Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 107 of 310
Found at i:34196552 original size:38 final size:38
Alignment explanation
Indices: 34196494--34196686 Score: 203
Period size: 38 Copynumber: 5.1 Consensus size: 38
34196484 ATGATATTTG
* ** *
34196494 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGAATTA
* *
34196532 TATCAGGGTTAAATCTCGCAGGCTTCGTGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* * * *
34196570 TATTCGGATTAAATCCTGCAGGCTTCATGCTGGTAA-TA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG-AATTA
* *
34196608 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
* * *
34196646 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
34196684 TAT
1 TAT
34196687 TTGGGCCTTT
Statistics
Matches: 131, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
37 2 0.02
38 127 0.97
39 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGAATTA
Found at i:34196600 original size:76 final size:75
Alignment explanation
Indices: 34196494--34196686 Score: 235
Period size: 76 Copynumber: 2.5 Consensus size: 75
34196484 ATGATATTTG
* ** *
34196494 TATCCGGCTTAAAGACCGCAGGCTATATGCTGGAATTATATCAGGGTTAAATCTCGCAGGCTTCG
1 TATCCGGATTAAATCCCGCAGGCT-TATGCTGGAATTATATCAGGGTTAAATCCCGCAGGCTTCG
34196559 TGCTGGTAATA
65 TGCTGGTAATA
* * * *
34196570 TATTCGGATTAAATCCTGCAGGCTTCATGCTGGTAA-TATATCCGGGTTAATTCCCGCAGGCTTC
1 TATCCGGATTAAATCCCGCAGGCTT-ATGCTGG-AATTATATCAGGGTTAAATCCCGCAGGCTTC
*
34196634 GTGCTGGTATTA
64 GTGCTGGTAATA
* * *
34196646 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 TATCCGGATTAAATCCCGCAGGCTTA-TGCTGGAATTATAT
34196687 TTGGGCCTTT
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
75 3 0.03
76 94 0.95
77 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.32
Consensus pattern (75 bp):
TATCCGGATTAAATCCCGCAGGCTTATGCTGGAATTATATCAGGGTTAAATCCCGCAGGCTTCGT
GCTGGTAATA
Found at i:34196767 original size:45 final size:45
Alignment explanation
Indices: 34196684--34196806 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 45
34196674 GCTGGTATTA
* * *
34196684 TATTTGGGCCTTTGAGCCTAGCAAGTTATTATGACGGTGAGACAC
1 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGACGGTGAGACAC
* * * *
34196729 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGACGGTGAGACAC
*
34196774 TATTTGGGCTTTTGAGCCTAGCAGGCTATAATG
1 TATTTGGGCCTTTGAGCCTAGCAGGCTATAATG
34196807 TCGATGAAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (45 bp):
TATTTGGGCCTTTGAGCCTAGCAGGCTATAATGACGGTGAGACAC
Found at i:34198529 original size:25 final size:25
Alignment explanation
Indices: 34198501--34198565 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
34198491 CATATAGCAA
*
34198501 GAAGCTCATGT-GAGCTAAGTAACGG
1 GAAGCTCAT-TCGAGCTAAGTAACAG
* *
34198526 GAAGCTCATTCGAGCTGAGTATCAG
1 GAAGCTCATTCGAGCTAAGTAACAG
34198551 GAAGCTC-TTGCGAGC
1 GAAGCTCATT-CGAGC
34198566 AAAATATCGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 32 0.91
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.22
Consensus pattern (25 bp):
GAAGCTCATTCGAGCTAAGTAACAG
Found at i:34201161 original size:13 final size:13
Alignment explanation
Indices: 34201143--34201193 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
34201133 AAAAATATTT
34201143 TTTAATCAATTAA
1 TTTAATCAATTAA
*
34201156 TTTAATAAATTAA
1 TTTAATCAATTAA
* * *
34201169 ATTAATTAATTAC
1 TTTAATCAATTAA
*
34201182 TTT-CTCAATTAA
1 TTTAATCAATTAA
34201194 ATTATTTTCT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAATCAATTAA
Found at i:34207929 original size:27 final size:27
Alignment explanation
Indices: 34207899--34208042 Score: 173
Period size: 27 Copynumber: 5.3 Consensus size: 27
34207889 TACTGAAATG
* **
34207899 CCCTCGATTTGTAGAATTATTGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
*
34207926 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
34207953 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* * * *
34207980 CCCTCAATTTAAAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCGTTTTA
* *
34208007 CCCTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTATAGAATTACCGTTTTA
*
34208034 CCATCGATT
1 CCCTCGATT
34208043 GTGAAATTAC
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 101 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCGTTTTA
Found at i:34208078 original size:27 final size:27
Alignment explanation
Indices: 34208046--34208142 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
34208036 ATCGATTGTG
**
34208046 AAATTACTGAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTAGG-TA
**
34208073 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
**
34208100 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTAGGTA
34208127 AAATTACCAAAATACC
1 AAATTACCAAAATACC
34208143 ACTGGTTTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 62 0.95
28 3 0.05
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTAGGTA
Found at i:34208150 original size:27 final size:27
Alignment explanation
Indices: 34208071--34208290 Score: 165
Period size: 27 Copynumber: 8.1 Consensus size: 27
34208061 CCCTGTAGGA
* *
34208071 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCACTGGTTTG
* *
34208098 TAAAATTACCAAAATACCCCTAGTTTG
1 TAAAATTACCAAAATACCACTGGTTTG
34208125 TAAAATTACCAAAATACCACTGGTTTG
1 TAAAATTACCAAAATACCACTGGTTTG
* **
34208152 TGAAATTACTGAAATACCACTGGTTTG
1 TAAAATTACCAAAATACCACTGGTTTG
* ** * * * *
34208179 TGAAATTTTCGAAATACCCCTGATTTA
1 TAAAATTACCAAAATACCACTGGTTTG
* * * *
34208206 CAAAATTACAAAAATACC-CTTGACTTTC
1 TAAAATTACCAAAATACCAC-TG-GTTTG
** * *
34208234 TAAAAATTATAAAAATACCATTGGTTTA
1 T-AAAATTACCAAAATACCACTGGTTTG
* * *
34208262 CAAAATTACTAAAATAACC-TTGGTTTG
1 TAAAATTACCAAAAT-ACCACTGGTTTG
34208289 TA
1 TA
34208291 GGTTTACCAA
Statistics
Matches: 159, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 131 0.82
28 9 0.06
29 18 0.11
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCACTGGTTTG
Found at i:34208167 original size:81 final size:81
Alignment explanation
Indices: 34208073--34208223 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
34208063 CTGTAGGATA
* ** *
34208073 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAA
1 AAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTGA-TTTACAAAATTACAAA
34208137 AATACCACTGGTTTGTG
65 AATACCACTGGTTTGTG
** * * ** *
34208154 AAATTACTGAAATACCACTGGTTTGTGAAATTTTCGAAATACCCCTGATTTACAAAATTACAAAA
1 AAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAA
34208219 ATACC
66 ATACC
34208224 CTTGACTTTC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
81 57 0.98
82 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCACTAGTTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAA
ATACCACTGGTTTGTG
Found at i:34208196 original size:54 final size:53
Alignment explanation
Indices: 34208041--34208185 Score: 182
Period size: 54 Copynumber: 2.7 Consensus size: 53
34208031 TTACCATCGA
** *
34208041 TTGTGAAATTACTGAAATACCCCTGTAGGATAAAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACTGAAATACCCCTGTTTG-TAAAATTACCAAAATACCACTAGT
* ** *
34208095 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGT
1 TTGTGAAATTACTGAAATACCCCT-GTTTGTAAAATTACCAAAATACCACTAGT
* *
34208149 TTGTGAAATTACTGAAATACCACTGGTTTGTGAAATT
1 TTGTGAAATTACTGAAATACCCCT-GTTTGTAAAATT
34208186 TTCGAAATAC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 74 0.96
55 3 0.04
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (53 bp):
TTGTGAAATTACTGAAATACCCCTGTTTGTAAAATTACCAAAATACCACTAGT
Found at i:34209252 original size:25 final size:24
Alignment explanation
Indices: 34209214--34209283 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 24
34209204 AGGAAGTGCT
*
34209214 AAAAGGGCTCTGCCCTAGTTTACC
1 AAAAGGGCTTTGCCCTAGTTTACC
* *
34209238 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCTAGTTTACC
34209263 AGAAAGGGCTTTGCCCTAGTT
1 A-AAAGGGCTTTGCCCTAGTT
34209284 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCTAGTTTACC
Found at i:34209296 original size:24 final size:24
Alignment explanation
Indices: 34209213--34209296 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
34209203 GAGGAAGTGC
* *
34209213 TAAAAGGGCTCTGCCCTAGTTTACC
1 TAAAAGGGCTTTGCCCTAGTTTA-T
* *
34209238 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCTAGTTTAT
*
34209262 CAGAAAGGGCTTTGCCCTAG-TTAT
1 TA-AAAGGGCTTTGCCCTAGTTTAT
34209286 TAAAAGAGGCT
1 TAAAAG-GGCT
34209297 AGGCCTCTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.20
25 36 0.72
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCTAGTTTAT
Found at i:34209490 original size:42 final size:42
Alignment explanation
Indices: 34209431--34209518 Score: 158
Period size: 42 Copynumber: 2.1 Consensus size: 42
34209421 TAGTCTCCCC
*
34209431 AAATGAGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGAGCTTGCATACATCCATTGACATTACATGTGATATTG
*
34209473 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGAGCTTGCATACATCCATTGACATTACATGTGATATTG
34209515 AAAT
1 AAAT
34209519 CAGCCTAGGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (42 bp):
AAATGAGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:34209605 original size:30 final size:30
Alignment explanation
Indices: 34209546--34209627 Score: 121
Period size: 30 Copynumber: 2.7 Consensus size: 30
34209536 CGTTTACAGT
*
34209546 AAAGGCTTCGGCCCAGTGATACGATTTATGA
1 AAAGGCTTCGGCCCAGTGATA-TATTTATGA
*
34209577 AAAGGCTTCGGCCCAGTGATATATTTATGC
1 AAAGGCTTCGGCCCAGTGATATATTTATGA
*
34209607 AAAGGCTTCGGGCCAGT-ATAT
1 AAAGGCTTCGGCCCAGTGATAT
34209628 GTCAAGACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 4 0.08
30 23 0.48
31 21 0.44
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGATATATTTATGA
Found at i:34211887 original size:27 final size:27
Alignment explanation
Indices: 34211857--34212022 Score: 217
Period size: 27 Copynumber: 6.2 Consensus size: 27
34211847 TACTGAAATG
**
34211857 CCCTCAATTTGTAGAATTACCATTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
* *
34211884 CCCTCGATTTATAGAA-TACCATTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
* *
34211910 CCCTTAATTTACAGAATTACCGTTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
34211937 CCCTCAATTTACAGAATTACCATTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
* ** *
34211964 CCATTGATTTACAAAATTACCATTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
* *
