Score: 405
Period size: 141 Copynumber: 2.0 Consensus size: 141
16127511 CTGTTCTCTA
*
16127521 GTCAGGCACTGGACTTGACATAAGCTCAACAGGTGAGGGAGCAGGTTCAACCACAGCAGATGACT
1 GTCAGGCACTGGACTTGACATAAGCTCAACAGCTGAGGGAGCAGGTTCAACCACAGCAGATGACT
* * * *
16127586 CTTCAACACTGTCTGAAAATTCAAAAGTTATATGCAGGAGTGTACTATGTGGTTCTATAAATTCT
66 CTTCAACACTGTCTGAAAATTCAAAAGTTATAGGAAGGAGTGTACTATGTGGTTCCACAAATTCT
16127651 AGAGCCTCTGG
131 AGAGCCTCTGG
* * * * *
16127662 GTCAGGCACTGGACTTGACATAGGTTCAACAGCTGAGGGAGCAGGTTCATCCTCAGTAGATGACT
1 GTCAGGCACTGGACTTGACATAAGCTCAACAGCTGAGGGAGCAGGTTCAACCACAGCAGATGACT
* * * *
16127727 GTTTAACA-TGGTCTGAAAATTCAGAAGTTGTAGGAAGGAGTGTACTATGTGGTTCCACAAATTC
66 CTTCAACACT-GTCTGAAAATTCAAAAGTTATAGGAAGGAGTGTACTATGTGGTTCCACAAATTC
*
16127791 TGGAGCCT
130 TAGAGCCT
16127799 AAGAGACTAT
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
140 1 0.01
141 120 0.99
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (141 bp):
GTCAGGCACTGGACTTGACATAAGCTCAACAGCTGAGGGAGCAGGTTCAACCACAGCAGATGACT
CTTCAACACTGTCTGAAAATTCAAAAGTTATAGGAAGGAGTGTACTATGTGGTTCCACAAATTCT
AGAGCCTCTGG
Found at i:16130078 original size:30 final size:30
Alignment explanation
Indices: 16130044--16130103 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
16130034 CCCGAAGGAC
16130044 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
16130074 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
16130104 ACTGTCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:16135310 original size:21 final size:21
Alignment explanation
Indices: 16135286--16135325 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16135276 GATAATTTTT
* *
16135286 TTTTGGATTAAAATGATTATC
1 TTTTGAATAAAAATGATTATC
*
16135307 TTTTGAATAAAAATTATTA
1 TTTTGAATAAAAATGATTA
16135326 GTTAAGTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (21 bp):
TTTTGAATAAAAATGATTATC
Found at i:16136161 original size:27 final size:28
Alignment explanation
Indices: 16136122--16136174 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
16136112 CTGACCCTAT
16136122 CAAAAAATTATATATCCTCTAACTAACC
1 CAAAAAATTATATATCCTCTAACTAACC
*
16136150 CAAAAAA-TATATATCCTCTACCTAA
1 CAAAAAATTATATATCCTCTAACTAA
16136175 ATCCGACCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (28 bp):
CAAAAAATTATATATCCTCTAACTAACC
Found at i:16137879 original size:14 final size:14
Alignment explanation
Indices: 16137860--16137889 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
16137850 CCCGTTGACT
16137860 TTAACTGTTGATCG
1 TTAACTGTTGATCG
16137874 TTAACTGTTGATCG
1 TTAACTGTTGATCG
16137888 TT
1 TT
16137890 GGCTTTAACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (14 bp):
TTAACTGTTGATCG
Found at i:16141156 original size:3 final size:3
Alignment explanation
Indices: 16141137--16141204 Score: 91
Period size: 3 Copynumber: 22.0 Consensus size: 3
16141127 TTGTAATATT
*
16141137 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
16141184 TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
16141205 ATTTAAATGA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:16141455 original size:76 final size:76
Alignment explanation
Indices: 16141333--16142274 Score: 1724
Period size: 76 Copynumber: 12.4 Consensus size: 76
16141323 GAAATGTTGA
* * *
16141333 AAACATCATGCATTGAAGGACTTACAGATGACCCTG-AGGGTTTGAAAACATCAAAAAGCTCCCG
1 AAACATCATGCACTGAAGGGCTTACAGATGACCC-GAAGGCTTTGAAAACATCAAAAAGCTCCCG
*
16141397 AAGGCTTTTTGA
65 AAGGCTTTTTGG
*
16141409 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16141474 AGGCTTTTTGG
66 AGGCTTTTTGG
*
16141485 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACACCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16141550 AGGCTTTTTGG
66 AGGCTTTTTGG
*
16141561 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCGAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16141626 AGGCTTTTTGG
66 AGGCTTTTTGG
*
16141637 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16141702 AGGCTTTTTGG
66 AGGCTTTTTGG
16141713 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16141778 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
16141789 AAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16141854 AGGCTTTTTGG
66 AGGCTTTTTGG
16141865 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
16141930 AGGATTTTTGG
66 AGGCTTTTTGG
*
16141941 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16142006 AGGCTTTTTGG
66 AGGCTTTTTGG
*
16142017 AAGCATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16142082 AGGCTTTTTGG
66 AGGCTTTTTGG
16142093 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16142158 AGGCTTTTTGG
66 AGGCTTTTTGG
*
16142169 AAACATCAAGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
16142234 AGGCTTTTTGG
66 AGGCTTTTTGG
*
16142245 AAACATCATGCACTGAAGGACTTACAGATG
1 AAACATCATGCACTGAAGGGCTTACAGATG
16142275 TGAGAAATAG
Statistics
Matches: 840, Mismatches: 25, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
75 1 0.00
76 839 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:16142974 original size:22 final size:22
Alignment explanation
Indices: 16142949--16143003 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
16142939 CATAAAGTTT
*
16142949 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
*
16142971 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
16142993 TCATCTTTGAA
1 TCATCTTTGAA
16143004 GAGTGTAGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:16143445 original size:54 final size:54
Alignment explanation
Indices: 16143363--16143528 Score: 296
Period size: 54 Copynumber: 3.1 Consensus size: 54
16143353 AGAATAACAG
* *
16143363 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTAGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGGCAACACATTCATTCTTTCCTGTAGTTTCTGCTCAGAT
16143417 GTTCGTAAAACATTTGGCAACACATTCATTCTTTCCTGTAGTTTCTGCTCAGAT
1 GTTCGTAAAACATTTGGCAACACATTCATTCTTTCCTGTAGTTTCTGCTCAGAT
* *
16143471 GTTCGTAAAACATTTGGCAACACATTCATTCTTTCCTGTGGTTTCTGCTCAGCT
1 GTTCGTAAAACATTTGGCAACACATTCATTCTTTCCTGTAGTTTCTGCTCAGAT
16143525 GTTC
1 GTTC
16143529 TCAATCATTG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 108 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (54 bp):
GTTCGTAAAACATTTGGCAACACATTCATTCTTTCCTGTAGTTTCTGCTCAGAT
Found at i:16145821 original size:114 final size:114
Alignment explanation
Indices: 16145621--16145937 Score: 519
Period size: 114 Copynumber: 2.8 Consensus size: 114
16145611 GATCATGCAG
* * * * * * *
16145621 TTCATCTTTTAATTCCAATGATCGGTTCTGGGGTTCCTACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
* * *
16145686 ACACTTCCAGAAGATGCTATTGGGTCTCCTTGTTTCTACCATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
*
16145735 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAAATCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
16145800 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
16145849 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
16145914 ACACTTCTAGAAGATGCTA-TGAGC
66 ACACTTCCAGAAGATGCTATTGAGC
16145938 ACATTCATCT
Statistics
Matches: 190, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
113 5 0.03
114 185 0.97
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGATTTTGGAGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGCCTCCTTATTTCTACCATGAGCAAA
Found at i:16146013 original size:93 final size:93
Alignment explanation
Indices: 16145840--16146398 Score: 969
Period size: 93 Copynumber: 6.0 Consensus size: 93
16145830 TATTTCTACC
* * * * *
16145840 ATGAGCAAATTCATCTTTCAAATCCAATGATTGATT-T-TGGAGTTCATACCAAATCAGATCAGA
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGG-TTTCATACCAAACCAGATCAGA
*
16145903 TAACTCAAAGAACACTTCTAGAAGATGCT
65 TAACTCAAAGAACACTTCCAGAAGATGCT
16145932 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
* *
16145997 AACTCAAAGAAAACTTCCAAAAGATGCT
66 AACTCAAAGAACACTTCCAGAAGATGCT
*
16146025 ATGAGCACATTCATCTTCCAAATTCAATGATTGGTTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
* *
16146090 AATTCAAAGAACACTTCCAGAAGATTCT
66 AACTCAAAGAACACTTCCAGAAGATGCT
16146118 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
*
16146183 AATTCAAAGAACACTTCCAGAAGATGCT
66 AACTCAAAGAACACTTCCAGAAGATGCT
16146211 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
*
16146276 AATTCAAAGAACACTTCCAGAAGATGCT
66 AACTCAAAGAACACTTCCAGAAGATGCT
16146304 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
1 ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
*
16146369 AACTCAAAGAACACTTCCAGAAGATACT
66 AACTCAAAGAACACTTCCAGAAGATGCT
16146397 AT
1 AT
16146399 TGGGTCTTCT
Statistics
Matches: 448, Mismatches: 17, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
92 33 0.07
93 412 0.92
94 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (93 bp):
ATGAGCACATTCATCTTCCAAATTCAATGATTGATTCTGTGGTTTCATACCAAACCAGATCAGAT
AACTCAAAGAACACTTCCAGAAGATGCT
Found at i:16148246 original size:6 final size:6
Alignment explanation
Indices: 16148235--16148307 Score: 73
Period size: 6 Copynumber: 12.8 Consensus size: 6
16148225 TGATTCAATT
* * * **
16148235 TTTTTC TTTTTC TTTTT- GTTTTG TTTTTC TTTTTA TTTTTC TTTCCC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
16148282 TTTTT- TTTTTC -TTTT- TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
16148308 TCCTTTCTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
5 17 0.31
6 37 0.69
ACGTcount: A:0.01, C:0.12, G:0.03, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:16148256 original size:17 final size:17
Alignment explanation
Indices: 16148233--16148343 Score: 95
Period size: 17 Copynumber: 6.6 Consensus size: 17
16148223 CTTGATTCAA
16148233 TTTTTTTCTTTTTCTTT
1 TTTTTTTCTTTTTCTTT
* *
16148250 TTGTTTTGTTTTTCTTT
1 TTTTTTTCTTTTTCTTT
**
16148267 TTATTTTTCTTTCCCTTT
1 TT-TTTTTCTTTTTCTTT
16148285 TTTTTTTCTTTTT-TTT
1 TTTTTTTCTTTTTCTTT
*
16148301 TCTTTTTTC-CTTTC--T
1 T-TTTTTTCTTTTTCTTT
** *
16148316 TTGCTTTATTTTTCTTT
1 TTTTTTTCTTTTTCTTT
*
16148333 TTTCTTTCTTT
1 TTTTTTTCTTT
16148344 GCTGGATGAG
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
14 4 0.05
15 6 0.08
16 7 0.10
17 43 0.59
18 13 0.18
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (17 bp):
TTTTTTTCTTTTTCTTT
Found at i:16148261 original size:23 final size:22
Alignment explanation
Indices: 16148233--16148343 Score: 86
Period size: 23 Copynumber: 5.0 Consensus size: 22
16148223 CTTGATTCAA
*
16148233 TTTTTTTCTTTTTCTTTTTGTT
1 TTTTTTTCTTTTTCTTTTTCTT
