Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 99 of 126
Found at i:30189514 original size:21 final size:21
Alignment explanation
Indices: 30189476--30189532 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
30189466 ATTCAAATTC
* *
30189476 AAAATGAAAATGAAAAAAGAGA
1 AAAAAGAAAAGGAAAAAAG-GA
30189498 GAAGAAA-AAAAGGAAAAAAGGA
1 -AA-AAAGAAAAGGAAAAAAGGA
30189520 AAAAAGAAAAGGA
1 AAAAAGAAAAGGA
30189533 GAGGCCAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 3 0.10
21 9 0.30
22 2 0.07
23 14 0.47
24 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (21 bp):
AAAAAGAAAAGGAAAAAAGGA
Found at i:30190403 original size:22 final size:23
Alignment explanation
Indices: 30190375--30190423 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
30190365 ACTTTGAGTC
30190375 AAAAAAATGAAAAAAGAAAA-TA
1 AAAAAAATGAAAAAAGAAAAGTA
* *
30190397 AAAAAAATGAACAATGAAAAGTA
1 AAAAAAATGAAAAAAGAAAAGTA
30190420 AAAA
1 AAAA
30190424 TGGAGAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (23 bp):
AAAAAAATGAAAAAAGAAAAGTA
Found at i:30191909 original size:100 final size:99
Alignment explanation
Indices: 30191728--30192075 Score: 457
Period size: 100 Copynumber: 3.5 Consensus size: 99
30191718 CAGGCGATGC
* *
30191728 AGTGGAACAGATTAAAGACAC-ATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
1 AGTGGAACAGATTAAAGCCACAAT-GGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
30191792 AAGCTACAACAGCGAATCTTATTTTCCTAGCGGTGT
65 AAGCTACAACAGCGAATCTTA-TTTCCTAGCGGTGT
* * *
30191828 AGTGGAACAGATTAAAGCCACAATGGCGAACCTTGCTTCCCCAACATTGTAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
* * * * **
30191893 AGCTACCACAGTGAATCTTACTTCTCAAGTAGT-T
66 AGCTACAACAGCGAATCTTATTTC-CTAGCGGTGT
* * * *
30191927 CAGTAGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
1 -AGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTA
* *
30191992 AAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGC
65 AAGCTACAACAGCGAATCTTA-TTTCCTAGCGGTGT
* * *
30192028 AGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCTACATT
1 AGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATT
30192076 AAAGCTACAA
Statistics
Matches: 210, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
99 4 0.02
100 202 0.96
101 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (99 bp):
AGTGGAACAGATTAAAGCCACAATGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAA
AGCTACAACAGCGAATCTTATTTCCTAGCGGTGT
Found at i:30192059 original size:50 final size:49
Alignment explanation
Indices: 30191710--30192068 Score: 216
Period size: 50 Copynumber: 7.2 Consensus size: 49
30191700 AATACCAATT
* * * *
30191710 TTACTTCCCAGGC-GATGCAGTGGAACAGATTAAAGACACATCGGTGAATC
1 TTACTTCCCA-GCAG-TGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
* * * ** * *
30191760 TTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
1 TTACTTCCCAG-CAGTGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
* * * * * * *
30191810 TTATTTTCCTAGCGGTGTAGTGGAACAGATTAAAGCCACAATGGCGAACC
1 TTA-CTTCCCAGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
* * * * ** * * * *
30191860 TTGCTTCCCCAACATTGTAGTTAAAAAGATTAAAGCTACCACAGTGAATC
1 TTACTT-CCCAGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
* * * * * *
30191910 TTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACGGCGAATC
1 TTACTTC-CCAGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
* * * ** * *
30191960 TTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATC
1 TTACTTCCCAG-CAGTGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
* * ** *
30192010 TTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATC
1 TTACTTCCC-AGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
*
30192060 TTGCTTCCC
1 TTACTTCCC
30192069 CTACATTAAA
Statistics
Matches: 222, Mismatches: 80, Indels: 14
0.70 0.25 0.04
Matches are distributed among these distances:
49 6 0.03
50 210 0.95
51 6 0.03
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (49 bp):
TTACTTCCCAGCAGTGCAGTGGAAAAGATTAAAGCCACAACGGCGAATC
Found at i:30192133 original size:85 final size:85
Alignment explanation
Indices: 30191988--30192415 Score: 667
Period size: 85 Copynumber: 5.0 Consensus size: 85
30191978 AGTTAAAAAG
* * * ** * * * * **
30191988 ATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATTG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
*
30192053 GTGAATCTTGCTTCCCCTAC
66 GGGAATCTTGCTTCCCCTAC
*
30192073 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
30192138 GGGAATCTTGCTTCCCCTAC
66 GGGAATCTTGCTTCCCCTAC
30192158 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
30192223 GGGAATCTTGCTTCCCCTAC
66 GGGAATCTTGCTTCCCCTAC
30192243 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
30192308 GGGAATCTTGCTTCCCCTAC
66 GGGAATCTTGCTTCCCCTAC
* * * * *
30192328 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTGGAACAGATTAACGCCACAATG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
* * *
30192393 GCGAACCTTGCTTCCCCAAC
66 GGGAATCTTGCTTCCCCTAC
30192413 ATT
1 ATT
30192416 GTAGTTAAAA
Statistics
Matches: 323, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 323 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (85 bp):
ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
GGGAATCTTGCTTCCCCTAC
Found at i:30192270 original size:170 final size:170
Alignment explanation
Indices: 30191988--30192515 Score: 750
Period size: 170 Copynumber: 3.0 Consensus size: 170
30191978 AGTTAAAAAG
* * * * * *
30191988 ATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATTG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTGGAACAGATTAACGCCACAATG
* *
30192053 GTGAATCTTGCTTCCCCTACATTAAAGCTACAACAGCGAATCTTACTTCTCAAGTAGTTCAGTAG
66 GCGAATCTTGCTTCCCCTACATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAG
30192118 AATAGATTAACGCCACAACGGGGAATCTTGCTTCCCCTAC
131 AATAGATTAACGCCACAACGGGGAATCTTGCTTCCCCTAC
* * * * *
30192158 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTGGAACAGATTAACGCCACAATG
*
30192223 GGGAATCTTGCTTCCCCTACATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAG
66 GCGAATCTTGCTTCCCCTACATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAG
30192288 AATAGATTAACGCCACAACGGGGAATCTTGCTTCCCCTAC
131 AATAGATTAACGCCACAACGGGGAATCTTGCTTCCCCTAC
30192328 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTGGAACAGATTAACGCCACAATG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTGGAACAGATTAACGCCACAATG
* * *
30192393 GCGAACCTTGCTTCCCCAACATTGTAGTTAAAAAGATTAAAGCTACCACAGTGAATCTTACTTCT
66 GCGAATCTTGCTT-CCC--C--------T----ACATTAAAGCTACCACAGCGAATCTTACTTCT
* *
30192458 CAAGTAGTTCAGTAGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGAC
116 CAAGTAGTTCAGTAGAATAGATTAACGCCACAACGGGGAATCTTGCTTCCCCTAC
30192513 ATT
1 ATT
30192516 GCAGTTAAAA
Statistics
Matches: 319, Mismatches: 24, Indels: 15
0.89 0.07 0.04
Matches are distributed among these distances:
170 228 0.71
171 3 0.01
173 1 0.00
181 1 0.00
185 86 0.27
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (170 bp):
ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTGGAACAGATTAACGCCACAATG
GCGAATCTTGCTTCCCCTACATTAAAGCTACCACAGCGAATCTTACTTCTCAAGTAGTTCAGTAG
AATAGATTAACGCCACAACGGGGAATCTTGCTTCCCCTAC
Found at i:30192430 original size:50 final size:50
Alignment explanation
Indices: 30192376--30192558 Score: 156
Period size: 50 Copynumber: 3.7 Consensus size: 50
30192366 GCAGTGGAAC
* * *
30192376 AGATTAACGCCACAATGGCGAACCTTGCTTCCCCAACATTGTAGTTAAAA
1 AGATTAACGCCACAACGGCGAATCTTGCTTCCCCAACATTGCAGTTAAAA
* * * * * * * * *
30192426 AGATTAAAGCTACCACAGTGAATCTTACTT-CTCAAGTAGTT-CAG-TAGAAT
1 AGATTAACGCCACAACGGCGAATCTTGCTTCCCCAA-CA-TTGCAGTTA-AAA
*
30192476 AGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAACGCCACAACGGCGAATCTTGCTTCCCCAACATTGCAGTTAAAA
* * * * *
30192526 AGATTAAAGCTACAACAGCGAATGTTACTTCCC
1 AGATTAACGCCACAACGGCGAATCTTGCTTCCC
30192559 AGGCGGTGTA
Statistics
Matches: 100, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
49 8 0.08
50 85 0.85
51 7 0.07
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (50 bp):
AGATTAACGCCACAACGGCGAATCTTGCTTCCCCAACATTGCAGTTAAAA
Found at i:30192503 original size:100 final size:100
Alignment explanation
Indices: 30192328--30192634 Score: 364
Period size: 100 Copynumber: 3.1 Consensus size: 100
30192318 CTTCCCCTAC
* *
30192328 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTGGAACAGATTAACGCCACAATG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTAGAACAGATTAACGCCACAACG
*
30192393 GCGAACCTTGCTTCCCCAACATTGTAGTTAAAAAG
66 GCGAACCTTGCTTCCCCAACATTGCAGTTAAAAAG
* * * *
30192428 ATTAAAGCTACCACAGTGAATCTTACTTCTCAAGTAGTTCAGTAGAATAGATTAACGCCACAACG
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTAGAACAGATTAACGCCACAACG
* *
30192493 GCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
66 GCGAACCTTGCTTCCCCAACATTGCAGTTAAAAAG
* * * * * * * * *
30192528 ATTAAAGCTACAACAGCGAATGTTACTTCCCAGGCGGTGTAGTGGAACAGACTGAA-GCTACAAC
1 ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTAGAACAGA-TTAACGCCACAAC
* * * * ** * *
30192592 AGCGAATCTTGCTTCCTCGACATCACATTTAAACAG
65 GGCGAACCTTGCTTCCCCAACATTGCAGTTAAAAAG
30192628 ATTAAAG
1 ATTAAAG
30192635 TTACGAGTTA
Statistics
Matches: 178, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 175 0.98
101 3 0.02
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.24
Consensus pattern (100 bp):
ATTAAAGCTACCACAGCGAATCTTACTTCTCAAGCAGTGCAGTAGAACAGATTAACGCCACAACG
GCGAACCTTGCTTCCCCAACATTGCAGTTAAAAAG
Found at i:30194330 original size:19 final size:19
Alignment explanation
Indices: 30194306--30194343 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30194296 GCTTAATATT
*
30194306 ATTTTCAAACCTATTAATA
1 ATTTTCAAACCTACTAATA
30194325 ATTTTCAAACCTACTAATA
1 ATTTTCAAACCTACTAATA
30194344 GTATGATTCC
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:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTTTCAAACCTACTAATA
Found at i:30200119 original size:43 final size:43
Alignment explanation
Indices: 30200063--30200162 Score: 182
Period size: 43 Copynumber: 2.3 Consensus size: 43
30200053 GTGGTGTAAT
* *
30200063 ATTATGCACTTGGACAATGTTGTTACTATGTGGTGTACTACTA
1 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
30200106 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
1 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
30200149 ATTATGTATTTGGA
1 ATTATGTATTTGGA
30200163 TAATATTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (43 bp):
ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
Found at i:30200391 original size:20 final size:20
Alignment explanation
Indices: 30200327--30200403 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
30200317 AAATCATTGC
30200327 AATATATGTAAAAACAATTT
1 AATATATGTAAAAACAATTT
* ** *
30200347 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-CAATTT
30200366 ATATATATGTAAAAACAATTT
1 A-ATATATGTAAAAACAATTT
30200387 AATATATGTAAAAACAA
1 AATATATGTAAAAACAA
30200404 CTTTTCCGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.18
19 5 0.11
20 19 0.42
21 5 0.11
22 8 0.18
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
AATATATGTAAAAACAATTT
Found at i:30205020 original size:50 final size:50
Alignment explanation
Indices: 30204797--30205026 Score: 277
Period size: 50 Copynumber: 4.6 Consensus size: 50
30204787 ACATGCTAAA
* ** *