34211991 CCCTCAATTTACAAAATTACCGTTTTA
1 CCCTCAATTTACAGAATTACCATTTTA
34212018 CCCTC
1 CCCTC
34212023 GATTGTGAAA
Statistics
Matches: 122, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
26 23 0.19
27 99 0.81
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (27 bp):
CCCTCAATTTACAGAATTACCATTTTA
Found at i:34212015 original size:81 final size:80
Alignment explanation
Indices: 34211857--34212022 Score: 251
Period size: 81 Copynumber: 2.1 Consensus size: 80
34211847 TACTGAAATG
** * * * *
34211857 CCCTCAATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATACCATTTTACCCTTAATTTAC
1 CCCTCAATTTACAGAATTACCATTTTACCATCGATTTACAAAATACCATTTTACCCTCAATTTAC
*
34211922 AGAATTACCGTTTTA
66 AAAATTACCGTTTTA
*
34211937 CCCTCAATTTACAGAATTACCATTTTACCATTGATTTACAAAATTACCATTTTACCCTCAATTTA
1 CCCTCAATTTACAGAATTACCATTTTACCATCGATTTACAAAA-TACCATTTTACCCTCAATTTA
34212002 CAAAATTACCGTTTTA
65 CAAAATTACCGTTTTA
34212018 CCCTC
1 CCCTC
34212023 GATTGTGAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 37 0.48
81 40 0.52
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (80 bp):
CCCTCAATTTACAGAATTACCATTTTACCATCGATTTACAAAATACCATTTTACCCTCAATTTAC
AAAATTACCGTTTTA
Found at i:34212088 original size:27 final size:27
Alignment explanation
Indices: 34212058--34212181 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
34212048 TGTAGGATAG
34212058 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
34212085 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * * * *
34212112 AATTACCGAAATACCACTGGTTTTTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
34212139 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
34212166 AATTACCAAAATACCC
1 AATTACCAAAATACCC
34212182 GATTTACAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.04
27 79 0.94
28 2 0.02
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:34212099 original size:54 final size:54
Alignment explanation
Indices: 34212025--34212180 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
34212015 TTACCCTCGA
* * *
34212025 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** * *
34212079 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * **
34212133 TTTTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
34212181 CGATTTACAA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.05
54 79 0.92
55 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:34212223 original size:81 final size:81
Alignment explanation
Indices: 34212058--34212234 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 81
34212048 TGTAGGATAG
* * * ** *
34212058 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGTTTACAAAATTACAGAAA
* **
34212123 TACCACTGGTTTTTGA
66 TACCACTGCTTTTAAA
34212139 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATA-CCCGA-TTTACAAAATTACAGAA
1 AATTACCGAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCGAGTTTACAAAATTACAGAA
34212201 ATACC-CTTGACTTTCTAAA
65 ATACCAC-TG-CTTT-TAAA
**
34212220 AATTATAGAAATACC
1 AATTACCGAAATACC
34212235 ATTGGTTTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 21 0.26
80 11 0.14
81 46 0.57
82 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (81 bp):
AATTACCGAAATACCCCTAATTTGTAAAATTACCAAAATACCCCGAGTTTACAAAATTACAGAAA
TACCACTGCTTTTAAA
Found at i:34212257 original size:27 final size:27
Alignment explanation
Indices: 34212083--34212269 Score: 96
Period size: 27 Copynumber: 6.9 Consensus size: 27
34212073 CCTAGTTTGT
** * * **
34212083 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
* **
34212110 AAAATTACCGAAATACCAC-TGGTTTTT
1 AAAATTACTGAAATACC-CTTGGTTTAC
* * *** **
34212137 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACTGAAATACCCTTGGTTTAC
** *
34212164 AAAATTACCAAAATACCC--GATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
34212189 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
34212216 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
34212245 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
34212270 GTAGATTTAC
Statistics
Matches: 130, Mismatches: 20, Indels: 20
0.76 0.12 0.12
Matches are distributed among these distances:
25 20 0.15
26 1 0.01
27 82 0.63
28 8 0.06
29 19 0.15
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:34212271 original size:108 final size:106
Alignment explanation
Indices: 34212030--34212289 Score: 254
Period size: 108 Copynumber: 2.4 Consensus size: 106
34212020 CTCGATTGTG
* ** * **
34212030 AAATTACTGAAATACCCCTGTAGGATAGAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACTGAAATACCCTTGTTTG-TAGAATTACCAAAATA-CCCGAGTTTACAAAATTACCAAA
* * * ***
34212095 ATACCCCTAGTTTGTAAAATTACCGAAATACCACTGGTTTTTG
64 ATACCCCTACTTTCTAAAATTACAGAAATACCACTGGTTTACA
* ** *
34212138 AAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCGA-TTTACAAAATTA-CAGAA
1 AAATTACTGAAATACCCT-TGTTTGTAGAATTACCAAAATACCCGAGTTTACAAAATTACCA-AA
* * *
34212201 ATACCCTTGACTTTCTAAAAATTATAGAAATACCATTGGTTTACA
64 ATACCCCT-ACTTTCT-AAAATTACAGAAATACCACTGGTTTACA
* *
34212246 AAATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAACACCC
1 AAATTACTGAAATACCCTT-GTTTGTAGAATTACCAAAATACCC
34212290 TTGTAGGATG
Statistics
Matches: 122, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
105 2 0.02
106 19 0.16
107 9 0.07
108 90 0.74
109 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (106 bp):
AAATTACTGAAATACCCTTGTTTGTAGAATTACCAAAATACCCGAGTTTACAAAATTACCAAAAT
ACCCCTACTTTCTAAAATTACAGAAATACCACTGGTTTACA
Found at i:34213231 original size:25 final size:24
Alignment explanation
Indices: 34213197--34213266 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 24
34213187 AGGAAGTGCT
34213197 AAAAGGGCTTTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
34213221 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
34213246 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
34213267 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
24 1 0.02
25 42 0.98
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:34213461 original size:42 final size:42
Alignment explanation
Indices: 34213414--34213547 Score: 243
Period size: 42 Copynumber: 3.2 Consensus size: 42
34213404 TAGTCTCCCC
*
34213414 AAATGGGCTTGCATACATTCATTGACATTAAATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
34213456 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
34213498 AAATGGGCTTGCATACA-TCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTC-ATTGACATTACATGTGATATTG
34213540 AAATGGGC
1 AAATGGGC
34213548 CTAAGGGCCA
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
41 2 0.02
42 88 0.98
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:34213609 original size:31 final size:31
Alignment explanation
Indices: 34213571--34213716 Score: 249
Period size: 31 Copynumber: 4.7 Consensus size: 31
34213561 CGTTTACAGT
*
34213571 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34213602 AAAGGCTTTGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34213633 AAAGGCTTCAGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
34213664 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
34213695 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
34213717 TCAAGACTAA
Statistics
Matches: 109, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 5 0.05
31 104 0.95
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:34216300 original size:12 final size:12
Alignment explanation
Indices: 34216283--34216313 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
34216273 AGCACATGGT
*
34216283 CGTGTCCTAGCC
1 CGTGTCCTACCC
34216295 CGTGTCCTACCC
1 CGTGTCCTACCC
34216307 CGTGTCC
1 CGTGTCC
34216314 AAACAAGTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.45, G:0.23, T:0.26
Consensus pattern (12 bp):
CGTGTCCTACCC
Found at i:34217580 original size:28 final size:29
Alignment explanation
Indices: 34217547--34217601 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
34217537 CCTCGAAATA
*
34217547 CTGATA-TCATGGCCTGAAGCCAAATCAG
1 CTGATATTCATGGCCCGAAGCCAAATCAG
34217575 CTGATATTCATGGCCCGAAGCCAAATC
1 CTGATATTCATGGCCCGAAGCCAAATC
34217602 GGTATATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (29 bp):
CTGATATTCATGGCCCGAAGCCAAATCAG
Found at i:34222595 original size:11 final size:11
Alignment explanation
Indices: 34222581--34222617 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
34222571 AAATACAAAG
34222581 AAAAGAAAGGA
1 AAAAGAAAGGA
*
34222592 AAAATAAA-G-
1 AAAAGAAAGGA
34222601 AAAAGAAAGGA
1 AAAAGAAAGGA
34222612 AAAAGA
1 AAAAGA
34222618 TTCATCTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.03
Consensus pattern (11 bp):
AAAAGAAAGGA
Found at i:34222602 original size:20 final size:20
Alignment explanation
Indices: 34222577--34222615 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
34222567 CCAAAAATAC
34222577 AAAGAAAAGAAAGGAAAAAT
1 AAAGAAAAGAAAGGAAAAAT
34222597 AAAGAAAAGAAAGGAAAAA
1 AAAGAAAAGAAAGGAAAAA
34222616 GATTCATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.03
Consensus pattern (20 bp):
AAAGAAAAGAAAGGAAAAAT
Found at i:34222700 original size:35 final size:35
Alignment explanation
Indices: 34222654--34222722 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
34222644 CTTTGATTAA
** *
34222654 GGTATGTGTTTTGTTCTGTTTTTTATAATTTCTAG
1 GGTATGTGTTTTGTTCCATTTTTGATAATTTCTAG
34222689 GGTATGTGTTTTGTTCCATTTTTGATAATTTCTA
1 GGTATGTGTTTTGTTCCATTTTTGATAATTTCTA
34222723 TGTTTTTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.16, C:0.07, G:0.19, T:0.58
Consensus pattern (35 bp):
GGTATGTGTTTTGTTCCATTTTTGATAATTTCTAG
Found at i:34223502 original size:44 final size:42
Alignment explanation
Indices: 34223438--34223572 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 42
34223428 ACTTAGGATC
* * *
34223438 TGATATGTGTTTTGGTGTAAGACCATGTCTGGGACGTTGGCA
1 TGATATATGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* *
34223480 TCGACT-TATGATTTATGTGTAAGACCATGTCTGGGACATTGGCA
1 T-GA-TATATGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCA
* * *
34223524 TTATATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCA
1 TGATATATGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
34223566 TTGATAT
1 -TGATAT
34223573 TCGACTACAT
Statistics
Matches: 77, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
42 27 0.35
43 21 0.27
44 29 0.38
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.36