*
16148255 TTGTTTTTCTTTTTATTTTTCTT
1 TT-TTTTTCTTTTTCTTTTTCTT
* *
16148278 TCCCTTTTT-TTTTTCTTTTTTTT
1 T--TTTTTTCTTTTTCTTTTTCTT
* *
16148301 TCTTTTTTC-CTTTC-TTTGCTT
1 T-TTTTTTCTTTTTCTTTTTCTT
* *
16148322 TATTTTTCTTTTT-TCTTTCTT
1 TTTTTTTCTTTTTCTTTTTCTT
16148343 T
1 T
16148344 GCTGGATGAG
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
20 6 0.09
21 15 0.21
22 12 0.17
23 32 0.46
24 5 0.07
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (22 bp):
TTTTTTTCTTTTTCTTTTTCTT
Found at i:16148275 original size:35 final size:34
Alignment explanation
Indices: 16148233--16148343 Score: 104
Period size: 35 Copynumber: 3.3 Consensus size: 34
16148223 CTTGATTCAA
*
16148233 TTTTTTTCTTTTTCTTTTTGTTTTGTTTTTCTTT
1 TTTTTTTCTTTTTCTTTTTGTTTTATTTTTCTTT
** * *
16148267 TTATTTTTCTTTCCCTTTTTTTTTTCTTTTT-TTT
1 TT-TTTTTCTTTTTCTTTTTGTTTTATTTTTCTTT
* *
16148301 TCTTTTTTC-CTTTC--TTTGCTTTATTTTTCTTT
1 T-TTTTTTCTTTTTCTTTTTGTTTTATTTTTCTTT
*
16148333 TTTCTTTCTTT
1 TTTTTTTCTTT
16148344 GCTGGATGAG
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
31 17 0.28
32 5 0.08
33 2 0.03
34 12 0.20
35 25 0.41
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (34 bp):
TTTTTTTCTTTTTCTTTTTGTTTTATTTTTCTTT
Found at i:16148301 original size:39 final size:38
Alignment explanation
Indices: 16148240--16148343 Score: 113
Period size: 39 Copynumber: 2.7 Consensus size: 38
16148230 CAATTTTTTT
* *
16148240 CTTTTTCTTTTTGTTTTGTTTTTCTTTTTAT-TTTTCTTTCC
1 CTTTTT-TTTTTCTTTT-TTTTTCTTTTT-TCCTTTCTTT-C
*
16148281 CTTTTTTTTTTCTTTTTTTTTCTTTTTTCCTTTCTTTG
1 CTTTTTTTTTTCTTTTTTTTTCTTTTTTCCTTTCTTTC
*
16148319 C-TTTATTTTTCTTTTTTCTTTCTTT
1 CTTTTTTTTTTCTTTTTT-TTTCTTT
16148344 GCTGGATGAG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
37 15 0.26
38 9 0.16
39 18 0.32
40 9 0.16
41 6 0.11
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (38 bp):
CTTTTTTTTTTCTTTTTTTTTCTTTTTTCCTTTCTTTC
Found at i:16148312 original size:29 final size:29
Alignment explanation
Indices: 16148236--16148336 Score: 86
Period size: 27 Copynumber: 3.6 Consensus size: 29
16148226 GATTCAATTT
* *
16148236 TTTTCTTTTTC-TTTTT-GTTTTGTTTTTC
1 TTTT-TTTTTCTTTTTTCCTTTTTTTTTTC
* *
16148264 TTTTTATTTT-TCTTTCCCTTTTTTTTTTC
1 TTTTT-TTTTCTTTTTTCCTTTTTTTTTTC
* *
16148293 TTTTTTTTTCTTTTTTCC--TTTCTTTGC
1 TTTTTTTTTCTTTTTTCCTTTTTTTTTTC
*
16148320 TTTATTTTTCTTTTTTC
1 TTTTTTTTTCTTTTTTC
16148337 TTTCTTTGCT
Statistics
Matches: 60, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
27 24 0.40
28 15 0.25
29 21 0.35
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (29 bp):
TTTTTTTTTCTTTTTTCCTTTTTTTTTTC
Found at i:16148339 original size:26 final size:26
Alignment explanation
Indices: 16148266--16148346 Score: 94
Period size: 27 Copynumber: 3.0 Consensus size: 26
16148256 TGTTTTTCTT
*
16148266 TTTATTTTTCTTTCCCTTT-TTT-TTTTC
1 TTTATTTTTCTTT---TTTCTTTCTTTGC
*
16148293 TTTTTTTTTCTTTTTTCCTTTCTTTGC
1 TTTATTTTTCTTTTTT-CTTTCTTTGC
16148320 TTTATTTTTCTTTTTTCTTTCTTTGC
1 TTTATTTTTCTTTTTTCTTTCTTTGC
16148346 T
1 T
16148347 GGATGAGTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
24 3 0.06
26 14 0.29
27 31 0.65
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTATTTTTCTTTTTTCTTTCTTTGC
Found at i:16150921 original size:14 final size:14
Alignment explanation
Indices: 16150904--16150942 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
16150894 TAAAAGTATG
16150904 AATGCAAAATGAAA
1 AATGCAAAATGAAA
*
16150918 AATGCAAAGATGCAA
1 AATGCAAA-ATGAAA
16150933 AATG-AAAATG
1 AATGCAAAATG
16150943 CATATATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 3 0.13
14 11 0.48
15 9 0.39
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (14 bp):
AATGCAAAATGAAA
Found at i:16155200 original size:14 final size:13
Alignment explanation
Indices: 16155181--16155248 Score: 88
Period size: 12 Copynumber: 5.4 Consensus size: 13
16155171 TTGGGCTTTG
*
16155181 TAATATTTAATAAA
1 TAATATATAAT-AA
16155195 TAATATATAATAA
1 TAATATATAATAA
16155208 TAAT-TATAATAA
1 TAATATATAATAA
*
16155220 TAATA-ATAATTA
1 TAATATATAATAA
16155232 TAATA-ATAATAA
1 TAATATATAATAA
16155244 TAATA
1 TAATA
16155249 ATTTTAATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
12 34 0.68
13 6 0.12
14 10 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATATAATAA
Found at i:16155207 original size:3 final size:3
Alignment explanation
Indices: 16155188--16155273 Score: 100
Period size: 3 Copynumber: 28.0 Consensus size: 3
16155178 TTGTAATATT
* *
16155188 TAA TAAA TAA TATA TAA TAA TAA TTA TAA TAA TAA TAA TAA TTA TAA
1 TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** **
16155235 TAA TAA TAA TAA TAA TTT TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16155274 ATTTAAATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
3 63 0.91
4 6 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:16160482 original size:67 final size:67
Alignment explanation
Indices: 16160362--16160488 Score: 164
Period size: 67 Copynumber: 1.9 Consensus size: 67
16160352 AGACTCTGTA
* * *
16160362 AGGTTCATTCATTGATGGTAATTCATTGTATAGGTTCAACACTGAATGATAATTCCTTATCTCTA
1 AGGTTCAGTCATTGATGGTAATTCATTATATAGGTTCAACACCGAATGATAATTCCTTATCTCTA
16160427 GC
66 GC
* * * * * * *
16160429 AGGTTCAGTCGTTGCTGGTAATTCCTTATATAGGTTCAGCCCCGACTGGTAATTCCTTAT
1 AGGTTCAGTCATTGATGGTAATTCATTATATAGGTTCAACACCGAATGATAATTCCTTAT
16160489 TGACCTAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
67 50 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (67 bp):
AGGTTCAGTCATTGATGGTAATTCATTATATAGGTTCAACACCGAATGATAATTCCTTATCTCTA
GC
Found at i:16166894 original size:36 final size:36
Alignment explanation
Indices: 16166829--16167054 Score: 303
Period size: 36 Copynumber: 6.3 Consensus size: 36
16166819 TGAATAAGAA
* * *
16166829 GAACGAAAGAAAGCATC-ACACTTCTGATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
*
16166864 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
* * * *
16166900 GAATGGAAGTAAGCATCAACACTTCCAATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
* * *
16166936 GAACGGAA-GAAGGCATCGGCACTTCCGATTCATGTA
1 GAACGGAAGGAA-GCATCGACACTTCCGATTCAAGTC
*
16166972 GAACGGAAGGAAGCATCGGCACTTCCGATTCAAGTC
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
* *
16167008 GAACGGAAGGAAGCATCGACACTTCTGATTCAAGTT
1 GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
16167044 GAACGGAAGGA
1 GAACGGAAGGA
16167055 TGTATCACAC
Statistics
Matches: 167, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
35 17 0.10
36 147 0.88
37 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (36 bp):
GAACGGAAGGAAGCATCGACACTTCCGATTCAAGTC
Found at i:16168180 original size:29 final size:29
Alignment explanation
Indices: 16168138--16168196 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
16168128 ATTTTCACCT
16168138 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
*
16168167 AACTAAATTGATGTAAGTAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
16168196 A
1 A
16168197 TTAATTTAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:16184024 original size:26 final size:27
Alignment explanation
Indices: 16183995--16184045 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
16183985 ATATACATTA
* *
16183995 AAAACATAAGTAAA-AAATATATTTAG
1 AAAACATAAATAAACAAATAAATTTAG
*
16184021 AAAACTTAAATAAACAAATAAATTT
1 AAAACATAAATAAACAAATAAATTT
16184046 TGTGCTGCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.27
Consensus pattern (27 bp):
AAAACATAAATAAACAAATAAATTTAG
Found at i:16185947 original size:17 final size:17
Alignment explanation
Indices: 16185922--16185955 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16185912 AATGAAATAA
*
16185922 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
16185939 AAATAAAATAACCAAAT
1 AAATAAAATAAACAAAT
16185956 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:16186675 original size:72 final size:75
Alignment explanation
Indices: 16186558--16186748 Score: 255
Period size: 76 Copynumber: 2.6 Consensus size: 75
16186548 CTAAACATCT
* * *
16186558 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCT-AAAC-AA-ATAATAT-TTA
1 TAAATCCTAATTAAAATAC-TAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
*
16186619 AAATAATATTC
65 AAATAATATCC
16186630 TAAATCCTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAAC-TATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
*
16186695 AAATAATCTCC
65 AAATAATATCC
* * *
16186706 TAAAACTTAATTAGAATACTAAAACCTATTTAAACTAAAATAC
1 TAAATCCTAATTAAAATACTAAAA-CTATTTAAACTAAAATAC
16186749 AAAGATAAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
71 6 0.06
72 37 0.35
73 4 0.04
74 2 0.02
75 6 0.06
76 49 0.47
77 1 0.01
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAATCCTAATTAAAATACTAAAACTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAAA
AATAATATCC
Found at i:16186772 original size:76 final size:74
Alignment explanation
Indices: 16186558--16186782 Score: 224
Period size: 76 Copynumber: 3.0 Consensus size: 74
16186548 CTAAACATCT
* * ** *
16186558 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATACCTAAACAA-ATAATATTT-AA
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAAAAAATATAATATTTAAA
*
16186620 AATAATATTC
65 AATAATATCC
* * * * * *
16186630 TAAATCCTAATTAAAATACTAAAACTTATTTAAACTAAAATACCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAAAAAAATATAATATTTAA
*
16186695 AAATAATCTCC
64 AAATAATATCC
* * *
16186706 TAAAACTTAATTAGAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAT-TTTTA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAA-A-AAAATATAATATTTAA
*
16186770 AAATATTATCC
64 AAATAATATCC
16186781 TA
1 TA
16186783 TACTTGAGTT
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
71 5 0.04
72 34 0.27
73 1 0.01
74 7 0.06
75 23 0.18
76 55 0.44
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.31
Consensus pattern (74 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAAAAAATATAATATTTAAAA
ATAATATCC
Found at i:16188431 original size:5 final size:5
Alignment explanation
Indices: 16188421--16188468 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
16188411 TGTTCAGAGA
* * *
16188421 AAAAT AAAAT AAAAT TAATT AAAAT AAAAT -AAAT AGAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
16188469 GTTTGCTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
4 4 0.11
5 27 0.77
6 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:16188464 original size:20 final size:20
