Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 47 of 222
Found at i:13933792 original size:13 final size:13
Alignment explanation
Indices: 13933774--13933811 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
13933764 TCTAAAATGG
13933774 TTCTTCTTTCTTC
1 TTCTTCTTTCTTC
13933787 TTCTTCTTTCTTC
1 TTCTTCTTTCTTC
13933800 TTCTTCTTTCTT
1 TTCTTCTTTCTT
13933812 AAGTGGTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTCTTTCTTC
Found at i:13933811 original size:10 final size:9
Alignment explanation
Indices: 13933774--13933807 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
13933764 TCTAAAATGG
13933774 TTCTTCTTTC
1 TTCTTC-TTC
13933784 TTCTTCTTC
1 TTCTTCTTC
13933793 TTTCTTCTTC
1 -TTCTTCTTC
13933803 TTCTT
1 TTCTT
13933808 TCTTAAGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 15 0.65
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (9 bp):
TTCTTCTTC
Found at i:13941159 original size:24 final size:24
Alignment explanation
Indices: 13941111--13941157 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
13941101 ATATTTTATG
13941111 TATCATTATATTAAATTATTTAAA
1 TATCATTATATTAAATTATTTAAA
13941135 TATCATT-TATTATAA-TATTTAAA
1 TATCATTATATTA-AATTATTTAAA
13941158 ATTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TATCATTATATTAAATTATTTAAA
Found at i:13941207 original size:26 final size:26
Alignment explanation
Indices: 13941157--13941209 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
13941147 TAATATTTAA
*
13941157 AATTTTAAAATATATTATGTATAATT
1 AATTTTAAAATATATTATATATAATT
13941183 AATTTTACAAATA-ATT-TATACTAATT
1 AATTTTA-AAATATATTATATA-TAATT
13941209 A
1 A
13941210 CTCAAGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 3 0.12
26 16 0.67
27 5 0.21
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (26 bp):
AATTTTAAAATATATTATATATAATT
Found at i:13948623 original size:20 final size:20
Alignment explanation
Indices: 13948598--13948635 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13948588 AATCAAGGAA
13948598 GCAATCAAGAAGGTTGATAT
1 GCAATCAAGAAGGTTGATAT
*
13948618 GCAATCAAGGAGGTTGAT
1 GCAATCAAGAAGGTTGAT
13948636 TGGATTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GCAATCAAGAAGGTTGATAT
Found at i:13954616 original size:6 final size:6
Alignment explanation
Indices: 13954605--13954633 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
13954595 TGTTGTAGTT
13954605 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
13954634 TTTCCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:13956821 original size:20 final size:20
Alignment explanation
Indices: 13956798--13956836 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13956788 CAATTTAAAA
13956798 TATAAAAAATTATTAATATG
1 TATAAAAAATTATTAATATG
* **
13956818 TATATAATTTTATTAATAT
1 TATAAAAAATTATTAATAT
13956837 ATGTAAAAAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAAATTATTAATATG
Found at i:13956958 original size:20 final size:20
Alignment explanation
Indices: 13956933--13956972 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13956923 AATATTTTCA
13956933 GTAAATCATTTTCCAGAAAT
1 GTAAATCATTTTCCAGAAAT
13956953 GTAAATCATTTTCCAGAAAT
1 GTAAATCATTTTCCAGAAAT
13956973 CATTTTCCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.10, T:0.35
Consensus pattern (20 bp):
GTAAATCATTTTCCAGAAAT
Found at i:13956973 original size:34 final size:33
Alignment explanation
Indices: 13956922--13956985 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
13956912 AAACACCAGA
13956922 AAATATTTTCAGTAAATCATTTTCCAGAAATGT
1 AAATATTTTCAGTAAATCATTTTCCAGAAATGT
*
13956955 AAATCATTTTCCAG-AAATCATTTTCCGGAAA
1 AAAT-ATTTT-CAGTAAATCATTTTCCAGAAA
13956986 ACATTTTACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 21 0.75
35 3 0.11
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (33 bp):
AAATATTTTCAGTAAATCATTTTCCAGAAATGT
Found at i:13956974 original size:14 final size:14
Alignment explanation
Indices: 13956955--13956992 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
13956945 CCAGAAATGT
13956955 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
13956969 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
13956983 AAAACATTTT
1 AAATCATTTT
13956993 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:13959773 original size:31 final size:32
Alignment explanation
Indices: 13959700--13959776 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 32
13959690 ATCTATAAAA
13959700 ATTAAATCAAAACATTTAAAGTATAAAATTACAT
1 ATTAAATC-AAA-ATTTAAAGTATAAAATTACAT
* *
13959734 A--AAATCAAAATTT-ATGTATAATATTACAT
1 ATTAAATCAAAATTTAAAGTATAAAATTACAT
13959763 ATTAAATCAAAATT
1 ATTAAATCAAAATT
13959777 CATTTATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 15 0.38
30 4 0.10
31 14 0.36
32 5 0.13
34 1 0.03
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.35
Consensus pattern (32 bp):
ATTAAATCAAAATTTAAAGTATAAAATTACAT
Found at i:13961277 original size:17 final size:17
Alignment explanation
Indices: 13961251--13961284 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13961241 TATGGTCTAT
*
13961251 ATATAGTATACTAAAAA
1 ATATAGTATAATAAAAA
*
13961268 ATATATTATAATAAAAA
1 ATATAGTATAATAAAAA
13961285 TTTAAGTCTA
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:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (17 bp):
ATATAGTATAATAAAAA
Found at i:13962091 original size:9 final size:9
Alignment explanation
Indices: 13962077--13962101 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13962067 TAGAATTAAA
13962077 AAATATATT
1 AAATATATT
13962086 AAATATATT
1 AAATATATT
13962095 AAATATA
1 AAATATA
13962102 AAAATATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAATATATT
Found at i:13963466 original size:18 final size:18
Alignment explanation
Indices: 13963439--13963478 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
13963429 CTTTGCTTCA
*
13963439 ACTGCTGTGGAACCGTCG
1 ACTGCCGTGGAACCGTCG
*
13963457 ACTGCCGTGGAACCGTTG
1 ACTGCCGTGGAACCGTCG
13963475 ACTG
1 ACTG
13963479 GAAAAGAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.23
Consensus pattern (18 bp):
ACTGCCGTGGAACCGTCG
Found at i:13985829 original size:25 final size:26
Alignment explanation
Indices: 13985781--13985829 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
13985771 TGCACATAAA
*
13985781 TCGAATCATCTCGAGACACACATTAT
1 TCGAATCATATCGAGACACACATTAT
* *
13985807 TCGAAT-ATATCGCGACAGACATT
1 TCGAATCATATCGAGACACACATT
13985830 CATAGTATGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (26 bp):
TCGAATCATATCGAGACACACATTAT
Found at i:13986400 original size:189 final size:190
Alignment explanation
Indices: 13986080--13986459 Score: 708
Period size: 189 Copynumber: 2.0 Consensus size: 190
13986070 TATCGTGACC
*
13986080 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCGTCCAGTGACCTTTGT
1 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCATCCAGTGACCTTTGT
13986145 GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTA-TT
66 GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTATTT
*
13986209 TTTTTATCATGGTAATCATTACATTTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
131 TTTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
*
13986269 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCATCTAGTGACCTTTGT
1 AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCATCCAGTGACCTTTGT
* *
13986334 GTTACTCTTATATGATACTTTAATCTCTTTGGGATAATATTTGTTCTCCTAATATGATCCTATTT
66 GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTATTT
13986399 TTTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
131 TTTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
13986459 A
1 A
13986460 TTAAGTCATG
Statistics
Matches: 185, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
189 123 0.66
190 62 0.34
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (190 bp):
AAACTCTCCCTAATAACATACTATTACGAAAGCTACTCAATCAGTGCTCATCCAGTGACCTTTGT
GTTACTCTTATATGATACCTTAATCTCTTTGGGATAATATTCGTTCTCCTAATATGATCCTATTT
TTTTTATCATGGTAATCATTACATCTTTCTTCATAAAAAGTCATTTACTATCAAATAGTA
Found at i:13988829 original size:43 final size:43
Alignment explanation
Indices: 13988703--13988808 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
13988693 TGTATCAATA
* *
13988703 GATAAATCAAAAGAAATATACTGGCACACATAGTGCATCATCG
1 GATAAATCGAAACAAATATACTGGCACACATAGTGCATCATCG
* *
13988746 GATAAACCGAAGC-AATCATACTGGCACACATAGTGCATCATCG
1 GATAAATCGAAACAAAT-ATACTGGCACACATAGTGCATCATCG
13988789 GATAAATCGAAACAAATATA
1 GATAAATCGAAACAAATATA
13988809 TTGACATAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 3 0.05
43 49 0.89
44 3 0.05
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.20
Consensus pattern (43 bp):
GATAAATCGAAACAAATATACTGGCACACATAGTGCATCATCG
Found at i:13990716 original size:19 final size:20
Alignment explanation
Indices: 13990692--13990730 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13990682 AATTCATTGT
*
13990692 ATAATTTAA-AAATAAAATA
1 ATAATTGAAGAAATAAAATA
*
13990711 ATAATTGAAGTAATAAAATA
1 ATAATTGAAGAAATAAAATA
13990731 TATTTATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAATTGAAGAAATAAAATA
Found at i:13999413 original size:6 final size:6
Alignment explanation
Indices: 13999402--13999468 Score: 50
Period size: 6 Copynumber: 11.2 Consensus size: 6
13999392 CAACACATAG
* ***
13999402 AATAAA AATAAA AATAATA AA-AATA AA-AAT AATAAA AATTTT AAT-AA
1 AATAAA AATAAA AATAA-A AATAA-A AATAAA AATAAA AATAAA AATAAA
13999449 AATAAA AATAAA ATATAAA A
1 AATAAA AATAAA A-ATAAA A