30204797 GCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GTACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG--GTGCCAAT
* * ** *
30204846 GCCATATCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
** * * *
30204896 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCTAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* *
30204946 GCCATGTCCCAGACATGGTCTTACATGGGACCTATTATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
30204996 GCCATGTCCCAGACATGGTCTTACATGGGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAC
30205027 TTTTTTACCC
Statistics
Matches: 156, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
49 26 0.17
50 124 0.79
51 5 0.03
52 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:30213741 original size:11 final size:11
Alignment explanation
Indices: 30213721--30213758 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
30213711 GATTTAGGCA
* *
30213721 TTTTGGGAAAC
1 TTTTGTGAAAT
30213732 TTTTGTGAAAT
1 TTTTGTGAAAT
30213743 TTTTGTGAAAT
1 TTTTGTGAAAT
30213754 TTTTG
1 TTTTG
30213759 GCATTTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.53
Consensus pattern (11 bp):
TTTTGTGAAAT
Found at i:30239675 original size:147 final size:148
Alignment explanation
Indices: 30239402--30239699 Score: 481
Period size: 147 Copynumber: 2.0 Consensus size: 148
30239392 AGGGACAGAA
* * *
30239402 AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTCATTGGAAATGATTTAGGGATATTG
1 AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
* *
30239467 TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAGAAGCTAACTTT-T
66 TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
* *
30239531 TCTAGGTATTTGAATCTT
131 TCTAGGTATTTAAATATT
* * *
30239549 AAGTGATCTTTCTCGTTTTATGTGTCGATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
1 AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
**
30239614 TCATCTGTTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
66 TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
30239679 TCTAGGTATTTAAATATT
131 TCTAGGTATTTAAATATT
30239697 AAG
1 AAG
30239700 GGATTAAAAG
Statistics
Matches: 138, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
147 118 0.86
148 20 0.14
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (148 bp):
AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
TCTAGGTATTTAAATATT
Found at i:30242099 original size:16 final size:16
Alignment explanation
Indices: 30242080--30242111 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30242070 TATTACAAAC
30242080 CCAAAATATCAAAATA
1 CCAAAATATCAAAATA
*
30242096 CCAAAATATCACAATA
1 CCAAAATATCAAAATA
30242112 AAATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAAAATATCAAAATA
Found at i:30246651 original size:14 final size:14
Alignment explanation
Indices: 30246626--30246692 Score: 68
Period size: 14 Copynumber: 4.8 Consensus size: 14
30246616 AAGGGAGGAG
*
30246626 AAGAAGAAAGAAAA
1 AAGAACAAAGAAAA
30246640 GAAGAA-AAAG-AAA
1 -AAGAACAAAGAAAA
30246653 AAG-ACAAAGAAAA
1 AAGAACAAAGAAAA
*
30246666 CAGAGAACAAAGAACA
1 -A-AGAACAAAGAAAA
30246682 AAGAACAAAGA
1 AAGAACAAAGA
30246693 GGGATGAGAG
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
11 1 0.02
12 7 0.15
13 6 0.13
14 15 0.33
15 8 0.17
16 9 0.20
ACGTcount: A:0.73, C:0.07, G:0.19, T:0.00
Consensus pattern (14 bp):
AAGAACAAAGAAAA
Found at i:30246690 original size:30 final size:27
Alignment explanation
Indices: 30246626--30246692 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
30246616 AAGGGAGGAG
* *
30246626 AAGAAGAAAGAAAAGAAGAAAAAGAAA
1 AAGAACAAAGAAAACAAGAAAAAGAAA
30246653 AAG-ACAAAGAAAACAGAGAACAAAGAACA
1 AAGAACAAAGAAAACA-AGAA-AAAGAA-A
30246682 AAGAACAAAGA
1 AAGAACAAAGA
30246693 GGGATGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 10 0.29
27 7 0.21
28 6 0.18
29 4 0.12
30 7 0.21
ACGTcount: A:0.73, C:0.07, G:0.19, T:0.00
Consensus pattern (27 bp):
AAGAACAAAGAAAACAAGAAAAAGAAA
Found at i:30247824 original size:27 final size:26
Alignment explanation
Indices: 30247763--30247824 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 26
30247753 AGTTAGATTC
* *
30247763 AGAACAAA-ATAAATAAAAATTAAAG
1 AGAAGAAAGATAAATAAAAAATAAAG
*
30247788 A-AAG-TAGATAAATAAATAAATAAAG
1 AGAAGAAAGATAAATAAA-AAATAAAG
30247813 AGAAGAAAGATA
1 AGAAGAAAGATA
30247825 CTAATTAAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 1 0.03
24 11 0.38
25 9 0.31
26 3 0.10
27 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.13, T:0.16
Consensus pattern (26 bp):
AGAAGAAAGATAAATAAAAAATAAAG
Found at i:30250207 original size:96 final size:95
Alignment explanation
Indices: 30250024--30250271 Score: 309
Period size: 96 Copynumber: 2.6 Consensus size: 95
30250014 TAAATAAGGG
** ** * * * *
30250024 ATTAGGGTTTAGGGTTTGTCAATTAAATTAATTATAATTTTTTTAAAATTGGATTAGGTTTCGTG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGTTTAGAG
** ** *
30250089 TTTATTGTTTTTTAAGAAAAAATCAATTAA
66 TTTAAGGGGTTTTAAGAAAAAATCAAATAA
*
30250119 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAATTTTTTTTAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAA-TTTTTTTAAAATTAGATTA-GGTTTAG
*
30250184 AG-TTAAGGGGTTTTAAGGAAAAATCAAATAA
64 AGTTTAAGGGGTTTTAAGAAAAAATCAAATAA
* *
30250215 ATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTTATAAAATTAGATTA
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AATTTTTTTAAAATTAGATTA
30250272 CCGCTCCCCA
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
95 31 0.23
96 92 0.70
97 9 0.07
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGTTTAGAG
TTTAAGGGGTTTTAAGAAAAAATCAAATAA
Found at i:30250834 original size:11 final size:11
Alignment explanation
Indices: 30250820--30250865 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
30250810 TCTTTTAAAT
30250820 AGGAATTTGAG
1 AGGAATTTGAG
30250831 AGGAATTTGAG
1 AGGAATTTGAG
30250842 A-GAATATT-AG
1 AGGAAT-TTGAG
*
30250852 AGAGAAATTGAG
1 AG-GAATTTGAG
30250864 AG
1 AG
30250866 AAAGGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 16 0.53
12 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:30250864 original size:10 final size:10
Alignment explanation
Indices: 30250826--30250868 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
30250816 AAATAGGAAT
*
30250826 TTGAGAGGAAT
1 TTGAGA-GAAA
30250837 TTGAGAGAATA
1 TTGAGAGAA-A
30250848 TTAGAGAGAAA
1 TT-GAGAGAAA
30250859 TTGAGAGAAA
1 TTGAGAGAAA
30250869 GGATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:30252941 original size:25 final size:25
Alignment explanation
Indices: 30252913--30252962 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
30252903 TAGGTAAGGC
*
30252913 TCCTTCTCCTTCTTTCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
*
30252938 TCCTTTTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
30252963 CTTCTCTTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.36, G:0.04, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:30255567 original size:14 final size:14
Alignment explanation
Indices: 30255545--30255583 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
30255535 TTCAAAAAAG
30255545 TAAAACATTTTCCA
1 TAAAACATTTTCCA
*
30255559 TAAATCATTTTCCA
1 TAAAACATTTTCCA
* *
30255573 AAAAACGTTTT
1 TAAAACATTTT
30255584 ATTGGCAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (14 bp):
TAAAACATTTTCCA
Found at i:30256830 original size:32 final size:32
Alignment explanation
Indices: 30256794--30257009 Score: 210
Period size: 32 Copynumber: 6.8 Consensus size: 32
30256784 AATCAAAGCA
* *
30256794 GCAATATATAAATACATATACAAATCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
** * *
30256826 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
30256858 GCAATATA-AGTATACATATACAATTCAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
* * *
30256890 GCAATA-AGTGTATACCTATACAATTCAATCCG
1 GCAATATA-TATATACATATACAATTCAATTCG
* * *
30256922 GAAATATA-AGTATTCATATACAATTTAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
*
30256954 GCAATAGGTGTATAT-C-TATACAATTCAATTCG
1 GCAATA--TATATATACATATACAATTCAATTCG
*
30256986 GCAATATA-AGTATATATATACAAT
1 GCAATATATA-TATACATATACAAT
30257010 ATCCAATGCT
Statistics
Matches: 149, Mismatches: 24, Indels: 22
0.76 0.12 0.11
Matches are distributed among these distances:
29 1 0.01
30 4 0.03
31 1 0.01
32 136 0.91
33 2 0.01
34 4 0.03
35 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (32 bp):
GCAATATATATATACATATACAATTCAATTCG
Found at i:30256873 original size:64 final size:64
Alignment explanation
Indices: 30256805--30257009 Score: 338
Period size: 64 Copynumber: 3.2 Consensus size: 64
30256795 CAATATATAA
*
30256805 ATACATATACAAATCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
* * *
30256869 ATACATATACAATTCAATTCGGCAATAAGTGTATACCTATACAATTCAATCCGGAAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
* * *
30256933 ATTCATATACAATTTAATTCGGCAATAGGTGTATATCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
*
30256997 ATATATATACAAT
1 ATACATATACAAT
30257010 ATCCAATGCT
Statistics
Matches: 129, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 129 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (64 bp):
ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
Found at i:30256918 original size:96 final size:96
Alignment explanation
Indices: 30256805--30257008 Score: 241
Period size: 96 Copynumber: 2.1 Consensus size: 96
30256795 CAATATATAA
* * ** * *
30256805 ATACATATACAAATCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTA
1 ATACATATACAAATCAATCCGGAAATAGAAGTATACATATACAATTCAATTCGGCAATAGAAGTA
30256870 TA-CATATACAATTCAATTCGGCAATAAGTGT
66 TATC-TATACAATTCAATTCGGCAATAAGTGT
* * * * * **
30256901 ATACCTATACAATTCAATCCGGAAATATAAGTATTCATATACAATTTAATTCGGCAATAGGTGTA
1 ATACATATACAAATCAATCCGGAAATAGAAGTATACATATACAATTCAATTCGGCAATAGAAGTA
*
30256966 TATCTATACAATTCAATTCGGCAATATA-AGT
66 TATCTATACAATTCAATTCGGCAATA-AGTGT
*
30256997 ATATATATACAA
1 ATACATATACAA
30257009 TATCCAATGC
Statistics
Matches: 90, Mismatches: 16, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
96 88 0.98
97 2 0.02
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (96 bp):
ATACATATACAAATCAATCCGGAAATAGAAGTATACATATACAATTCAATTCGGCAATAGAAGTA
TATCTATACAATTCAATTCGGCAATAAGTGT
Found at i:30257068 original size:32 final size:32
Alignment explanation
Indices: 30257032--30257116 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
30257022 AATCAAAGCA
30257032 GCAATATATAAATACATATACAAATCAATTCG
1 GCAATATATAAATACATATACAAATCAATTCG
** ** * *
30257064 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATATAAATACATATACAAATCAATTCG
*
30257096 GAAATATATAAA-ACATATACA
1 GCAATATATAAATACATATACA
30257117 TTTAAATTTA
Statistics
Matches: 41, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
31 8 0.20
32 33 0.80
ACGTcount: A:0.47, C:0.15, G:0.09, T:0.28
Consensus pattern (32 bp):
GCAATATATAAATACATATACAAATCAATTCG
Found at i:30259363 original size:23 final size:23
Alignment explanation
Indices: 30259307--30259357 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
30259297 ATACCATAAC
30259307 GTGCTTGTGAAGTTAGCACTCTG
1 GTGCTTGTGAAGTTAGCACTCTG
30259330 GTGCTTGTGAAGTTAGCACT-TCG
1 GTGCTTGTGAAGTTAGCACTCT-G
30259353 GTGCT
1 GTGCT
30259358 CTTGAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.16, C:0.18, G:0.31, T:0.35
Consensus pattern (23 bp):
GTGCTTGTGAAGTTAGCACTCTG