Consensus pattern (42 bp):
TGATATATGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:34223555 original size:42 final size:43
Alignment explanation
Indices: 34223452--34223573 Score: 149
Period size: 42 Copynumber: 2.8 Consensus size: 43
34223442 ATGTGTTTTG
* * * *
34223452 GTGTAAGACCATGTCTGGGACGTTGGCATCGACT-TATGATTTAT
1 GTGTAAGACCATGTCTGGGACATTGGCAT-TA-TATTTGATTTAC
34223496 GTGTAAGACCATGTCTGGGACATTGGCATTATATTTGATTT-C
1 GTGTAAGACCATGTCTGGGACATTGGCATTATATTTGATTTAC
* *
34223538 GTGTAAGACCCTGTCTGGGACAGTGGCATTGATATT
1 GTGTAAGACCATGTCTGGGACATTGGCATT-ATATT
34223574 CGACTACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
42 29 0.41
43 13 0.19
44 28 0.40
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATTATATTTGATTTAC
Found at i:34226304 original size:79 final size:80
Alignment explanation
Indices: 34226198--34226369 Score: 276
Period size: 79 Copynumber: 2.2 Consensus size: 80
34226188 AGACTAAGAT
*
34226198 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
34226263 -ATTCCGGGCTAAG-C
66 TA-ACCGGGCTAAGTC
* *
34226277 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
*
34226342 TAACCGGGCTATGTC
66 TAACCGGGCTAAGTC
34226357 CCGAAGGCATTTG
1 CCGAAGGCATTTG
34226370 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
79 71 0.83
80 15 0.17
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGATACTA
TAACCGGGCTAAGTC
Found at i:34226376 original size:40 final size:40
Alignment explanation
Indices: 34226145--34226369 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
34226135 TTGAATGATG
* * * *
34226145 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
34226185 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
34226225 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34226265 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
34226304 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34226345 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34226370 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 36 0.23
40 113 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34234558 original size:30 final size:30
Alignment explanation
Indices: 34234524--34234584 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
34234514 AAAATACAAG
*
34234524 AAAATCTCGCCCAACCATCCAATCACACTA
1 AAAATCTCACCCAACCATCCAATCACACTA
34234554 AAAATCTCACCCAACCATCCAATCACACTA
1 AAAATCTCACCCAACCATCCAATCACACTA
34234584 A
1 A
34234585 CTCTGTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.16
Consensus pattern (30 bp):
AAAATCTCACCCAACCATCCAATCACACTA
Found at i:34236394 original size:121 final size:122
Alignment explanation
Indices: 34236180--34236409 Score: 453
Period size: 121 Copynumber: 1.9 Consensus size: 122
34236170 TAAGATTCAC
34236180 CCATTGAACGCATCAGAATATAATTCGAATACGCGGATTTCATGAACGTAAGTGCCATACCTGCA
1 CCATTGAACGCATCAGAATATAATTCGAATACGCGGATTTCATGAACGTAAGTGCCATACCTGCA
34236245 GCTAGACAAACTCAATAGCCTGCAGAACTTATGTAGA-CAAGCTACCATGTAACCCG
66 GCTAGACAAACTCAATAGCCTGCAGAACTTATGTAGACCAAGCTACCATGTAACCCG
34236301 CCATTGAACGCATCAGAATATAATTCGAATACGCGGATTTCATGAACGTAAGTGCCATACCTGCA
1 CCATTGAACGCATCAGAATATAATTCGAATACGCGGATTTCATGAACGTAAGTGCCATACCTGCA
34236366 GCTAGACAAACTCAATAGCCTGCAGAACTTATGTAGACCAAGCT
66 GCTAGACAAACTCAATAGCCTGCAGAACTTATGTAGACCAAGCT
34236410 CGGGCGTTCG
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
121 102 0.94
122 6 0.06
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (122 bp):
CCATTGAACGCATCAGAATATAATTCGAATACGCGGATTTCATGAACGTAAGTGCCATACCTGCA
GCTAGACAAACTCAATAGCCTGCAGAACTTATGTAGACCAAGCTACCATGTAACCCG
Found at i:34242198 original size:21 final size:21
Alignment explanation
Indices: 34242174--34242215 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34242164 TCATCAGATC
34242174 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGCATCGGGGG
** *
34242195 TACAGGTTGAGGTATCGGGGG
1 TACACCTTGAGGCATCGGGGG
34242216 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.17, G:0.43, T:0.21
Consensus pattern (21 bp):
TACACCTTGAGGCATCGGGGG
Found at i:34251252 original size:19 final size:19
Alignment explanation
Indices: 34251208--34251258 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
34251198 ATCATTATTT
34251208 ATTATATATTATTTTTTCAC
1 ATTAT-TATTATTTTTTCAC
*
34251228 A-AATTATTATTATTTT-AC
1 ATTATTATTATT-TTTTCAC
34251246 ATTATTATTATTT
1 ATTATTATTATTT
34251259 ATATATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 11 0.41
19 15 0.56
20 1 0.04
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTATTATTATTTTTTCAC
Found at i:34251355 original size:13 final size:13
Alignment explanation
Indices: 34251232--34251356 Score: 59
Period size: 13 Copynumber: 9.7 Consensus size: 13
34251222 TTTCACAAAT
34251232 TATTATTATTTTA
1 TATTATTATTTTA
*
34251245 CATTATTATTATT-
1 TATTATTATT-TTA
34251258 TATATATTATTGTTA
1 TAT-TATTATT-TTA
* * *
34251273 TATTTTTA-CTTG
1 TATTATTATTTTA
34251285 TATTA-TA-TTTA
1 TATTATTATTTTA
*
34251296 T-TCATTATTTATA
1 TATTATTATTT-TA
**
34251309 TACACATATATTTTCA
1 TA-TTAT-TATTTT-A
*
34251325 TATTA-TATATTA
1 TATTATTATTTTA
34251337 TA--ATTATTTTA
1 TATTATTATTTTA
34251348 TATTATTAT
1 TATTATTAT
34251357 GTCATTTTTA
Statistics
Matches: 84, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
10 3 0.04
11 15 0.18
12 11 0.13
13 24 0.29
14 15 0.18
15 8 0.10
16 8 0.10
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATTTTA
Found at i:34263939 original size:206 final size:206
Alignment explanation
Indices: 34263575--34265565 Score: 2963
Period size: 206 Copynumber: 9.7 Consensus size: 206
34263565 GCAGATCTGG
* *
34263575 CTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCTTATAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* *
34263640 GATTTGATTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * *
34263705 AGAACGAATCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGCGGATCCAAACTT
130 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTT
34263770 CAGATGTTTATA
195 CAGATGTTTATA
* *
34263782 CTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTA
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * *
34263847 ATTTGGTTTTCGCGTGCTTACGCTAAAGAAAATCTAAGATGATTTGGCATCTCTGTATTTTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
34263912 GAACAAATCGAAGTTCGGCGTCTCCATATTCGACGGAGGGTAGACACATAGTAGATCCAACCTTC
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
34263977 AGATGTTTATA
196 AGATGTTTATA
*
34263988 CTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * * *
34264053 ATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
34264118 GAACGAATCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGCGGATCCAAACTTC
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
34264183 AGATGTTTATA
196 AGATGTTTATA
* *
34264194 CTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * * *
34264259 ATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCTGTGTTTTCAAA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
34264324 GAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTA
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
*
34264388 AAATGTTTATA
196 AGATGTTTATA
* *
34264399 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
34264464 ATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * *
34264529 GAACGAATCAAAGTTTGGCATCTCCATATTCAACGGAGGGAAGACACATAGCGGATCCAATCTTC
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
34264594 AGATGTTTATA
196 AGATGTTTATA
* *
34264605 CTGAAGCAGATCCAAGATGGTTTTGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAACTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * ** * * * *
34264670 ATTTGGCTTTCACGTTCTTACATTGAAGCAAATCTAAGATGATTTGGCACCTCTGTGTTTTCAAA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
34264735 GAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTA
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
*
34264799 AAATGTTTATA
196 AGATGTTTATA
* *
34264810 CTGAAGCAGATCCAAGATGGTTTGGTATCCGTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * * * * *
34264875 ATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCTTCTCTGTGTTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
34264940 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACCTAGCAGATCCAACCTTA
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
*
34265005 AAATGTTTATA
196 AGATGTTTATA
* * *
34265016 CTGGAGCAGATCCAAGATGGTTTGGTATCCGTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * * *
34265081 ATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTG--TTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
34265144 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAG---TATAGCAGATCTC-ACCTT
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATC-CAACCTT
** *
34265205 CAGATAATTAGA
195 CAGATGTTTATA
* * *
34265217 CTAAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * *
34265282 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * *
34265347 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
* *
34265412 AGATGATTAGA
196 AGATGTTTATA
* * * *
34265423 TTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCTA
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
34265488 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
34265553 GAACAAATCGAAG
131 GAACAAATCGAAG
34265566 AAGCAGATTT
Statistics
Matches: 1631, Mismatches: 144, Indels: 19
0.91 0.08 0.01
Matches are distributed among these distances:
201 130 0.08
202 1 0.00
203 48 0.03
204 51 0.03
205 374 0.23
206 1020 0.63
207 7 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTC
AGATGTTTATA
Found at i:34264635 original size:411 final size:412
Alignment explanation
Indices: 34263575--34265565 Score: 3019
Period size: 411 Copynumber: 4.8 Consensus size: 412
34263565 GCAGATCTGG
* * *
34263575 CTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCTTATAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* *
34263640 GATTTGATTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTTGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
*
34263705 AGAACGAATCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGCGGATCCAAACTT
130 AGAACGAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCGGATCCAAACTT
*
34263770 CAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCG
195 CAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCG
* * * *
34263835 AAGACATAGCTAATTTGGTTTTCGCGTGCTTACGCTAAAGAAAATCTAAGATGATTTGGCATCTC
260 AAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTC
* * * *
34263900 TGTATTTTCAGAGAACAAATCGAAGT-TCGGCGTCTCCATATTCGACGGAGGGTAGACACATAGT
325 TGTGTTTTCAGAGAACAAATCGAAGTCT-GGCATCTCCATATTCGACGGAGGGCAGACACATAGC
* *
34263964 AGATCCAACCTTCAGATGTTTATA
389 AGATCCAACCTTAAAATGTTTATA
* *
34263988 CTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* ** * *
34264053 ATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
34264118 GAACGAATCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGCGGATCCAAACTTC
131 GAACGAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCGGATCCAAACTTC
* *
34264183 AGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATTGA
196 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGA
*
34264248 AGACATAGCTGATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCT
261 AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCT
* *
34264313 GTGTTTTCAAAGAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAG
326 GTGTTTTCAGAGAACAAATCGAAGTCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAG
34264377 ATCCAACCTTAAAATGTTTATA
391 ATCCAACCTTAAAATGTTTATA
*
34264399 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
*
34264464 ATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * *
34264529 GAACGAATCAAAGTTTGGCATCTCCATATTCAACGGAGGGAAGACACATAGCGGATCCAATCTTC
131 GAACGAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCGGATCCAAACTTC
*
34264594 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTTGCATCCTTGTGCTTACAAGGAGCAAATCGA
196 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGA
* * * * **
34264659 AGACATAACTGATTTGGCTTTCACGTTCTTACATTGAAGCAAATCTAAGATGATTTGGCACCTCT
261 AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCT
* *
34264724 GTGTTTTCAAAGAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAG
326 GTGTTTTCAGAGAACAAATCGAAGTCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAG
34264788 ATCCAACCTTAAAATGTTTATA
391 ATCCAACCTTAAAATGTTTATA
*
34264810 CTGAAGCAGATCCAAGATGGTTTGGTATCCGTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* ** * * * *
34264875 ATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCTTCTCTGTGTTGTCAGA
66 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * *
34264940 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACCTAGCAGATCCAACCTTA
131 GAACGAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCGGATCCAAACTTC
* * * *
34265005 AAATGTTTATACTGGAGCAGATCCAAGATGGTTTGGTATCCGTGTGCTTACAAGGAGCAAATCGA
196 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGA
* * * * *
34265070 AGACATAGCTGATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCA--TCT
261 AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCT
* * * *
34265133 CTGTTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAG---TATAGCAG
326 GTGTTTTCAGAGAACAAATCGAAGTCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAG
* * ** *
34265195 ATCTC-ACCTTCAGATAATTAGA
391 ATC-CAACCTTAAAATGTTTATA
* *
34265217 CTAAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGGCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* *
34265282 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGA
66 ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * * * * *
34265347 GAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCAAACACATAGCAGATCTAACCTTC
131 GAACGAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCGGATCCAAACTTC
* * * * *
34265412 AGATGATTAGATTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGA
196 AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGA
* *
34265477 AGACATAGCTAATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCT
261 AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCT
* *
34265542 GTATTGTCAGAGAACAAATCGAAG
326 GTGTTTTCAGAGAACAAATCGAAG
34265566 AAGCAGATTT
Statistics
Matches: 1453, Mismatches: 120, Indels: 14
0.92 0.08 0.01
Matches are distributed among these distances:
407 311 0.21
408 1 0.00
409 61 0.04
410 15 0.01
411 723 0.50
412 334 0.23
413 8 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (412 bp):
CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGTTTTTGCGTGCTTATGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACGAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCGGATCCAAACTTC
AGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGA
AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCT
GTGTTTTCAGAGAACAAATCGAAGTCTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAG
ATCCAACCTTAAAATGTTTATA
Found at i:34264974 original size:617 final size:618
Alignment explanation
Indices: 34263575--34265565 Score: 3035
Period size: 617 Copynumber: 3.2 Consensus size: 618
34263565 GCAGATCTGG
* *
34263575 CTGAAGCAAGATCCAAGATGGTTTGGCATCTTTGTGCTTATAAGGAGCAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCT
* *
34263640 GATTTGATTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
* * * * *
34263705 AGAACGAATCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGCGGATCCAAACTT
130 AGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTT
* * * *
34263770 CAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCG
195 AAAATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCG
* * *
34263835 AAGACATAGCTAATTTGGTTTTCGCGTGCTTACGCTAAAGAAAATCTAAGATGATTTGGCATCTC
260 AAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTC
* * * * *
34263900 TGTATTTTCAGAGAACAAATCGAAGTTCGGCGTCTCCATATTCGACGGAGGGTAGACACATAGTA
325 TGTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGAAGACACATAGCA
*
34263965 GATCCAACCTTCAGATGTTTATACTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAA
390 GATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAA
34264030 GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGA
455 GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGA
* *
34264095 TTTGGCATCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCGTCTCCATATTCGACAGAGGGCA
520 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCA
* *
34264160 GACACATAGCGGATCCAAACTTCAGATGTTTATA
585 GACACATAGCAGATCCAACCTTCAGATGTTTATA
* *
34264194 CTGAAGCAAATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATTGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * * *
34264259 ATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCACCTCTGTGTTTTCAAA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* *
34264324 GAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTA
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTA
*
34264388 AAATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGA
196 AAATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGA
*
34264453 AGACATAGCTGATTTGGTTTTTGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCT
261 AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCT
* * * *
34264518 GTATTGTCAGAGAACGAATCAAAGTTTGGCATCTCCATATTCAACGGAGGGAAGACACATAGCGG
326 GTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGAAGACACATAGCAG
* *
34264583 ATCCAATCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTTGCATCCTTGTGCTTACAAG
391 ATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
* * **
34264648 GAGCAAATCGAAGACATAACTGATTTGGCTTTCACGTTCTTACATTGAAGCAAATCTAAGATGAT
456 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGAT
* * * * * * *
34264713 TTGGCACCTCTGTGTTTTCAAAGAACAAATCGAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAG
521 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAG
* *
34264777 ACACATAGCAGATCCAACCTTAAAATGTTTATA
586 ACACATAGCAGATCCAACCTTCAGATGTTTATA
* *
34264810 CTGAAGCAGATCCAAGATGGTTTGGTATCCGTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
* * * * * * *
34264875 ATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCTTCTCTGTGTTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
*
34264940 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACCTAGCAGATCCAACCTTA
131 GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTA
* *
34265005 AAATGTTTATACTGGAGCAGATCCAAGATGGTTTGGTATCCGTGTGCTTACAAGGAGCAAATCGA
196 AAATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGA
* * * * *
34265070 AGACATAGCTGATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGATTTGGCATCTCT
261 AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCT
* *
34265135 G--TTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAG---TATAGCAG
326 GTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGAAGACACATAGCAG
** * * *
34265195 ATCTC-ACCTTCAGATAATTAGACTAAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAA
391 ATC-CAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAA
* * ** * * *
34265259 GGAGCAAATCGAAGGCATAGCTGATTTGGTTTTTGCGTGCTTATGCTGAAGCAAGTCTAAGATGA
455 GGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGA
* *
34265324 TTTGGCATCTCTATATTGTCAGAGAACAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGGCA
520 TTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCA
* * * *
34265389 AACACATAGCAGATCTAACCTTCAGATGATTAGA
585 GACACATAGCAGATCCAACCTTCAGATGTTTATA
* * * *
34265423 TTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAATGAGCAAATCGAAGACATAGCTA
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
34265488 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
34265553 GAACAAATCGAAG
131 GAACAAATCGAAG
34265566 AAGCAGATTT
Statistics
Matches: 1240, Mismatches: 129, Indels: 12
0.90 0.09 0.01
Matches are distributed among these distances:
612 157 0.13
613 175 0.14
615 47 0.04
616 184 0.15
617 533 0.43
618 137 0.11
619 7 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (618 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
ATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGCAGACACATAGCAGATCCAACCTTA
AAATGTTTATACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGA
AGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCT
GTATTGTCAGAGAACAAATCGAAGTTTGGCATCTCCATATTCGACGGAGGGAAGACACATAGCAG
ATCCAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAG
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTACTTATGTTGAAGCAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAG
ACACATAGCAGATCCAACCTTCAGATGTTTATA
Found at i:34267163 original size:7 final size:7
Alignment explanation