13999469 CTGAAAACCT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
5 5 0.10
6 36 0.72
7 9 0.18
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
AATAAA
Found at i:13999448 original size:15 final size:15
Alignment explanation
Indices: 13999402--13999440 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
13999392 CAACACATAG
13999402 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
13999417 AATAAAAATAAAAAT
1 AATAAAAATAAAAAT
13999432 AATAAAAAT
1 AATAAAAAT
13999441 TTTAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAAAAATAAAAAT
Found at i:14008676 original size:49 final size:50
Alignment explanation
Indices: 14008604--14008720 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 50
14008594 CAAAGCTATG
* * * *
14008604 TCCCAGACATAGTTTTACATGAGATGTT-TCTTGTA-CTACCAATGCCATA
1 TCCCAGACATGGTCTTACATGAGA-GTTCTCATATAGCTACCAATGCCATA
* * * * *
14008653 TCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTGCCCATGCCCTA
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTACCAATGCCATA
14008703 TCCCAGACATGGTCTTAC
1 TCCCAGACATGGTCTTAC
14008721 GGGGGACCTC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
48 3 0.05
49 26 0.46
50 27 0.48
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTACCAATGCCATA
Found at i:14008733 original size:50 final size:50
Alignment explanation
Indices: 14008642--14008837 Score: 167
Period size: 50 Copynumber: 3.8 Consensus size: 50
14008632 TCTTGTACTA
* * **
14008642 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * ** * *
14008692 CCCATGCCCTATCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * * * * *
14008742 CCAACGCCATGTCCTAGACATAGTCTTACATCGGACCTCTCATAATCTCAATGATG
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTG
* * *
14008798 CCAATGCCATGTTCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCT
14008838 TTACCCAAAT
Statistics
Matches: 112, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
50 74 0.66
53 1 0.01
56 37 0.33
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (50 bp):
CCAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
Found at i:14013139 original size:16 final size:16
Alignment explanation
Indices: 14013115--14013145 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14013105 TCACCAAAGT
*
14013115 GAAGGGATGATGGTTG
1 GAAGAGATGATGGTTG
14013131 GAAGAGATGATGGTT
1 GAAGAGATGATGGTT
14013146 TTAGGGATGA
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:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (16 bp):
GAAGAGATGATGGTTG
Found at i:14018054 original size:20 final size:18
Alignment explanation
Indices: 14018007--14018057 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
14017997 CAAGATAAGC
14018007 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
14018024 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
14018044 ATTAAATTAATATT
1 ATTAAATTAATATT
14018058 ATTTTTGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
17 8 0.28
18 3 0.10
19 3 0.10
20 15 0.52
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:14025606 original size:585 final size:581
Alignment explanation
Indices: 14024500--14025670 Score: 2198
Period size: 585 Copynumber: 2.0 Consensus size: 581
14024490 TCAATTCAAT
*
14024500 AATCTCTTAATCAATATATTTTATAATATACAAAATCAATCCATTTCAAATCCACTATTAATTCA
1 AATCTCTTAATCAATATATTTCATAATATACAAAATCAATCCATTTCAAATCCACTATTAATTCA
*
14024565 ATTCAATCTCAAACTACCAAAGTACTCACCTCAAATGCTTACCATATGCAAATAATTTAAATATG
66 ATTCAATCTCAAACTAACAAAGTACTCACCTCAAATGCTTACCATATGCAAATAATTTAAATATG
*
14024630 CAATATTCTACTAGTTAATTCGAATTATAGAAACACAAACCGTGAATTTCGAGCTATTCAACGTC
131 CAACATTCTACTAGTTAATTCGAATTATAGAAACACAAACCGTGAATTTCGAGCTATTCAACGTC
14024695 GATTTTATCATTTCCCTTTTTACTCGAGGATTCCGGTACGACATTAGCTAAGGAATAAATTAAAA
196 GATTTTATCATTTCCCTTTTTACTCGAGGATTCCGGTACGACATTAGCTAAGGAATAAATTAAAA
*
14024760 TACGTTAATATTACACAATTAAATTTCACATTGAATTTCAATTTTTACACTATATTTTGCTTATT
261 TACGTTAATATTACACAACTAAATTTCACATTGAATTTCAATTTTTACACTATATTTTGCTTATT
* * *
14024825 TTTCAATTTAGTCCCTAAACTGAGATTAGTTTTTAACCTTCATATTTAAATTTATATTTTTATAC
326 TTTCAATTTAGTCCCTAAACTCAGACTAGTTTTTAACCTTCACATTTAAATTTATATTTTTATAC
*
14024890 TAATTTCACTCTAACTAAATTTAGCTTCCTCTTTTCCAATTCGACCTCTTAATTTCTAATTTTTC
391 TAATTTCACTCTAACGAAATTTAGCTTCCTCTTTTCCAATTCGACCTCTTAATTTCTAATTTTTC
* *
14024955 ACTATTTAGTCCTTATTACTCAAAATTAACAATTTATTCCATAATTTAGTCATTTTCCATTTTCA
456 ACAATTTAGTCATTATTACTCAAAATTAACAATTTATTCCATAATTTAGTCATTTTCCATTTTCA
14025020 ACTTAAAAATCTATCTATTTAATCCCTAATACTTAAACTATTCAACAATGTCAACACTTAA
521 ACTTAAAAATCTATCTATTTAATCCCTAATACTTAAACTATTCAACAATGTCAACACTTAA
14025081 AATCTCTTAATCAATATATTTCATAATATACAAAATCAATCCATTTCAAATCCACTATTAATTCA
1 AATCTCTTAATCAATATATTTCATAATATACAAAATCAATCCATTTCAAATCCACTATTAATTCA
14025146 ATTCAATCTCAAACTAACAAAGTACTCACCTCAAATGCTTACCATATGCAAATAATTTAAATATG
66 ATTCAATCTCAAACTAACAAAGTACTCACCTCAAATGCTTACCATATGCAAATAATTTAAATATG
14025211 CAACATTCTACTAGTTAATTCGAATTATAGAAACACAAACCGTGAATTTCGAGCTATTCAACGTC
131 CAACATTCTACTAGTTAATTCGAATTATAGAAACACAAACCGTGAATTTCGAGCTATTCAACGTC
*
14025276 GATTTTATCCTTTCCCTTTTTACTCGAGGATTCCGGTACGACATTAGCTAAGGAATACAACAATT
196 GATTTTATCATTTCCCTTTTTACTCGAGGATTCCGGTACGACATTAGCTAAGGAAT---A-AATT
14025341 AAAATACGTTAATATTACACAACTAAATTTCACATTGAATTTCAATTTTTACACTATATTTTGCT
257 AAAATACGTTAATATTACACAACTAAATTTCACATTGAATTTCAATTTTTACACTATATTTTGCT
14025406 TATTTTTCAATTTAGTCCCTAAACTCAGACTAGTTTTTAACCTTCACATTTAAATTTATATTTTT
322 TATTTTTCAATTTAGTCCCTAAACTCAGACTAGTTTTTAACCTTCACATTTAAATTTATATTTTT
14025471 ATACTAATTTCACTCTAACGAAATTTAGCTTCCTCTTTTCCAATTCGACCTCTTAATTTCTAATT
387 ATACTAATTTCACTCTAACGAAATTTAGCTTCCTCTTTTCCAATTCGACCTCTTAATTTCTAATT
14025536 TTTCACAATTTAGTCATTATTACTCAAAATTAACAATTTATTCCATAATTTAGTCATTTTCCATT
452 TTTCACAATTTAGTCATTATTACTCAAAATTAACAATTTATTCCATAATTTAGTCATTTTCCATT
*
14025601 TTCAACTTAAAAATCTATCTATTTAATCCTTAATACTTAAACTATTCAACAATGTCAACACTTAA
517 TTCAACTTAAAAATCTATCTATTTAATCCCTAATACTTAAACTATTCAACAATGTCAACACTTAA
14025666 AATCT
1 AATCT
14025671 TGAACAATAC
Statistics
Matches: 574, Mismatches: 12, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
581 247 0.43
584 1 0.00
585 326 0.57
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (581 bp):
AATCTCTTAATCAATATATTTCATAATATACAAAATCAATCCATTTCAAATCCACTATTAATTCA
ATTCAATCTCAAACTAACAAAGTACTCACCTCAAATGCTTACCATATGCAAATAATTTAAATATG
CAACATTCTACTAGTTAATTCGAATTATAGAAACACAAACCGTGAATTTCGAGCTATTCAACGTC
GATTTTATCATTTCCCTTTTTACTCGAGGATTCCGGTACGACATTAGCTAAGGAATAAATTAAAA
TACGTTAATATTACACAACTAAATTTCACATTGAATTTCAATTTTTACACTATATTTTGCTTATT
TTTCAATTTAGTCCCTAAACTCAGACTAGTTTTTAACCTTCACATTTAAATTTATATTTTTATAC
TAATTTCACTCTAACGAAATTTAGCTTCCTCTTTTCCAATTCGACCTCTTAATTTCTAATTTTTC
ACAATTTAGTCATTATTACTCAAAATTAACAATTTATTCCATAATTTAGTCATTTTCCATTTTCA
ACTTAAAAATCTATCTATTTAATCCCTAATACTTAAACTATTCAACAATGTCAACACTTAA
Found at i:14027748 original size:16 final size:16
Alignment explanation
Indices: 14027727--14027757 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14027717 AACATATATA
14027727 AAAAAATAATTACATG
1 AAAAAATAATTACATG
14027743 AAAAAATAATTACAT
1 AAAAAATAATTACAT
14027758 CCTAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAAATAATTACATG
Found at i:14029581 original size:44 final size:43
Alignment explanation
Indices: 14029212--14030233 Score: 325
Period size: 44 Copynumber: 23.6 Consensus size: 43
14029202 TAATGTGCCT
* *
14029212 CACTGCAACTTCA-GGAGGATAATACTTGCTGATTTAGTCTGC-C
1 CACTGCAACTTCAGGGA-GATAAGACTTGCT-AATTAGTCTGCTC
** *
14029255 TCACTGCAACTTCA-GGAGGATAAGACTTGCTTACCTAGTTTGCTC
1 -CACTGCAACTTCAGGGA-GATAAGACTTGC-TAATTAGTCTGCTC
* * * ***
14029300 CACTGCAACTTCA-GGAGGGTGAGGCTTGCTTACCCAGTCTGCTC
1 CACTGCAACTTCAGGGA-GATAAGACTTGC-TAATTAGTCTGCTC
* * ** *
14029344 CACTGTAACTTCAGGGAGATAAGACTAG---ATGCGATCCGCT-
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAATTAG-TCTGCTC
* * * ** * * **
14029384 CTCTGCAACTTCAGAGAGATAATA-TCTGAGATTTTAATCCACT-
1 CACTGCAACTTCAGGGAGATAAGACT-TGCTA-ATTAGTCTGCTC
* * * * * * * *
14029427 TACTGCAACTTCAGCGAGATAGGA-TTGTCGACTTTAATATACTC
1 CACTGCAACTTCAGGGAGATAAGACTTG-CTA-ATTAGTCTGCTC
* * *
14029471 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-C
1 CACTGCAACTTCAGGGAGATAAGACTTGCTA-ATT-AGTCTGCTC
* *
14029515 TCGCTGCAACTCCA-GGAGGATAAGACTTGCTTAATTAGTCTGCTC
1 -CACTGCAACTTCAGGGA-GATAAGACTTGC-TAATTAGTCTGCTC
* * * **
14029560 CACTACAACTTCAGAGAGATAAGACTAG---ATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAATTAG-TCTGCTC
* * * * * ** *
14029600 CTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAACCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CT-TGCTAATTAGTCTGCTC
* * * *
14029644 CACTGCAACTTTAGCGAGATAGGA-TTACCGGCT--TTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTT----GCTAATTAGTCTGCTC
* * *
14029688 CACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-C
1 CACTGCAACTTCAGGGAGATAAGACTTGCTA-ATT-AGTCTGCTC
* * *
14029732 TCGCTACAACTTCA-GGAGGATAAGACTTGCTTAATTAGTTTGCTC
1 -CACTGCAACTTCAGGGA-GATAAGACTTGC-TAATTAGTCTGCTC
* **
14029777 CACTGCAACTTCAGGGAGATAAGACTAG---ATGCGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAATTAG-TCTGCTC
* * * * * ** *
14029817 CTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAACCCGCTC
1 CACTGCAACTTCAGGGAGATAAGA-CT-TGCTAATTAGTCTGCTC
* * *
14029861 CACTGCAACTTCAGTGAGATAGGA-TTACCGGCT--TTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTT----GCTAATTAGTCTGCTC
* * * * *
14029905 CATTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTAC-C
1 CACTGCAACTTCAGGGAGATAAGACTTGCTA-ATT-AGTCTGCTC