Found at i:30259379 original size:23 final size:22
Alignment explanation
Indices: 30259343--30259403 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
30259333 CTTGTGAAGT
** *
30259343 TAGCACTTCGGTGCTCTTGAATG
1 TAGCACTTTTGTGCTCCTG-ATG
* *
30259366 TAGGACTTTTGTGCTCCTGATT
1 TAGCACTTTTGTGCTCCTGATG
30259388 TAGCACTTTTGTGCTC
1 TAGCACTTTTGTGCTC
30259404 ATGTATTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (22 bp):
TAGCACTTTTGTGCTCCTGATG
Found at i:30259397 original size:22 final size:23
Alignment explanation
Indices: 30259314--30259403 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 23
30259304 AACGTGCTTG
* * * **
30259314 TGAAGTTAGCACTCTGGTGCTTG
1 TGAATTTAGCACTTTTGTGCTCC
* ** *
30259337 TGAAGTTAGCACTTCGGTGCTCT
1 TGAATTTAGCACTTTTGTGCTCC
* *
30259360 TGAATGTAGGACTTTTGTGCTCC
1 TGAATTTAGCACTTTTGTGCTCC
30259383 TG-ATTTAGCACTTTTGTGCTC
1 TGAATTTAGCACTTTTGTGCTC
30259404 ATGTATTTGT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
22 17 0.31
23 38 0.69
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.39
Consensus pattern (23 bp):
TGAATTTAGCACTTTTGTGCTCC
Found at i:30260546 original size:17 final size:15
Alignment explanation
Indices: 30260515--30260543 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30260505 TTATTGTAAT
30260515 CAGAGAAAAAAATAA
1 CAGAGAAAAAAATAA
30260530 CAGAGAAAAAAATA
1 CAGAGAAAAAAATA
30260544 TAAAAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.14, T:0.07
Consensus pattern (15 bp):
CAGAGAAAAAAATAA
Found at i:30265315 original size:20 final size:19
Alignment explanation
Indices: 30265272--30265315 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
30265262 ATGTAAAATG
30265272 TATTCATTTTATGTAAAGA
1 TATTCATTTTATGTAAAGA
* *
30265291 GATTCATTTTATAGTAAAGT
1 TATTCATTTTAT-GTAAAGA
30265311 TATTC
1 TATTC
30265316 TAATCGAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (19 bp):
TATTCATTTTATGTAAAGA
Found at i:30270615 original size:86 final size:86
Alignment explanation
Indices: 30270470--30270639 Score: 286
Period size: 86 Copynumber: 2.0 Consensus size: 86
30270460 GTACCATACG
*
30270470 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATTTGAATGGAAG
1 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATCTGAATGGAAG
*
30270535 GATAGCCCGATGGAAAATTTT
66 GATAGCCCGAAGGAAAATTTT
* *
30270556 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTACTCTGAATTGAAG
1 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATCTGAATGGAAG
* *
30270621 GATGGCCCGAAGGCAAATT
66 GATAGCCCGAAGGAAAATT
30270640 CTGCTTTCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (86 bp):
ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATCTGAATGGAAG
GATAGCCCGAAGGAAAATTTT
Found at i:30273550 original size:27 final size:27
Alignment explanation
Indices: 30273488--30273556 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
30273478 AAGAAAATTA
*
30273488 AAATG-ATGTAATAAGCTAAGACAAAT
1 AAATGCATGTATTAAGCTAAGACAAAT
* *
30273514 TAATGACATGTATTAA-CTAAGACATACT
1 AAATG-CATGTATTAAGCTAAGACA-AAT
*
30273542 AAATGCATGCATTAA
1 AAATGCATGTATTAA
30273557 AATAAAACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.11
27 17 0.49
28 14 0.40
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.28
Consensus pattern (27 bp):
AAATGCATGTATTAAGCTAAGACAAAT
Found at i:30278456 original size:184 final size:184
Alignment explanation
Indices: 30278137--30278504 Score: 664
Period size: 184 Copynumber: 2.0 Consensus size: 184
30278127 GTCCGATCGA
*
30278137 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGGTCTTCATCAATCCGTCCACGTTCTCT
1 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGATCTTCATCAATCCGTCCACGTTCTCT
*
30278202 TTGGCCACGGTTTCTTGGAACTCTTCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
66 TTGGCCACGGTTTCTTGGAACTCTCCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
* *
30278267 CACTTCGGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCGTTCTCTTT
131 CACTTCAGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCGTTCACTTT
*
30278321 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGATCTTCATCGATCCGTCCACGTTCTCT
1 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGATCTTCATCAATCCGTCCACGTTCTCT
* * *
30278386 TTGGCCACGGTTTCTTGGAACTCTCCGCCTTTCACTTTGGTTTGACCCTTGGTCACTTTTGGCTT
66 TTGGCCACGGTTTCTTGGAACTCTCCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
30278451 CACTTCAGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCGTTCACTTT
131 CACTTCAGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCGTTCACTTT
30278505 GTGGACCTTG
Statistics
Matches: 176, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
184 176 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (184 bp):
CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGATCTTCATCAATCCGTCCACGTTCTCT
TTGGCCACGGTTTCTTGGAACTCTCCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
CACTTCAGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCGTTCACTTT
Found at i:30280421 original size:27 final size:28
Alignment explanation
Indices: 30280365--30280444 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
30280355 GGCAGGAACT
*
30280365 TAAG-CAAATTAAAATG-ATGTAATAAGC
1 TAAGACAAATT-AAATGCATGTATTAAGC
30280392 TAAGACAAATT-AATGACATGTATTAA-C
1 TAAGACAAATTAAATG-CATGTATTAAGC
* *
30280419 TAAGACATATTAAATGCATGAATTAA
1 TAAGACAAATTAAATGCATGTATTAA
30280445 AATAAAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
26 4 0.09
27 24 0.52
28 18 0.39
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (28 bp):
TAAGACAAATTAAATGCATGTATTAAGC
Found at i:30282106 original size:89 final size:89
Alignment explanation
Indices: 30281994--30282476 Score: 496
Period size: 89 Copynumber: 5.4 Consensus size: 89
30281984 TTATCGTGGT
* *
30281994 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
1 AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
** *
30282059 CACAATAGAATAGATGAAAGCCAC
66 TGCAGTAGAATAGATGAAAGCCAC
* * * *
30282083 AAATCTTATCTCCCTGAAATTGCAATGGAGTAGATTGAAAATAACAAATCTTATCTCTCTGAAGT
1 AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
*
30282148 TGCAGTAGAATAGATTAAAGCCAC
66 TGCAGTAGAATAGATGAAAGCCAC
* * * * *
30282172 AAATTTTATCT-CCTTAAAGTTGCAATGGAACAGATTGAAAATAGTAAATCTTATCTCTTTGAAG
1 AAATCTTATCTCCCTGAAA-TTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAG
* ** *
30282236 TTGCAATAGAGCAGATTAAAGCCAC
65 TTGCAGTAGAATAGATGAAAGCCAC
* * * **
30282261 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
* * **
30282326 TGCAGTGGAACAGATTG-AAGATAAC
66 TGCAGTAGAATAGA-TGAAAG-CCAC
* * * *
30282351 AAATC-TATCTCTCTGAAGTTGCAATAGAGCAGATTGAAG-TCA-CAAATCTTATCTCCTT-AAG
1 AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAGAT-AGCAAATCTTATCTCTTTGAAG
* * **
30282412 TTGCAGTGGAGTAGATTG-AAGTTAC
65 TTGCAGTAGAATAGA-TGAAAGCCAC
* * * *
30282437 AAATCTCATTTCCCT-AAAGTTGCAGTGGAGTAGATTGAAG
1 AAATCTTATCTCCCTGAAA-TTGCAATGGAGCAGATTGAAG
30282477 GTATGAGTCT
Statistics
Matches: 336, Mismatches: 51, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
86 10 0.03
87 46 0.14
88 22 0.07
89 246 0.73
90 12 0.04
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (89 bp):
AAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
TGCAGTAGAATAGATGAAAGCCAC
Found at i:30282117 original size:44 final size:44
Alignment explanation
Indices: 30281994--30282564 Score: 465
Period size: 44 Copynumber: 12.9 Consensus size: 44
30281984 TTATCGTGGT
30281994 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TCA-C
** ** * * ** *
30282039 AAATCTTATCTCTTTGAAGTCACAATAGAATAGA-TGAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTCAC
* * * * *
30282083 AAATCTTATCTCCCTGAAATTGCAATGGAGTAGATTGAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTCAC
* * ** * *
30282128 AAATCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
* * * * * * *
30282172 AAATTTTATCTCCTTAAAGTTGCAATGGAACAGATTGAAAAT-AGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGTCA-C
** * * * *
30282217 AAATCTTATCTCTTTGAAGTTGCAATAGAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
*
30282261 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TCA-C
* *
30282306 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TCAC
* * *
30282351 AAATC-TATCTCTCTGAAGTTGCAATAGAGCAGATTGAAGTCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
* * *
30282394 AAATCTTATCT-CCTTAAGTTGCAGTGGAGTAGATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
* * * * *
30282437 AAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTGAAGGT-AT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GTCAC
* * * * * *
30282481 GAGTCTCATCGCCCTGAAGTTGCAGCGGAGCAGATTAAAG-CTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTC-AC
* * * * *
30282525 AAGTCTAATCTACCTGAAGTTACAGTGGAGTAGATTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
30282565 CAAAAAATCC
Statistics
Matches: 423, Mismatches: 89, Indels: 29
0.78 0.16 0.05
Matches are distributed among these distances:
43 44 0.10
44 227 0.54
45 151 0.36
46 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTCAC
Found at i:30282298 original size:178 final size:179
Alignment explanation
Indices: 30281994--30282475 Score: 580
Period size: 178 Copynumber: 2.7 Consensus size: 179
30281984 TTATCGTGGT
* * * *
30281994 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
1 AAATTTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAAATAGCAAATCTTATCTCTTTGAAGT
** * * * *
30282059 CACAATAGAATAGATGAAAGCCACAAATCTTATCTCCCTGAAATTGCAATGGAGTAGATTGAAAA
66 TGCAATAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAAA
* * *
30282124 TAACAAATCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAG-CCAC
131 TAACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGACAAC
* * *
30282172 AAATTTTATCTCCTTAAAGTTGCAATGGAACAGATTGAAAATAGTAAATCTTATCTCTTTGAAGT
1 AAATTTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAAATAGCAAATCTTATCTCTTTGAAGT
* * * *
30282237 TGCAATAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
66 TGCAATAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAAA
* * * *
30282302 TAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAAC
131 TAACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGACAAC
* * * *
30282351 AAA-TCTATCT-CTCTGAAGTTGCAATAGAGCAGATTG-AAGTCA-CAAATCTTATCTCCTT-AA
1 AAATTTTATCTCCT-TGAAGTTGCAATGGAGCAGATTGAAAAT-AGCAAATCTTATCTCTTTGAA
* * * ** * * *
30282411 GTTGCAGTGGAGTAGATTGAAGTTACAAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTGAA
64 GTTGCAATAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA
30282476 GGTATGAGTC
Statistics
Matches: 259, Mismatches: 42, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
176 56 0.22
177 19 0.07
178 179 0.69
179 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (179 bp):
AAATTTTATCTCCTTGAAGTTGCAATGGAGCAGATTGAAAATAGCAAATCTTATCTCTTTGAAGT
TGCAATAGAGTAGATTAAAGCCACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAAA
TAACAAATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTAAAGACAAC
Found at i:30282526 original size:88 final size:85
Alignment explanation
Indices: 30281994--30282564 Score: 406
Period size: 89 Copynumber: 6.5 Consensus size: 85
30281984 TTATCGTGGT
* **
30281994 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGT
1 AAATC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGTAG--AATCTTATC-CCCTGAAGT