Alignment explanation
Indices: 16188420--16188468 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
16188410 TTGTTCAGAG
*
16188420 AAAAATAAAATAAAATTAAT
1 AAAAATAAAATAAAATGAAT
*
16188440 TAAAATAAAAT-AAATAGAAT
1 AAAAATAAAATAAAAT-GAAT
16188460 AAAAATAAA
1 AAAAATAAA
16188469 GTTTGCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.16
20 21 0.84
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAATAAAATAAAATGAAT
Found at i:16201153 original size:12 final size:12
Alignment explanation
Indices: 16201136--16201163 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16201126 TTTGTCCCAT
16201136 TTATTCTTATTA
1 TTATTCTTATTA
16201148 TTATTCTTATTA
1 TTATTCTTATTA
16201160 TTAT
1 TTAT
16201164 AAAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTCTTATTA
Found at i:16202524 original size:5 final size:5
Alignment explanation
Indices: 16202514--16202702 Score: 293
Period size: 5 Copynumber: 38.4 Consensus size: 5
16202504 GTCATTTGCC
16202514 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
16202564 ATATTAT ATATT ATATT ATATT ATTATT -TA-T ATATT ATATT ATATT
1 ATA-T-T ATATT ATATT ATATT A-TATT ATATT ATATT ATATT ATATT
16202610 ATATT ATATT ATA-T AT-TT ATATT ATATT ATATT ATATT ATATT -TATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
16202657 ATATT ATTATT ATATT ATATT ATA-T -TATT ATATT ATATT ATATT AT
1 ATATT A-TATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
16202703 TATATGATGT
Statistics
Matches: 173, Mismatches: 0, Indels: 22
0.89 0.00 0.11
Matches are distributed among these distances:
3 3 0.02
4 16 0.09
5 139 0.80
6 11 0.06
7 4 0.02
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:16203128 original size:14 final size:15
Alignment explanation
Indices: 16203109--16203138 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16203099 TTGTTTTAAT
16203109 AATTTT-TTAAAATA
1 AATTTTATTAAAATA
16203123 AATTTTATTAAAATA
1 AATTTTATTAAAATA
16203138 A
1 A
16203139 CATATCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTTATTAAAATA
Found at i:16210260 original size:2 final size:2
Alignment explanation
Indices: 16210248--16210472 Score: 155
Period size: 2 Copynumber: 126.5 Consensus size: 2
16210238 TTTATGTTTT
*
16210248 TA TA TA T- TA TA TA T- TA TA TA TA TA TA TA TT TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
16210287 T- TA T- TA TA T- TA TA TT TA TA T- TA TA TT TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
16210323 TA T- TA TA TA TA T- TA TA TA TT TA TA T- TA TA T- TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
16210360 TA TT TA TA TA TA TT TA TA TT TA TA TA TT TT TA TA T- TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
16210400 TA TA T- TA TA T- TA TA T- TA TA T- TA TA TT TA TA T- TA T- TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16210436 TA TA TA T- TA TA T- TA TA T- TA TA T- TA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
16210472 T
1 T
16210473 TATGATGTTT
Statistics
Matches: 176, Mismatches: 19, Indels: 56
0.70 0.08 0.22
Matches are distributed among these distances:
1 28 0.16
2 148 0.84
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (2 bp):
TA
Found at i:16210265 original size:5 final size:5
Alignment explanation
Indices: 16210257--16210475 Score: 279
Period size: 5 Copynumber: 45.6 Consensus size: 5
16210247 TTATATATTA
16210257 TATAT TATA- TATAT ATATATT TATAT TATA- T-TAT TATAT TATATT
1 TATAT TATAT TATAT -TATA-T TATAT TATAT TATAT TATAT TATA-T
16210302 TATAT TATAT T-TAT TATAT TATAT TATA- TATAT TATA- TAT-T TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
16210348 TATAT TATAT TATAT T-TAT ATATATT TATAT T-TA- TATAT T-T-T TATAT
1 TATAT TATAT TATAT TATAT -TATA-T TATAT TATAT TATAT TATAT TATAT
16210395 TATAT TATAT TATAT TATAT TATAT TATATT TATAT TAT-T T-TA- TATAT
1 TATAT TATAT TATAT TATAT TATAT TATA-T TATAT TATAT TATAT TATAT
16210443 TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
16210476 GATGTTTAGT
Statistics
Matches: 193, Mismatches: 0, Indels: 42
0.82 0.00 0.18
Matches are distributed among these distances:
3 7 0.04
4 33 0.17
5 127 0.66
6 24 0.12
7 2 0.01
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:16210281 original size:10 final size:10
Alignment explanation
Indices: 16210232--16210473 Score: 171
Period size: 10 Copynumber: 23.4 Consensus size: 10
16210222 TATGTTATTT
*
16210232 TATTTATTTA
1 TATTTATATA
* *
16210242 TGTTTTTATA
1 TATTTATATA
16210252 TATTATATATTA
1 TATT-TATA-TA
*
16210264 TATATATATA
1 TATTTATATA
16210274 TATTTATATTA
1 TATTTATA-TA
16210285 TATTATTATATTA
1 TA-T-TTATA-TA
16210298 TATTTATATTA
1 TATTTATA-TA
16210309 TATTTAT-TA
1 TATTTATATA
16210318 TA-TTATATTA
1 TATTTATA-TA
*
16210328 TATATATTATA
1 TATTTA-TATA
16210339 TATTTATAT-
1 TATTTATATA
16210348 TATATTATATTA
1 TAT-TTATA-TA
16210360 TATTTATATA
1 TATTTATATA
*
16210370 TATTTATATT
1 TATTTATATA
* * *
16210380 TATATATTTT
1 TATTTATATA
16210390 TATATTATAT-
1 TAT-TTATATA
16210400 TATATTATAT-
1 TAT-TTATATA
16210410 TATATTATATTA
1 TAT-TTATA-TA
16210422 TATTTATAT-
1 TATTTATATA
16210431 TATTT-TATA
1 TATTTATATA
16210440 TA-TTATAT-
1 TATTTATATA
16210448 TATATTATAT-
1 TAT-TTATATA
16210458 TATATTATATTA
1 TAT-TTATA-TA
16210470 TATT
1 TATT
16210474 ATGATGTTTA
Statistics
Matches: 197, Mismatches: 14, Indels: 41
0.78 0.06 0.16
Matches are distributed among these distances:
8 11 0.06
9 17 0.09
10 88 0.45
11 53 0.27
12 18 0.09
13 10 0.05
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TATTTATATA
Found at i:16210572 original size:22 final size:22
Alignment explanation
Indices: 16210546--16210606 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
16210536 ATAGTGTTTT
16210546 TGTTTTATTATATTTTGGTCAC
1 TGTTTTATTATATTTTGGTCAC
* * * *
16210568 TGTTTAATTATAATTTGGTTAT
1 TGTTTTATTATATTTTGGTCAC
*
16210590 TGTTTTTATTTTATTTT
1 TG-TTTTATTATATTTT
16210607 TATTTTTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.20, C:0.03, G:0.11, T:0.66
Consensus pattern (22 bp):
TGTTTTATTATATTTTGGTCAC
Found at i:16218144 original size:16 final size:16
Alignment explanation
Indices: 16218123--16218168 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
16218113 TCCAGAGTTA
16218123 ATATATATATATATGT
1 ATATATATATATATGT
16218139 ATATATATATATATGT
1 ATATATATATATATGT
16218155 ATATATATATATAT
1 ATATATATATATAT
16218169 TTGATATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (16 bp):
ATATATATATATATGT
Found at i:16218177 original size:2 final size:2
Alignment explanation
Indices: 16218123--16218168 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
16218113 TCCAGAGTTA
* *
16218123 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT GT 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
16218165 AT AT
1 AT AT
16218169 TTGATATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16219085 original size:45 final size:45
Alignment explanation
Indices: 16218990--16219190 Score: 130
Period size: 44 Copynumber: 4.6 Consensus size: 45
16218980 AACGATATAA
* * *
16218990 ACAAACGCCGTAATAGGTACTAATATTTAGCAGCA---TTTTTATC
1 ACAAACGCCGCAATAGGT-CTAGTATTTAGCGGCATTTTTTTTATC
* *
16219033 ACAAACGCCGCAATAAGTGT-TGAG-ATTTTGCGGCATTTTTTTTATG
1 ACAAACGCCGCAAT-AG-GTCT-AGTATTTAGCGGCATTTTTTTTATC
* ***
16219079 A-AAACGCCGTAATAGGTCTAGTATTTAGCGGCATTTTTAGGAT-
1 ACAAACGCCGCAATAGGTCTAGTATTTAGCGGCATTTTTTTTATC
* * * * * * ***
16219122 ACAAACACCGCTATAGGTCTGGTATATAGCGACGTTTTTAGGAT-
1 ACAAACGCCGCAATAGGTCTAGTATTTAGCGGCATTTTTTTTATC
* *
16219166 ACAAACGCCGCTATAGGTCTGGTAT
1 ACAAACGCCGCAATAGGTCTAGTAT
16219191 ATAACGGTGT
Statistics
Matches: 131, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
43 28 0.21
44 82 0.63
45 13 0.10
46 8 0.06
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (45 bp):
ACAAACGCCGCAATAGGTCTAGTATTTAGCGGCATTTTTTTTATC
Found at i:16219112 original size:44 final size:45
Alignment explanation
Indices: 16218990--16219116 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 45
16218980 AACGATATAA
* *
16218990 ACAAACGCCGTAATAGGTACTAATATTTAGCAGCA---TTTTTATC
1 ACAAACGCCGTAATAGGT-CTAGTATTTAGCGGCATTTTTTTTATC
* * *
16219033 ACAAACGCCGCAATAAGTGT-TGAG-ATTTTGCGGCATTTTTTTTATG
1 ACAAACGCCGTAAT-AG-GTCT-AGTATTTAGCGGCATTTTTTTTATC
16219079 A-AAACGCCGTAATAGGTCTAGTATTTAGCGGCATTTTT
1 ACAAACGCCGTAATAGGTCTAGTATTTAGCGGCATTTTT
16219117 AGGATACAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
43 27 0.39
44 21 0.30
45 13 0.19
46 8 0.12
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (45 bp):
ACAAACGCCGTAATAGGTCTAGTATTTAGCGGCATTTTTTTTATC
Found at i:16219138 original size:44 final size:44
Alignment explanation
Indices: 16219080--16219332 Score: 305
Period size: 44 Copynumber: 5.8 Consensus size: 44
16219070 TTTTTTATGA
* * *
16219080 AAACGCCG-TAATAGGTCTAGTATTTAGCGGCATTTTTAGGATAC
1 AAACGCCGCT-ATAGGTCTGGTATATAGCGGCGTTTTTAGGATAC
* *
16219124 AAACACCGCTATAGGTCTGGTATATAGCGACGTTTTTAGGATAC
1 AAACGCCGCTATAGGTCTGGTATATAGCGGCGTTTTTAGGATAC
* * *
16219168 AAACGCCGCTATAGGTCTGGTATATAACGGTGTTTTTAGGATTC
1 AAACGCCGCTATAGGTCTGGTATATAGCGGCGTTTTTAGGATAC
* * * *
16219212 AAACGCCGCGATAGATCTGGTATATAGCGGC-ATTTTAGGATAA
1 AAACGCCGCTATAGGTCTGGTATATAGCGGCGTTTTTAGGATAC
* * * *
16219255 AAACGTCGCTATAGGTATGGTATATAGTGGCGTTTTTAGAATAC
1 AAACGCCGCTATAGGTCTGGTATATAGCGGCGTTTTTAGGATAC
* * *
16219299 AAACGCCGCTAAAAGT-TGGTATATAACGGCGTTT
1 AAACGCCGCTATAGGTCTGGTATATAGCGGCGTTT
16219333 CTTGATACAA
Statistics
Matches: 177, Mismatches: 30, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
43 51 0.29
44 125 0.71
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (44 bp):
AAACGCCGCTATAGGTCTGGTATATAGCGGCGTTTTTAGGATAC
Found at i:16219270 original size:131 final size:131
Alignment explanation
Indices: 16219080--16219332 Score: 355
Period size: 131 Copynumber: 1.9 Consensus size: 131
16219070 TTTTTTATGA
* * * * *
16219080 AAACGCCGTAATAGGTCTAGTATTTAGCGGCATTTTTAGGATACAAACACCGCTATAGGTCTGGT
1 AAACGCCGCAATAGATCTAGTATATAGCGGCATTTTTAGGATAAAAACACCGCTATAGGTATGGT
* * * *
16219145 ATATAGCGACGTTTTTAGGATACAAACGCCGCTATAGGTCTGGTATATAACGGTGTTTTTAGGAT
66 ATATAGCGACGTTTTTAGAATACAAACGCCGCTAAAAGT-TGGTATATAACGGCGTTTTTAGGAT
16219210 TC
130 TC
* * **
16219212 AAACGCCGCGATAGATCTGGTATATAGCGGCA-TTTTAGGATAAAAACGTCGCTATAGGTATGGT
1 AAACGCCGCAATAGATCTAGTATATAGCGGCATTTTTAGGATAAAAACACCGCTATAGGTATGGT
* *
16219276 ATATAGTGGCGTTTTTAGAATACAAACGCCGCTAAAAGTTGGTATATAACGGCGTTT