* *
14029949 TCGCTGCAACTTCA-GGAGGATAAGACTTGCTCAGTTAGTCTGCTC
1 -CACTGCAACTTCAGGGA-GATAAGACTTGCT-AATTAGTCTGCTC
* ** *
14029994 CACTGCAACTTCA-GG-GATAAGACTAG---ATGCGATATGCT-
1 CACTGCAACTTCAGGGAGATAAGACTTGCTAATTAG-TCTGCTC
* * * * * * **
14030032 CTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATCCAC-C
1 CACTGCAACTTCAGGGAGATAAGA-CT-TGCTAATTAGTCTGCTC
* * * *
14030075 CACTGCAACTTCAGCGAGATAGGA-TTG-TCAGCTTTAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGACTTGCT-A--ATTAGTCTGCTC
* * * *
14030119 CACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGC-C
1 CACTGCAACTTCAGGGAGATAAGACTTGCTA-ATT-AGTCTGCTC
* *
14030163 TCGCTGCAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTGCTC
1 -CACTGCAACTTCAGGGA-GATAAGACTTGC-TAATTAGTCTGCTC
14030208 CACTGCAACTTCAGGGAGATAAGACT
1 CACTGCAACTTCAGGGAGATAAGACT
14030234 CGATCTGTTA
Statistics
Matches: 747, Mismatches: 153, Indels: 156
0.71 0.14 0.15
Matches are distributed among these distances:
38 14 0.02
39 8 0.01
40 80 0.11
41 27 0.04
42 20 0.03
43 75 0.10
44 371 0.50
45 148 0.20
46 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGACTTGCTAATTAGTCTGCTC
Found at i:14029750 original size:217 final size:217
Alignment explanation
Indices: 14029302--14030233 Score: 1494
Period size: 217 Copynumber: 4.3 Consensus size: 217
14029292 GTTTGCTCCA
* * * *** *
14029302 CTGCAACTTCAGGAGGGTGAGGCTTGCTTACCCAGTCTGCTCCACTGTAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
14029367 ACTAGATGCGATCCGCTCTCTGCAACTTCAGAGAGATAATATCTGAGATTTTAATCCACT-TACT
66 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCACTCCACT
** * * *
14029431 GCAACTTCAGCGAGATAGGATTGTCGACTTTAATATACTCCACTGCAACTTCAGGGAGATAAGAT
131 GCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
14029496 TTGCCATCTTCAGTCTGCCTCG
196 TTGCCATCTTCAGTCTGCCTCG
* * *
14029518 CTGCAACTCCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTACAACTTCAGAGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
*
14029583 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCGCTCCACT
66 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCACTCCACT
*
14029648 GCAACTTTAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
131 GCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
14029713 TTGCCATCTTCAGTCTGCCTCG
196 TTGCCATCTTCAGTCTGCCTCG
* *
14029735 CTACAACTTCAGGAGGATAAGACTTGCTTAATTAGTTTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
*
14029800 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCGCTCCACT
66 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCACTCCACT
* *
14029865 GCAACTTCAGTGAGATAGGATTACCGGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGAT
131 GCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*
14029930 TTGCCATCTTCAGTCTACCTCG
196 TTGCCATCTTCAGTCTGCCTCG
* *
14029952 CTGCAACTTCAGGAGGATAAGACTTGCTCAGTTAGTCTGCTCCACTGCAACTTCA-GG-GATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
14030015 ACTAGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCAC-CCACT
66 ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCACTCCACT
** *
14030079 GCAACTTCAGCGAGATAGGATTGTCAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
131 GCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
*
14030144 TTTCCATCTTCAGTCTGCCTCG
196 TTGCCATCTTCAGTCTGCCTCG
*
14030166 CTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
14030231 ACT
66 ACT
14030234 CGATCTGTTA
Statistics
Matches: 665, Mismatches: 48, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
214 138 0.21
215 64 0.10
216 120 0.18
217 343 0.52
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (217 bp):
CTGCAACTTCAGGAGGATAAGACTTGCTTAATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
ACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAACCCACTCCACT
GCAACTTCAGCGAGATAGGATTACCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
TTGCCATCTTCAGTCTGCCTCG
Found at i:14030083 original size:43 final size:43
Alignment explanation
Indices: 14030034--14030143 Score: 123
Period size: 43 Copynumber: 2.5 Consensus size: 43
14030024 GATATGCTCT
*
14030034 CTGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCAC-CCA
1 CTGCAACTTCAGAGAGATAAGATCTAA-GCTTTAATCCACTCCA
* * * * **
14030077 CTGCAACTTCAGCGAGATAGGATTGTCAGCTTTAATCTGCTCCA
1 CTGCAACTTCAGAGAGATAAGA-TCTAAGCTTTAATCCACTCCA
*
14030121 CTGCAACTTCAGGGAGATAAGAT
1 CTGCAACTTCAGAGAGATAAGAT
14030144 TTTCCATCTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
43 30 0.54
44 26 0.46
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (43 bp):
CTGCAACTTCAGAGAGATAAGATCTAAGCTTTAATCCACTCCA
Found at i:14048346 original size:39 final size:40
Alignment explanation
Indices: 14048281--14048376 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
14048271 TTTGAATAAA
* * *
14048281 AAAATGCCACTAAAAATCAAGCATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTTAG
* *
14048321 AAAACGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTTAG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTTAG
*
14048360 AAAAGCGCCGCAAAAAA
1 AAAA-CGCCGCTAAAAA
14048377 CCTAATCCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 23 0.47
40 26 0.53
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTTAG
Found at i:14048671 original size:122 final size:124
Alignment explanation
Indices: 14048414--14048729 Score: 458
Period size: 122 Copynumber: 2.6 Consensus size: 124
14048404 CCTTTCGAGG
* * * * *
14048414 CTTTAGCGGTGTTTTTGGAAAAGCGACACTAATGCTCAGACCTTTAGCGGCGTTTTTTGGAGAAG
1 CTTTAGCGGCGTTTATGGAAAAGCGACGCTAATGCTCAGACCTTTAGCGGCGTTTTTTGAAAAAG
* * * *
14048479 CGGCGCTAATGCTCAAACCTTTAGCTGTGTTTTTGTAAAAGTGCCGCTAATGCTCAGAC
66 CGCCGCTAATGCTCAAACCTTTAGCTGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * *
14048538 CTTTAGTGGCGTTTATGGAAAAGAGTCGCTAATGCTCAGACCTTTAGCGGCG-TTTTTGAAAAAG
1 CTTTAGCGGCGTTTATGGAAAAGCGACGCTAATGCTCAGACCTTTAGCGGCGTTTTTTGAAAAAG
** *
14048602 CGCCGCTAATGCTCGGACTTTTAGC-GCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
66 CGCCGCTAATGCTCAAACCTTTAGCTGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
14048660 CTTTAGCGGCGTTAATGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTTTTGAAAAAG
1 CTTTAGCGGCGTTTATGGAAAAGCGACGCTAATGCTCAGACCTTTAGCGGCGTTTTTTGAAAAAG
14048725 -GCCGC
66 CGCCGC
14048730 AAAAACATTT
Statistics
Matches: 172, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
122 83 0.48
123 43 0.25
124 46 0.27
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (124 bp):
CTTTAGCGGCGTTTATGGAAAAGCGACGCTAATGCTCAGACCTTTAGCGGCGTTTTTTGAAAAAG
CGCCGCTAATGCTCAAACCTTTAGCTGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:14048729 original size:41 final size:41
Alignment explanation
Indices: 14048414--14048722 Score: 422
Period size: 41 Copynumber: 7.5 Consensus size: 41
14048404 CCTTTCGAGG
* * *
14048414 CTTTAGCGGTGTTTTTGGAAAAGCGACACTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * *
14048455 CTTTAGCGGCGTTTTTTGGAGAAGCGGCGCTAATGCTCAAAC
1 CTTTAGCGGCG-TTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * * *
14048497 CTTTAGCTGTGTTTTTGTAAAAGTGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * * *
14048538 CTTTAGTGGCGTTTATGGAAAAGAGTCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
14048579 CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
14048620 TTTTAGC-GCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
**
14048660 CTTTAGCGGCGTTAATGGAAAAGCGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
*
14048701 CTTTAGCGGCGTTTTTTGAAAA
1 CTTTAGCGGCGTTTTTGGAAAA
14048723 AGGCCGCAAA
Statistics
Matches: 232, Mismatches: 34, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
40 37 0.16
41 160 0.69
42 35 0.15
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.30
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:14049159 original size:14 final size:15
Alignment explanation
Indices: 14049131--14049163 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
14049121 AAGGTTTATA
14049131 GATTATGGAATTAGG
1 GATTATGGAATTAGG
14049146 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
14049160 GATT
1 GATT
14049164 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:14049340 original size:7 final size:7
Alignment explanation
Indices: 14049330--14049355 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14049320 GGGGTTAAGG
14049330 GTTAGTA
1 GTTAGTA
14049337 GTTAGTA
1 GTTAGTA
14049344 GTTAGTA
1 GTTAGTA
14049351 GTTAG
1 GTTAG
14049356 GGGTTGGGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (7 bp):
GTTAGTA
Found at i:14051980 original size:18 final size:18
Alignment explanation
Indices: 14051957--14052015 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
14051947 AACAGAACTT
14051957 ATGTAATTCTAATATAGA
1 ATGTAATTCTAATATAGA
* * ***
14051975 ATGTAA-AC-AATTTTCTT
1 ATGTAATTCTAA-TATAGA
14051992 ATGTAATTCTAATATAGA
1 ATGTAATTCTAATATAGA
14052010 ATGTAA
1 ATGTAA
14052016 CTTGTTTTAA
Statistics
Matches: 28, Mismatches: 10, Indels: 6
0.64 0.23 0.14
Matches are distributed among these distances:
16 2 0.07
17 9 0.32
18 15 0.54
19 2 0.07
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (18 bp):
ATGTAATTCTAATATAGA
Found at i:14052277 original size:43 final size:43
Alignment explanation
Indices: 14052223--14052520 Score: 373
Period size: 43 Copynumber: 6.9 Consensus size: 43
14052213 GTTTTTAGTG
* *
14052223 GCGTTTGTGGGAAAAGCGCCGCTATAGGTATTGGTCTTTAGCA
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCA
* ** * **
14052266 GCGTTTGTGGGAAATGAACTGCTAAATTTCTTGGTCTTTAGCA