** * * ** * *
30282059 CACAATAGAATAGATGAAAGCCAC
62 TGCAGTGGAGCAGATTAAAGCTAC
* * * ** * *
30282083 AAATCTTATCTCCCTGAAATTGCAATGGAGTAGATTGAAAATAACAAATCTTATCTCTCTGAAGT
1 AAATC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGT-A-GAATCTTATC-CCCTGAAGT
* ** *
30282148 TGCAGTAGAATAGATTAAAGCCAC
62 TGCAGTGGAGCAGATTAAAGCTAC
* * * * * ** **
30282172 AAATTTTATCTCCTTAAAGTTGCAATGGAACAGATTGAAAATAGTAAATCTTATCTCTTTGAAGT
1 AAA-TCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGTAG--AATCTTATC-CCCTGAAGT
* * *
30282237 TGCAATAGAGCAGATTAAAGCCAC
62 TGCAGTGGAGCAGATTAAAGCTAC
* *
30282261 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCCTGAAGT
1 AAATC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGTAG--AATCTTATC-CCCTGAAGT
* * *
30282326 TGCAGTGGAACAGATTGAAGATAAC
62 TGCAGTGGAGCAGATTAAAGCT-AC
* * * * * *
30282351 AAATCTATCTCTCTGAAGTTGCAATAGAGCAGATTGAA-GTCACAAATCTTATCTCCTTAAGTTG
1 AAATCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGT-A-GAATCTTATCCCCTGAAGTTG
* * *
30282415 CAGTGGAGTAGATTGAAGTTAC
64 CAGTGGAGCAGATTAAAGCTAC
* * * * *
30282437 AAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTGAAGGTATGAGTCTCATCGCCCTGAAGTT
1 AAATCT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGTA-GAATCTTATC-CCCTGAAGTT
*
30282502 GCAGCGGAGCAGATTAAAGCTAC
63 GCAGTGGAGCAGATTAAAGCTAC
* * * *
30282525 AAGTCTAATCTACCTGAAGTTACAGTGGAGTAGATTGAAG
1 AAATCT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
30282565 CAAAAAATCC
Statistics
Matches: 400, Mismatches: 70, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
86 8 0.02
87 60 0.15
88 74 0.19
89 250 0.62
90 8 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (85 bp):
AAATCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGGTAGAATCTTATCCCCTGAAGTTGCA
GTGGAGCAGATTAAAGCTAC
Found at i:30282608 original size:132 final size:131
Alignment explanation
Indices: 30282231--30282608 Score: 320
Period size: 132 Copynumber: 2.9 Consensus size: 131
30282221 CTTATCTCTT
* * * * * *
30282231 TGAAGTTGCAATAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
1 TGAAGTTGCAACAGAGCAGATTAAAGTCACAAATCTAATCT-CCTGAAGTTACAGTGGAGTAGAT
* * * ** * * ** *
30282296 TGAAG-ATAGCAAATCTTATCT-CCCTGAAGTTGCAGTGGAACAGATTGAAGATAACAAATCT-A
65 TGAAGCA-A-AAAATCTCAT-TACCCTAAAGTTGCAGTGGAGTAGAATGAAGGT-ATGAGTCTCA
* *
30282358 TCTCTC
126 TCGCCC
* * * * *
30282364 TGAAGTTGCAATAGAGCAGATTGAAGTCACAAATCTTATCTCCTTAAGTTGCAGTGGAGTAGATT
1 TGAAGTTGCAACAGAGCAGATTAAAGTCACAAATCTAATCTCCTGAAGTTACAGTGGAGTAGATT
** * * *
30282429 GAAGTTACAAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTGAAGGTATGAGTCTCATCGCC
66 GAAGCAAAAAATCTCATTACCCTAAAGTTGCAGTGGAGTAGAATGAAGGTATGAGTCTCATCGCC
30282494 C
131 C
* * *
30282495 TGAAGTTGCAGCGGAGCAGATTAAAG-CTACAAGTCTAATCTACCTGAAGTTACAGTGGAGTAGA
1 TGAAGTTGCAACAGAGCAGATTAAAGTC-ACAAATCTAATCT-CCTGAAGTTACAGTGGAGTAGA
* *
30282559 TTGAAGCAAAAAATC-C-TGTACCTCTGAAGTTGTAGTGG-GTTAGAATGAAG
64 TTGAAGCAAAAAATCTCAT-TACC-CTAAAGTTGCAGTGGAG-TAGAATGAAG
30282609 CCACTTGAAA
Statistics
Matches: 206, Mismatches: 31, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
130 8 0.04
131 79 0.38
132 81 0.39
133 38 0.18
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (131 bp):
TGAAGTTGCAACAGAGCAGATTAAAGTCACAAATCTAATCTCCTGAAGTTACAGTGGAGTAGATT
GAAGCAAAAAATCTCATTACCCTAAAGTTGCAGTGGAGTAGAATGAAGGTATGAGTCTCATCGCC
C
Found at i:30284114 original size:65 final size:66
Alignment explanation
Indices: 30284024--30284152 Score: 206
Period size: 66 Copynumber: 2.0 Consensus size: 66
30284014 TTCATTCTTT
30284024 TATATTTGTTTTATCTATTTATTTATCA-TTCTTTTACTTTTTAAATACTTAAATTTCATATTAT
1 TATATTTGTTTTATCTATTTATTTATCATTTCTTTTACTTTTTAAATACTTAAATTTCATATTAT
30284088 G
66 G
* * * * *
30284089 TATATTTGTTTTATCTATTTATTTATTATTTTTTTTACTTTTTAAATATTTGAATTTGATATTA
1 TATATTTGTTTTATCTATTTATTTATCATTTCTTTTACTTTTTAAATACTTAAATTTCATATTA
30284153 CTTATACTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
65 27 0.47
66 31 0.53
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (66 bp):
TATATTTGTTTTATCTATTTATTTATCATTTCTTTTACTTTTTAAATACTTAAATTTCATATTAT
G
Found at i:30292262 original size:31 final size:31
Alignment explanation
Indices: 30292224--30292287 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
30292214 AGCAAAAGCG
30292224 ATTCATGCGTGGTACGCAGACATAGTAAACT
1 ATTCATGCGTGGTACGCAGACATAGTAAACT
* *
30292255 ATTCATGCTTGGTATGCAGACATAGTAAACT
1 ATTCATGCGTGGTACGCAGACATAGTAAACT
30292286 AT
1 AT
30292288 CTCGTCACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (31 bp):
ATTCATGCGTGGTACGCAGACATAGTAAACT
Found at i:30293867 original size:6 final size:6
Alignment explanation
Indices: 30293852--30293897 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
30293842 AAAAATACAC
* *
30293852 ATTTTA ATTTTT A-TTTT -TTCTT ATTATTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT-TTT ATTTTT ATTTTT ATTTT
30293898 GCTAGGGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
5 7 0.21
6 22 0.65
7 5 0.15
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:30312685 original size:30 final size:31
Alignment explanation
Indices: 30312645--30312722 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
30312635 TATATTTTCT
30312645 GTACTTGGCTAGGTTTTCTT-TTT-AAGAACA
1 GTACTTGGCTAGGTTTT-TTCTTTAAAGAACA
* **
30312675 GTACTCGGCTAGGTTTTTTCTTTAAAGATTA
1 GTACTTGGCTAGGTTTTTTCTTTAAAGAACA
*
30312706 GTAGTTGGCTAGGTTTT
1 GTACTTGGCTAGGTTTT
30312723 ATTAATCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.05
30 19 0.46
31 20 0.49
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.45
Consensus pattern (31 bp):
GTACTTGGCTAGGTTTTTTCTTTAAAGAACA
Found at i:30313729 original size:22 final size:22
Alignment explanation
Indices: 30313704--30313767 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
30313694 TTAGACCATA
30313704 GTGATTTTCTTTATAAATCATG
1 GTGATTTTCTTTATAAATCATG
*
30313726 GTGATTTTCTTTATAAATAATG
1 GTGATTTTCTTTATAAATCATG
30313748 GTGATTTTCTTTATAAATCA
1 GTGATTTTCTTTATAAATCA
30313768 CGGAATCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (22 bp):
GTGATTTTCTTTATAAATCATG
Found at i:30315207 original size:26 final size:25
Alignment explanation
Indices: 30315177--30315234 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
30315167 ATAAACACCA
30315177 AAAAAATATTTTAAATATAAAAAGAAT
1 AAAAAATATTTTAAA-AT-AAAAGAAT
*
30315204 AAAAAAGTATTTTAAAATTAAAGAAT
1 AAAAAA-TATTTTAAAATAAAAGAAT
30315230 AAAAA
1 AAAAA
30315235 TTGTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 12 0.41
27 8 0.28
28 9 0.31
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (25 bp):
AAAAAATATTTTAAAATAAAAGAAT
Found at i:30315214 original size:28 final size:26
Alignment explanation
Indices: 30315176--30315234 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
30315166 AATAAACACC
30315176 AAAAAAATATTTTAAATATAAAAAGAAT
1 AAAAAAATATTTTAAA-AT-AAAAGAAT
* *
30315204 AAAAAAGTATTTTAAAATTAAAGAAT
1 AAAAAAATATTTTAAAATAAAAGAAT
30315230 AAAAA
1 AAAAA
30315235 TTGTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.41
27 2 0.07
28 15 0.52
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAAAAATATTTTAAAATAAAAGAAT
Found at i:30315735 original size:102 final size:101
Alignment explanation
Indices: 30315409--30315735 Score: 261
Period size: 102 Copynumber: 3.0 Consensus size: 101
30315399 CATAATTGGA
30315409 TTAGTTTTCGTGTTTATTATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAG
1 TTAGTTTTCGTGTTTATTATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAG
* *
30315474 TAATTTAATTAAAAAATTTTTAAAAATCATATTAGGGTTAGGG
66 TAATTTAATTAAAAAA-ATTT--AAA--AT-TTA-GATTAGGG
** * * * *
30315517 TTAAGGTTTAGGGTGTTTTTAAGTTAAGGGTTTTTAAGGAAAAATCAAATAAATTAGGGTTTAGA
1 TT-A-GTTT-TCGTG--TTT-A-TT-A--TTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGG
* * ** * *
30315582 GTT--TAGGGT--TTGTCAATT-AAATTATTTATAAATTTTTCAAAATT-GGA
56 GTTACTTGAGTAATT-T-AATTAAAAAAATTTA-AAA--TTT--AGATTAGGG
30315629 TTAGTTTTCGTGTTTATTATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAG
1 TTAGTTTTCGTGTTTATTATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAG
30315694 TAATTTAATTTAAAAAAATTTAAAATTTAGATTAGGG
66 TAATTTAA-TTAAAAAAATTTAAAATTTAGATTAGGG
30315731 TTAGT
1 TTAGT
30315736 GCTAGGGTTA
Statistics
Matches: 169, Mismatches: 26, Indels: 54
0.68 0.10 0.22
Matches are distributed among these distances:
101 4 0.02
102 42 0.25
103 3 0.02
104 7 0.04
105 8 0.05
106 11 0.07
107 3 0.02
108 2 0.01
109 4 0.02
110 8 0.05
111 5 0.03
112 7 0.04
113 8 0.05
114 7 0.04
115 6 0.04
116 9 0.05
118 35 0.21
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.43
Consensus pattern (101 bp):
TTAGTTTTCGTGTTTATTATTTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAG
TAATTTAATTAAAAAAATTTAAAATTTAGATTAGGG
Found at i:30315747 original size:6 final size:6
Alignment explanation
Indices: 30315725--30315768 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
30315715 AAAATTTAGA
* * *
30315725 TTAGGG TTAGTG CTAGGG TTAGGA TTAGGG TTAGGG TTTAGGG T
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG T
30315769 GTTTTTAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.02, G:0.43, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:30315917 original size:34 final size:35
Alignment explanation
Indices: 30315874--30315968 Score: 140
Period size: 35 Copynumber: 2.7 Consensus size: 35
30315864 TCACGCGCGG
*
30315874 GGAAAACGCGTCC-CAG-GGACGCGCTGACGTGGCA
1 GGAAAACGCGTCCACAGCAG-CGCGCTGACGTGGCA
*
30315908 GGAAAACGCGTCCACATCAGCGCGCTGACGTGGCA
1 GGAAAACGCGTCCACAGCAGCGCGCTGACGTGGCA
*
30315943 GGAAAACGCGTCCACATCAGCGCGCT
1 GGAAAACGCGTCCACAGCAGCGCGCT
30315969 TTATGTCCAC
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
34 13 0.23
35 43 0.75
36 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.33, T:0.11
Consensus pattern (35 bp):
GGAAAACGCGTCCACAGCAGCGCGCTGACGTGGCA
Found at i:30315939 original size:35 final size:35
Alignment explanation
Indices: 30315893--30315968 Score: 152
Period size: 35 Copynumber: 2.2 Consensus size: 35
30315883 GTCCCAGGGA
30315893 CGCGCTGACGTGGCAGGAAAACGCGTCCACATCAG
1 CGCGCTGACGTGGCAGGAAAACGCGTCCACATCAG
30315928 CGCGCTGACGTGGCAGGAAAACGCGTCCACATCAG
1 CGCGCTGACGTGGCAGGAAAACGCGTCCACATCAG
30315963 CGCGCT
1 CGCGCT
30315969 TTATGTCCAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.24, C:0.33, G:0.32, T:0.12
Consensus pattern (35 bp):
CGCGCTGACGTGGCAGGAAAACGCGTCCACATCAG
Found at i:30316491 original size:17 final size:18
Alignment explanation
Indices: 30316468--30316512 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
30316458 ATATATTTTT
30316468 TATTTTTAATCAAATATA
1 TATTTTTAATCAAATATA
30316486 -ATTTTTAATCAAATATA
1 TATTTTTAATCAAATATA
*
30316503 TATATTTAAT
1 TATTTTTAAT
30316513 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTTAATCAAATATA
Found at i:30319441 original size:19 final size:19
Alignment explanation
Indices: 30319419--30319467 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
30319409 TGATTTCAAA
30319419 TGAATTAAGATAATTTGAG
1 TGAATTAAGATAATTTGAG
*
30319438 TGAATTAAGGTAATTTGAG
1 TGAATTAAGATAATTTGAG
30319457 TGAATTAAGAT
1 TGAATTAAGAT
30319468 TGAACCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TGAATTAAGATAATTTGAG
Found at i:30321809 original size:26 final size:26
Alignment explanation