66 ATATAGCGACGTTTTTAGAATACAAACGCCGCTAAAAGTTGGTATATAACGGCGTTT
16219333 CTTGATACAA
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 17 0.16
131 62 0.58
132 27 0.25
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (131 bp):
AAACGCCGCAATAGATCTAGTATATAGCGGCATTTTTAGGATAAAAACACCGCTATAGGTATGGT
ATATAGCGACGTTTTTAGAATACAAACGCCGCTAAAAGTTGGTATATAACGGCGTTTTTAGGATT
C
Found at i:16228874 original size:13 final size:13
Alignment explanation
Indices: 16228858--16228882 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16228848 TCTTATCTTC
16228858 TTTTCACTTTTAT
1 TTTTCACTTTTAT
16228871 TTTTCACTTTTA
1 TTTTCACTTTTA
16228883 CTTTCTTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTCACTTTTAT
Found at i:16233787 original size:24 final size:24
Alignment explanation
Indices: 16233743--16233789 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16233733 ATAAAGAACC
*
16233743 AAAATAAACTTAAATATACCATTT
1 AAAATAAACTTAAACATACCATTT
*
16233767 AAAATAAAGTTCAAACA-ACCATT
1 AAAATAAACTT-AAACATACCATT
16233790 AAATCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTT
Found at i:16233970 original size:24 final size:25
Alignment explanation
Indices: 16233922--16233970 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
16233912 TGAGAAGAAG
* *
16233922 CCTAGCTCGCTAGCTCCTTTCAGCT
1 CCTAGCTCGCCAGCTCCTTGCAGCT
*
16233947 CCTAGCTCGCCA-CTCCTTGGAGCT
1 CCTAGCTCGCCAGCTCCTTGCAGCT
16233971 TTATCAATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.12, C:0.41, G:0.18, T:0.29
Consensus pattern (25 bp):
CCTAGCTCGCCAGCTCCTTGCAGCT
Found at i:16240012 original size:174 final size:181
Alignment explanation
Indices: 16239705--16240058 Score: 589
Period size: 174 Copynumber: 2.0 Consensus size: 181
16239695 AATATAGTAA
* *
16239705 CATGAACTAGTTAAAAAAGAAATGTTAAAATTGGGACCATGTATATCTGGATTATTTTTTAAAAA
1 CATGAACAAGTTAAAAAAGAAATGTTAAAATTGGGACCATGTATATCTCGATTATTTTTTAAAAA
* *
16239770 CAAAACAATCTTTAATTAAAAAAGACAATTTAAAACAAATAAATTAAAAAATGAAATAAAAGTTG
66 CAAAACAATCATTAAATAAAAAAGACAATTTAAAACAAATAAATTAAAAAATGAAATAAAAGTTG
16239835 TACAGAAAACTAAGAAGAACCTCAAATTAAAACAAAATCTATCTTTACTAG
131 TACAGAAAACTAAGAAGAACCTCAAATTAAAACAAAATCTATCTTTACTAG
16239886 CATGAACAAGTTAAAAAAGAAATGTTAAAATTGGGACCATGTATATC-CGA-T-TTTTTT-AAAA
1 CATGAACAAGTTAAAAAAGAAATGTTAAAATTGGGACCATGTATATCTCGATTATTTTTTAAAAA
*
16239947 -AAAA-AA-CATTAAATAAAAAAGACAATTTTAAAA-ACATAAATTAAAAAATGAAATAAAAGTT
66 CAAAACAATCATTAAATAAAAAAGACAA-TTTAAAACAAATAAATTAAAAAATGAAATAAAAGTT
*
16240008 GTACAGAAAACTGAGAAGAACCTCAAATTAAAACAAAATCTATCTTTACTA
130 GTACAGAAAACTAAGAAGAACCTCAAATTAAAACAAAATCTATCTTTACTA
16240059 TGTAAATATG
Statistics
Matches: 166, Mismatches: 6, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
174 94 0.57
175 9 0.05
176 4 0.02
177 4 0.02
178 6 0.04
179 1 0.01
180 2 0.01
181 46 0.28
ACGTcount: A:0.53, C:0.10, G:0.10, T:0.27
Consensus pattern (181 bp):
CATGAACAAGTTAAAAAAGAAATGTTAAAATTGGGACCATGTATATCTCGATTATTTTTTAAAAA
CAAAACAATCATTAAATAAAAAAGACAATTTAAAACAAATAAATTAAAAAATGAAATAAAAGTTG
TACAGAAAACTAAGAAGAACCTCAAATTAAAACAAAATCTATCTTTACTAG
Found at i:16243590 original size:21 final size:21
Alignment explanation
Indices: 16243560--16243607 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
16243550 TAATTTTCAA
*
16243560 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
16243581 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
16243602 ACATTG
1 ACATTG
16243608 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:16248167 original size:21 final size:21
Alignment explanation
Indices: 16248137--16248184 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
16248127 TAATTTTCAA
*
16248137 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
*
16248158 ACATTGTTGCACCTAGTTTTG
1 ACATTGTTGCACCTAATTTTG
16248179 ACATTG
1 ACATTG
16248185 CAAAATTAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Found at i:16250681 original size:14 final size:14
Alignment explanation
Indices: 16250657--16250690 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16250647 TTAATTGTCA
16250657 ACTTGTCTAGTTTCT
1 ACTT-TCTAGTTTCT
16250672 ACTTTCTAGTTTCT
1 ACTTTCTAGTTTCT
16250686 ACTTT
1 ACTTT
16250691 TTAGATCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.15, C:0.21, G:0.09, T:0.56
Consensus pattern (14 bp):
ACTTTCTAGTTTCT
Found at i:16251818 original size:105 final size:105
Alignment explanation
Indices: 16251636--16251852 Score: 425
Period size: 105 Copynumber: 2.1 Consensus size: 105
16251626 AGCCTCGCTC
16251636 AGAAAGTGCACAGCAGTGAATTTTGGAAAATGGCAGCATTCTATTTGTTTTTCACTTGCTGCAAA
1 AGAAAGTGCACAGCAGTGAATTTTGGAAAATGGCAGCATTCTATTTGTTTTTCACTTGCTGCAAA
*
16251701 AGAATCTTGTTTGGAAACAAACAGATCTGATGTTTTACTT
66 AGAACCTTGTTTGGAAACAAACAGATCTGATGTTTTACTT
16251741 AGAAAGTGCACAGCAGTGAATTTTGGAAAATGGCAGCATTCTATTTGTTTTTCACTTGCTGCAAA
1 AGAAAGTGCACAGCAGTGAATTTTGGAAAATGGCAGCATTCTATTTGTTTTTCACTTGCTGCAAA
16251806 AGAACCTTGTTTGGAAACAAACAGATCTGATGTTTTACTT
66 AGAACCTTGTTTGGAAACAAACAGATCTGATGTTTTACTT
16251846 AGAAAGT
1 AGAAAGT
16251853 TGCCTTAATG
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 111 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.33
Consensus pattern (105 bp):
AGAAAGTGCACAGCAGTGAATTTTGGAAAATGGCAGCATTCTATTTGTTTTTCACTTGCTGCAAA
AGAACCTTGTTTGGAAACAAACAGATCTGATGTTTTACTT
Found at i:16252594 original size:25 final size:25
Alignment explanation
Indices: 16252566--16252617 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
16252556 TATTAGTTTT
16252566 ATACCCTTCAATAATTCTTTGTACG
1 ATACCCTTCAATAATTCTTTGTACG
16252591 ATACCCTTCAATAATTCTTTGTACG
1 ATACCCTTCAATAATTCTTTGTACG
16252616 AT
1 AT
16252618 TGATATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (25 bp):
ATACCCTTCAATAATTCTTTGTACG
Found at i:16252824 original size:3 final size:3
Alignment explanation
Indices: 16252818--16252847 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
16252808 GATGATGATG
16252818 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
16252848 ACAATTAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:16257819 original size:67 final size:68
Alignment explanation
Indices: 16257652--16257843 Score: 217
Period size: 67 Copynumber: 2.8 Consensus size: 68
16257642 GTCACCTTGG
* * *
16257652 AGATTTTTTTCTCTCTAAACAAAGTTTTGTCTCGCTTGAGACAATTTCTCTTGAAACATAAAACC
1 AGATTTTTTT-TCTCGAAACAAAGTTTTGTCTCGATTGAGACAATTTCTCCTGAAACATAAAACC
*
16257717 TTTG
65 TTTC
* * * * * **
16257721 AGATTGTTTCTCTTGAAATAAA-TTGTGTCTCGATTTTGACAATTTCTCCTGAAACAT-AAACCT
1 AGATTTTTTTTCTCGAAACAAAGTTTTGTCTCGATTGAGACAATTTCTCCTGAAACATAAAACCT
16257784 TTC
66 TTC
* * * * *
16257787 AGATTTTTTTTCTCGAAACAAAGTTTTATCTCGCTTGAGATAGTTTCTCTTGAAACA
1 AGATTTTTTTTCTCGAAACAAAGTTTTGTCTCGATTGAGACAATTTCTCCTGAAACA
16257844 AATTTTGTCT
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
66 26 0.26
67 56 0.57
68 9 0.09
69 8 0.08
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (68 bp):
AGATTTTTTTTCTCGAAACAAAGTTTTGTCTCGATTGAGACAATTTCTCCTGAAACATAAAACCT
TTC
Found at i:16257843 original size:37 final size:37
Alignment explanation
Indices: 16257801--16257916 Score: 153
Period size: 37 Copynumber: 3.2 Consensus size: 37
16257791 TTTTTTTCTC
*
16257801 GAAACAAAGTTTTATCTCGCTTGAGATAGTTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTT
* * *
16257838 GAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTT
* * * *
16257874 AAAACAAAGTTTTGTTTTGCTTAAGATAGTTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTT
16257911 GAAACA
1 GAAACA
16257917 TAAACCTTTG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 31 0.47
37 35 0.53
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (37 bp):
GAAACAAAGTTTTGTCTCGCTTGAGATAGTTTCTCTT
Found at i:16258226 original size:104 final size:104
Alignment explanation
Indices: 16257982--16258317 Score: 373
Period size: 104 Copynumber: 3.3 Consensus size: 104
16257972 TTAAGAAACG
* * * * *
16257982 AACATTTGAGATTGTTTTTCTTAAAAACAAATTTTGTCTCACTTGAGATAGTTTCCCCTAGAAAT
1 AACAATTGAGATTGTTTTTCTTAAAAACAAATTTTGTCTCGCTTGAGATAGTTTTCCCTCGAAAC
* * * *
16258047 AC-AAATTTTGAAATTG--TCACTTAAAACAAAATTTAT
66 ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAAT
** * * ** * **
16258083 CCCACTTGAGATTG---TTC-TCAAAACAAATTTCATCTCGCTTGATATAGTTTTCCAGCGAAAC
1 AACAATTGAGATTGTTTTTCTTAAAAACAAATTTTGTCTCGCTTGAGATAGTTTTCCCTCGAAAC
*
16258144 ACAAAATTTGGAAATTGTTTCCCTTGAAAC-AAATGTGAT
66 ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAAT-TAAT
* * * * * *
16258183 TACAATTGAGATTGCTTTCCTTGAAAACAAATTTTGTCTCGCTTGAGATAATTTTCCCTCAAAAC
1 AACAATTGAGATTGTTTTTCTTAAAAACAAATTTTGTCTCGCTTGAGATAGTTTTCCCTCGAAAC
16258248 ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAAT
66 ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAAT
*
16258287 AACATTTGAGATTGTTTTTCTTAAAAACAAA
1 AACAATTGAGATTGTTTTTCTTAAAAACAAA
16258318 ATATCATATC
Statistics
Matches: 191, Mismatches: 35, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
97 36 0.19
98 16 0.08
99 4 0.02
100 23 0.12
101 11 0.06
103 2 0.01
104 95 0.50
105 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (104 bp):
AACAATTGAGATTGTTTTTCTTAAAAACAAATTTTGTCTCGCTTGAGATAGTTTTCCCTCGAAAC
ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAAT
Found at i:16266371 original size:22 final size:22
Alignment explanation
Indices: 16266340--16266388 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16266330 GTAATGTTTT
* *
16266340 TGTTTGATTATATTTTGGTTAC
1 TGTTTAATTATAATTTGGTTAC
16266362 TGTTTAATTATAATTTGGTTAC
1 TGTTTAATTATAATTTGGTTAC
*
16266384 AGTTT
1 TGTTT
16266389 TTATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.04, G:0.16, T:0.57
Consensus pattern (22 bp):
TGTTTAATTATAATTTGGTTAC
Found at i:16266775 original size:21 final size:21
Alignment explanation
Indices: 16266742--16266800 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
16266732 AGATTGTTCA
*
16266742 GGGGTACAAATTCCCCCCCAG
1 GGGGTACAGATTCCCCCCCAG
* * * *
16266763 GGGGAACAGATTCTCCACTAG
1 GGGGTACAGATTCCCCCCCAG
*
16266784 GGGGTACCGATTCCCCC
1 GGGGTACAGATTCCCCC
16266801 TGTCTAATGG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.34, G:0.27, T:0.17
Consensus pattern (21 bp):
GGGGTACAGATTCCCCCCCAG
Found at i:16269143 original size:8 final size:8
Alignment explanation
Indices: 16269130--16269173 Score: 61
Period size: 8 Copynumber: 5.5 Consensus size: 8
16269120 AAAGGGGGAG