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCA
* * * *
14052309 GCGTTTGTGGGATATGCGTCGCTAAAGGTCTTGGTCTTTAGCG
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCA
* * *
14052352 GCGTTTGTGGGAAATGCACCGCTAAAGTTCTTGGTCTTTAG-A
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCA
** *
14052394 GGCGTTTGTGGGATTAGCGCCGCTAAAGGTCTTGGTCTTTAGCG
1 -GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCA
* * *
14052438 GCGTTTATGGGAAAAGCTCCGCTAAAGGTCTTGGTCTTTAGCG
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCA
* *
14052481 GCGCTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTATTTA
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTA
14052521 AAAAAATGCC
Statistics
Matches: 218, Mismatches: 35, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
43 218 1.00
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (43 bp):
GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCA
Found at i:14052361 original size:86 final size:86
Alignment explanation
Indices: 14052223--14052520 Score: 418
Period size: 86 Copynumber: 3.5 Consensus size: 86
14052213 GTTTTTAGTG
* * * * *
14052223 GCGTTTGTGGGAAAAGCGCCGCTATAGGTATTGGTCTTTAGCAGCGTTTGTGGGAAATGAACTGC
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATGCACCGC
*
14052288 TAAATTTCTTGGTCTTTAGCA
66 TAAAGTTCTTGGTCTTTAGCA
* * *
14052309 GCGTTTGTGGGATATGCGTCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATGCACCGC
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATGCACCGC
14052374 TAAAGTTCTTGGTCTTTAG-A
66 TAAAGTTCTTGGTCTTTAGCA
** * * *
14052394 GGCGTTTGTGGGATTAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTATGGGAAAAGCTCCG
1 -GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATGCACCG
* *
14052459 CTAAAGGTCTTGGTCTTTAGCG
65 CTAAAGTTCTTGGTCTTTAGCA
* *
14052481 GCGCTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTATTTA
1 GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTA
14052521 AAAAAATGCC
Statistics
Matches: 189, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 188 0.99
ACGTcount: A:0.19, C:0.17, G:0.32, T:0.32
Consensus pattern (86 bp):
GCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAAATGCACCGC
TAAAGTTCTTGGTCTTTAGCA
Found at i:14053037 original size:12 final size:12
Alignment explanation
Indices: 14053020--14053044 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14053010 TTAGGACTTG
14053020 AATGATGTTGAT
1 AATGATGTTGAT
14053032 AATGATGTTGAT
1 AATGATGTTGAT
14053044 A
1 A
14053045 TTGTGAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (12 bp):
AATGATGTTGAT
Found at i:14057734 original size:19 final size:20
Alignment explanation
Indices: 14057704--14057742 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
14057694 TTTTTAGTTT
*
14057704 TGTTTTTAGTAATTTTTTTA
1 TGTTTTTAGTAATTGTTTTA
14057724 TGTTTTT-GTAATTGTTTTA
1 TGTTTTTAGTAATTGTTTTA
14057743 GCTTAATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (20 bp):
TGTTTTTAGTAATTGTTTTA
Found at i:14059553 original size:21 final size:21
Alignment explanation
Indices: 14059527--14059572 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14059517 AGCAAGGGCT
* * *
14059527 TGTGGAGTGGCCATACGAGCA
1 TGTGGAATAGCCATACGAACA
14059548 TGTGGAATAGCCATACGAACA
1 TGTGGAATAGCCATACGAACA
14059569 TGTG
1 TGTG
14059573 TTTTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.17, G:0.33, T:0.22
Consensus pattern (21 bp):
TGTGGAATAGCCATACGAACA
Found at i:14059804 original size:20 final size:19
Alignment explanation
Indices: 14059759--14059805 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
14059749 GTGACCCCTG
*
14059759 TTTTCAAAATTTTCAAGTT
1 TTTTCAAAATTATCAAGTT
* *
14059778 TTTTCAAAATTATCTATTT
1 TTTTCAAAATTATCAAGTT
14059797 TGTTTCAAA
1 T-TTTCAAA
14059806 TTGATCCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.53
Consensus pattern (19 bp):
TTTTCAAAATTATCAAGTT
Found at i:14063668 original size:34 final size:33
Alignment explanation
Indices: 14063630--14063728 Score: 79
Period size: 34 Copynumber: 3.2 Consensus size: 33
14063620 TGTTGAAATG
14063630 GACTATGTATGATATATGGCTAAATTAATAATTT
1 GACTATGTATGATA-ATGGCTAAATTAATAATTT
* * * *
14063664 GAC----TA-G-TAATGG-TACATT-TTGAAATG
1 GACTATGTATGATAATGGCTAAATTAAT-AATTT
14063690 GACTATGTATGATACATGGCTAAATTAATAATTT
1 GACTATGTATGATA-ATGGCTAAATTAATAATTT
14063724 GACTA
1 GACTA
14063729 GTAATGGTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 20
0.63 0.11 0.27
Matches are distributed among these distances:
25 1 0.02
26 11 0.23
27 4 0.09
28 2 0.04
29 1 0.02
30 4 0.09
31 1 0.02
32 2 0.04
33 4 0.09
34 16 0.34
35 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.37
Consensus pattern (33 bp):
GACTATGTATGATAATGGCTAAATTAATAATTT
Found at i:14063715 original size:60 final size:60
Alignment explanation
Indices: 14063622--14063743 Score: 235
Period size: 60 Copynumber: 2.0 Consensus size: 60
14063612 TATAAATATG
*
14063622 TTGAAATGGACTATGTATGATATATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
1 TTGAAATGGACTATGTATGATACATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
14063682 TTGAAATGGACTATGTATGATACATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
1 TTGAAATGGACTATGTATGATACATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
14063742 TT
1 TT
14063744 CGCTGTTAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (60 bp):
TTGAAATGGACTATGTATGATACATGGCTAAATTAATAATTTGACTAGTAATGGTACATT
Found at i:14066020 original size:14 final size:14
Alignment explanation
Indices: 14066003--14066031 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14065993 TATCCGGTTA
14066003 TTGATTTGAAATCG
1 TTGATTTGAAATCG
14066017 TTGATTTGAAATCG
1 TTGATTTGAAATCG
14066031 T
1 T
14066032 GATGGATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (14 bp):
TTGATTTGAAATCG
Found at i:14067954 original size:93 final size:93
Alignment explanation
Indices: 14067841--14068012 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14067831 CGCCCATAAG
* *
14067841 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14067906 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14067934 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14067999 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14068013 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14068009 original size:46 final size:46
Alignment explanation
Indices: 14067834--14068009 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14067824 TGTAACCCGC
* * *
14067834 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14067880 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14067930 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14067973 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14068010 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14075525 original size:93 final size:93
Alignment explanation
Indices: 14075412--14075583 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14075402 CGCCCATAAG
* *
14075412 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14075477 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
14075505 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14075570 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
14075584 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:14075580 original size:46 final size:46
Alignment explanation
Indices: 14075405--14075580 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
14075395 TGTAACCCGC
* * *
14075405 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
14075451 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
14075501 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14075544 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
14075581 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14078771 original size:22 final size:22
Alignment explanation
Indices: 14078746--14078790 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
14078736 GGGGAAAAAA
14078746 TGAAAAATTGTAAATAAGAAGT
1 TGAAAAATTGTAAATAAGAAGT
14078768 TGAAAAATTGTAAATAAGAAGT
1 TGAAAAATTGTAAATAAGAAGT
14078790 T
1 T
14078791 ATATGTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.18, T:0.29
Consensus pattern (22 bp):
TGAAAAATTGTAAATAAGAAGT
Found at i:14082180 original size:7 final size:7
Alignment explanation
Indices: 14082168--14082195 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14082158 CATGGGTCTT
14082168 ATATATA
1 ATATATA
14082175 ATATATA
1 ATATATA
14082182 ATATATA
1 ATATATA
14082189 ATATATA
1 ATATATA
14082196 TTTACGTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
ATATATA
Found at i:14089022 original size:39 final size:41
Alignment explanation
Indices: 14088957--14089044 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 41
14088947 TTTGTTATTT
*
14088957 ATATATAATATATATATATGCATGCATGGGTGTCATA-TATA
1 ATATATAATATATATATAAG-ATGCATGGGTGTCATAGTATA
* *
14088998 ATATATAATATATATTTAAG-TGCATGGGTGTTATATGTATA
1 ATATATAATATATATATAAGATGCATGGGTGTCATA-GTATA
14089039 ATATAT
1 ATATAT
14089045 TTGTGTGGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 14 0.33
41 28 0.67
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.42
Consensus pattern (41 bp):
ATATATAATATATATATAAGATGCATGGGTGTCATAGTATA
Found at i:14089061 original size:29 final size:28
Alignment explanation
Indices: 14089029--14089107 Score: 77
Period size: 33 Copynumber: 2.6 Consensus size: 28
14089019 GCATGGGTGT
* *
14089029 TATATGTATAATATATTTGTGTGGGTCTG