Indices: 30321780--30321880 Score: 87
Period size: 27 Copynumber: 3.8 Consensus size: 26
30321770 AATCCTTGAA
* *
30321780 TTTACTGTCTCATTGGACT-TCCTATG
1 TTTAC-GTCCCATCGGACTATCCTATG
*
30321806 TTTAACGTCCCATCGGACTATCCTGTG
1 TTT-ACGTCCCATCGGACTATCCTATG
** *
30321833 TTTAACGTCCTGTCGGACTATCCCATG
1 TTT-ACGTCCCATCGGACTATCCTATG
* *
30321860 TTTAACATCCCATTGGACTAT
1 TTT-ACGTCCCATCGGACTAT
30321881 ATACAATGCC
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 14 0.23
27 48 0.77
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.38
Consensus pattern (26 bp):
TTTACGTCCCATCGGACTATCCTATG
Found at i:30321835 original size:27 final size:27
Alignment explanation
Indices: 30321794--30321880 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
30321784 CTGTCTCATT
30321794 GGACT-TCCTATGTTTAACGTCCCATC
1 GGACTATCCTATGTTTAACGTCCCATC
* **
30321820 GGACTATCCTGTGTTTAACGTCCTGTC
1 GGACTATCCTATGTTTAACGTCCCATC
* * *
30321847 GGACTATCCCATGTTTAACATCCCATT
1 GGACTATCCTATGTTTAACGTCCCATC
30321874 GGACTAT
1 GGACTAT
30321881 ATACAATGCC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
26 5 0.10
27 46 0.90
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (27 bp):
GGACTATCCTATGTTTAACGTCCCATC
Found at i:30321959 original size:57 final size:57
Alignment explanation
Indices: 30321886--30322030 Score: 202
Period size: 57 Copynumber: 2.5 Consensus size: 57
30321876 ACTATATACA
* * **
30321886 ATGCCACAGTGTCTTTCAACTATGGTCTTACTCATTATA-TCGTCAAATCATCTTTTG
1 ATGCCATAGCGTCTTTCAACTATGGTCTTACTCACAATACT-GTCAAATCATCTTTTG
* *
30321943 ATGCCATAGCGTCTTTCAGCTATGGTATTACTCACAATACTGTCAAATCATCTTTTG
1 ATGCCATAGCGTCTTTCAACTATGGTCTTACTCACAATACTGTCAAATCATCTTTTG
* *
30322000 ATTCCATAGCATCTTTCAACTATGGTCTTAC
1 ATGCCATAGCGTCTTTCAACTATGGTCTTAC
30322031 ACAATATAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 76 0.99
58 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (57 bp):
ATGCCATAGCGTCTTTCAACTATGGTCTTACTCACAATACTGTCAAATCATCTTTTG
Found at i:30323419 original size:9 final size:9
Alignment explanation
Indices: 30323402--30323438 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30323392 TGAGTTTTTG
30323402 AATTCGAAT
1 AATTCGAAT
*
30323411 AACTCGAAT
1 AATTCGAAT
30323420 AATTCGAAT
1 AATTCGAAT
30323429 AATTCGAAT
1 AATTCGAAT
30323438 A
1 A
30323439 TAAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30323706 original size:30 final size:30
Alignment explanation
Indices: 30323653--30323711 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
30323643 AACTTTTTAT
*
30323653 TTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
30323682 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCC-AAAACTTTTACTCCCTTCCCA
30323712 TCCCATTCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 8 0.31
30 13 0.50
31 5 0.19
ACGTcount: A:0.20, C:0.39, G:0.00, T:0.41
Consensus pattern (30 bp):
TTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:30324372 original size:5 final size:5
Alignment explanation
Indices: 30324362--30324387 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30324352 GAACAAATAT
30324362 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
30324388 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:30324487 original size:5 final size:5
Alignment explanation
Indices: 30324477--30324502 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
30324467 CTCAAAAATT
30324477 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
30324503 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:30330598 original size:19 final size:21
Alignment explanation
Indices: 30330562--30330600 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30330552 TAATTTAACC
*
30330562 ATTTTTTATTTTTATTTTAAT
1 ATTTTTTATTTGTATTTTAAT
30330583 ATTTTTT-TTTGT-TTTTAA
1 ATTTTTTATTTGTATTTTAA
30330601 CTTAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (21 bp):
ATTTTTTATTTGTATTTTAAT
Found at i:30338947 original size:24 final size:24
Alignment explanation
Indices: 30338900--30338952 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
30338890 TAACATACAT
* * *
30338900 AGAATCTCATGATCAGTTAGATAC
1 AGAATTTCATGATCAGTCAAATAC
*
30338924 AGAATTTCATGATTAGTCAAATAC
1 AGAATTTCATGATCAGTCAAATAC
30338948 A-AATT
1 AGAATT
30338953 CGGACCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 4 0.16
24 21 0.84
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (24 bp):
AGAATTTCATGATCAGTCAAATAC
Found at i:30338996 original size:26 final size:27
Alignment explanation
Indices: 30338966--30339016 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
30338956 ACCTAAGTCT
*
30338966 ATAAA-AGATACAGATAT-CAGAATCAG
1 ATAAATAGA-ACAAATATACAGAATCAG
30338992 ATAAATAGAACAAATATACAGAATC
1 ATAAATAGAACAAATATACAGAATC
30339017 CTACCTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.20
Consensus pattern (27 bp):
ATAAATAGAACAAATATACAGAATCAG
Found at i:30339479 original size:18 final size:18
Alignment explanation
Indices: 30339445--30339479 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30339435 ATTTCAAAAT
* *
30339445 TTTGGGCCCATATGCCCG
1 TTTGGGCCCACACGCCCG
30339463 TTTGGGCCCACACGCCC
1 TTTGGGCCCACACGCCC
30339480 CATTTGGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.40, G:0.26, T:0.23
Consensus pattern (18 bp):
TTTGGGCCCACACGCCCG
Found at i:30340791 original size:6 final size:6
Alignment explanation
Indices: 30340780--30340804 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
30340770 AAAAAATTCA
30340780 ATACAT ATACAT ATACAT ATACAT A
1 ATACAT ATACAT ATACAT ATACAT A
30340805 GTATTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (6 bp):
ATACAT
Found at i:30353312 original size:19 final size:19
Alignment explanation
Indices: 30353272--30353311 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
30353262 TTTATGTGTG
* *
30353272 TTTATTTTTGTTTTTATGT
1 TTTATTTGTGTGTTTATGT
30353291 TTTATTTGTGTGTTTAT-T
1 TTTATTTGTGTGTTTATGT
30353309 TTT
1 TTT
30353312 TTATATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (19 bp):
TTTATTTGTGTGTTTATGT
Found at i:30353325 original size:31 final size:29
Alignment explanation
Indices: 30353258--30353325 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
30353248 GTTGCACATA
*
30353258 AGTTTTTATGTGTGTTTATTTTTGTTTTT
1 AGTTTTTATGTGTGTTTATTTTTGTTTAT
*
30353287 ATGTTTTATTTGTGTGTTTATTTTT-TTATAT
1 A-GTTTT-TATGTGTGTTTATTTTTGTT-TAT
30353318 AGTTTTTA
1 AGTTTTTA
30353326 AAAAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 2 0.06
30 12 0.36
31 19 0.58
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (29 bp):
AGTTTTTATGTGTGTTTATTTTTGTTTAT
Found at i:30356866 original size:37 final size:37
Alignment explanation
Indices: 30356825--30357046 Score: 245
Period size: 37 Copynumber: 6.0 Consensus size: 37
30356815 ATACTCCCTG
30356825 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGC
1 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGC
* * *
30356862 ATTTGGCGTGTTATCGGGTGGATTACCTCTTATGAGC
1 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGC
* ** * *
30356899 ATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
1 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGC
*
30356936 ATTTGG-TGTGTTACCAGGTGGATTAGCTCTTATGAGC
1 ATTTGGCT-TGTTATCAGGTGGATTAGCTCTTATGAGC
* *
30356973 ATTTGG-TGTGTTA-CTGGGTGGACTAGCTCTTATGAGC
1 ATTTGGCT-TGTTATC-AGGTGGATTAGCTCTTATGAGC
* * * *
30357010 ATTTGGCGTGTTATTAGG-GGAAGTAGTTCTTATGAGC
1 ATTTGGCTTGTTATCAGGTGG-ATTAGCTCTTATGAGC
30357047 GATTGGTGTG
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
36 3 0.02
37 156 0.98
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (37 bp):
ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGC
Found at i:30356919 original size:74 final size:74
Alignment explanation
Indices: 30356825--30357023 Score: 272
Period size: 74 Copynumber: 2.7 Consensus size: 74
30356815 ATACTCCCTG
* * *
30356825 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGGTGGATTACCT
1 ATTTGGCCTGTTATTAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCAGGTGGATTACCT
30356890 CTTATGAGC
66 CTTATGAGC
* * * * * *
30356899 ATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGCATTTGGTGTGTTACCAGGTGGATTAGCT
1 ATTTGGCCTGTTATTAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCAGGTGGATTACCT
30356964 CTTATGAGC
66 CTTATGAGC
** * * *
30356973 ATTTGGTGTGTTACTGGGTGGACTAGCTCTTATGAGCATTTGGCGTGTTAT
1 ATTTGGCCTGTTATTAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTAT
30357024 TAGGGGAAGT
Statistics
Matches: 107, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 107 1.00
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.40
Consensus pattern (74 bp):
ATTTGGCCTGTTATTAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCAGGTGGATTACCT
CTTATGAGC
Found at i:30357022 original size:111 final size:111
Alignment explanation
Indices: 30356825--30357024 Score: 323
Period size: 111 Copynumber: 1.8 Consensus size: 111
30356815 ATACTCCCTG
* *
30356825 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGGTGGATTACCT
1 ATTTGGCTTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGGTGGACTACCT
30356890 CTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
66 CTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
* *
30356936 ATTTGG-TGTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGTGTGTTA-CTGGGTGGACTAG
1 ATTTGGCT-TGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATC-GGGTGGACTAC
*
30356999 CTCTTATGAGCATTTGGCGTGTTATT
64 CTCTTATGAGCATTTGGCCTGTTATT
30357025 AGGGGAAGTA
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
110 2 0.02
111 80 0.98
ACGTcount: A:0.17, C:0.14, G:0.28, T:0.40
Consensus pattern (111 bp):
ATTTGGCTTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGGTGGACTACCT
CTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
Found at i:30357044 original size:111 final size:112
Alignment explanation
Indices: 30356824--30357058 Score: 318
Period size: 111 Copynumber: 2.1 Consensus size: 112
30356814 TATACTCCCT
* *
30356824 GATTTGGCT-TGTTATCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGGTGGATTAC
1 GATTTGG-TGTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGGTGGACTAC
* *
30356888 CTCTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
65 CTCTTATGAGCATTTGGCCTGTTATTAGGTGGAGTAACTCCTATGAGC
* *
30356936 -ATTTGGTGTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGTGTGTTA-CTGGGTGGACTAG
1 GATTTGGTGTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATC-GGGTGGACTAC
* ** *
30356999 CTCTTATGAGCATTTGGCGTGTTATTAGG-GGAAGTAGTTCTTATGAGC
65 CTCTTATGAGCATTTGGCCTGTTATTAGGTGG-AGTAACTCCTATGAGC
30357047 GA-TTGGTGTGTT
1 GATTTGGTGTGTT
30357059 TCGGTTGGAT
Statistics
Matches: 109, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
110 4 0.04
111 104 0.95
112 1 0.01
ACGTcount: A:0.18, C:0.13, G:0.30, T:0.39
Consensus pattern (112 bp):
GATTTGGTGTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGCGTGTTATCGGGTGGACTACC
TCTTATGAGCATTTGGCCTGTTATTAGGTGGAGTAACTCCTATGAGC
Found at i:30359596 original size:22 final size:22
Alignment explanation
Indices: 30359541--30359597 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
30359531 ACTGGTCGCT
** * *
30359541 ATGTCGCAACACGGAATTCTCT
1 ATGTCGCAACATAGAAATCTCA
*
30359563 ATGTCACAACATAGAAATCTCA
1 ATGTCGCAACATAGAAATCTCA
30359585 ATGTCGCAACATA