16269130 AAGTGTTA
1 AAGTGTTA
16269138 AAGTGTTA
1 AAGTGTTA
16269146 AAGTGTTA
1 AAGTGTTA
* **
16269154 AAGGGGAA
1 AAGTGTTA
16269162 AAGTGTTA
1 AAGTGTTA
16269170 AAGT
1 AAGT
16269174 AAGGGGGAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (8 bp):
AAGTGTTA
Found at i:16269545 original size:21 final size:21
Alignment explanation
Indices: 16269519--16269598 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 21
16269509 TCAGATTGTT
*
16269519 CAGGGGGCACAGATTCCCCCC
1 CAGGGGGTACAGATTCCCCCC
* * *
16269540 CAGGGGGTACCGATTCTCCCT
1 CAGGGGGTACAGATTCCCCCC
* *
16269561 CA-GGGGAACAAATTCCCCCC
1 CAGGGGGTACAGATTCCCCCC
*
16269581 CAGGGGGTACCGATTCCC
1 CAGGGGGTACAGATTCCC
16269599 TCTATCTAAC
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 15 0.33
21 31 0.67
ACGTcount: A:0.20, C:0.38, G:0.28, T:0.15
Consensus pattern (21 bp):
CAGGGGGTACAGATTCCCCCC
Found at i:16269987 original size:34 final size:32
Alignment explanation
Indices: 16269948--16270017 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
16269938 TTTTGTAAAG
* * *
16269948 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCCAGCTTAGCCCG-G-AAAAACTA
*
16269982 GGGAAAGGTTCCAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCCAGCTTAGCCCGGAAAAACTA
16270014 GGGA
1 GGGA
16270018 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCCAGCTTAGCCCGGAAAAACTA
Found at i:16283991 original size:64 final size:63
Alignment explanation
Indices: 16283868--16284004 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 63
16283858 CCCTTAACAT
* * *
16283868 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCGATGTTTTCATTTTAAGTGG
1 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCGATGTTTTCATTTTAA-AGA
* * * * ** *
16283932 GTGCATCGATGCACT-CCTTATTCATCGATGCACTAATTGCATTCGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCGATACACCAATCACATTCGATGTTTTCAT-TTTAAAGA
16283995 GTGCATCGAT
1 GTGCATCGAT
16284005 ACACCCTGCC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 18 0.30
64 43 0.70
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:16290767 original size:3 final size:3
Alignment explanation
Indices: 16290761--16290799 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
16290751 TTATTATTAA
* *
16290761 GAT GAT GAT GAT CAT GAT GAT CAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
16290800 TATTATTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:16290804 original size:3 final size:3
Alignment explanation
Indices: 16290798--16290870 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
16290788 GATGATGATG
16290798 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16290846 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
16290871 ACAATTAATT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16293783 original size:3 final size:3
Alignment explanation
Indices: 16293775--16293812 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
16293765 TCTGGGTCTT
16293775 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16293813 ACAATTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:16294861 original size:50 final size:50
Alignment explanation
Indices: 16294791--16294900 Score: 193
Period size: 50 Copynumber: 2.2 Consensus size: 50
16294781 GAATATGAAG
* * *
16294791 ATCGTACAATTGTTGTATAGGATGCGATATCACAAATCCCTTGACAAGAT
1 ATCGCACAACTGTTGTATAGGAGGCGATATCACAAATCCCTTGACAAGAT
16294841 ATCGCACAACTGTTGTATAGGAGGCGATATCACAAATCCCTTGACAAGAT
1 ATCGCACAACTGTTGTATAGGAGGCGATATCACAAATCCCTTGACAAGAT
16294891 ATCGCACAAC
1 ATCGCACAAC
16294901 CTGAATGTGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (50 bp):
ATCGCACAACTGTTGTATAGGAGGCGATATCACAAATCCCTTGACAAGAT
Found at i:16295251 original size:25 final size:24
Alignment explanation
Indices: 16295202--16295264 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
16295192 GGGTAATATT
*
16295202 TTTTTCAAAATTTTTTATTAAATA
1 TTTTTCAAAATTTTTAATTAAATA
*
16295226 TTTTTCAAAACTCTTTTAATT-GATA
1 TTTTTCAAAA-T-TTTTAATTAAATA
*
16295251 -TTTTCTAAATTTTT
1 TTTTTCAAAATTTTT
16295265 GAAAATAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 18 0.53
25 4 0.12
26 7 0.21
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTTCAAAATTTTTAATTAAATA
Found at i:16297395 original size:65 final size:67
Alignment explanation
Indices: 16297289--16297592 Score: 253
Period size: 73 Copynumber: 4.5 Consensus size: 67
16297279 TGGAGATTTT
* * *
16297289 TTTCTCTCTAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT-AACCTTTGAGAT
1 TTTCTCTCGAAACAAAGTTGTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTCAGAT
16297353 TG
66 TG
* * ** * * *
16297355 TTTCTCTTGAAATAAA-TTGTGTCTCGCTTTTGACAATTTCTCCTAAAACATAAACCTTTCAGAT
1 TTTCTCTCGAAACAAAGTTGTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTCAGAT
*
16297419 TT
66 TG
* * * *
16297421 TTTTTCTCGAAACAAAGTTTTATCTCGCTTGAGACAGTTTCTCTTGAAACA-AATTTTGTCTCTC
1 TTTCTCTCGAAACAAAGTTGTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAA-----AC-CT-
* ***
16297485 TTGAGACAA
59 TTCAGATTG
* * * * *
16297494 TTTCTCTTGAAACAAAGTTTTGTTTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGAA
1 TTTCTCTCGAAACAAAGTTGTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTCAGAT
16297559 TG
66 TG
* * *
16297561 --T-TCTCAAAACAAA-TTTTGTCTCACTTGAGACA
1 TTTCTCTCGAAACAAAGTTGTGTCTCGCTTGAGACA
16297593 ATCTTTCTTA
Statistics
Matches: 190, Mismatches: 38, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
63 17 0.09
64 10 0.05
65 30 0.16
66 40 0.21
67 33 0.17
68 2 0.01
69 1 0.01
71 1 0.01
72 2 0.01
73 52 0.27
74 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (67 bp):
TTTCTCTCGAAACAAAGTTGTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTCAGAT
TG
Found at i:16297491 original size:36 final size:37
Alignment explanation
Indices: 16297429--16297544 Score: 189
Period size: 37 Copynumber: 3.2 Consensus size: 37
16297419 TTTTTTTCTC
*
16297429 GAAACAAAGTTTTATCTCGCTTGAGACAGTTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
* *
16297466 GAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
*
16297502 GAAACAAAGTTTTGTTTCGCTTGAGACAGTTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
16297539 GAAACA
1 GAAACA
16297545 TAAACCTTTG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
36 33 0.46
37 39 0.54
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (37 bp):
GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
Found at i:16297641 original size:205 final size:203
Alignment explanation
Indices: 16297289--16297665 Score: 458
Period size: 205 Copynumber: 1.8 Consensus size: 203
16297279 TGGAGATTTT
*
16297289 TTTCTCTCTAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAACCTTTGAGATT
1 TTTCTCTCTAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAACCTTTGAGAAT
* * * ** * *
16297354 GTTTCTCTTGAAATAAATTGTGTCTCGCTTTTGACAATTTCTCCTAAAACATAAACCTTTCAGAT
66 GTTTCTC-TAAAACAAATTGTGTCTCACTTGAGACAATTTCTCCTAAAACACAAACATTTCAGAT
* ** * *
16297419 TTTTTTTCTCGAAACAAAGTTTTATCTCGCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCT
130 TGTTTTTCTAAAAACAAA-TTTCATCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCT
16297484 CTTGAGACAA
194 CTTGAGACAA
*
16297494 TTTCTCT-TGAAACAAAGTTTTGTTTCGCTTGAGACAGTTTCTCTTGAAACATAAACCTTTGAGA
1 TTTCTCTCT-AAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACAT-AACCTTTGAGA
* * * * *
16297558 ATG-TTCTC-AAAACAAATTTTGTCTCACTTGAGACAATCTT-TCTTAAGAA-ACGATCATTTGA
64 ATGTTTCTCTAAAACAAATTGTGTCTCACTTGAGACAAT-TTCTCCTAA-AACACAAACATTTCA
* *
16297619 GATTGTTTTTCTTAAAAAACAAATTTCGTCTCACTTGAGATAGTTTC
127 GATTGTTTTTC-T-AAAAACAAATTTCATCTCACTTGAGACAGTTTC
16297666 CCCTAGAAAT
Statistics
Matches: 145, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
203 45 0.31
204 26 0.18
205 61 0.42
206 13 0.09
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (203 bp):
TTTCTCTCTAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAACCTTTGAGAAT
GTTTCTCTAAAACAAATTGTGTCTCACTTGAGACAATTTCTCCTAAAACACAAACATTTCAGATT
GTTTTTCTAAAAACAAATTTCATCTCACTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCT
TGAGACAA
Found at i:16297853 original size:104 final size:104
Alignment explanation
Indices: 16297612--16297945 Score: 391
Period size: 104 Copynumber: 3.3 Consensus size: 104
16297602 AAGAAACGAT
* *
16297612 CATTTGAGATTGTTTTTCTTAAAAAACAAATTTCGTCTCACTTGAGATAGTTTCCCCTAG--AAA
1 CATTTGAGATTGTTTTTCTT-AAAAACAAATTTCGTCTCGCTTGAGATAGTTT--TCTAGCAAAA
* * * * * **
16297675 TAC-AAATTTTGAAATTG--TCACTTAAAACAAAATTTATCC
63 CACAAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAATAA
* * *
16297714 CACTTGAGATTG---TTC-TCAAAACAAATTTCGTCTCGCTTGATATAGTTTTCTAGCAAAACAC
1 CATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCGCTTGAGATAGTTTTCTAGCAAAACAC
* * *
16297775 AAAATTTGGAAATTGTTTCCCTTGAAACAAAAGTGATTA
66 AAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAATAA
* * ***
16297814 CATTTGAGATTGTTTTTCTTGAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCCTCAAAACAC
1 CATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCGCTTGAGATAGTTTTCTAGCAAAACAC
16297879 AAAATTTGGAAATTGTTT-CCTTGAAACAAAATTAATAA
66 AAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAATAA
16297917 CATTTGAGATTGTTTTTCTTAAAAACAAA
1 CATTTGAGATTGTTTTTCTTAAAAACAAA
16297946 ATATCATATA
Statistics
Matches: 199, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
95 4 0.02
97 34 0.17
98 14 0.07
99 3 0.02
100 27 0.14
102 11 0.06
103 48 0.24
104 58 0.29
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (104 bp):
CATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCGCTTGAGATAGTTTTCTAGCAAAACAC
AAAATTTGGAAATTGTTTCCCTTGAAACAAAATTAATAA
Found at i:16300086 original size:29 final size:30
Alignment explanation
Indices: 16300000--16300087 Score: 79
Period size: 31 Copynumber: 2.9 Consensus size: 30
16299990 CTAAACAAAA
* *
16300000 AATATAACTTTCAAAAATTACATTTTTGGTC
1 AATA-AACTTTCAAAAATTACATTTTAGCTC
* * * *
16300031 AATAAACGTTTCTAAATTTATACTTTAGCT-
1 AATAAAC-TTTCAAAAATTACATTTTAGCTC
* *
16300061 ATTAAACTTTCAAAACTTACATTTTAG
1 AATAAACTTTCAAAAATTACATTTTAG
16300088 TCACTAACCA
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
29 16 0.36
30 9 0.20
31 20 0.44
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.42
Consensus pattern (30 bp):
AATAAACTTTCAAAAATTACATTTTAGCTC
Found at i:16305867 original size:5 final size:5
Alignment explanation
Indices: 16305853--16305934 Score: 155