1 TATATATATAATATATATGTGTGGGT-TG
*
14089058 TATATACATAGTACATATATATGTGTGGGTTT
1 TATAT--ATA-TA-ATATATATGTGTGGGTTG
14089090 TATTATATATAATATATA
1 TA-TATATATAATATATA
14089108 CGTGGTTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
29 12 0.29
30 2 0.05
31 5 0.12
32 5 0.12
33 18 0.43
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (28 bp):
TATATATATAATATATATGTGTGGGTTG
Found at i:14090879 original size:29 final size:29
Alignment explanation
Indices: 14090831--14090888 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
14090821 TATTTGACTT
14090831 CAAAATATTGAAAATATTAAATATAAGTAG
1 CAAAATATTGAAAATATTAAATA-AAGTAG
* * *
14090861 CAAAAT-TTTAAAATTTTAATTAAAGTAG
1 CAAAATATTGAAAATATTAAATAAAGTAG
14090889 AGCGGGATGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.24
29 13 0.52
30 6 0.24
ACGTcount: A:0.53, C:0.03, G:0.09, T:0.34
Consensus pattern (29 bp):
CAAAATATTGAAAATATTAAATAAAGTAG
Found at i:14091818 original size:25 final size:24
Alignment explanation
Indices: 14091774--14091822 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
14091764 TTTCATCTTA
* *
14091774 TTTTTGTTATTATTATTTTTCTTTC
1 TTTTTGTAATTATTACTTTT-TTTC
*
14091799 TTTTTGTAATTATTCCTTTTTTTC
1 TTTTTGTAATTATTACTTTTTTTC
14091823 CGGGAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.12, C:0.10, G:0.04, T:0.73
Consensus pattern (24 bp):
TTTTTGTAATTATTACTTTTTTTC
Found at i:14096343 original size:30 final size:28
Alignment explanation
Indices: 14096285--14096344 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 28
14096275 TAATTAATTA
*
14096285 ATTTTTTTAAATTTTAATTTTATTAAAAT
1 ATTTTTTTAAATTTTAATTTCA-TAAAAT
14096314 ATTTTTTTATAATTTTTAATTTGCA-AAAAT
1 ATTTTTTTA-AA-TTTTAATTT-CATAAAAT
14096344 A
1 A
14096345 ACTTTCTGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 9 0.33
30 8 0.30
31 9 0.33
32 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTTTAAATTTTAATTTCATAAAAT
Found at i:14098939 original size:12 final size:12
Alignment explanation
Indices: 14098922--14098968 Score: 53
Period size: 11 Copynumber: 3.8 Consensus size: 12
14098912 TTTATAGGAA
14098922 AATATTTATTT-T
1 AATATTT-TTTGT
14098934 AATATTTTTTGT
1 AATATTTTTTGT
14098946 -ATATTTTTTGT
1 AATATTTTTTGT
14098957 ATTATATTTTTT
1 A--ATATTTTTT
14098969 AATTTTTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 14 0.45
12 8 0.26
14 9 0.29
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (12 bp):
AATATTTTTTGT
Found at i:14098951 original size:11 final size:11
Alignment explanation
Indices: 14098935--14098975 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
14098925 ATTTATTTTA
14098935 ATATTTTTTGT
1 ATATTTTTTGT
14098946 ATATTTTTTGT
1 ATATTTTTTGT
14098957 ATTATATTTTT-T
1 A-TAT-TTTTTGT
14098969 A-ATTTTT
1 ATATTTTT
14098976 ATATAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.14
10 2 0.07
11 12 0.43
12 5 0.18
13 5 0.18
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (11 bp):
ATATTTTTTGT
Found at i:14098966 original size:23 final size:22
Alignment explanation
Indices: 14098923--14098975 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
14098913 TTATAGGAAA
*
14098923 ATATTTATTTTAATATTTTTTGT
1 ATATTT-TTTTAATATATTTTGT
* *
14098946 ATATTTTTTGTATTATATTTTTT
1 ATATTTTTT-TAATATATTTTGT
14098969 A-ATTTTT
1 ATATTTTT
14098976 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (22 bp):
ATATTTTTTTAATATATTTTGT
Found at i:14099424 original size:31 final size:30
Alignment explanation
Indices: 14099382--14099481 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 30
14099372 GATGAGTCAG
*
14099382 TTTACACTTTGGTCACTCTTGTATTAGTAAA
1 TTTACAATTTGGTCA-TCTTGTATTAGTAAA
* **
14099413 TTTACAATTTGGACAAT-TAAATATTAGTAAA
1 TTTACAATTTGGTC-ATCT-TGTATTAGTAAA
* * *
14099444 ATTATAATTTGGTCA-CTTGACTATTAGCAAA
1 TTTACAATTTGGTCATCTTG--TATTAGTAAA
14099475 TTTACAA
1 TTTACAA
14099482 GTCATTTTGA
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
30 3 0.06
31 48 0.92
32 1 0.02
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (30 bp):
TTTACAATTTGGTCATCTTGTATTAGTAAA
Found at i:14102908 original size:3 final size:3
Alignment explanation
Indices: 14102900--14102935 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
14102890 ATAGTGGAGT
14102900 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
14102936 GCCATTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:14104359 original size:243 final size:243
Alignment explanation
Indices: 14104020--14104502 Score: 804
Period size: 243 Copynumber: 2.0 Consensus size: 243
14104010 AGCAACCTAT
** *
14104020 CGTTGAAGTCGTGACACTAAGCATGTTATGTCATGACACCGATCCTCAAAGTCACAACTACAAAC
1 CGTTGAAGTCGCAACACTAAGCATGTTATGTCACGACACCGATCCTCAAAGTCACAACTACAAAC
* * *
14104085 CCTTGAAGTCGTAAATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGG
66 CCTCGAAGTAGCAAATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGG
* *
14104150 TTACAACACCAGCAAGGTTGTGTCGCGACACCAAGTGCCCCTAAGTCAAGCTCGTGCCCACTTTC
131 TTACAACACCAGCAAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGCTCGTGCACACTTTC
* * *
14104215 AAGAGTGTCATGACACTAAAGCTTGGGTGTTGCGACTTTGAAGTTAGC
196 AAGAATGTCACGACACTAAAGCTTGGGTGTTGCGACTTTAAAGTTAGC
*
14104263 CGTTGAAGTCGCAACACTAAGCATGTTATGTCACGACACCGATCCTCAAATTCACAACTACAAAC
1 CGTTGAAGTCGCAACACTAAGCATGTTATGTCACGACACCGATCCTCAAAGTCACAACTACAAAC
* *
14104328 CCTCGAGGTAGCAAATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATTGAGG
66 CCTCGAAGTAGCAAATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGG
*
14104393 TTACAACACCGGCAAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGCTCGTGCACACTTTC
131 TTACAACACCAGCAAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGCTCGTGCACACTTTC
* * *
14104458 ACGAATGTCACGTCACTAAAGCTTGGGTGTTGTGACTTTAAAGTT
196 AAGAATGTCACGACACTAAAGCTTGGGTGTTGCGACTTTAAAGTT
14104503 TGATAGGTGA
Statistics
Matches: 222, Mismatches: 18, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
243 222 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (243 bp):
CGTTGAAGTCGCAACACTAAGCATGTTATGTCACGACACCGATCCTCAAAGTCACAACTACAAAC
CCTCGAAGTAGCAAATCCAAGAAAATTTTTGAAATGAAGAAACCTAATGGCTATTATCATCGAGG
TTACAACACCAGCAAGGTTGTGTCGCGACACCAAGTGCCCCCAAGTCAAGCTCGTGCACACTTTC
AAGAATGTCACGACACTAAAGCTTGGGTGTTGCGACTTTAAAGTTAGC
Found at i:14107301 original size:19 final size:20
Alignment explanation
Indices: 14107265--14107303 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
14107255 AATAATTTTT
14107265 AAAAATTCAAAATGTTTATAA
1 AAAAATTCAAAA-GTTTATAA
14107286 AAAAATTCAAAA-TTTATA
1 AAAAATTCAAAAGTTTATA
14107304 TTTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAATTCAAAAGTTTATAA
Found at i:14107367 original size:17 final size:18
Alignment explanation
Indices: 14107322--14107367 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
14107312 AAAGTTATAA
*
14107322 AAAATTTAAAAAAATTCT
1 AAAATTTTAAAAAATTCT
*
14107340 -AAATATATAAAAAATT-T
1 AAAAT-TTTAAAAAATTCT
14107357 AAAATTTTAAA
1 AAAATTTTAAA
14107368 CATGTTCTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTTTAAAAAATTCT
Found at i:14118368 original size:9 final size:9
Alignment explanation
Indices: 14118344--14118380 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
14118334 TGAGTTTTCA
*
14118344 AATTCAAAT
1 AATTCGAAT
*
14118353 AACTCGAAT
1 AATTCGAAT
14118362 AATTCGAAT
1 AATTCGAAT
14118371 AATTCGAAT
1 AATTCGAAT
14118380 A
1 A
14118381 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:14118501 original size:30 final size:30
Alignment explanation
Indices: 14118439--14118501 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
14118429 ACTTTTCCCT
* *
14118439 CAAAACTTTTACTCCTTCCCACTTTCCCCC
1 CAAAACTTTTACTCCCTCCCACTTCCCCCC
14118469 CAAAACTTTTACTCCCCTCCC-C-TCCCCTCC
1 CAAAACTTTTACT-CCCTCCCACTTCCCC-CC
14118499 CAA
1 CAA
14118502 CCCCCTAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 4 0.14
30 19 0.66
31 6 0.21
ACGTcount: A:0.21, C:0.51, G:0.00, T:0.29
Consensus pattern (30 bp):
CAAAACTTTTACTCCCTCCCACTTCCCCCC
Found at i:14122875 original size:44 final size:46
Alignment explanation
Indices: 14122785--14122876 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
14122775 TTTGGTTCGC
*
14122785 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
14122831 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
14122875 TG
1 TG
14122877 GAATAGAGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.44
45 3 0.07
46 22 0.49
ACGTcount: A:0.26, C:0.04, G:0.30, T:0.39
Consensus pattern (46 bp):
TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAA
Found at i:14122877 original size:39 final size:44
Alignment explanation
Indices: 14122785--14122893 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 44
14122775 TTTGGTTCGC
*
14122785 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--A
14122831 TGTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
*
14122871 TG-AATGGAATAGAGGTGTAATAG
1 TGTAATGGAATAGAGGCGTAATAG
14122894 CATAAGGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
39 18 0.30
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 22 0.37
ACGTcount: A:0.28, C:0.04, G:0.31, T:0.37
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
Found at i:14123055 original size:15 final size:15
Alignment explanation
Indices: 14123035--14123073 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
14123025 CATAATTGTT
14123035 ATAAAATATAATTTA
1 ATAAAATATAATTTA
14123050 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
14123067 ATAAAAT
1 ATAAAAT