1 ATGTCGCAACATA
30359598 AGGACCAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (22 bp):
ATGTCGCAACATAGAAATCTCA
Found at i:30370868 original size:102 final size:103
Alignment explanation
Indices: 30370692--30370903 Score: 381
Period size: 102 Copynumber: 2.1 Consensus size: 103
30370682 TTAAATTAAC
*
30370692 TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCTATCAATTTCAAGTCTAATTCTTCA
1 TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
* *
30370757 ACAAATAAACAATGGTAATTTT-CTAAACTTTAACAGT
66 ACAAATAAACAAAGGTAATTTTCCAAAACTTTAACAGT
*
30370794 TTTACAATCTAGTCCTTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
1 TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
30370859 ACAAATAAACAAAGGTAATTTTCCAAAACTTTAACAGT
66 ACAAATAAACAAAGGTAATTTTCCAAAACTTTAACAGT
30370897 TTTACAA
1 TTTACAA
30370904 GTTTGTACAT
Statistics
Matches: 105, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
102 84 0.80
103 21 0.20
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (103 bp):
TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
ACAAATAAACAAAGGTAATTTTCCAAAACTTTAACAGT
Found at i:30377740 original size:16 final size:16
Alignment explanation
Indices: 30377719--30377749 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
30377709 GGAGAAAATA
30377719 AAAAGTTTGAGGGAAT
1 AAAAGTTTGAGGGAAT
30377735 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
30377750 AGTAAATAGG
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:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:30378041 original size:30 final size:31
Alignment explanation
Indices: 30377999--30378059 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
30377989 GGGTTGGGAG
*
30377999 GGGAAGGGAGTAAAAGTTTTGGGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
30378030 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
30378060 AAAAAGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:30381422 original size:23 final size:23
Alignment explanation
Indices: 30381395--30381465 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 23
30381385 AATGTTATTG
30381395 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
30381418 TTCAGCGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
30381441 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
30381464 AT
1 AT
30381466 TCGTGTGGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:30387010 original size:64 final size:64
Alignment explanation
Indices: 30386929--30387058 Score: 224
Period size: 64 Copynumber: 2.0 Consensus size: 64
30386919 GGTTATATTT
30386929 TACCACAAATAATACATAAGCTACTTTAACCTTGGTTCATTTAAGTGCAGAAAAAATAAAGAGG
1 TACCACAAATAATACATAAGCTACTTTAACCTTGGTTCATTTAAGTGCAGAAAAAATAAAGAGG
* * * *
30386993 TACCATAAATAGTACATAAGCTACTTTAACCTTGGTTCCTTTAAGTGCGGAAAAAATAAAGAGG
1 TACCACAAATAATACATAAGCTACTTTAACCTTGGTTCATTTAAGTGCAGAAAAAATAAAGAGG
30387057 TA
1 TA
30387059 AAAAGAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (64 bp):
TACCACAAATAATACATAAGCTACTTTAACCTTGGTTCATTTAAGTGCAGAAAAAATAAAGAGG
Found at i:30398401 original size:22 final size:22
Alignment explanation
Indices: 30398376--30398420 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30398366 TGAATTATAG
30398376 ATGTTAAATTTGAGCTGGGTCT
1 ATGTTAAATTTGAGCTGGGTCT
30398398 ATGTTAAATTTGAGCTGGGTCT
1 ATGTTAAATTTGAGCTGGGTCT
30398420 A
1 A
30398421 AATCGTATTA
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:0.24, C:0.09, G:0.27, T:0.40
Consensus pattern (22 bp):
ATGTTAAATTTGAGCTGGGTCT
Found at i:30398482 original size:23 final size:23
Alignment explanation
Indices: 30398456--30398520 Score: 69
Period size: 26 Copynumber: 2.7 Consensus size: 23
30398446 ATTTTATTAT
30398456 ATAAAATAAAT-TTTTAGAAAATA
1 ATAAAATAAATATTTTA-AAAATA
*
30398479 ATAATATATCAAATACTTTAAAAATA
1 ATAA-A-AT-AAATATTTTAAAAATA
*
30398505 TTAAAATAAATATTTT
1 ATAAAATAAATATTTT
30398521 TAATAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 12 0.34
24 3 0.09
25 3 0.09
26 13 0.37
27 4 0.11
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (23 bp):
ATAAAATAAATATTTTAAAAATA
Found at i:30399454 original size:4 final size:4
Alignment explanation
Indices: 30399445--30399591 Score: 294
Period size: 4 Copynumber: 36.8 Consensus size: 4
30399435 ATATAGTACA
30399445 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
30399493 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
30399541 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
30399589 TAT
1 TAT
30399592 ATAAGGACTT
Statistics
Matches: 143, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 143 1.00
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:30401840 original size:41 final size:41
Alignment explanation
Indices: 30401771--30401915 Score: 175
Period size: 41 Copynumber: 3.5 Consensus size: 41
30401761 AATTATACTC
*
30401771 TGAATTGCACATATGAGCCCCTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
* *
30401812 TGAATTGCACATATGTGCCCTTGGTTGTACTTCGGTACCCT
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
30401853 TGAATTACAGATACGTGCCCCTGTTTATACTAT-GGTACCCC
1 TGAATTGCACATATGTGCCCCTGTTTGTACT-TCGGTACCCT
* * *
30401894 TGAATAGCACATACGTTCCCCT
1 TGAATTGCACATATGTGCCCCT
30401916 ATTTACACTC
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 88 0.99
42 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:30401854 original size:20 final size:21
Alignment explanation
Indices: 30401795--30401858 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
30401785 GAGCCCCTGT
30401795 TTGTACTTCGGTACCCTTGAA
1 TTGTACTTCGGTACCCTTGAA
* * ** * *
30401816 TTGCACATATGTGCCCTTG-G
1 TTGTACTTCGGTACCCTTGAA
30401836 TTGTACTTCGGTACCCTTGAA
1 TTGTACTTCGGTACCCTTGAA
30401857 TT
1 TT
30401859 ACAGATACGT
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.39
Consensus pattern (21 bp):
TTGTACTTCGGTACCCTTGAA
Found at i:30401930 original size:41 final size:41
Alignment explanation
Indices: 30401845--30401930 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
30401835 GTTGTACTTC
* * * *
30401845 GGTACCCTTGAATTACAGATACGTGCCCCTGTTTATACTAT
1 GGTACCCCTGAATTACACATACGTGCCCCTATTTACACTAT
* *
30401886 GGTACCCCTGAA-TAGCACATACGTTCCCCTATTTACACTCT
1 GGTACCCCTGAATTA-CACATACGTGCCCCTATTTACACTAT
30401927 GGTA
1 GGTA
30401931 ACTTCAAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.05
41 36 0.95
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (41 bp):
GGTACCCCTGAATTACACATACGTGCCCCTATTTACACTAT
Found at i:30403452 original size:42 final size:42
Alignment explanation
Indices: 30403374--30403472 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
30403364 TGGCCAATCG
* **
30403374 TGCGACAGACCGTGTAACTTTCGAAATAGTTGCACACGACCA
1 TGCGACAGACCGTGTAACATTCGAAATACATGCACACGACCA
*
30403416 TGCGACAGACCGTGTAACATTCGAAATACCAT-CACACGACTA
1 TGCGACAGACCGTGTAACATTCGAAATA-CATGCACACGACCA
*
30403458 TGTC-ACAGGCCGTGT
1 TG-CGACAGACCGTGT
30403473 GCTACACCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (42 bp):
TGCGACAGACCGTGTAACATTCGAAATACATGCACACGACCA
Found at i:30407158 original size:16 final size:15
Alignment explanation
Indices: 30407128--30407173 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
30407118 AAAAGGAACA
30407128 GAAAAAAAAAGAAAG
1 GAAAAAAAAAGAAAG
*
30407143 GAAAAAAAACGTAAAG
1 GAAAAAAAAAG-AAAG
*
30407159 GAGAAAAGAAAGAAA
1 GA-AAAAAAAAGAAA
30407174 AATGTTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 10 0.38
16 9 0.35
17 7 0.27
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (15 bp):
GAAAAAAAAAGAAAG
Found at i:30408131 original size:85 final size:84
Alignment explanation
Indices: 30407992--30408328 Score: 394
Period size: 85 Copynumber: 4.0 Consensus size: 84
30407982 ACCACCGCTA
* * * * * *
30407992 ATTTACAGTTACTGCCACTTGTAG--GTGTACAACATATTTGAAAATTAAAGAAACTGCCACTTG
1 ATTTGCAGTTACTGCCACTTGTTGTAGTGCACAACATATTTGTAGATTAAACAAACTGCCACTTG
*
30408055 GTTCATGATTGAACCACAT
66 GTTCATGATCGAACCACAT
* * * * *
30408074 ATTTGCAGTTACTACCATTTGTTATAGTTGCAAAACATATTTGTAGATTAAACAAACTGCCATTT
1 ATTTGCAGTTACTGCCACTTGTTGTAG-TGCACAACATATTTGTAGATTAAACAAACTGCCACTT
30408139 GGTTCATGATCGAACCACAT
65 GGTTCATGATCGAACCACAT
* * * * *
30408159 ATTTGCAGTCACTGTCACTTGTTGTGGGTACACAACATATTT-TCAGATTAAACAAATTGCCACT
1 ATTTGCAGTTACTGCCACTTGTTGT-AGTGCACAACATATTTGT-AGATTAAACAAACTGCCACT
30408223 TGGTTCATGATCGAACCACAT
64 TGGTTCATGATCGAACCACAT
* * * * *
30408244 ATTTGCACTTACTGCCACTTGTTGTGAGTGTACAACAAATTTGCT-CATTAAATAAACTGCCACT
1 ATTTGCAGTTACTGCCACTTGTTGT-AGTGCACAACATATTTG-TAGATTAAACAAACTGCCACT
*
30408308 TGGTTCGTGATCGAACCACAT
64 TGGTTCATGATCGAACCACAT
30408329 TGTTTACAGA
Statistics
Matches: 215, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
82 19 0.09
84 2 0.01
85 192 0.89
86 1 0.00
87 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (84 bp):
ATTTGCAGTTACTGCCACTTGTTGTAGTGCACAACATATTTGTAGATTAAACAAACTGCCACTTG
GTTCATGATCGAACCACAT
Found at i:30410159 original size:119 final size:119
Alignment explanation
Indices: 30409955--30410171 Score: 272
Period size: 119 Copynumber: 1.8 Consensus size: 119
30409945 GTAGAATTAG
* * *
30409955 CCAAATGCCAAGGCATGAGGTCTCACCCCTCTTATGGAATTGGCTAAGGTAAGAGGTCTCGTCCC
1 CCAAATGCCAAGGAATGAGGTCTCACCCCTCTTATGAAATTGGCTAAGGTAAGAGGTCTCATCCC
*
30410020 CCTCACACCCCTGAAGGCTAATGAAAGAGGTCTCATCCCTCTTGGTAGAACCAA
66 CCTCACACCCCTGAAAGCTAATGAAAGAGGTCTCATCCCTCTTGGTAGAACCAA
* * * * * * ** *
30410074 CCAAATTCCAAGGAATGAGGTCTTATCCTTTTTATGAAATTGGTTAAGGTGCGAGGTGTCATCCC
1 CCAAATGCCAAGGAATGAGGTCTCACCCCTCTTATGAAATTGGCTAAGGTAAGAGGTCTCATCCC
* ** **
30410139 CCTTACACCTTTGAAAGCTAATGCGAGAGGTCT
66 CCTCACACCCCTGAAAGCTAATGAAAGAGGTCT
30410172 TGCCTCTTTT
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
119 80 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (119 bp):
CCAAATGCCAAGGAATGAGGTCTCACCCCTCTTATGAAATTGGCTAAGGTAAGAGGTCTCATCCC
CCTCACACCCCTGAAAGCTAATGAAAGAGGTCTCATCCCTCTTGGTAGAACCAA
Found at i:30414356 original size:15 final size:16
Alignment explanation
Indices: 30414336--30414368 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
30414326 CATCCCAATC
30414336 CATAATTAC-TTTAAT
1 CATAATTACATTTAAT
30414351 CATAATTACATTTAAT
1 CATAATTACATTTAAT
30414367 CA
1 CA
30414369 ATATATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
CATAATTACATTTAAT
Found at i:30422532 original size:10 final size:10
Alignment explanation
Indices: 30422517--30422541 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30422507 CGAAACTAAA
30422517 AAAAAGAAAG
1 AAAAAGAAAG
30422527 AAAAAGAAAG
1 AAAAAGAAAG
30422537 AAAAA
1 AAAAA
30422542 AACCTAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:30422927 original size:14 final size:15
Alignment explanation
Indices: 30422907--30422949 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
30422897 TTAGAGTGTA
30422907 TATGAATTTTATATG
1 TATGAATTTTATATG
*
30422922 -ATGAATTTAAT-TG
1 TATGAATTTTATATG
30422935 TATGAATTTTCATAT
1 TATGAATTTT-ATAT
30422950 TAATAGCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 2 0.09
16 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
TATGAATTTTATATG
Found at i:30423238 original size:41 final size:41
Alignment explanation
Indices: 30423105--30423260 Score: 181
Period size: 41 Copynumber: 3.8 Consensus size: 41
30423095 GTGATATTCG
* * ** * * * *
30423105 GGCTCTATGCCTAGCAGGCTTTATGTTGGTGAATTATAACT