Indices: 34267151--34267217 Score: 55
Period size: 7 Copynumber: 9.1 Consensus size: 7
34267141 ACCTTATTTT
34267151 TATATTA
1 TATATTA
34267158 TATATTA
1 TATATTA
34267165 TATAATTA
1 TAT-ATTA
34267173 TATTATTA
1 TA-TATTA
*
34267181 TATACTA
1 TATATTA
*
34267188 TTCGTATTA
1 -T-ATATTA
*
34267197 T-CATTA
1 TATATTA
*
34267203 TTTATTA
1 TATATTA
34267210 TATATTA
1 TATATTA
34267217 T
1 T
34267218 TTTTCACAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
6 5 0.10
7 25 0.51
8 14 0.29
9 5 0.10
ACGTcount: A:0.37, C:0.04, G:0.01, T:0.57
Consensus pattern (7 bp):
TATATTA
Found at i:34267249 original size:16 final size:17
Alignment explanation
Indices: 34267153--34267276 Score: 65
Period size: 16 Copynumber: 6.9 Consensus size: 17
34267143 CTTATTTTTA
34267153 TATTATATATTATATA-AT
1 TATTAT-TATT-TATACAT
34267171 TA-TATTATTATATACTAT
1 TATTATTATT-TATAC-AT
** **
34267189 TCGTATTATCATTATTTAT
1 TATTATTAT--TTATACAT
*
34267208 TATATATTATTTTTCACAAGT
1 TAT-TATTATTTAT-AC-A-T
34267229 TATTATTATTT-TACAT
1 TATTATTATTTATACAT
*
34267245 TATTATTATTTATATAT
1 TATTATTATTTATACAT
* *
34267262 TATTNTTTTTTATAC
1 TATTATTATTTATAC
34267277 GTATGTATCT
Statistics
Matches: 84, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
16 21 0.25
17 20 0.24
18 10 0.12
19 10 0.12
20 18 0.21
21 5 0.06
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (17 bp):
TATTATTATTTATACAT
Found at i:34267250 original size:19 final size:19
Alignment explanation
Indices: 34267204--34267254 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
34267194 TTATCATTAT
*
34267204 TTATTATATATTATTTTTCA
1 TTATTAT-TATTATTTTACA
**
34267224 CAAGTTATTATTATTTTACA
1 TTA-TTATTATTATTTTACA
34267244 TTATTATTATT
1 TTATTATTATT
34267255 TATATATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 8 0.32
20 13 0.52
21 4 0.16
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (19 bp):
TTATTATTATTATTTTACA
Found at i:34267265 original size:17 final size:17
Alignment explanation
Indices: 34267192--34267275 Score: 68
Period size: 17 Copynumber: 5.0 Consensus size: 17
34267182 ATACTATTCG
*
34267192 TATTATCATTATTTAT-
1 TATTATTATTATTTATA
*
34267208 TATATATTATT-TTTCACA
1 TAT-TATTATTATTT-ATA
34267226 -AGTTATTATTATTT-TA
1 TA-TTATTATTATTTATA
*
34267242 CATTATTATTATTTATA
1 TATTATTATTATTTATA
* *
34267259 TATTATTNTTTTTTATA
1 TATTATTATTATTTATA
34267276 CGTATGTATC
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
16 19 0.35
17 32 0.58
18 4 0.07
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.62
Consensus pattern (17 bp):
TATTATTATTATTTATA
Found at i:34270018 original size:36 final size:36
Alignment explanation
Indices: 34269971--34270043 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
34269961 CTAAGTTCTC
34269971 GTGTATTTATCATTTCTAGCTCAAACATTAGAGAGA
1 GTGTATTTATCATTTCTAGCTCAAACATTAGAGAGA
34270007 GTGTATTTATCATTTCTAGCTCAAACATTAGAGAGA
1 GTGTATTTATCATTTCTAGCTCAAACATTAGAGAGA
34270043 G
1 G
34270044 GTTGCAGGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.36
Consensus pattern (36 bp):
GTGTATTTATCATTTCTAGCTCAAACATTAGAGAGA
Found at i:34279747 original size:6 final size:6
Alignment explanation
Indices: 34279736--34279770 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
34279726 AGGTTTCCAT
* *
34279736 AAATGG AAATGG AAATGA AAATAG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG
34279771 ATCCATTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:34279762 original size:18 final size:18
Alignment explanation
Indices: 34279736--34279771 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34279726 AGGTTTCCAT
*
34279736 AAATGGAAATGGAAATGA
1 AAATAGAAATGGAAATGA
34279754 AAATAGAAATGGAAATGA
1 AAATAGAAATGGAAATGA
34279772 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (18 bp):
AAATAGAAATGGAAATGA
Found at i:34286739 original size:100 final size:101
Alignment explanation
Indices: 34286552--34286759 Score: 251
Period size: 100 Copynumber: 2.1 Consensus size: 101
34286542 CTAAATGACC
* * * * * **
34286552 TTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATTTTGGATCTTGAATATTCGGTCA
1 TTGTATATTCGACCACATAAGTAAGTACACATGTGATGTTAATTTGGATCTTGAATATTCGACCA
** *
34286617 TGAAGGTATGCACAAATGTGATATTATATTTGA-AT
66 TGAAGGTAAACACAAATATGATATTATATTTGATAT
* *
34286652 TTGTATATTCGACCATATAAGTAAGTACACATGTGATGTTAAATTT-GATCTTGCATATTCGACC
1 TTGTATATTCGACCACATAAGTAAGTACACATGTGATGTT-AATTTGGATCTTGAATATTCGACC
*
34286716 AT-ATAGGTAAACACATATATGATATTATATTTGATAT
65 ATGA-AGGTAAACACAAATATGATATTATATTTGATAT
34286753 TGTGTAT
1 T-TGTAT
34286760 TTGGCCAAAT
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
99 1 0.01
100 78 0.86
101 7 0.08
102 5 0.05
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (101 bp):
TTGTATATTCGACCACATAAGTAAGTACACATGTGATGTTAATTTGGATCTTGAATATTCGACCA
TGAAGGTAAACACAAATATGATATTATATTTGATAT
Found at i:34286750 original size:50 final size:50
Alignment explanation
Indices: 34286551--34286760 Score: 192
Period size: 50 Copynumber: 4.2 Consensus size: 50
34286541 GCTAAATGAC
* * * * *
34286551 CTTGTATATTCGGCCACATAGGTATGTACATATGTGATGTTAT-TTTGGAT
1 CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTT-GAT
* ** * *
34286601 CTTGAATATTCGGTCATGA-AGGTATGCACAAATGTGATATTATATTTGAAT
1 CTTGTATATTCGACCAT-ATAGGTAAGCACATATGTGATATTATATTTG-AT
* * * * *
34286652 -TTGTATATTCGACCATATAAGTAAGTACACATGTGATGTTAAATTTGAT
1 CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTTGAT
* * *
34286701 CTTGCATATTCGACCATATAGGTAAACACATATATGATATTATATTTGAT
1 CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTTGAT
* *
34286751 ATTGTGTATT
1 CTTGTATATT
34286761 TGGCCAAATG
Statistics
Matches: 129, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
49 3 0.02
50 120 0.93
51 6 0.05
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (50 bp):
CTTGTATATTCGACCATATAGGTAAGCACATATGTGATATTATATTTGAT
Found at i:34294946 original size:27 final size:28
Alignment explanation
Indices: 34294916--34294988 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 28
34294906 CCGATTAATA
*
34294916 AAATTATCGAAATACCCCT-AACTTGTG
1 AAATTACCGAAATACCCCTCAACTTGTG
* *
34294943 AAATTACCGAAATA-CCCTCGATTTGTG
1 AAATTACCGAAATACCCCTCAACTTGTG
34294970 AAATTACCGAAATACCCCT
1 AAATTACCGAAATACCCCT
34294989 GTAGGGTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.27
Consensus pattern (28 bp):
AAATTACCGAAATACCCCTCAACTTGTG
Found at i:34295002 original size:27 final size:27
Alignment explanation
Indices: 34294972--34295185 Score: 286
Period size: 27 Copynumber: 7.9 Consensus size: 27
34294962 GATTTGTGAA
34294972 ATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* *
34294999 ATTACTGAAATACCCCTGTAGGGTAAG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
34295026 ATTACCGAAATACCTCTGTAAGGTACG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* *
34295053 ATTATCGAAATACCCCTAT-GTGGTAGG
1 ATTACCGAAATACCCCTGTAG-GGTAGG
34295080 ATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
*
34295107 ATTATCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
34295134 ATTACCAAAATACCACTGTAGGGCAGG
1 ATTACCGAAATACCCCTGTAGGGTAGG
* * *
34295161 ATTACCAAAATACCCTTCTAGGGTA
1 ATTACCGAAATACCCCTGTAGGGTA
34295186 AAATGATCGT
Statistics
Matches: 163, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
27 162 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGG
Found at i:34295003 original size:54 final size:52
Alignment explanation
Indices: 34294945--34295175 Score: 207
Period size: 54 Copynumber: 4.3 Consensus size: 52
34294935 AACTTGTGAA
34294945 ATTACCGAAATACCCTCGATTT-GTGAAATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCC-C-ATTTGGT-AAATTACCGAAATACCCCTGTAGGGTAGG
* * * * *
34294999 ATTACTGAAATACCCC-TGTAGGGTAAGATTACCGAAATACCTCTGTAAGGTACG
1 ATTACCGAAATACCCCAT-T-TGGTAA-ATTACCGAAATACCCCTGTAGGGTAGG
* * *
34295053 ATTATCGAAATACCCCTATGTGGTAGGATTACCGAAATACCCCTGTAGGGTAGG
1 ATTACCGAAATACCCC-ATTTGGTA-AATTACCGAAATACCCCTGTAGGGTAGG
* * * * * *
34295107 ATTATCGAAATACCCC-TGTAGGGTAGGATTACCAAAATACCACTGTAGGGCAGG
1 ATTACCGAAATACCCCAT-T-TGGTA-AATTACCGAAATACCCCTGTAGGGTAGG
*
34295161 ATTACCAAAATACCC
1 ATTACCGAAATACCC
34295176 TTCTAGGGTA
Statistics
Matches: 148, Mismatches: 20, Indels: 18
0.80 0.11 0.10
Matches are distributed among these distances:
51 1 0.01
52 2 0.01
53 3 0.02
54 141 0.95
56 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (52 bp):
ATTACCGAAATACCCCATTTGGTAAATTACCGAAATACCCCTGTAGGGTAGG
Found at i:34295203 original size:27 final size:27
Alignment explanation
Indices: 34295173--34295239 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 27
34295163 TACCAAAATA
*
34295173 CCCTTCTAGGGTAAAATGATCGTTTTG
1 CCCTTATAGGGTAAAATGATCGTTTTG
* * *
34295200 CCC-TAAAGAGTAAAATGATTGTTTTG
1 CCCTTATAGGGTAAAATGATCGTTTTG
*
34295226 CCCTTGT-GGGTAAA
1 CCCTTATAGGGTAAA
34295240 TGACTGACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (27 bp):
CCCTTATAGGGTAAAATGATCGTTTTG
Found at i:34295239 original size:26 final size:26
Alignment explanation
Indices: 34295180--34295229 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
34295170 ATACCCTTCT
34295180 AGGGTAAAATGATCGTTTTGCCCTAA
1 AGGGTAAAATGATCGTTTTGCCCTAA
* *
34295206 AGAGTAAAATGATTGTTTTGCCCT
1 AGGGTAAAATGATCGTTTTGCCCT
34295230 TGTGGGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (26 bp):
AGGGTAAAATGATCGTTTTGCCCTAA
Found at i:34297497 original size:31 final size:31
Alignment explanation
Indices: 34297462--34297525 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
34297452 ATGACCTAAT
*
34297462 AAATGAATGTTTTTAAACTAACTCAAAGTAC
1 AAATGAATGTTTTTAAACAAACTCAAAGTAC
34297493 AAATGAATGTTTTTAAACAAACTCAAAGTAC
1 AAATGAATGTTTTTAAACAAACTCAAAGTAC
34297524 AA
1 AA
34297526 CTATGGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (31 bp):
AAATGAATGTTTTTAAACAAACTCAAAGTAC
Found at i:34298737 original size:46 final size:46
Alignment explanation
Indices: 34298662--34299808 Score: 1983
Period size: 46 Copynumber: 25.0 Consensus size: 46
34298652 TTATCTTCGA
* * * * *
34298662 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACA-TTTCATAT
* * * *** *
34298708 CAGGTTGCCATGGTATCTTCCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* ** * ** ***
34298754 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* *
34298799 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* * *