Period size: 5 Copynumber: 16.4 Consensus size: 5
16305843 GTCATTTGTC
*
16305853 ATATT TTATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
16305903 ATATT ATATT ATATT ATATT ATATT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT AT
16305935 GCTGTTTGAT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 75 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:16306032 original size:22 final size:22
Alignment explanation
Indices: 16306007--16306055 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
16305997 ATAATGTTTT
* *
16306007 TGTTTGATTATATTTTGGTCAC
1 TGTTTAATTATAATTTGGTCAC
*
16306029 TGTTTAATTATAATTTGGTTAC
1 TGTTTAATTATAATTTGGTCAC
16306051 TGTTT
1 TGTTT
16306056 TTATTTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.06, G:0.16, T:0.57
Consensus pattern (22 bp):
TGTTTAATTATAATTTGGTCAC
Found at i:16306817 original size:14 final size:15
Alignment explanation
Indices: 16306798--16306827 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16306788 TTGTTTTAAT
16306798 AATTTT-TTAAAATA
1 AATTTTATTAAAATA
16306812 AATTTTATTAAAATA
1 AATTTTATTAAAATA
16306827 A
1 A
16306828 CAAATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTTATTAAAATA
Found at i:16313535 original size:19 final size:22
Alignment explanation
Indices: 16313496--16313536 Score: 61
Period size: 19 Copynumber: 2.0 Consensus size: 22
16313486 ATCATATGAA
16313496 CATATATAATATATGCATGTAT
1 CATATATAATATATGCATGTAT
16313518 CATA-ATAAT-TAT-CATGTAT
1 CATATATAATATATGCATGTAT
16313537 GCATGTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
21 5 0.26
22 4 0.21
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (22 bp):
CATATATAATATATGCATGTAT
Found at i:16327656 original size:177 final size:179
Alignment explanation
Indices: 16327306--16327773 Score: 643
Period size: 177 Copynumber: 2.6 Consensus size: 179
16327296 GATCCAAATT
* * * * *
16327306 AAAAATGTGTAGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TCAAATGATA
* * * * * *
16327371 AAACCGATAAAGCGCTATCGGATACATTTAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
65 AAACCGGTAAAACGATACCGGATATA-TTGAAGTGTCGATAC-TTAATATAAGGATCGACACTTC
* * *
16327436 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
128 ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
16327488 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAATGAT-A
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAATGATAA
* *
16327552 AACCGGTAAAACGTTACCGGATATATTGAAGTGTCGATACTT-ATATAAGGATCGACACTTTATG
66 AACCGGTAAAACGATACCGGATATATTGAAGTGTCGATACTTAATATAAGGATCGACACTTCATG
** *
16327616 AATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 AATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * *
16327665 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATTAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATC-AAATGATA
* *
16327730 AAACCGGTAAAATGATACCAGATATATTGAAAGTGTCGATACTT
65 AAACCGGTAAAACGATACCGGATATATTG-AAGTGTCGATACTT
16327774 TCGTAAGTAC
Statistics
Matches: 255, Mismatches: 28, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
177 115 0.45
178 9 0.04
179 40 0.16
180 35 0.14
181 7 0.03
182 49 0.19
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (179 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAATGATAA
AACCGGTAAAACGATACCGGATATATTGAAGTGTCGATACTTAATATAAGGATCGACACTTCATG
AATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:16329954 original size:20 final size:21
Alignment explanation
Indices: 16329917--16329980 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
16329907 AAAGACATCA
*
16329917 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
16329938 AGAGTCGAAGA-AAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
16329958 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
16329979 AG
1 AG
16329981 GATGGGTAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 19 0.47
21 21 0.52
ACGTcount: A:0.42, C:0.11, G:0.30, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:16330049 original size:33 final size:33
Alignment explanation
Indices: 16330007--16330072 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
16329997 AAAAAGATGG
*
16330007 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
16330040 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
16330073 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:16331867 original size:19 final size:19
Alignment explanation
Indices: 16331843--16331891 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
16331833 AATGTAGGGT
16331843 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
16331862 TAATTTTGTGTACGATTTA
1 TAATTTTGTATAAGATTTA
16331881 TAATTTTGTAT
1 TAATTTTGTAT
16331892 GTGAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:16332443 original size:192 final size:196
Alignment explanation
Indices: 16332003--16333105 Score: 1858
Period size: 192 Copynumber: 5.7 Consensus size: 196
16331993 AAATTACAAT
*
16332003 ATGGCAAATAGGGTGCAA-CAT-AAGTGTCGATCCATATA-AAAAGTGTCGATCCCATAAACATC
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATC
16332065 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
66 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
16332130 TGAGAGAATAGGTCTAAATAATGTGTCG-CACTTTGTAGTTTGTGTCGATATTTTGGTCCAGAAT
131 TGAGAGAATAGGTCTAAATAATGTGTCGAC-CTTTGTAGTTTGTGTCGATATTTTGGTCCAGAAT
16332194 GA
195 GA
*
16332196 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATA
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATC
*
16332261 GAAACCAAAAAGTAT-ATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
66 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
* *
16332325 TGAGAGAATAGGTCTAAATAA-ATGTCGACTTTTGTA-TTTGTGTCGATA-TTTGGTCCAGAATG
131 TGAGAGAATAGGTCTAAATAATGTGTCGACCTTTGTAGTTTGTGTCGATATTTTGGTCCAGAATG
16332387 A
196 A
* *
16332388 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATA
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATC
16332453 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA-CGGTACAAGTATA-CGGTTTTA
66 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
16332516 TGAGAGAATAGGTCTAAATAATGTGT-GACACTTTGTAG-TTGTGTCGATATTTTGGT-CAGAAT
131 TGAGAGAATAGGTCTAAATAATGTGTCGAC-CTTTGTAGTTTGTGTCGATATTTTGGTCCAGAAT
16332578 GA
195 GA
*
16332580 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAGTGTCGATCCCATAAA-ATC
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATC
*
16332644 GAAAACCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
66 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
16332708 TGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAGA
131 TGAGAGAATAGGTCTAAATAATGTGTCGAC-C-TTTGTAGTTTGTGTCGATA-TTTTGGTCCAGA
16332773 ATGA
193 ATGA
16332777 ATGG-AAACAGGGTGCAACCATAAAGTGTCGATCC--ATATAAAAGTGTCGAT-CC-TAAACATC
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATC
*
16332837 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTA
66 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
16332902 TGAGAGAATAGGTCTAAATAATGTGTCGACACTTTGTAGTTTGTGTCGATATTTTGGTCCAGAAT
131 TGAGAGAATAGGTCTAAATAATGTGTCGAC-CTTTGTAGTTTGTGTCGATATTTTGGTCCAGAAT
16332967 GA
195 GA
16332969 ATGGCAAACAGGGGTGCAACCATAAAGTGTCGATCCATATATAAACAGTGTCGAT-CCAT-AACA
1 ATGGCAAACA-GGGTGCAACCATAAAGTGTCGATCCATATATAAA-AGTGTCGATCCCATAAACA
* *
16333032 TCGAAA-CCATAAGTATAATGTAATAGGTAATTTTTC-ATCTAACCGGTACAAGTATACCGGTTT
64 TCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
16333095 TATGAGAGAAT
129 TATGAGAGAAT
16333106 TGGTATATAA
Statistics
Matches: 867, Mismatches: 19, Indels: 46
0.93 0.02 0.05
Matches are distributed among these distances:
190 12 0.01
191 75 0.09
192 251 0.29
193 123 0.14
194 128 0.15
195 136 0.16
196 108 0.12
197 33 0.04
198 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (196 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCATAAACATC
GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
TGAGAGAATAGGTCTAAATAATGTGTCGACCTTTGTAGTTTGTGTCGATATTTTGGTCCAGAATG
A
Found at i:16334665 original size:166 final size:169
Alignment explanation
Indices: 16334462--16334803 Score: 629
Period size: 166 Copynumber: 2.0 Consensus size: 169
16334452 TCATTGCAAC
*
16334462 ATGAAGTCTCCATGTTGCGTGACGAATTACATCAATGACATCAAACGAGTTAGGTAATTCATTAT
1 ATGATGTCTCCATGTTGCGTGACGAATTACATCAATGACATCAAACGAGTTAGGTAATTCATTAT
16334527 TTATGTTTCTAAATATTTTACACGTT-TGAACTGTATTTTA-TTTCTTTTAACAGATGTGGACAA
66 TTATGTTTCTAAATA-TTTACACGTTCTGAACTGTATTTTATTTTCTTTTAACAGATGTGGACAA
16334590 CCAAACGGTCAATGAAGATGAAG-G-CGATGAAGATGACG
130 CCAAACGGTCAATGAAGATGAAGCGACGATGAAGATGACG
16334628 ATGATGTCTCCATGTTGCGTGACGAATTACATCAATGACATCAAACGAGTTAGGTAATTCATTAT
1 ATGATGTCTCCATGTTGCGTGACGAATTACATCAATGACATCAAACGAGTTAGGTAATTCATTAT
16334693 TTATGTTTCTAAATATTTACACGTTCTGAACTGTATTTTATTTTCTTTTAACAGATGTGGACAAC
66 TTATGTTTCTAAATATTTACACGTTCTGAACTGTATTTTATTTTCTTTTAACAGATGTGGACAAC
16334758 CAAACGGTCAATGAAGATGAAGCTGACGATGAAGATGACG
131 CAAACGGTCAATGAAGATGAAGC-GACGATGAAGATGACG
16334798 ATGATG
1 ATGATG
16334804 ATGACGATGA
Statistics
Matches: 170, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
165 10 0.06
166 93 0.55
167 46 0.27
169 1 0.01
170 20 0.12
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (169 bp):
ATGATGTCTCCATGTTGCGTGACGAATTACATCAATGACATCAAACGAGTTAGGTAATTCATTAT
TTATGTTTCTAAATATTTACACGTTCTGAACTGTATTTTATTTTCTTTTAACAGATGTGGACAAC
CAAACGGTCAATGAAGATGAAGCGACGATGAAGATGACG
Found at i:16334779 original size:6 final size:6
Alignment explanation
Indices: 16334768--16334855 Score: 77
Period size: 6 Copynumber: 14.7 Consensus size: 6
16334758 CAAACGGTCA
* * * * *
16334768 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGACG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * *
16334816 CTGACG ATGAAG ATGACG ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
16334856 TCCAAACAAG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:16334805 original size:3 final size:3
Alignment explanation
Indices: 16334785--16334856 Score: 72
Period size: 3 Copynumber: 24.0 Consensus size: 3
16334775 TGAAGCTGAC
* * * * * * * *
16334785 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAC
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
16334833 GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
16334857 CCAAACAAGT
Statistics
Matches: 53, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.36, C:0.07, G:0.33, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:16334820 original size:36 final size:36