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCA
30423146 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTA-CATATCA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCA
*
30423186 GGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCATATCTA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATC-A
* * *
30423228 -GCTTTGTGCCTAGAAGGCTTTATGCCGGTGTAT
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTAT
30423261 TTTAATAAGC
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
40 36 0.36
41 63 0.63
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCA
Found at i:30423246 original size:81 final size:81
Alignment explanation
Indices: 30423105--30423259 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
30423095 GTGATATTCG
* ** * * *
30423105 GGCTCTATGCCTAGCAGGCTTTATGTTGGTGAATTATAACTGGCTTTATGCCTAGCAGGCTTCAT
1 GGCTCTATGCCTAGCAGGCTTCATGCCGGTGAATCATAACTAGCTTTATGCCTAGAAGGCTTCAT
30423170 GCCGGTGTACATATCA
66 GCCGGTGTACATATCA
* * * * * *
30423186 GGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCATATCTAGCTTTGTGCCTAGAAGGCTTTAT
1 GGCTCTATGCCTAGCAGGCTTCATGCCGGTGAATCATAACTAGCTTTATGCCTAGAAGGCTTCAT
30423251 GCCGGTGTA
66 GCCGGTGTA
30423260 TTTTAATAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 62 1.00
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (81 bp):
GGCTCTATGCCTAGCAGGCTTCATGCCGGTGAATCATAACTAGCTTTATGCCTAGAAGGCTTCAT
GCCGGTGTACATATCA
Found at i:30426304 original size:19 final size:19
Alignment explanation
Indices: 30426272--30426310 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
30426262 TTAATTTATT
**
30426272 TTTTATAATTTTTTAAAAA
1 TTTTATAAAATTTTAAAAA
*
30426291 TTTTATAAAATTTTAGAAA
1 TTTTATAAAATTTTAAAAA
30426310 T
1 T
30426311 AACATTAGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTATAAAATTTTAAAAA
Found at i:30426841 original size:20 final size:19
Alignment explanation
Indices: 30426812--30426849 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
30426802 AATAATTAAA
30426812 ATAAATAAATACTATATAT
1 ATAAATAAATACTATATAT
*
30426831 ATAATATAAATAGTATATA
1 ATAA-ATAAATACTATATA
30426850 ATTTAGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAAATAAATACTATATAT
Found at i:30426905 original size:30 final size:27
Alignment explanation
Indices: 30426848--30426920 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 27
30426838 AAATAGTATA
* *
30426848 TAATTTAGTAAAT--AAA-AAATTATT
1 TAATTTAATAAATAAAAATAAATAATT
30426872 TAATTTAAATTAAATAGAAAATAAATAATT
1 TAATTT-AA-TAAATA-AAAATAAATAATT
30426902 TAATTTAATAAATAAAAAT
1 TAATTTAATAAATAAAAAT
30426921 TATTTCATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
24 6 0.15
25 1 0.02
26 5 0.12
27 5 0.12
28 6 0.15
29 5 0.12
30 13 0.32
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (27 bp):
TAATTTAATAAATAAAAATAAATAATT
Found at i:30431170 original size:9 final size:9
Alignment explanation
Indices: 30431156--30431181 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30431146 ATAAACTAGA
30431156 CTAATTTGT
1 CTAATTTGT
30431165 CTAATTTGT
1 CTAATTTGT
30431174 CTAATTTG
1 CTAATTTG
30431182 GTAAAGTCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.54
Consensus pattern (9 bp):
CTAATTTGT
Found at i:30435923 original size:22 final size:22
Alignment explanation
Indices: 30435874--30435923 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
30435864 AAGTTGGGTT
* *
30435874 CCACGTTGTGACGAGCCATTTC
1 CCACATTGTAACGAGCCATTTC
**
30435896 AAACATTGTAACGAGCCATTTC
1 CCACATTGTAACGAGCCATTTC
30435918 CCACAT
1 CCACAT
30435924 CGTGACATCG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (22 bp):
CCACATTGTAACGAGCCATTTC
Found at i:30443740 original size:18 final size:16
Alignment explanation
Indices: 30443718--30443765 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
30443708 TTATCCATTT
30443718 TATTTAATTTATATAAA
1 TATTTAATTTATA-AAA
*
30443735 TAATTTAAAACTTATAAAA
1 T-ATTT--AATTTATAAAA
30443754 TATTTAATTTAT
1 TATTTAATTTAT
30443766 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
16 6 0.23
17 1 0.04
18 8 0.31
19 4 0.15
20 7 0.27
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (16 bp):
TATTTAATTTATAAAA
Found at i:30443798 original size:12 final size:13
Alignment explanation
Indices: 30443778--30443806 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30443768 AATTTAAAAT
30443778 TTATAAAAAGTAA
1 TTATAAAAAGTAA
30443791 TTAT-AAAAGTAA
1 TTATAAAAAGTAA
30443803 TTAT
1 TTAT
30443807 TCTATCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (13 bp):
TTATAAAAAGTAA
Found at i:30444040 original size:9 final size:9
Alignment explanation
Indices: 30444026--30444080 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
30444016 ATTATTTTCA
30444026 AATTTATAT
1 AATTTATAT
30444035 AATTTAATAT
1 AATTT-ATAT
*
30444045 TATTTATAT
1 AATTTATAT
* *
30444054 AAATAAT-T
1 AATTTATAT
*
30444062 AATTTATCT
1 AATTTATAT
30444071 AATTTATAT
1 AATTTATAT
30444080 A
1 A
30444081 GGGAAAAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
8 6 0.16
9 23 0.62
10 8 0.22
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTTATAT
Found at i:30445328 original size:31 final size:31
Alignment explanation
Indices: 30445292--30445354 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
30445282 TAATAAAAGT
* *
30445292 AAAATTACACTTTAGCCCCTT-AAAATTATAA
1 AAAATT-CAATTTAACCCCTTAAAAATTATAA
* *
30445323 AAAATTCAATTTAATCCTTTAAAAATTATAA
1 AAAATTCAATTTAACCCCTTAAAAATTATAA
30445354 A
1 A
30445355 TATATAGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (31 bp):
AAAATTCAATTTAACCCCTTAAAAATTATAA
Found at i:30447636 original size:14 final size:14
Alignment explanation
Indices: 30447608--30447650 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
30447598 TTGTTTAAAA
*
30447608 ATATTA-TAGTTTT
1 ATATTATTATTTTT
30447621 ATATTATTATTTTT
1 ATATTATTATTTTT
30447635 ATATTATTATTTTT
1 ATATTATTATTTTT
30447649 AT
1 AT
30447651 TAAATTTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
ATATTATTATTTTT
Found at i:30451605 original size:20 final size:20
Alignment explanation
Indices: 30451580--30451627 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
30451570 GGTAAGTTGT
30451580 TGCATGTAACCATCTACATG
1 TGCATGTAACCATCTACATG
*
30451600 TGCATGTAACCATTTACATG
1 TGCATGTAACCATCTACATG
30451620 TGCATGTA
1 TGCATGTA
30451628 TGTGACAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (20 bp):
TGCATGTAACCATCTACATG
Found at i:30454515 original size:26 final size:25
Alignment explanation
Indices: 30454454--30454549 Score: 83
Period size: 26 Copynumber: 3.9 Consensus size: 25
30454444 ATAGGATAAT
* **
30454454 CTTAAAATAATTAATATATAAAATAA
1 CTTAAAATAA-TAATATACAAAGCAA
30454480 CTT--AA-AATAATATACAAAGCAA
1 CTTAAAATAATAATATACAAAGCAA
* *
30454502 CTTAACATAGATAATTTACAAAGCAA
1 CTTAAAATA-ATAATATACAAAGCAA
* *
30454528 GTTAAAATAATCATATA-AAAGC
1 CTTAAAATAATAATATACAAAGC
30454550 TTAATGCAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
22 15 0.26
23 2 0.04
24 8 0.14
25 7 0.12
26 25 0.44
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (25 bp):
CTTAAAATAATAATATACAAAGCAA
Found at i:30455693 original size:44 final size:44
Alignment explanation
Indices: 30455603--30455954 Score: 221
Period size: 44 Copynumber: 7.8 Consensus size: 44
30455593 TAATCCGCTT
* * ** * * * **
30455603 CACTGCAACTTCAAGGAGATAGGATTAATAGCTACAATCTATTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
30455647 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
* * * **
30455691 CACTGTAACTTTAGGGAGATAAGGTTGGTTATCTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAACCTGCTC
* * * ** *
30455736 CATTGTAACTTCAGAGAGATAAGACTTGTTATAGTAGATTTAATCC-GAC-C
1 CACTGCAACTTCAGGGAGATAAGA-TTG-----GTATCTTCAA-CCTG-CTC
* * * *
30455786 TACTGCAACTTCAGAGG-TATAGGATT--TATCATTTTAATCC-GCTC
1 CACTGCAACTTCAG-GGAGATAAGATTGGTATC--TTCAA-CCTGCTC
* ** * *
30455830 CACTGCAACTTCAGGGAGATAGGATTAATAGCTTCAATCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
* *
30455874 CACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
* * * *
30455918 CACTGCAACTTTAGGAAGATAAGGTTTGTTATCTTCA
1 CACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCA
30455955 TTCTTAATTT
Statistics
Matches: 241, Mismatches: 49, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 155 0.64
45 45 0.19
46 6 0.02
49 2 0.01
50 23 0.10
51 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTC
Found at i:30455895 original size:227 final size:227
Alignment explanation
Indices: 30455500--30455954 Score: 725
Period size: 227 Copynumber: 2.0 Consensus size: 227
30455490 TTGTGGTTTT
*
30455500 AGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTTTTATGCTAGATTTAATCCGACCTACTGC
1 AGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTATGCTAGATTTAATCCGACCTACTGC
* * *
30455565 AATTTCAGAGGTATAGGATTCGTCATTTTAATCCGCTTCACTGCAACTTCAAGGAGATAGGATTA
66 AACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTA
* * *
30455630 ATAGCTACAATCTATTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAACCTGCTCCACT
131 ATAGCTACAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCACT
* *
30455695 GTAACTTTAGGGAGATAAGGTTGGTTATCTTC
196 GCAACTTTAGGAAGATAAGGTTGGTTATCTTC
* **
30455727 AGTCTGCTCCATTGTAACTTC-AGAGAGATAAGACTTGTTATAG-TAGATTTAATCCGACCTACT
1 AGTCTGCTCCACTACAACTTCAAG-GAGATAAGACTTGTTAT-GCTAGATTTAATCCGACCTACT
* *
30455790 GCAACTTCAGAGGTATAGGATTTATCATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT
64 GCAACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGAT
* *
30455855 TAATAGCTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCA
129 TAATAGCTACAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCA
*
30455920 CTGCAACTTTAGGAAGATAAGGTTTGTTATCTTC
194 CTGCAACTTTAGGAAGATAAGGTTGGTTATCTTC
30455954 A
1 A
30455955 TTCTTAATTT
Statistics
Matches: 209, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
226 2 0.01
227 206 0.99
228 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (227 bp):
AGTCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTTATGCTAGATTTAATCCGACCTACTGC
AACTTCAGAGGTATAGGATTCATCATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTA
ATAGCTACAATCTACTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTAAACCTGCTCCACT
GCAACTTTAGGAAGATAAGGTTGGTTATCTTC
Found at i:30456157 original size:51 final size:51
Alignment explanation
Indices: 30456073--30456186 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 51
30456063 ATCCGCCCCA
* **
30456073 CTTCAGCTTTAATCTATTCCATTGCAATGCCAGGGAAATAAGATTCACTAC
1 CTTCAGCTTTAATCTATTCCACTGCAAAACCAGGGAAATAAGATTCACTAC
* * * **
30456124 CTTTAGCTTTAATCTGTTCCACTGCAAAACCAGGGCAATAAGATTCACTGT
1 CTTCAGCTTTAATCTATTCCACTGCAAAACCAGGGAAATAAGATTCACTAC
30456175 CTTCAGCTTTAA
1 CTTCAGCTTTAA
30456187 CGCTAGAGAG
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
CTTCAGCTTTAATCTATTCCACTGCAAAACCAGGGAAATAAGATTCACTAC
Found at i:30456169 original size:123 final size:123
Alignment explanation
Indices: 30455971--30456691 Score: 489
Period size: 123 Copynumber: 5.6 Consensus size: 123
30455961 ATTTGCTCCG
* * * * * *
30455971 CTGCAATGCCAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAACGCCAATG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAGG
* *
30456036 AGATAGGATTCGCTACCTTTAGCATTAATCCGCCCCACTTCAGCTTTAATCTATTCCA
66 AGATAAGATTCGCTACCTTTAGCATTAATCCGCTCCACTTCAGCTTTAATCTATTCCA