34298845 CCTGTTGCCATGGTATCTTTCAACCATGTTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34298891 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34298937 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34298983 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299029 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299075 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299121 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299167 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299213 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299259 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299305 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299351 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299397 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* ** * *
34299443 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
*
34299489 CACGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299535 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299581 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299627 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299673 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299719 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
34299765 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
34299809 TTCAAAAAGC
Statistics
Matches: 1057, Mismatches: 42, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
45 42 0.04
46 1015 0.96
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:34303412 original size:14 final size:14
Alignment explanation
Indices: 34303393--34303423 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34303383 CAAATAAAAG
34303393 ACTTAAAAAATTTC
1 ACTTAAAAAATTTC
34303407 ACTTAAAAAATTTC
1 ACTTAAAAAATTTC
34303421 ACT
1 ACT
34303424 CTAATGAGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.35
Consensus pattern (14 bp):
ACTTAAAAAATTTC
Found at i:34303731 original size:25 final size:25
Alignment explanation
Indices: 34303703--34303753 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
34303693 ATGAGTATGT
*
34303703 ATACCTAATGCACCACAAGAGTGAA
1 ATACCTAATACACCACAAGAGTGAA
*
34303728 ATACGTAATACACCACAAGAGTGAA
1 ATACCTAATACACCACAAGAGTGAA
34303753 A
1 A
34303754 CCTTTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.16
Consensus pattern (25 bp):
ATACCTAATACACCACAAGAGTGAA
Found at i:34305877 original size:48 final size:48
Alignment explanation
Indices: 34305658--34305884 Score: 200
Period size: 48 Copynumber: 4.8 Consensus size: 48
34305648 GTTGTGTAAA
*
34305658 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATATGTA-
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-AG
**** * *
34305706 ATTTTGTGTAAAACCATAGT-TGGG-C-T---ATCGGCATCGATATGAG
1 ATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGAG
* * * *
34305749 ATCCCATGTAAGACCATGTCTAGAACATGGCATTGGCATTGATCT-ACG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGA-G
* ** *
34305797 ATCCTACATAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAG
* * * *
34305845 ATCCCATGTAAGACCATATCCGGGATACGGCATTGGCATC
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
34305885 CTACTATGTT
Statistics
Matches: 137, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
42 3 0.02
43 27 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 2 0.01
48 100 0.73
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAG
Found at i:34308835 original size:41 final size:41
Alignment explanation
Indices: 34308790--34308960 Score: 263
Period size: 41 Copynumber: 4.2 Consensus size: 41
34308780 TATCTAAATC
* * *
34308790 AATGAAAAGGATGAAAAGGATGTTATTCGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* *
34308831 AATGAAAAGGTTGAAAAAGAAGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
34308872 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* * *
34308913 AATGAAAAGG-TAAAAAGGATGTTATCCAAAAAGTATAACA
1 AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
34308953 AATGAAAA
1 AATGAAAA
34308961 TGACATATTT
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 35 0.29
41 85 0.71
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.20
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
Found at i:34310844 original size:17 final size:17
Alignment explanation
Indices: 34310824--34310857 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34310814 TGTTATTAAA
*
34310824 GGTTAAAATGGTAAAAT
1 GGTTAAAATGATAAAAT
34310841 GGTTAAAATGATAAAAT
1 GGTTAAAATGATAAAAT
34310858 AATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
GGTTAAAATGATAAAAT
Found at i:34310863 original size:17 final size:17
Alignment explanation
Indices: 34310826--34310866 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
34310816 TTATTAAAGG
* **
34310826 TTAAAATGGTAAAATGG
1 TTAAAATGATAAAATAA
34310843 TTAAAATGATAAAATAA
1 TTAAAATGATAAAATAA
34310860 TTAAAAT
1 TTAAAAT
34310867 AAAGCCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (17 bp):
TTAAAATGATAAAATAA
Found at i:34311801 original size:43 final size:43
Alignment explanation
Indices: 34311711--34311878 Score: 144
Period size: 43 Copynumber: 3.9 Consensus size: 43
34311701 TACCGAGAGG
* * * * *
34311711 TGATTACATGTAAGACCATGTATGGGACATTGGCATTG-TATTG
1 TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGTTA-TA
* * *
34311754 TGATTACTTGTAAGACTATGTCTAGGACATTGGCATCGTTATA
1 TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGTTATA
* * * * *
34311797 TGATTTCGTATAAGATCCTA--TCTGGGACAGTGGCATCGATACA
1 TGATTACATGTAAGA--CTATGTCTGGGACAGTGGCATCGTTATA
* * *
34311840 TGATAACATGTAAGACTCTATCTGGGACAGTGGCATCGT
1 TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGT
34311879 ACGAGTTATT
Statistics
Matches: 101, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
43 94 0.93
44 2 0.02
45 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACTATGTCTGGGACAGTGGCATCGTTATA
Found at i:34319596 original size:206 final size:204
Alignment explanation
Indices: 34319151--34319641 Score: 743
Period size: 206 Copynumber: 2.4 Consensus size: 204
34319141 CTTCAATTCA
* * *
34319151 TTCTCTAACAATACAGAGATGACAAATCATCTTAGACTTACTTCATCGTAAGCACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGA-TTTCTTCATCGTAAACACGTGAAAGCCA
* *
34319216 AATCAGCTATGTCTTTGATTTGTTCATTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTT
65 AATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGAATGCAAAATCATCTTGGATCTGCTT
* * * *
34319281 CAGCATAATCATCTAAAAGTGAGATCTGCTGTGTATCTGCTCTCCATTAAAGTGGAGATGCCGGA
130 CAGCATAATCATCTAAAAGTGAGACCTGCTATGTATCTGCTCCCCATTAAAGTGGAGATGCCAGA
34319346 CTTCGATTTG
195 CTTCGATTTG
34319356 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTT-CTTCATCGTAAACACGTGAAAGCCA
* * *
34319421 AATCAGCTATGTCTTCGATTTGTTCCTTGTAAGTACAAGGATGCAAAATCATCTTGGATCTTGCT
65 AATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGAATGCAAAATCATCTTGGATC-TGCT
* * * *
34319486 TCAGTC-TAATCGTCTGAAGGTCG-GACCTGCTATGTATCTGCTCCCCATTGAAGTGGAGATGCC
129 TCAG-CATAATCATCTAAAAGT-GAGACCTGCTATGTATCTGCTCCCCATTAAAGTGGAGATGCC
34319549 AGACTTCGATTTG
192 AGACTTCGATTTG
* *
34319562 TTCTCTGACAATACAGAGACGACAAATCATCTTAGAATTTCTTCATCGTAAACACATGAAAGCCA
1 TTCTCTGACAATACAGAGATGACAAATCATCTTAG-ATTTCTTCATCGTAAACACGTGAAAGCCA
*
34319627 AATCAGCTATATCTT
65 AATCAGCTATGTCTT
34319642 TGTTCTGCTC
Statistics
Matches: 262, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
204 2 0.01
205 114 0.44
206 140 0.53
207 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (204 bp):
TTCTCTGACAATACAGAGATGACAAATCATCTTAGATTTCTTCATCGTAAACACGTGAAAGCCAA
ATCAGCTATGTCTTCGATTTGTTCATTGTAAGCACAAGAATGCAAAATCATCTTGGATCTGCTTC
AGCATAATCATCTAAAAGTGAGACCTGCTATGTATCTGCTCCCCATTAAAGTGGAGATGCCAGAC
TTCGATTTG
Found at i:34327760 original size:15 final size:14
Alignment explanation
Indices: 34327718--34327767 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
34327708 ATGACTTTGA
*
34327718 ATGCAAATGATGTG
1 ATGCAAATGATGAG
34327732 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
34327747 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
34327761 ATGCAAA
1 ATGCAAA
34327768 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:34330986 original size:39 final size:40
Alignment explanation
Indices: 34330941--34331112 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
34330931 GCTCCTCGTT
* * *
34330941 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
34330981 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
34331020 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
34331060 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
34331100 CAAATGCCTTCGG
1 CAAATGCCTTCGG
34331113 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34331041 original size:40 final size:39
Alignment explanation
Indices: 34330943--34331165 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
34330933 TCCTCGTTCA
* * * *
34330943 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
34330982 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
34331021 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
34331061 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
34331101 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
34331142 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34331166 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:34331125 original size:80 final size:79
Alignment explanation
Indices: 34330941--34331165 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
34330931 GCTCCTCGTT
* * * * *
34330941 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
34331005 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
34331020 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
34331085 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
34331100 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
34331164 GA
63 GA
34331166 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:34331174 original size:41 final size:41
Alignment explanation
Indices: 34331097--34331174 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34331087 TTTGTATCTC
* * *
34331097 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34331138 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34331175 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34338952 original size:40 final size:40