14123074 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:14123080 original size:17 final size:17
Alignment explanation
Indices: 14123040--14123073 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
14123030 TTGTTATAAA
14123040 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14123057 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
14123074 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:14123145 original size:20 final size:21
Alignment explanation
Indices: 14123106--14123145 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
14123096 AATTTACTAA
*
14123106 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
14123127 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
14123146 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:14123187 original size:54 final size:54
Alignment explanation
Indices: 14122997--14123192 Score: 144
Period size: 54 Copynumber: 3.4 Consensus size: 54
14122987 TATTAATATA
* * * * * *
14122997 AATAATAAATAATTTAATCATATTTTAACATAATTGTTATAAAATATAATTTAAT
1 AATAATAAATAATTAAAT-AAAATTTAAAATAATTATTATTAAATATAATTTAAT
* * * **
14123052 AA-AATATATAATTTAATAAAATTGTTAATAA-ATATTCTTATATAAATTTACTAATAAAAT
1 AATAATAAATAATTAAATAAAA-T-TTAA-AATA-ATTATTAT-TAAA--TA-TAATTTAAT
* * *
14123112 CATAATATATAATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAAT
1 AATAATAAATAAT--T-AAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
14123169 AATAATAAATAATTAAATAAAATT
1 AATAATAAATAATTAAATAAAATT
14123193 CTTATTCTTA
Statistics
Matches: 111, Mismatches: 17, Indels: 27
0.72 0.11 0.17
Matches are distributed among these distances:
53 2 0.02
54 24 0.22
55 8 0.07
56 8 0.07
57 21 0.19
58 2 0.02
59 2 0.02
60 12 0.11
61 19 0.17
62 5 0.05
63 2 0.02
64 6 0.05
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (54 bp):
AATAATAAATAATTAAATAAAATTTAAAATAATTATTATTAAATATAATTTAAT
Found at i:14123271 original size:32 final size:32
Alignment explanation
Indices: 14123235--14123298 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
14123225 TATATAATAC
*
14123235 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
** ** *
14123267 TATAATTTATAATATACTTTATTATTATTAAA
1 TATAAAATATAATATAAATAATTATTATTAAA
14123299 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATATAAATAATTATTATTAAA
Found at i:14124711 original size:49 final size:49
Alignment explanation
Indices: 14124639--14124742 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 49
14124629 GAAAAAAAAC
* * ** * *
14124639 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGGTGAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
*
14124688 AAATTAAAATTGAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
1 AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
14124737 AAATTA
1 AAATTA
14124743 TAACACATGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.31
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATGAATAAAAAACTCAACACTGTATA
Found at i:14126893 original size:12 final size:12
Alignment explanation
Indices: 14126869--14126902 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14126859 CCACATTTTA
14126869 AGCAAAAGAACG
1 AGCAAAAGAACG
* *
14126881 AGCCAAAGCACG
1 AGCAAAAGAACG
14126893 AGCAAAAGAA
1 AGCAAAAGAA
14126903 AATAAATAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.56, C:0.21, G:0.24, T:0.00
Consensus pattern (12 bp):
AGCAAAAGAACG
Found at i:14128013 original size:23 final size:22
Alignment explanation
Indices: 14127969--14128013 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
14127959 ATAAAAAATC
*
14127969 TATTTAAAAAAAGGTCAAATTT
1 TATTTAAAAAAAGGTAAAATTT
14127991 TATTTAAAATAAAGG-AAATATTT
1 TATTTAAAA-AAAGGTAAA-ATTT
14128014 CCACTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (22 bp):
TATTTAAAAAAAGGTAAAATTT
Found at i:14128846 original size:13 final size:13
Alignment explanation
Indices: 14128828--14128852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14128818 AACATTCGGC
14128828 CGGTGGGAATAAT
1 CGGTGGGAATAAT
14128841 CGGTGGGAATAA
1 CGGTGGGAATAA
14128853 ACAAATAAAA
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:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:14135338 original size:22 final size:22
Alignment explanation
Indices: 14135299--14135353 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
14135289 ACAATATAAT
* *
14135299 AACAAAATAGTAGTAAAACAAC
1 AACAAAACAGTAGCAAAACAAC
* *
14135321 AACGAAACAGTAGCAAAATAAC
1 AACAAAACAGTAGCAAAACAAC
14135343 AACAAAACAGT
1 AACAAAACAGT
14135354 TGATTTGGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.62, C:0.16, G:0.11, T:0.11
Consensus pattern (22 bp):
AACAAAACAGTAGCAAAACAAC
Found at i:14137206 original size:137 final size:137
Alignment explanation
Indices: 14136887--14137303 Score: 692
Period size: 138 Copynumber: 3.0 Consensus size: 137
14136877 TAGAAAAAAG
* * * *
14136887 AATTATATTCTTTCCAAAATAATATTAATTTTCATGTATTGTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTAATGTCTTTTATATTTTGACCGAAATTAATTAA
14136952 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATT-ATATTTTGTATGAATCAAATT
14137017 CATATATT
130 CATATATT
* *
14137025 AATTATATTCTTTCCAAAAGAATATTAA-TTTACATGTCTGTTATATTTTGACCAAAATTAATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTA-ATGTCTTTTATATTTTGACCGAAATTAATTA
*
14137089 ATATAACTGTTTATATTAATAAATTTGATAAAATATATAAAATTATATTTTGTATGAATCAAATT
65 ATATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTATATTTTGTATGAATCAAATT
*
14137154 TATATATT
130 CATATATT
* *
14137162 AATTATATTCTTTCCAAAAGAATATTAATTTTAATGTCTTTTATAATTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTAATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
14137227 TATAACTGTTTATATTAATAAATTCGATAAAATATATACAATTAGTATTTTGTATGAATCAAATA
66 TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTA-TATTTTGTATGAATCAAATT
14137292 CATATATT
130 CATATATT
14137300 AATT
1 AATT
14137304 TTATCTATGT
Statistics
Matches: 260, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
137 129 0.50
138 131 0.50
ACGTcount: A:0.42, C:0.07, G:0.06, T:0.45
Consensus pattern (137 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTAATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTTGATAAAATATATACAATTATATTTTGTATGAATCAAATTC
ATATATT
Found at i:14139894 original size:3 final size:3
Alignment explanation
Indices: 14139886--14139934 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
14139876 ATGAATTAAA
* *
14139886 TAT TAT TAT TA- TAT TA- TAT TAT TAT AAT GTAT TAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
14139930 TAT TA
1 TAT TA
14139935 ACTAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:14139905 original size:13 final size:13
Alignment explanation
Indices: 14139889--14139934 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
14139879 AATTAAATAT
14139889 TATTATTATATTA
1 TATTATTATATTA
* *
14139902 TATTATTATAATG
1 TATTATTATATTA
*
14139915 TATTATTAT-TAA
1 TATTATTATATTA
14139927 TATTATTA
1 TATTATTA
14139935 ACTAATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 8 0.29
13 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:14139906 original size:16 final size:16
Alignment explanation
Indices: 14139885--14139932 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
14139875 TATGAATTAA
14139885 ATATTATTATTATATT
1 ATATTATTATTATATT
14139901 ATATTATTA-TA-A-T
1 ATATTATTATTATATT
*
14139914 GTATTATTATTAATATT
1 ATATTATTATT-ATATT
14139931 AT
1 AT
14139933 TAACTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 9 0.35
14 2 0.08
15 3 0.12
16 10 0.38
17 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATATTATTATTATATT
Found at i:14140426 original size:17 final size:18
Alignment explanation
Indices: 14140404--14140437 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14140394 TAAATGAGTT
14140404 AATTA-GGATTAAATTGG
1 AATTAGGGATTAAATTGG
*
14140421 AATTAGGGTTTAAATTG
1 AATTAGGGATTAAATTG
14140438 AAAAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.24, T:0.38
Consensus pattern (18 bp):
AATTAGGGATTAAATTGG
Found at i:14140918 original size:21 final size:21
Alignment explanation
Indices: 14140885--14140947 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
14140875 TTATCGGCTT
*
14140885 TGTCG-ATCAGGCACTATATG
1 TGTCGTATTAGGCACTATATG
* **
14140905 TGTCGTATTAGGCACCACGTG
1 TGTCGTATTAGGCACTATATG
*
14140926 TGTCGT-TTCAGGCACTTTATG
1 TGTCGTATT-AGGCACTATATG
14140947 T
1 T
14140948 ATTGTATACT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
20 7 0.21
21 26 0.79
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (21 bp):
TGTCGTATTAGGCACTATATG
Found at i:14158221 original size:10 final size:10
Alignment explanation
Indices: 14158206--14158235 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
14158196 TTATAGTTTC
14158206 CTTTTTCTTT
1 CTTTTTCTTT
14158216 CTTTTTCTTT
1 CTTTTTCTTT
14158226 CTTTTTCTTT
1 CTTTTTCTTT
14158236 TTTATTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:14170174 original size:45 final size:45
Alignment explanation
Indices: 14169861--14170177 Score: 329
Period size: 45 Copynumber: 7.1 Consensus size: 45
14169851 GGAGTAGGTT
*
14169861 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * ** * *
14169906 GAAGACACCAG-CCTCG-CCTCCT-TGAGTTTACAGCG-GGACAGA-C
1 GAAGATAGCAGATCTTGTCTTCCTGT-A-TTGGCAGCGAAG-TAGATC
*
14169949 TGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCAAAGTAGATC
1 -GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * *
14169995 GAAGATGGCAGGTCTTGTCTTTCTGTATTGGCAGTGAAATAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
*
14170040 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* *
14170085 GAAGATAGCAGACCTTGTCTTCCTGTATTGACAGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
* * * * * * *
14170130 GAAGAGAGCAGATCTTATCTTTCTGTACTAGCAGTGAAGAAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
14170175 GAA
1 GAA
14170178 AACACCAGTC
Statistics
Matches: 219, Mismatches: 44, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.00
43 8 0.04
44 21 0.10
45 180 0.82
46 8 0.04
47 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC
Found at i:14170850 original size:15 final size:15
Alignment explanation
Indices: 14170825--14170860 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
14170815 AACAACCTTC
*
14170825 AGCGCCGCATCACCA
1 AGCGTCGCATCACCA
*
14170840 CGCGTCGCATCACCA
1 AGCGTCGCATCACCA
14170855 AGCGTC
1 AGCGTC
14170861 CCCTCCACGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.22, C:0.44, G:0.22, T:0.11
Consensus pattern (15 bp):
AGCGTCGCATCACCA
Found at i:14174126 original size:25 final size:25
Alignment explanation
Indices: 14174046--14174134 Score: 106
Period size: 25 Copynumber: 3.6 Consensus size: 25
14174036 TCCAGCTTTT
* *
14174046 ATGAGCTTCCCGATACTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
* *
14174071 ATGAGCTTCCCCTTATTCAGCTCAC
1 ATGAGCTTCCCGTTATTCAGCTCGC
* *
14174096 ATGAGCTTCCCGTTATTCAACTCGG
1 ATGAGCTTCCCGTTATTCAGCTCGC
* *
14174121 AGGAGCTTACCGTT
1 ATGAGCTTCCCGTT
14174135 TACACCTCAT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.29
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:14177540 original size:41 final size:41
Alignment explanation
Indices: 14177478--14177568 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
14177468 TCGGATTTAT
* * * *
14177478 TGCCAGTGAAATAATTCAGACTTTAGGTCTAGCAGACTTGA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGACTTAA
* * *
14177519 TGCTGGTGAAATTATTCAGACTATACGTCTAGCAGGCTTAA
1 TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGACTTAA
14177560 TGCCGGTGA
1 TGCCGGTGA
14177569 TACGTTTTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (41 bp):
TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGACTTAA
Found at i:14184724 original size:43 final size:43
Alignment explanation
Indices: 14184663--14184747 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
14184653 TGTGTTCCTC
14184663 GATCACTGATCAATATTTGTGGTGTGCCAAACTTGGAAAAAAT
1 GATCACTGATCAATATTTGTGGTGTGCCAAACTTGGAAAAAAT
14184706 GATCACTGATCAATATTTGTGGTGTGCCAAACTTGGAAAAAA
1 GATCACTGATCAATATTTGTGGTGTGCCAAACTTGGAAAAAA
14184748 ATAGAGTTCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (43 bp):
GATCACTGATCAATATTTGTGGTGTGCCAAACTTGGAAAAAAT
Found at i:14187562 original size:20 final size:20
Alignment explanation
Indices: 14187539--14187609 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
14187529 CTTCGATGTT
14187539 TCTGTTTGCACTTTGGTGCC
1 TCTGTTTGCACTTTGGTGCC
*
14187559 TCTGATTGCACATTT-GTGCC
1 TCTGTTTGCAC-TTTGGTGCC
* * *
14187579 TTTGTTTGCACTTCGGTGCT
1 TCTGTTTGCACTTTGGTGCC
14187599 TCTGTTATGCA
1 TCTGTT-TGCA
14187610 TCTATGATGC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 2 0.05
20 33 0.79
21 7 0.17
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (20 bp):
TCTGTTTGCACTTTGGTGCC
Found at i:14194123 original size:50 final size:50
Alignment explanation
Indices: 14194048--14194177 Score: 224
Period size: 50 Copynumber: 2.6 Consensus size: 50
14194038 TCCATGGAAT
* *
14194048 CACTTATCATTTATCTCTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
14194098 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
* *
14194148 TACTTATCACTTATCACTTGTCACTTATCA
1 CACTTATCACTTATCACTTGTCACTGATCA
14194178 CTTGTCACTT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (50 bp):
CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:14194161 original size:7 final size:7
Alignment explanation
Indices: 14194149--14194198 Score: 64
Period size: 7 Copynumber: 7.1 Consensus size: 7
14194139 CTAAGCTACT
14194149 ACTTATC
1 ACTTATC
14194156 ACTTATC
1 ACTTATC
*
14194163 ACTTGTC
1 ACTTATC
14194170 ACTTATC
1 ACTTATC
*
14194177 ACTTGTC
1 ACTTATC
*
14194184 ACTTGTC
1 ACTTATC
*
14194191 ACTGATC
1 ACTTATC
14194198 A
1 A
14194199 GATAAGTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (7 bp):
ACTTATC
Found at i:14194171 original size:14 final size:14
Alignment explanation
Indices: 14194149--14194193 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
14194139 CTAAGCTACT
*
14194149 ACTTATCACTTATC
1 ACTTGTCACTTATC
14194163 ACTTGTCACTTATC
1 ACTTGTCACTTATC
*
14194177 ACTTGTCACTTGTC
1 ACTTGTCACTTATC
14194191 ACT
1 ACT
14194194 GATCAGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.22, C:0.29, G:0.07, T:0.42
Consensus pattern (14 bp):
ACTTGTCACTTATC
Found at i:14194175 original size:21 final size:21
Alignment explanation
Indices: 14194149--14194198 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
14194139 CTAAGCTACT
14194149 ACTTATCACTTATCACTTGTC
1 ACTTATCACTTATCACTTGTC
*
14194170 ACTTATCACTTGTCACTTGTC
1 ACTTATCACTTATCACTTGTC
*
14194191 ACTGATCA
1 ACTTATCA
14194199 GATAAGTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.28, G:0.08, T:0.40
Consensus pattern (21 bp):
ACTTATCACTTATCACTTGTC
Found at i:14194188 original size:71 final size:72
Alignment explanation
Indices: 14194098--14194249 Score: 261
Period size: 71 Copynumber: 2.1 Consensus size: 72
14194088 GCTAAGCTAC
*
14194098 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACTACTTATCACTTAT
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTAT
14194162 CACTTGT
66 CACTTGT
* *
14194169 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGT
1 CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTAT
14194234 CACTTGT
66 CACTTGT
*
14194241 CACTGATCA
1 CACTTATCA
14194250 GATAAGTGCA
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 42 0.55
72 34 0.45
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (72 bp):
CACTTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTAT
CACTTGT
Found at i:14194245 original size:51 final size:51
Alignment explanation
Indices: 14194169--14194288 Score: 231
Period size: 51 Copynumber: 2.4 Consensus size: 51
14194159 TATCACTTGT
*
14194169 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
14194220 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
14194271 CACTTATCACTTGTCACT
1 CACTTATCACTTGTCACT
14194289 GATCAGAAGT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTGTCACTGATCAGATAAGTGCAGCTAAAGCTAC
Found at i:14197553 original size:21 final size:21
Alignment explanation
Indices: 14197514--14197551 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 21
14197504 ATGTGTTTTT
14197514 ATTTATTTATATATATTTTAA
1 ATTTATTTATATATATTTTAA
14197535 ATTTA-TTAT-TATATTTT
1 ATTTATTTATATATATTTT
14197552 TTTGAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTATTTATATATATTTTAA
Found at i:14204221 original size:50 final size:50
Alignment explanation
Indices: 14204140--14204382 Score: 344
Period size: 50 Copynumber: 4.9 Consensus size: 50
14204130 CATTTGGGTA
* *
14204140 GAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
14204190 GAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
14204240 GAGAGGTCTCATGTAAGACCATGTTTGGGACATGGTGTTGGCAACGAGAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
14204290 GAGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
** *
14204339 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
14204383 TGTTATGATT
Statistics
Matches: 170, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
49 35 0.21
50 106 0.62
51 29 0.17
ACGTcount: A:0.26, C:0.21, G:0.32, T:0.22
Consensus pattern (50 bp):
GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:14210363 original size:9 final size:9
Alignment explanation
Indices: 14210349--14210430 Score: 57
Period size: 9 Copynumber: 9.3 Consensus size: 9
14210339 AAATATTAAA
14210349 AAATATTTT
1 AAATATTTT
14210358 AAATATTTT
1 AAATATTTT
14210367 AAATATTTT
1 AAATATTTT
*
14210376 -TATACTTTT
1 AAATA-TTTT
**
14210385 TTATATTTT
1 AAATATTTT
14210394 ATAAT-TTTT
1 A-AATATTTT
14210403 ATAAT-TTTT
1 A-AATATTTT
14210412 -AAT-TTTT
1 AAATATTTT
**
14210419 TTATATTTT
1 AAATATTTT
14210428 AAA
1 AAA
14210431 AAATTAATTA
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
7 7 0.11
8 5 0.08
9 44 0.71
10 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (9 bp):
AAATATTTT
Found at i:14210372 original size:18 final size:17
Alignment explanation
Indices: 14210349--14210430 Score: 62
Period size: 17 Copynumber: 4.7 Consensus size: 17
14210339 AAATATTAAA
14210349 AAATATTTTAAATATTTT
1 AAATATTTTAAAT-TTTT
*
14210367 AAATATTTTTATACTTTTT
1 AAATA-TTTTA-AATTTTT
*
14210386 -TATATTTTATAATTTTT
1 AAATATTTTA-AATTTTT
14210403 ATAAT-TTTT-AATTTTT
1 A-AATATTTTAAATTTTT
**
14210419 TTATATTTTAAA
1 AAATATTTTAAA
14210431 AAATTAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
15 2 0.04
16 11 0.21
17 14 0.27
18 12 0.23
19 11 0.21
20 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (17 bp):
AAATATTTTAAATTTTT
Found at i:14210424 original size:34 final size:36
Alignment explanation
Indices: 14210351--14210430 Score: 112
Period size: 34 Copynumber: 2.3 Consensus size: 36
14210341 ATATTAAAAA
14210351 ATATTTTAAATATTTTAAATATTTTTATACTTTTTT
1 ATATTTTAAATATTTTAAATATTTTTATACTTTTTT
* *
14210387 ATATTTTATAAT-TTTTATA-ATTTTTA-ATTTTTTT