* * * * * *
30456094 TTGCAATGCCAGGGAAATAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTGCAAAACCAGGG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAGG
* * ** * * *
30456159 CA-ATAAGATTCACTGTCTTCAGCTTTAACGCTAGAGAGATAAGATTTGCTAC-CTTTAGATTTA
66 -AGATAAGATT--C-G-C-T-ACCTTT-A-GC-------ATTA-ATCCGCTCCACTTCAGCTTTA
* *
30456222 ATCTACTCCG
114 ATCTATTCCA
* * * * *
30456232 CTGCAACACCAGGGAAACAAGATTCTCTAACTTTAGCTTTAATCTGTTCCACTGTAATGCCAAGG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAGG
* * * * ** * *
30456297 AGATAGGATTCACTGCCTTCAGTTTTAATCCGCTGCACTTCAGTTTTAATCTATTCCA
66 AGATAAGATTCGCTACCTTTAGCATTAATCCGCTCCACTTCAGCTTTAATCTATTCCA
* * * * * * *
30456355 CTGCAATGCCAGGGAAACAATATTTGCTACCTTTAGCTTTAATTTGTTTCATTGCAAAGCCAGGG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAGG
* * * * *
30456420 AAATAAGATTCGTTGTCTTCAGCTTTAACGCTAGGGAGATAAGATTCGCTGC-CTTCAGCTTTAA
66 AGATAAGATTC---G-C-T-ACCTTT-A-GC-------ATTA-ATCCGCTCCACTTCAGCTTTAA
* *
30456484 TCTGCTT-CG
115 TCT-ATTCCA
* * * * * *
30456493 CTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAGCTTTAATTTATTCCACTGTAATGCTAAGG
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAGG
** ** * * * *
30456558 AGATGGGATTCATTGCCTTTAACTTTAATCCGCCCCACTTCAGCTTTAATCTATTCCA
66 AGATAAGATTCGCTACCTTTAGCATTAATCCGCTCCACTTCAGCTTTAATCTATTCCA
* *
30456616 CTGCAACGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCC-AGA
1 CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAG-
*
30456680 GAAATAAGATTC
65 GAGATAAGATTC
30456692 ACTGCCTTCA
Statistics
Matches: 452, Mismatches: 107, Indels: 78
0.71 0.17 0.12
Matches are distributed among these distances:
122 16 0.04
123 224 0.50
124 1 0.00
125 1 0.00
126 1 0.00
127 2 0.00
128 2 0.00
129 8 0.02
130 4 0.01
131 5 0.01
132 7 0.02
133 2 0.00
134 1 0.00
136 1 0.00
137 1 0.00
138 161 0.36
139 15 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (123 bp):
CTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAAGG
AGATAAGATTCGCTACCTTTAGCATTAATCCGCTCCACTTCAGCTTTAATCTATTCCA
Found at i:30456270 original size:87 final size:87
Alignment explanation
Indices: 30456110--30456273 Score: 211
Period size: 87 Copynumber: 1.9 Consensus size: 87
30456100 TGCCAGGGAA
* ** * * **
30456110 ATAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTGCAAAACCAGGGCAATAAGATTCACTGT
1 ATAAGATTCACTACCTTTAGATTTAATCTACTCCACTGCAAAACCAGGGAAACAAGATTCACTAA
30456175 CTTCAGCTTTAACGCTAGAGAG
66 CTTCAGCTTTAACGCTAGAGAG
** * * *
30456197 ATAAGATTTGCTACCTTTAGATTTAATCTACTCCGCTGCAACACCAGGGAAACAAGATTCTCTAA
1 ATAAGATTCACTACCTTTAGATTTAATCTACTCCACTGCAAAACCAGGGAAACAAGATTCACTAA
*
30456262 CTTTAGCTTTAA
66 CTTCAGCTTTAA
30456274 TCTGTTCCAC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
87 64 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (87 bp):
ATAAGATTCACTACCTTTAGATTTAATCTACTCCACTGCAAAACCAGGGAAACAAGATTCACTAA
CTTCAGCTTTAACGCTAGAGAG
Found at i:30456337 original size:21 final size:20
Alignment explanation
Indices: 30456309--30456347 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
30456299 ATAGGATTCA
30456309 CTGCCTTCAGTTTTAATCCG
1 CTGCCTTCAGTTTTAATCCG
30456329 CTGCACTTCAGTTTTAATC
1 CTGC-CTTCAGTTTTAATC
30456348 TATTCCACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (20 bp):
CTGCCTTCAGTTTTAATCCG
Found at i:30456356 original size:21 final size:21
Alignment explanation
Indices: 30456313--30456356 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
30456303 GATTCACTGC
* *
30456313 CTTCAGTTTTAATCCGCTGCA
1 CTTCAGTTTTAATCCACTCCA
* *
30456334 CTTCAGTTTTAATCTATTCCA
1 CTTCAGTTTTAATCCACTCCA
30456355 CT
1 CT
30456357 GCAATGCCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (21 bp):
CTTCAGTTTTAATCCACTCCA
Found at i:30456427 original size:261 final size:261
Alignment explanation
Indices: 30455966--30456702 Score: 1060
Period size: 261 Copynumber: 2.8 Consensus size: 261
30455956 TCTTAATTTG
* * *
30455966 CTCCGCTGCAATGCCAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAACGC
1 CTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAATGC
* * * * *
30456031 CAATGAGATAGGATTCGCTACCTTTAGCATTAATCCGCCCCACTTCAGCTTTAATCTATTCCATT
66 CAAGGAGATAGGATTCACTGCCTTTAGCTTTAATCCGCCCCACTTCAGCTTTAATCTATTCCACT
* * * *
30456096 GCAATGCCAGGGAAATAAGATTCACTACCTTTAGCTTTAATCTGTTCCACTGCAAAACCAGGGCA
131 GCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAA
* *
30456161 ATAAGATTCACTGTCTTCAGCTTTAACGCTAGAGAGATAAGATTTGCTACCTTTAGATTTAATCT
196 ATAAGATTCACTGTCTTCAGCTTTAACGCTAGAGAGATAAGATTCGCTACCTTCAGATTTAATCT
30456226 A
261 A
* * * *
30456227 CTCCGCTGCAACACCAGGGAAACAAGATTCTCTAACTTTAGCTTTAATCTGTTCCACTGTAATGC
1 CTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAATGC
* * ** *
30456292 CAAGGAGATAGGATTCACTGCCTTCAGTTTTAATCCGCTGCACTTCAGTTTTAATCTATTCCACT
66 CAAGGAGATAGGATTCACTGCCTTTAGCTTTAATCCGCCCCACTTCAGCTTTAATCTATTCCACT
* * * * *
30456357 GCAATGCCAGGGAAACAATATTTGCTACCTTTAGCTTTAATTTGTTTCATTGCAAAGCCAGGGAA
131 GCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAA
** * * *
30456422 ATAAGATTCGTTGTCTTCAGCTTTAACGCTAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCT
196 ATAAGATTCACTGTCTTCAGCTTTAACGCTAGAGAGATAAGATTCGCTACCTTCAGATTTAATCT
*
30456487 G
261 A
* * *
30456488 CTTCGCTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAGCTTTAATTTATTCCACTGTAATGC
1 CTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAATGC
* * * *
30456553 TAAGGAGATGGGATTCATTGCCTTTAACTTTAATCCGCCCCACTTCAGCTTTAATCTATTCCACT
66 CAAGGAGATAGGATTCACTGCCTTTAGCTTTAATCCGCCCCACTTCAGCTTTAATCTATTCCACT
* * * *
30456618 GCAACGCCAAGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAA
131 GCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAA
*
30456683 ATAAGATTCACTGCCTTCAG
196 ATAAGATTCACTGTCTTCAG
30456703 TCCGCTCCAC
Statistics
Matches: 414, Mismatches: 62, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
261 414 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (261 bp):
CTCCGCTGCAACGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTATTCCACTGTAATGC
CAAGGAGATAGGATTCACTGCCTTTAGCTTTAATCCGCCCCACTTCAGCTTTAATCTATTCCACT
GCAATGCCAGGGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTGCAAAGCCAGGGAA
ATAAGATTCACTGTCTTCAGCTTTAACGCTAGAGAGATAAGATTCGCTACCTTCAGATTTAATCT
A
Found at i:30456584 original size:138 final size:139
Alignment explanation
Indices: 30456327--30456701 Score: 331
Period size: 138 Copynumber: 2.8 Consensus size: 139
30456317 AGTTTTAATC
* * * * *
30456327 CGCTGCACTTCAGTTTTAATCTATTCCACTGCAATGCCAGGGAAACAATATTTGCTACCTTTAGC
1 CGCTGCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAGC
* * * * * * *
30456392 TTTAATTTGTTTCATTGCAAAGCCAGGGAAATAAGATTCGTTGTCTTCAGCTTTAACGCTAGGGA
66 TTTAATTTATTCCACTGCAAAGCCAAGGAAATAAGATTCATTGCCTTCAACTTTAACGCTAGGGA
30456457 GATAAGATT
131 GATAAGATT
* *
30456466 CGCTGC-CTTCAGCTTTAATCTGCTT-CGCTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAG
1 CGCTGCACTTCAGCTTTAATCT-ATTCCACTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAG
* * * * ** *
30456529 CTTTAATTTATTCCACTGTAATGCTAAGGAGATGGGATTCATTGCCTTTAACTTTAATC-C----
65 CTTTAATTTATTCCACTGCAAAGCCAAGGAAATAAGATTCATTGCCTTCAACTTTAA-CGCTAGG
30456589 -------G---
129 GAGATAAGATT
* * *
30456590 C-C-CCACTTCAGCTTTAATCTATTCCACTGCAACGCCAAGGAAACAAGATTCGCTACCTTTAGC
1 CGCTGCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAGC
* * * *
30456653 TTTAATCTGTTCCACTGCAACGCC-AGAGAAATAAGATTCACTGCCTTCA
66 TTTAATTTATTCCACTGCAAAGCCAAG-GAAATAAGATTCATTGCCTTCA
30456702 GTCCGCTCCA
Statistics
Matches: 195, Mismatches: 36, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
122 5 0.03
123 88 0.45
124 1 0.01
127 1 0.01
138 91 0.47
139 9 0.05
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (139 bp):
CGCTGCACTTCAGCTTTAATCTATTCCACTGCAACGCCAGGGAAACAAGATTCGCCACCTTTAGC
TTTAATTTATTCCACTGCAAAGCCAAGGAAATAAGATTCATTGCCTTCAACTTTAACGCTAGGGA
GATAAGATT
Found at i:30458006 original size:15 final size:15
Alignment explanation
Indices: 30457983--30458014 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30457973 TCACCTTGGC
30457983 TTCTCCTTTTTCTTT
1 TTCTCCTTTTTCTTT
*
30457998 TTCTTCTTTTTCTTT
1 TTCTCCTTTTTCTTT
30458013 TT
1 TT
30458015 TTTTTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (15 bp):
TTCTCCTTTTTCTTT
Found at i:30462859 original size:23 final size:21
Alignment explanation
Indices: 30462797--30462860 Score: 56
Period size: 23 Copynumber: 2.8 Consensus size: 21
30462787 TTAGAAAAAT
*
30462797 AAATAAATAAAAAAATAATACA
1 AAAT-AATAAATAAATAATACA
* *
30462819 AAACTAATTAATATAATAATATA
1 AAA-TAATAAATA-AATAATACA
30462842 ATAATAAGTAAATAAATAA
1 A-AATAA-TAAATAAATAA
30462861 AAGGAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 9 0.26
23 18 0.53
24 7 0.21
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATAAATAAATAATACA
Found at i:30465148 original size:49 final size:48
Alignment explanation
Indices: 30465076--30465226 Score: 144
Period size: 49 Copynumber: 3.1 Consensus size: 48
30465066 GGGTGGTACA
* * *
30465076 AGTTGCTATCTAGATTGGCGTATGAGTTGGATGTCTGGTAGGGCATGTT
1 AGTTGCTAACCAGATTGGTGTATG-GTTGGATGTCTGGTAGGGCATGTT
* **
30465125 AGTTGCTAACCAGATTGGTGTATGTGCTTGG-TTTCCAGTAGGGCATGTT
1 AGTTGCTAACCAGATTGGTGTATG-G-TTGGATGTCTGGTAGGGCATGTT
* * * *
30465174 AGTTGCTAATCAGCTTGGTGCTATGGGT-GATGCCATCGGTAGGGCATGTT
1 AGTTGCTAACCAGATTGGTG-TATGGTTGGATGTC-T-GGTAGGGCATGTT
30465224 AGT
1 AGT
30465227 AGATAACTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 3 0.04
49 56 0.67
50 23 0.28
ACGTcount: A:0.19, C:0.13, G:0.33, T:0.35
Consensus pattern (48 bp):
AGTTGCTAACCAGATTGGTGTATGGTTGGATGTCTGGTAGGGCATGTT
Found at i:30466870 original size:25 final size:26
Alignment explanation
Indices: 30466816--30466871 Score: 80
Period size: 24 Copynumber: 2.2 Consensus size: 26
30466806 ACCTATTTCG
30466816 CTAATTAAAAAAAATGAAATAAAAAT
1 CTAATTAAAAAAAATGAAATAAAAAT
* *
30466842 -TAATT-AAAAAAATGAAATATACAT
1 CTAATTAAAAAAAATGAAATAAAAAT
30466866 CTAATT
1 CTAATT
30466872 TAGCCCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.62, C:0.05, G:0.04, T:0.29
Consensus pattern (26 bp):
CTAATTAAAAAAAATGAAATAAAAAT
Found at i:30471113 original size:16 final size:16
Alignment explanation
Indices: 30471092--30471125 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
30471082 TTTTAGAGTA
30471092 AGAAACCTATTAGACC
1 AGAAACCTATTAGACC
30471108 AGAAACCTATTAGACC
1 AGAAACCTATTAGACC
30471124 AG
1 AG
30471126 TATGTCTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.15, T:0.18
Consensus pattern (16 bp):
AGAAACCTATTAGACC
Found at i:30486058 original size:68 final size:68
Alignment explanation
Indices: 30485926--30486059 Score: 162
Period size: 68 Copynumber: 2.0 Consensus size: 68
30485916 TTTTAATAGT
* * * *
30485926 TTAATATTAAATTAAATTTAATACTTATCTAAATAGTATTTTATTAATTTATTAATAAATTGATT
1 TTAATATTAAATTAAATTTAATACTTATCTAAATAATATTATATTAATTTAATAATAAAGTGATT
30485991 ATC
66 ATC
* * * ** *
30485994 TTAATATTTAATTTAATTTAATATTTATCTTGATAAATATTATATTAA-TTAATATTAAAGTGAT
1 TTAATATTAAATTAAATTTAATACTTATCTAAAT-AATATTATATTAATTTAATAATAAAGTGAT
30486058 TA
65 TA
30486060 AGTTTAATCA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 44 0.80
69 11 0.20
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.51
Consensus pattern (68 bp):
TTAATATTAAATTAAATTTAATACTTATCTAAATAATATTATATTAATTTAATAATAAAGTGATT
ATC
Done.