Alignment explanation
Indices: 34338854--34339156 Score: 380
Period size: 40 Copynumber: 7.6 Consensus size: 40
34338844 TCCTCGTTCA
* * * ** *
34338854 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34338893 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34338933 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
34338973 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
34339013 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
34339053 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
34339093 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
34339133 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34339157 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:34348994 original size:24 final size:24
Alignment explanation
Indices: 34348944--34349007 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
34348934 TTTGAATACC
* *
34348944 CACACGGGCTGGGACACGGGTAAA
1 CACACGGGCTGGGACACGAGCAAA
**
34348968 CACACGGGCTGGGACACGAGCGGA
1 CACACGGGCTGGGACACGAGCAAA
*
34348992 CACACGGGCTGAGACA
1 CACACGGGCTGGGACA
34349008 TAACCGTGTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.28, C:0.28, G:0.38, T:0.06
Consensus pattern (24 bp):
CACACGGGCTGGGACACGAGCAAA
Found at i:34349048 original size:18 final size:18
Alignment explanation
Indices: 34349025--34349063 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
34349015 GTGACCCCTA
34349025 TTTTCC-AAATTTTCATGT
1 TTTTCCAAAATTTTC-TGT
34349043 TTTTCCAAAATTTTCTGT
1 TTTTCCAAAATTTTCTGT
34349061 TTT
1 TTT
34349064 GTTTCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.21, C:0.15, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTCCAAAATTTTCTGT
Found at i:34356447 original size:16 final size:16
Alignment explanation
Indices: 34356398--34356449 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
34356388 AAACTAAGTT
*
34356398 AAATTAAT-TAAATGTA
1 AAATTAATCTAAATG-C
**
34356414 AAATTAATCCCGAATGC
1 AAATTAAT-CTAAATGC
34356431 AAATTAATCTAAATGC
1 AAATTAATCTAAATGC
34356447 AAA
1 AAA
34356450 GTATGATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 17 0.59
17 8 0.28
18 4 0.14
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (16 bp):
AAATTAATCTAAATGC
Found at i:34364492 original size:210 final size:210
Alignment explanation
Indices: 34364242--34364825 Score: 629
Period size: 210 Copynumber: 2.8 Consensus size: 210
34364232 GCAATGGGAA
* * * * *
34364242 GAAGCAACAAGCTTGCTCAATAGAATGATGAATGAAGGAGTCCATCCTGATGTTGTGACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* ** * ** *
34364307 TTCTTTAATCAATGCTTTATGCAAGGAAAAGAGGACTTCAGAAGCCTTTACTGTGTTGGAATTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
*
34364372 TGA-TACAGAGAAATGTAAAACCTAACGTTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
131 TGAGT-CAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAG
34364436 TTCGGGCAAATGGACG
195 TTCGGGCAAATGGACG
*
34364452 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCTTGATGTAGTAACTTTCAA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
34364517 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
66 TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
** * * * ** * *
34364582 TGAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTG-GATTGTGCAA
131 TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAG-TTTTGCAG
* ** * *
34364646 TTCAGATAAACGTG-CA
195 TTCGGGCAAATG-GACG
* * * * * * * * * * * * * *
34364662 GAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGATATGGAAACTTT-AA
1 GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
* * * * * * *
34364726 GATCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACT
66 -TTCTTTAATCAATGCCTTATGCAAGGAAAA-GAGGACTGAAGAAGCCATTACCATGTTGGAACT
* *
34364790 AATGAGTCAGAGAAATGTAATACCTGACATTGTCAC
129 AATGAGTCAGAGAAATGTAAAACCTAACATTGTCAC
34364826 CTACTGCTTT
Statistics
Matches: 315, Mismatches: 54, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
209 3 0.01
210 307 0.97
211 5 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (210 bp):
GAAGCAACAACCGTGCTCAATAGAATGATGAATGAAGGAGTACATCCTGATGTAGTAACTTTCAA
TTCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAA
TGAGTCAGAGAAATGTAAAACCTAACATTGTCACATACAATTGTTTAATATATGAGTTTTGCAGT
TCGGGCAAATGGACG
Found at i:34364887 original size:210 final size:206
Alignment explanation
Indices: 34364518--34365093 Score: 627
Period size: 210 Copynumber: 2.8 Consensus size: 206
34364508 AACTTTCAAT
* * *
34364518 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
** *
34364583 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
*
34364648 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
130 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT---GGAGTCCAGCCTGAT
*
34364713 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* *
34364728 TCTTTAATCAATGCTTTGTACAAGGAAAACAAGTA-TGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAA-AAG-ACTGAAGAAGCCATTACCATGTTGGAACTAA
* ** * * *
34364792 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
64 TGAGTCAGAGAAATGTAAAACCTGACATTGTCACCTAC-AATTGTTTAATACGTGGATTGTGCAA
* * ** ** * *
34364856 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATG
128 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATA
*
34364921 TGGAAACCTTAAGC
193 TGGAAACCTTAAGA
* * * * *** *
34364935 TCTTTAATCAATGCTTTGTGGAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGT-GCAAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * * * * * *
34365000 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
65 GAGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATT
* * * *
34365065 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
130 CA-GATAAACGTGCAGAAGCCACAAGCTTG
34365094 CTTAGTAAGA
Statistics
Matches: 303, Mismatches: 57, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
206 3 0.01
207 140 0.46
208 8 0.03
210 149 0.49
211 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAGACTGAAGAAGCCATTACCATGTTGGAACTAATG
AGTCAGAGAAATGTAAAACCTGACATTGTCACCTACAATTGTTTAATACGTGGATTGTGCAATTC
AGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:34365034 original size:207 final size:206
Alignment explanation
Indices: 34364518--34365093 Score: 629
Period size: 207 Copynumber: 2.8 Consensus size: 206
34364508 AACTTTCAAT
* * * * *
34364518 TCTTTAATCAATGCCTTATGCAAGGAAAAGAGGACTGAAGAAGCCATTACCATGTTGGAACTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * *
34364583 GAGTCAGAGAGGTGTAAAACCTGACATTGTGACCTACAATTGTTTAATACGTGGATTGTGCAATT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
*
34364648 CAGATAAACGTGCAGAAGCCACAAGCTTGTTTAGTAGGATGTTGAATGGAGGAGTCCAGCCTGAT
129 CAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAAT-G-GGAGTCCAGCCTGAT
*
34364713 ATGGAAACTTTAAGA
192 ATGGAAACCTTAAGA
* * *
34364728 TCTTTAATCAATGCTTTGTACAAGGAAAACAAG-TATGAAGAAGCCATTAGCATGTTGGAACTAA
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGAT-TGAAGAAGCCATTACCATGTTGGAACTAA
* * * *
34364792 TGAGTCAGAGAAATGTAATACCTGACATTGTCACCTACTGCTT-TTTAATACTTGGATTGTGGAG
65 TGAGTCAGAGAGATGTAA-ACCTGACATTGTCACCTAC-G-TTGTTTAATACATGGATTGTGCAA
* * ** ** *
34364856 TTTAGGTAATTGTGCAGAAGTGACTAGCTTGTATAGTAGGATGTTGAAT-GGAGTCCAGCCTGAT
127 TTCAGATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGAT
* *
34364920 GTGGAAACCTTAAGC
192 ATGGAAACCTTAAGA
* * * *** *
34364935 TCTTTAATCAATGCTTTGTGGAAAGAAAAAAAGATTGAAGAAGCCATTACCTTGTACAAATTAAT
1 TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
* * * * * *
34365000 GATTCAGAGAGATCTGAAACCAGACATCGTCACCTACAGTTGTTTAATACATGGATTATGCAAAT
66 GAGTCAGAGAGATGT-AAACCTGACATTGTCACCTAC-GTTGTTTAATACATGGATTGTGCAATT
* * * *
34365065 CAGGA-CAATGTGGAGAAGCAACAAGCTTG
129 CA-GATAAACGTGCAGAAGCCACAAGCTTG
34365094 CTTAGTAAGA
Statistics
Matches: 304, Mismatches: 55, Indels: 17
0.81 0.15 0.05
Matches are distributed among these distances:
206 2 0.01
207 147 0.48
208 4 0.01
209 2 0.01
210 147 0.48
211 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (206 bp):
TCTTTAATCAATGCTTTGTGCAAGGAAAAAAAGATTGAAGAAGCCATTACCATGTTGGAACTAAT
GAGTCAGAGAGATGTAAACCTGACATTGTCACCTACGTTGTTTAATACATGGATTGTGCAATTCA
GATAAACGTGCAGAAGCCACAAGCTTGTATAGTAGGATGTTGAATGGGAGTCCAGCCTGATATGG
AAACCTTAAGA
Found at i:34365274 original size:38 final size:38
Alignment explanation
Indices: 34365232--34365309 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
34365222 CGTGAAGCCG
*
34365232 AATGAATTTACTTACAGGATAATGATTGAAGAAGTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
* *
34365270 AATGAATTTACTTACAGGGTAATGATCGAAGAGGTGTA
1 AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
34365308 AA
1 AA
34365310 GCCATTACCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.29
Consensus pattern (38 bp):
AATGAATTTACTTACAGGATAATGATCGAAGAAGTGTA
Found at i:34367815 original size:22 final size:23
Alignment explanation
Indices: 34367790--34367849 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
34367780 TGGACTGAAT
34367790 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
34367812 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
34367834 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
34367850 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:34367817 original size:4 final size:4
Alignment explanation
Indices: 34367799--34367832 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
34367789 TATAAAAATT
34367799 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
34367833 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:34375281 original size:19 final size:18
Alignment explanation
Indices: 34375252--34375291 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
34375242 GTATATATTT
34375252 TAAATTTATTTAGGTAGA
1 TAAATTTATTTAGGTAGA
34375270 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
34375289 TAA
1 TAA
34375292 GTTTTATCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.40, C:0.03, G:0.15, T:0.42
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:34375298 original size:19 final size:19
Alignment explanation
Indices: 34375252--34375298 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
34375242 GTATATATTT
34375252 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34375270 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