Alignment explanation
Indices: 16334768--16334849 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
16334758 CAAACGGTCA
16334768 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
*
16334804 ATGACGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
*
16334840 ATGATGATGA
1 ATGAAGATGA
16334850 TGATGATCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.38, C:0.09, G:0.33, T:0.21
Consensus pattern (36 bp):
ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
Found at i:16334856 original size:12 final size:12
Alignment explanation
Indices: 16334768--16334855 Score: 113
Period size: 12 Copynumber: 7.3 Consensus size: 12
16334758 CAAACGGTCA
*
16334768 ATGAAGATGAAG
1 ATGACGATGAAG
*
16334780 CTGACGATGAAG
1 ATGACGATGAAG
*
16334792 ATGACGATGATG
1 ATGACGATGAAG
16334804 ATGACGATGAAG
1 ATGACGATGAAG
*
16334816 CTGACGATGAAG
1 ATGACGATGAAG
*
16334828 ATGACGATGATG
1 ATGACGATGAAG
* *
16334840 ATGATGATGATG
1 ATGACGATGAAG
16334852 ATGA
1 ATGA
16334856 TCCAAACAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:16336287 original size:183 final size:182
Alignment explanation
Indices: 16336067--16337548 Score: 2548
Period size: 183 Copynumber: 8.1 Consensus size: 182
16336057 CAAAGTTTTC
* *
16336067 ACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGAGACCATT-
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACC-TTG
* * *
16336131 TCAAAAAGTGTCG-ATTGAAAAAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
65 TCAAAAAGTGTCGAATT--TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAAT
16336195 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 ATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
16336250 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGAAACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
16336315 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATATAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
*
16336380 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCA
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
16336433 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
16336498 CAAAAAGTGTCGACATTTACATATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
16336563 GACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
16336616 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
16336681 CAAAAAGTGTCGACATTTATACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
16336746 AACCGGTATAAATAT--CGGTTTTATGAGCGAATAGGTCTACAACC--TATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
16336795 ACAC-TTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAG-AAAATGTGTCGAAACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
** *
16336858 CAAAAAGTGTCGACATTTACACATCAAAACCCAGAATTATAATATAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
16336923 AACCGGTATAAATATACCGGTTTTATGAACGAATAGGTCTACAACCTATATCA
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
16336976 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
16337041 CAAAAAGTGTCGACATTTACATATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
16337106 GACTGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
16337159 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
* *
16337224 CAAAAAGTGTCGACATTTATACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
* *
16337289 AACAGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
16337342 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
*
16337407 CAAAAAGTGTCAACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGA-ATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
**
16337472 AACCGGTATAAATATACCGGTTTTATGAGTAAATAGGTCTACAACCTATATCG
130 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
16337525 ACACTTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
16337549 TTTTTAAGTA
Statistics
Matches: 1242, Mismatches: 48, Indels: 18
0.95 0.04 0.01
Matches are distributed among these distances:
177 95 0.08
178 39 0.03
179 37 0.03
181 37 0.03
182 41 0.03
183 990 0.80
185 3 0.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.33
Consensus pattern (182 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGAATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:16338840 original size:23 final size:23
Alignment explanation
Indices: 16338809--16338881 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
16338799 ATAGGTAAAA
*
16338809 ATATGATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
* *
16338832 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGTGCTT
16338855 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGTGCTT
16338878 ATAT
1 ATAT
16338882 TGTAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:16339250 original size:469 final size:476
Alignment explanation
Indices: 16338483--16340710 Score: 3503
Period size: 469 Copynumber: 4.7 Consensus size: 476
16338473 AGAAATGTAC
16338483 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAAT-ATTTTATTTTTTA
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTTATTTTTTA
* * * *
16338547 CGTTACGGTATATATTTTTAAAAATTAAACAC--ACATATACATATTTATTTATATATCATTGG-
65 CGTTACGGTATATATTATT--AAATTAAAAACTAACATATATATATTTA-TTAT-TATCTTTGGT
16338609 TAATATGTTAAATTTAAATAT-TAAATAATATTTTAT-AAATATC--AA-AA-CAAATAATTTTT
126 TAATATGTTAAATTTAAAT-TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
*
16338668 TGTGTAAATG-AATTATTAAATTAATATT-TA-GTGGAAAACATGAAACACTATT-AAAAAATTG
190 TGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
*
16338729 AAACATAAATTACATAACCTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
255 AAACATAAATTACAT-ACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
**
16338794 ATATAATAGGTAAAAATATGATGTAATAGGTAGTGCTTATATAATGTAATAGGTAGCGTTTATAT
319 ATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTATAT
*
16338859 AATGTAATAGGTAGTGCTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
384 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
16338924 TCACTGTGGAAAACATTAATTTAAGGTT
449 TCACTGTGGAAAACATTAATTTAAGGTT
16338952 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
16339016 GTTACGGTATATATTATT-AATTAAAAACTAACATATATATATTTATTATTATCTTTGGTTAATA
66 GTTACGGTATATATTATTAAATTAAAAACTAACATATATATATTTATTATTATCTTTGGTTAATA
*
16339080 TGTTAAATTTAAATTCT-AATAAT-TTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGTA
131 TGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
16339142 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
196 AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
*
16339207 AAATTAC-TACTTTAAAAAAAGTATCGATCTTTTTTAT-AAAAGTATGGACACTTTCAATATAAT
261 AAATTACATACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
16339270 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
326 AGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
* * * *
16339335 TAGGTAATGCTTATATTGTAAAGTATCTATCCTTTTCATAAAAATGTCCATACTTTTTTTACTGT
391 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
16339400 GGAAAACATTAATTTAAGGTT
456 GGAAAACATTAATTTAAGGTT
16339421 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATA-GCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
16339485 GTTACGGTATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTATTATTATCTTT
66 GTTACGGTATA-TATTATTAAATTAAAAAC--T-AACATATATA-T--AT-TTATTATTATCTTT
*
16339550 GGTTAATATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATT
123 GGTTAATA-TGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATT
16339615 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
187 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* *
16339680 TTGAAACATAAATTACATAATTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTT
252 TTGAAACATAAATTACATACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTT
16339745 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATAT-ATGTAATAGGTAGCG-TT-T
317 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTAT
*
16339807 ATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTAT-AAAGTGTCCATACTTT
382 ATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTT
16339871 TTTCACTGTGGAAAACATTAATTTAAGGTT
447 TTTCACTGTGGAAAACATTAATTTAAGGTT
* *
16339901 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAATAATTATATGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
* * *
16339966 GTTACGATATATATTATTAAATTAAAACAATAAACATATATTACATATTTATTATTATCTTT-GA
66 GTTACGGTATATATTATTAAATTAAAA-ACT-AACATATA-T--ATATTTATTATTATCTTTGGT
*
16340030 T-AT-TGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTT
126 TAATATGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTT
*
16340093 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGA
191 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGA
16340158 AACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
256 AACATAAATTACAT-ACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
*
16340222 TATAATAGGTAAAAATATAATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATA
320 TATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATA
16340287 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTT
385 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT-TTT
*
16340352 T-ACTGTAGAAAACATTAATTTAAGGTT
449 TCACTGTGGAAAACATTAATTTAAGGTT
* * ** * *
16340379 ATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATTTATATTTTAT
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
16340444 GTTACGGTATATATTATCATTAAATTAAAAACAACAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATA-T-T-ATTAAATT--AAA-AACTAAC--ATATA-T--ATATTTATTATTATC
* *
16340509 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAAAAATCAAATA
120 TTTGGTTAATA-TGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATA
* *
16340574 ATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGCAAAACATGAAACACTATT-AAA
184 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* * **
16340638 AAATTAAAACATAAATTACATAGCTTTAAAAAAAGTATCGATCTTTTTTATAAAAAAGTATAAAC
249 AAATTGAAACATAAATTACATA-CTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATGGAC
16340703 ACTTTCAA
312 ACTTTCAA
16340711 CATATTATAA
Statistics
Matches: 1651, Mismatches: 52, Indels: 92
0.92 0.03 0.05
Matches are distributed among these distances:
464 6 0.00
465 31 0.02
466 24 0.01
467 16 0.01
468 55 0.03
469 310 0.19
470 37 0.02
471 33 0.02
472 22 0.01
473 1 0.00
474 229 0.14
475 20 0.01