1 ATATTTTA-AATATTTTAAATATTTTTATACTTTTTT
14210421 ATATTTTAAA
1 ATATTTTAAA
14210431 AAATTAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
33 2 0.05
34 15 0.37
35 7 0.17
36 14 0.34
37 3 0.07
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (36 bp):
ATATTTTAAATATTTTAAATATTTTTATACTTTTTT
Found at i:14210429 original size:16 final size:17
Alignment explanation
Indices: 14210351--14210429 Score: 72
Period size: 18 Copynumber: 4.5 Consensus size: 17
14210341 ATATTAAAAA
**
14210351 ATATTTTAAATATTTTAA
1 ATATTTT-AATATTTTTT
*
14210369 ATATTTTTATACTTTTTT
1 ATATTTTAATA-TTTTTT
*
14210387 ATATTTT-ATAATTTTT
1 ATATTTTAATATTTTTT
14210403 ATAATTTTTAAT-TTTTTT
1 AT-A-TTTTAATATTTTTT
14210421 ATATTTTAA
1 ATATTTTAA
14210430 AAAATTAATT
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
16 13 0.25
17 8 0.15
18 29 0.56
19 2 0.04
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (17 bp):
ATATTTTAATATTTTTT
Found at i:14211442 original size:21 final size:19
Alignment explanation
Indices: 14211400--14211437 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14211390 AATAGAATCG
*
14211400 TATCATATCTAAGATTACA
1 TATCATATATAAGATTACA
14211419 TATCATATATAAGATTACA
1 TATCATATATAAGATTACA
14211438 CATATTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.37
Consensus pattern (19 bp):
TATCATATATAAGATTACA
Found at i:14214735 original size:27 final size:28
Alignment explanation
Indices: 14214691--14214743 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
14214681 TTTTAAATTT
* * *
14214691 TTTTTTTATTTTTCTATTTTTAAAATAA
1 TTTTTTTAATGTTCTATTTTAAAAATAA
14214719 TTTTTTTAATGTT-TATTTTAAAAAT
1 TTTTTTTAATGTTCTATTTTAAAAAT
14214744 GGGCCGGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTTTTAATGTTCTATTTTAAAAATAA
Found at i:14215255 original size:13 final size:13
Alignment explanation
Indices: 14215237--14215261 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14215227 TAGATTAGAT
14215237 TTGATTATGTAAA
1 TTGATTATGTAAA
14215250 TTGATTATGTAA
1 TTGATTATGTAA
14215262 TCTTGTAAAT
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTATGTAAA
Found at i:14216576 original size:21 final size:22
Alignment explanation
Indices: 14216552--14216592 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14216542 ATTTTATTGT
*
14216552 AATT-ATTTTAATTAATTATAC
1 AATTAATTTAAATTAATTATAC
*
14216573 AATTAATTTAAATTATTTAT
1 AATTAATTTAAATTAATTAT
14216593 TAGATACAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AATTAATTTAAATTAATTATAC
Found at i:14223359 original size:18 final size:18
Alignment explanation
Indices: 14223323--14223360 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14223313 AAACTATCAC
*
14223323 TTTAAATTTAAATTAATT
1 TTTAAATTTAAAATAATT
14223341 TTTAAATTTTAAAAT-ATT
1 TTTAAA-TTTAAAATAATT
14223359 TT
1 TT
14223361 AATTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAAATTTAAAATAATT
Found at i:14226200 original size:18 final size:18
Alignment explanation
Indices: 14226177--14226212 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14226167 TCAAGCAAAA
*
14226177 AAAATGTTAATGCACATG
1 AAAATGCTAATGCACATG
14226195 AAAATGCTAATGCACATG
1 AAAATGCTAATGCACATG
14226213 CAACCTAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.14, G:0.17, T:0.25
Consensus pattern (18 bp):
AAAATGCTAATGCACATG
Found at i:14241413 original size:12 final size:11
Alignment explanation
Indices: 14241394--14241429 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
14241384 TGGCCGTGCA
14241394 TTTTCTTTCTT
1 TTTTCTTTCTT
14241405 TTCTTCTTTCTCT
1 TT-TTCTTTCT-T
14241418 TTTTCTTTCTT
1 TTTTCTTTCTT
14241429 T
1 T
14241430 CTTTTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 4 0.17
12 16 0.70
13 3 0.13
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:14241453 original size:28 final size:28
Alignment explanation
Indices: 14241395--14241453 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
14241385 GGCCGTGCAT
* **
14241395 TTTCTTTCTTTTCTTCTTTCTCTTTTTC
1 TTTCTTTCTTTTCTTATTTCTCTTTGGC
*
14241423 TTTCTTTCTTTTCTTAATTT-TGTTTGGC
1 TTTCTTTCTTTTCTT-ATTTCTCTTTGGC
14241451 TTT
1 TTT
14241454 ATCTATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.03, C:0.19, G:0.05, T:0.73
Consensus pattern (28 bp):
TTTCTTTCTTTTCTTATTTCTCTTTGGC
Found at i:14246608 original size:18 final size:17
Alignment explanation
Indices: 14246577--14246611 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14246567 AAAATTTATT
*
14246577 TAAAAAAATTAAAAATA
1 TAAAAAAATGAAAAATA
14246594 TAAAAAGAATGAAAAATA
1 TAAAAA-AATGAAAAATA
14246612 AATATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
TAAAAAAATGAAAAATA
Found at i:14246621 original size:22 final size:21
Alignment explanation
Indices: 14246589--14246631 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
14246579 AAAAAATTAA
*
14246589 AAATATAAAAAGAATGAAAAAT
1 AAATATAAAAAAAAT-AAAAAT
*
14246611 AAATATTAAAAAAATAAAAAT
1 AAATATAAAAAAAATAAAAAT
14246632 GATAAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (21 bp):
AAATATAAAAAAAATAAAAAT
Found at i:14246774 original size:25 final size:26
Alignment explanation
Indices: 14246745--14246793 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
14246735 TTCATTTTGG
14246745 ATATAATT-TTAAAATTATAAAAAAT
1 ATATAATTATTAAAATTATAAAAAAT
* *
14246770 ATATATTTATTAAAATTGTAAAAA
1 ATATAATTATTAAAATTATAAAAA
14246794 TATTATGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATATAATTATTAAAATTATAAAAAAT
Found at i:14248258 original size:22 final size:21
Alignment explanation
Indices: 14248227--14248272 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
14248217 AATTTTTAAA
14248227 TATTTTTATTCTTT-TAAATTT
1 TATTTTTATT-TTTATAAATTT
*
14248248 TATTTCTTATTTTTATAAGTTT
1 TATTT-TTATTTTTATAAATTT
14248270 TAT
1 TAT
14248273 AATATGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TATTTTTATTTTTATAAATTT
Found at i:14259210 original size:36 final size:35
Alignment explanation
Indices: 14259161--14259353 Score: 190
Period size: 36 Copynumber: 5.3 Consensus size: 35
14259151 ATTCCAACCA
* *
14259161 AAACACACTAGATGCTCATAAGAGCTAATCCATCCG
1 AAACACACCA-ATGCTCATAAGAGCTAGTCCATCCG
* *
14259197 AAACACACCAGATGCTCATAAGAGCTAATCCATCCA
1 AAACACACCA-ATGCTCATAAGAGCTAGTCCATCCG
* * *
14259233 AAACACACCAAATGCTCATATGAGCCAGTCTATCCG
1 AAACACACC-AATGCTCATAAGAGCTAGTCCATCCG
* * * *
14259269 ATAACACACCAATGCTCATACGAGCCAGTCTATTCG
1 A-AACACACCAATGCTCATAAGAGCTAGTCCATCCG
* *
14259305 ATAACACACCAATGGCTC-TAAAGAGCTAGTCCAACAG
1 A-AACACACCAAT-GCTCAT-AAGAGCTAGTCCATCCG
14259342 AAAACACACCAA
1 -AAACACACCAA
14259354 AACAAATAGT
Statistics
Matches: 137, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
36 102 0.74
37 34 0.25
38 1 0.01
ACGTcount: A:0.40, C:0.30, G:0.13, T:0.18
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAGTCCATCCG
Found at i:14266229 original size:21 final size:18
Alignment explanation
Indices: 14266183--14266229 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 18
14266173 AATTCTTATC
14266183 AAAAAATAATTAAATATT
1 AAAAAATAATTAAATATT
*
14266201 ATAAAATAATTAAATTATGTT
1 AAAAAATAATTAAA-TA--TT
14266222 AAAAAATA
1 AAAAAATA
14266230 TGAACATGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.54
19 2 0.08
21 9 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAAATAATTAAATATT
Found at i:14271149 original size:27 final size:28
Alignment explanation
Indices: 14271089--14271142 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
14271079 AGGAATTAGT
* *
14271089 GTTTTAGATTTATTTATTTTCTTTAGGA
1 GTTTTAGATTTACTTATTTTCATTAGGA
*
14271117 GTTTTAGTTTTACTTATTTT-ATTAGG
1 GTTTTAGATTTACTTATTTTCATTAGG
14271143 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.20, C:0.04, G:0.15, T:0.61
Consensus pattern (28 bp):
GTTTTAGATTTACTTATTTTCATTAGGA
Found at i:14275824 original size:25 final size:25
Alignment explanation
Indices: 14275796--14275850 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
14275786 TTCCTTATAA
*
14275796 ACTTTAAATTAGGAATTTTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
*
14275821 ACTTTAAATTGGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTCTATTAGG
14275846 ACTTT
1 ACTTT
14275851 CCCTTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTCTATTAGG
Found at i:14284359 original size:20 final size:20
Alignment explanation
Indices: 14284325--14284366 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
14284315 AACTATTTAA
** *
14284325 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
14284345 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
14284365 AT
1 AT
14284367 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:14288346 original size:101 final size:101
Alignment explanation
Indices: 14288171--14288371 Score: 402
Period size: 101 Copynumber: 2.0 Consensus size: 101
14288161 ACTTAGGTAC
14288171 TAAAGAAAACTATTAACTATGGATTGTGTTATAATGGATATGCTCCAGTTTTAAAAGGGTATTCG
1 TAAAGAAAACTATTAACTATGGATTGTGTTATAATGGATATGCTCCAGTTTTAAAAGGGTATTCG
14288236 GATGCTAGTTGGATTACAAGTTTGGAAGATCATGCT
66 GATGCTAGTTGGATTACAAGTTTGGAAGATCATGCT
14288272 TAAAGAAAACTATTAACTATGGATTGTGTTATAATGGATATGCTCCAGTTTTAAAAGGGTATTCG
1 TAAAGAAAACTATTAACTATGGATTGTGTTATAATGGATATGCTCCAGTTTTAAAAGGGTATTCG
14288337 GATGCTAGTTGGATTACAAGTTTGGAAGATCATGC
66 GATGCTAGTTGGATTACAAGTTTGGAAGATCATGC
14288372 ATCTACTAAT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (101 bp):
TAAAGAAAACTATTAACTATGGATTGTGTTATAATGGATATGCTCCAGTTTTAAAAGGGTATTCG
GATGCTAGTTGGATTACAAGTTTGGAAGATCATGCT
Done.