476 4 0.00
477 52 0.03
478 147 0.09
479 33 0.02
480 108 0.07
481 118 0.07
482 87 0.05
483 47 0.03
484 88 0.05
485 2 0.00
486 3 0.00
487 27 0.02
488 132 0.08
489 19 0.01
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (476 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGGTATATATTATTAAATTAAAAACTAACATATATATATTTATTATTATCTTTGGTTAATA
TGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACAT
AAATTACATACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTT
Found at i:16339309 original size:23 final size:23
Alignment explanation
Indices: 16339278--16339350 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
16339268 ATAGGTAAAA
*
16339278 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
16339301 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
**
16339324 ATATAATGTAATAGGTAATGCTT
1 ATATAATGTAATAGGTAGCGCTT
16339347 ATAT
1 ATAT
16339351 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:16339795 original size:22 final size:22
Alignment explanation
Indices: 16339762--16339836 Score: 100
Period size: 21 Copynumber: 3.5 Consensus size: 22
16339752 ATAGGTAAAA
*
16339762 ATATGATGTAATAGGTAGCACTT
1 ATAT-ATGTAATAGGTAGCGCTT
*
16339785 ATATATGTAATAGGTAGCGTTT
1 ATATATGTAATAGGTAGCGCTT
*
16339807 ATA-ATGTAATAGGTAGTGCTT
1 ATATATGTAATAGGTAGCGCTT
16339828 ATAT-TGTAA
1 ATATATGTAA
16339837 AGTATCTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
21 24 0.51
22 19 0.40
23 4 0.09
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.39
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:16340249 original size:20 final size:22
Alignment explanation
Indices: 16340224--16340298 Score: 64
Period size: 23 Copynumber: 3.4 Consensus size: 22
16340214 ACTTTCAATA
16340224 TAATAGGTA-A-AAATATAATG
1 TAATAGGTACACAAATATAATG
**
16340244 TAATAGGTAGCACTTATATAATG
1 TAATAGGTA-CACAAATATAATG
****
16340267 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTA-CACAAATATAATG
16340290 TAATAGGTA
1 TAATAGGTA
16340299 GTGCTTATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
20 9 0.19
22 1 0.02
23 38 0.79
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.35
Consensus pattern (22 bp):
TAATAGGTACACAAATATAATG
Found at i:16340266 original size:23 final size:23
Alignment explanation
Indices: 16340236--16340308 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
16340226 ATAGGTAAAA
*
16340236 ATATAATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGCTT
*
16340259 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
16340282 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
16340305 ATAT
1 ATAT
16340309 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:16352468 original size:67 final size:66
Alignment explanation
Indices: 16352346--16352630 Score: 277
Period size: 67 Copynumber: 4.2 Consensus size: 66
16352336 ACTGTCTGTC
* * *
16352346 ACCTTGGAGATTTTTCTCTCTCTAAATAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACA
1 ACCTTTGAGATTTTTCTCT-T-GAAATAAAGTTTTGTCTCGCTTTAGACAGTTTCTCTTGAAACA
16352411 TAAA
64 T-AA
* * * *
16352415 ACCTTTGAGATTGTTTCTCTTGAAATAAA-TTTTGTCTTGCTTTTGACAATTTCTCTTGAAATAT
1 ACCTTTGAGATT-TTTCTCTTGAAATAAAGTTTTGTCTCGCTTTAGACAGTTTCTCTTGAAACAT
16352479 AA
65 AA
* * * * *
16352481 ACCTTTCAGATTTTTTTTCTCGAAACAAAGTTTTATCTCGCTTTAGACAGTTTCTCTTGAAACA-
1 ACCTTTGAGA-TTTTTCTCTTGAAATAAAGTTTTGTCTCGCTTTAGACAGTTTCTCTTGAAACAT
16352545 AA
65 AA
* ** * * *
16352547 TTTTGTCTCTCTTGAGACAATTTCTCTTGAAACAAAGTTTTGTTTCGCTTGAGACAGTTTCTCTT
1 -----AC-CT-TTGAGA-TTTTTCTCTTGAAATAAAGTTTTGTCTCGCTTTAGACAGTTTCTCTT
16352612 GAAACATAA
58 GAAACATAA
16352621 ACCTTTGAGA
1 ACCTTTGAGA
16352631 ATGTTCTCAA
Statistics
Matches: 178, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
66 26 0.15
67 67 0.38
68 9 0.05
69 13 0.07
70 7 0.04
71 1 0.01
72 2 0.01
73 51 0.29
74 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (66 bp):
ACCTTTGAGATTTTTCTCTTGAAATAAAGTTTTGTCTCGCTTTAGACAGTTTCTCTTGAAACATA
A
Found at i:16352571 original size:36 final size:37
Alignment explanation
Indices: 16352502--16352617 Score: 180
Period size: 37 Copynumber: 3.2 Consensus size: 37
16352492 TTTTTTTCTC
* *
16352502 GAAACAAAGTTTTATCTCGCTTTAGACAGTTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
* *
16352539 GAAACAAA-TTTTGTCTCTCTTGAGACAATTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
*
16352575 GAAACAAAGTTTTGTTTCGCTTGAGACAGTTTCTCTT
1 GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
16352612 GAAACA
1 GAAACA
16352618 TAAACCTTTG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 32 0.45
37 39 0.55
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (37 bp):
GAAACAAAGTTTTGTCTCGCTTGAGACAGTTTCTCTT
Found at i:16352939 original size:104 final size:104
Alignment explanation
Indices: 16352683--16353018 Score: 357
Period size: 104 Copynumber: 3.3 Consensus size: 104
16352673 TTAAGAAACG
* ** *
16352683 AACATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCACTTGAGAT-AGGTTCC-CCTAGAA
1 AACATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCAGC-A-AA
* * * * * * *
16352746 ATA-TAAATTTTGAAATTG--TCACTTAAAACAAAATTTAT
64 ACACAAAATTTGGAAATTGTTTCCCTTGAAACAAAAGTAAT
** * * * *
16352784 CCCACTTGAGATTG---TTC-TCAAAACAAATTTCGTCTCGCTTGATATAGTTTTCCAGCAAAAC
1 AACATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCAGCAAAAC
*
16352845 ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAAGTGAT
66 ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAAGTAAT
* * * * **
16352884 TACATTTGAGATTGTTTTTCTTGAAAATAAATTTTGTCTCGCTTGAGATAATTTTCCCTCAAAAC
1 AACATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCAGCAAAAC
* *
16352949 ACAAAATTTGGAAATTGTTTCCCTTGAAACAGAATTAAT
66 ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAAGTAAT
16352988 AACATTTGAGATTGTTTTTCTTAAAAACAAA
1 AACATTTGAGATTGTTTTTCTTAAAAACAAA
16353019 ATATCATATC
Statistics
Matches: 193, Mismatches: 33, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
97 29 0.15
98 21 0.11
99 1 0.01
100 27 0.14
101 11 0.06
103 3 0.02
104 101 0.52
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (104 bp):
AACATTTGAGATTGTTTTTCTTAAAAACAAATTTCGTCTCGCTTGAGATAATTTTCCAGCAAAAC
ACAAAATTTGGAAATTGTTTCCCTTGAAACAAAAGTAAT
Found at i:16361060 original size:5 final size:5
Alignment explanation
Indices: 16361029--16361058 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
16361019 GTCATTTTTC
*
16361029 ATATT ATATT ATATT ATATT ATATT TTATT
1 ATATT ATATT ATATT ATATT ATATT ATATT
16361059 TTGTTGTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
ATATT
Found at i:16361158 original size:22 final size:22
Alignment explanation
Indices: 16361133--16361192 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
16361123 ATAATGTTTT
*
16361133 TGTTTGATTATATTTTGGTCAC
1 TGTTTAATTATATTTTGGTCAC
* *
16361155 TGTTTAATTATAATTTGGTTAC
1 TGTTTAATTATATTTTGGTCAC
* * *
16361177 TATTTTATTTTATTTT
1 TGTTTAATTATATTTT
16361193 TATTTCTATC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.22, C:0.05, G:0.12, T:0.62
Consensus pattern (22 bp):
TGTTTAATTATATTTTGGTCAC
Found at i:16361959 original size:14 final size:15
Alignment explanation
Indices: 16361940--16361969 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16361930 TTATTTTAAT
16361940 AATTTT-TTAAAATA
1 AATTTTATTAAAATA
16361954 AATTTTATTAAAATA
1 AATTTTATTAAAATA
16361969 A
1 A
16361970 CAAATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATTTTATTAAAATA
Found at i:16369717 original size:19 final size:19
Alignment explanation
Indices: 16369693--16369734 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
16369683 ATTTTTTTTT
16369693 TAAAAAA-ACAAACTTTAAA
1 TAAAAAAGACAAA-TTTAAA
16369712 TAAAAAAGACAAATTTAAA
1 TAAAAAAGACAAATTTAAA
16369731 -AAAA
1 TAAAA
16369735 TAAATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (19 bp):
TAAAAAAGACAAATTTAAA
Found at i:16377659 original size:29 final size:29
Alignment explanation
Indices: 16377617--16377675 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16377607 ATTTTCACCT
16377617 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
16377646 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
16377675 A
1 A
16377676 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:16382347 original size:29 final size:29
Alignment explanation
Indices: 16382305--16382363 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
16382295 ATTTTCACCT
16382305 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
16382334 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
16382363 A
1 A
16382364 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:16385113 original size:30 final size:30
Alignment explanation
Indices: 16385077--16385138 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
16385067 GCACATCATA
16385077 CACACATGGTATAAACATACATTTTAGGAG
1 CACACATGGTATAAACATACATTTTAGGAG
16385107 CACACATGGTATAAACATACATTTTAGGAG
1 CACACATGGTATAAACATACATTTTAGGAG
16385137 CA
1 CA
16385139 GCAGATCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (30 bp):
CACACATGGTATAAACATACATTTTAGGAG
Found at i:16389811 original size:30 final size:30
Alignment explanation
Indices: 16389775--16389872 Score: 178
Period size: 30 Copynumber: 3.3 Consensus size: 30
16389765 TTGGATGATT
*
16389775 TTGAAGCTAAATGGGTAAGAATATTTATAG
1 TTGAAGCTAAATGGGTAAGAGTATTTATAG
16389805 TTGAAGCTAAATGGGTAAGAGTATTTATAG
1 TTGAAGCTAAATGGGTAAGAGTATTTATAG
16389835 TTGAAGCTAAATGGGTAAGAGTATTTATAG
1 TTGAAGCTAAATGGGTAAGAGTATTTATAG
*
16389865 TTTAAGCT
1 TTGAAGCT
16389873 TATGGACTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (30 bp):
TTGAAGCTAAATGGGTAAGAGTATTTATAG
Found at i:16398483 original size:22 final size:21
Alignment explanation
Indices: 16398441--16398480 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
16398431 GAGTTTGTTT
*
16398441 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
16398462 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
16398481 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:16409597 original size:17 final size:16
Alignment explanation
Indices: 16409563--16409593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16409553 ATATTGAAAC
*
16409563 TTGAACTCAAAAAGAT
1 TTGAACTCAAAAAAAT
16409579 TTGAACTCAAAAAAA
1 TTGAACTCAAAAAAA
16409594 ATTTAGAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.10, T:0.23
Consensus pattern (16 bp):
TTGAACTCAAAAAAAT
Done.