34375289 TAAGTTTTAT
1 TAAATTTTAT
34375299 CCATATTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:34375374 original size:42 final size:42
Alignment explanation
Indices: 34375308--34375404 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
34375298 TCCATATTCT
* * *
34375308 AGGAA-TATTTTTATTTTATCTTTTAGTAGTTTATTAGGACAA
1 AGGAACTA-TTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
* *
34375350 GGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAATAA
1 AGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
34375392 AGGAACTATTTTC
1 AGGAACTATTTTC
34375405 CCAATTAGGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
42 46 0.96
43 2 0.04
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.48
Consensus pattern (42 bp):
AGGAACTATTTTCTTTTATATTTTAGTAGTTTATTAGAACAA
Found at i:34379677 original size:19 final size:19
Alignment explanation
Indices: 34379653--34379689 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
34379643 TATTTTAAAG
34379653 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
34379672 TTATTTAGGTAGATAAAT
1 TTATTTAGGTAGATAAAT
34379690 ATTAGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.16, T:0.43
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:34379776 original size:41 final size:41
Alignment explanation
Indices: 34379731--34379810 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
34379721 ATATTTTATT
*
34379731 TTATCTTTTAATAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
*
34379772 TTATCTTTTAGTAGTTTATTAAAATAAGGGAATTATTTT
1 TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTT
34379811 TCCAATTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (41 bp):
TTATCTTTTAATAGTTTATTAAAATAAGGGAATTATTTTCC
Found at i:34383511 original size:19 final size:19
Alignment explanation
Indices: 34383487--34383527 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
34383477 TATTTTAAAG
34383487 TTATTTAGGTAAATAAATC
1 TTATTTAGGTAAATAAATC
*
34383506 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAAATAAATC
34383525 TTA
1 TTA
34383528 GAATAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAAATAAATC
Found at i:34383620 original size:40 final size:40
Alignment explanation
Indices: 34383576--34383653 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
34383566 TATCTTTTAA
34383576 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
1 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
34383616 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
1 ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTC
34383654 CCAATTAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.49
Consensus pattern (40 bp):
ATCTTTTAGTAGTTTATTAGAATAAGAGAATTATTTTCTT
Found at i:34392301 original size:18 final size:18
Alignment explanation
Indices: 34392278--34392313 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34392268 ACAACTACTC
34392278 TATTTAACATATAAAACA
1 TATTTAACATATAAAACA
34392296 TATTTAACATATAAAACA
1 TATTTAACATATAAAACA
34392314 AAGGTCTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (18 bp):
TATTTAACATATAAAACA
Found at i:34409428 original size:152 final size:154
Alignment explanation
Indices: 34409160--34409447 Score: 476
Period size: 152 Copynumber: 1.9 Consensus size: 154
34409150 AAAATTAAAT
*
34409160 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGCTGAAAAAG
1 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAG
34409225 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAAACATATTTTTAT
66 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACT-AAAAAACATATTTTTAT
34409290 TTT-CAAAATCTAAAATTTCTATTC
130 TTTACAAAATCTAAAATTTCTATTC
* * *
34409314 TTTT-TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAA-TTTATTTTAAAATAGTTGAAAAAG
1 TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAG
* * *
34409377 ATCAAAACTTTGTTTTAAGAA-TTTAAACTTTTCCTTTAATATGACTAAAAAACATATTTTTATT
66 ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAACATATTTTTATT
34409441 TTACAAA
131 TTACAAA
34409448 TATAAACTTT
Statistics
Matches: 126, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
150 20 0.16
151 27 0.21
152 41 0.33
153 34 0.27
154 4 0.03
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (154 bp):
TTTTCTTTAAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCAAAATAGCTGAAAAAG
ATCAAAACTTTGTTTTAAAAATTTTAAAATTTTCCTTTAAAATGACTAAAAAACATATTTTTATT
TTACAAAATCTAAAATTTCTATTC
Found at i:34410340 original size:42 final size:42
Alignment explanation
Indices: 34410284--34410665 Score: 405
Period size: 42 Copynumber: 9.2 Consensus size: 42
34410274 CTTCATATAC
*
34410284 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * * **
34410326 AATGCAATGGAAAGTAAATGAACCTCCACACCTGGGTTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * * *
34410368 AATGCAATGAAAAATAAATGAAAACCTCCACACCTGGGTCTCTA
1 AATGCAATGAAAAGTAAATG--GACCTCCACACTTGGGCCTCTA
* * * *
34410412 ACTGCAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* ** *
34410454 AATGCAATGAAAAGTAAATGGAACTCCACACTTAAGCCTCGA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* *
34410496 AATGCAATAAAAAGTAAATGGACCTCCACACTTGGGCCGCT-
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* **
34410537 -ATGCAATGAAACGTAAATGGACCTTTACACTTGGG---CTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * * * *
34410575 AATGCAATAAAAAATAAATGGACTTCTACGCTTGGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
* * *** *
34410617 AATGTAATGAAAAGTGAATGGACCTCCACACCAAGACCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
34410659 AATGCAA
1 AATGCAA
34410666 CGAAGGTTTT
Statistics
Matches: 284, Mismatches: 49, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
37 2 0.01
39 29 0.10
40 31 0.11
42 184 0.65
44 38 0.13
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTA
Found at i:34410514 original size:128 final size:125
Alignment explanation
Indices: 34410285--34410596 Score: 357
Period size: 128 Copynumber: 2.5 Consensus size: 125
34410275 TTCATATACA
* *
34410285 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTTTAAATGCAATGGAAAGTAAAT-GAAC
1 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGAAC
** ** * * *
34410349 CTCCACACCTGGGTTTCTAAATGCAATGAAAAATAAATGAAAACCTCCACACCTGGGTCTCT
66 CTCCACACCTAAGCCTCGAAATGCAATGAAAAATAAATG--AACCTCCACACCTGGGCCGCT
* * *
34410411 AACTGCAATGAAAAGTGAATGAACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
1 -A-TGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
* * *
34410476 A-CTCCACACTTAAGCCTCGAAATGCAAT-AAAAAGTAAATGGACCTCCACACTTGGGCCGCT
64 ACCTCCACACCTAAGCCTCGAAATGCAATGAAAAA-TAAATGAACCTCCACACCTGGGCCGCT
* ** * *
34410537 ATGCAATGAAACGTAAATGGACCTTTACACTTGGG---CTAAATGCAATAAAAAATAAATGGA
1 ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGA
34410597 CTTCTACGCT
Statistics
Matches: 159, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
121 23 0.14
124 28 0.18
125 1 0.01
126 17 0.11
127 6 0.04
128 81 0.51
129 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (125 bp):
ATGCAATGAAAAGTAAATGGACCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGAAC
CTCCACACCTAAGCCTCGAAATGCAATGAAAAATAAATGAACCTCCACACCTGGGCCGCT
Found at i:34410593 original size:39 final size:39
Alignment explanation
Indices: 34410493--34410611 Score: 132
Period size: 40 Copynumber: 3.0 Consensus size: 39
34410483 ACTTAAGCCT
**
34410493 CGAAATGCAATAAAAAGTAAATGGACCTCCACACTTGGG
1 CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
** * *
34410532 CCGCTATGCAATGAAACGTAAATGGACCTTTACACTTGGG
1 -CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
* * *
34410572 CTAAATGCAATAAAAAATAAATGGA-CTTCTACGCTTGGG
1 CGAAATGCAATAAAAAGTAAATGGACCTT-TACACTTGGG
34410611 C
1 C
34410612 CTCTAAATGT
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
38 3 0.05
39 29 0.45
40 33 0.51
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (39 bp):
CGAAATGCAATAAAAAGTAAATGGACCTTTACACTTGGG
Found at i:34411108 original size:21 final size:20
Alignment explanation
Indices: 34411057--34411134 Score: 77
Period size: 21 Copynumber: 3.8 Consensus size: 20
34411047 TCTTTATTAT
* *
34411057 TTTTTTCTTTCTTTTCTTTTG
1 TTTTTTGTTTTTTTTC-TTTG
*
34411078 TTTTTGGTTTTTTTTCTTTG
1 TTTTTTGTTTTTTTTCTTTG
34411098 TTTTATTGTTTTTTCTTTCTTT-
1 TTTT-TTG-TTTTT-TTTCTTTG
*
34411120 TTTTGTGTTTTTTTT
1 TTTTTTGTTTTTTTT
34411135 ATTTAGGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.06
20 13 0.27
21 17 0.35
22 9 0.18
23 7 0.14
ACGTcount: A:0.01, C:0.08, G:0.09, T:0.82
Consensus pattern (20 bp):
TTTTTTGTTTTTTTTCTTTG
Found at i:34416482 original size:27 final size:28
Alignment explanation
Indices: 34416445--34416584 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
34416435 AGCATGGCTG
* *
34416445 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
34416471 CCAGATACAGATA-ATTGTGGCAGAGCCA
1 CCAGATACAGATATA-TGTGGCAGAGCCA
34416499 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
34416526 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
34416553 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
34416580 CCAGA
1 CCAGA
34416585 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:34423018 original size:25 final size:26
Alignment explanation
Indices: 34422973--34423021 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
34422963 TGATATATAT
34422973 AAATATTAATGTTTTTACTATTTGAA
1 AAATATTAATGTTTTTACTATTTGAA
34422999 AAATATTATAT-TTTTT-CTATTTG
1 AAATATTA-ATGTTTTTACTATTTG
34423022 TTTGTCTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 7 0.32
26 13 0.59
27 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (26 bp):
AAATATTAATGTTTTTACTATTTGAA
Found at i:34425086 original size:30 final size:30
Alignment explanation
Indices: 34425052--34425114 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
34425042 ACTTATTTTA
34425052 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
34425082 TTGTTAGTTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
34425112 TTG
1 TTG
34425115 ATTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:34425258 original size:12 final size:12
Alignment explanation
Indices: 34425237--34425270 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34425227 TATATTTTTT
*
34425237 AAAATTATATAA
1 AAAATAATATAA
34425249 AAAATAATATAA
1 AAAATAATATAA
*
34425261 AAATTAATAT
1 AAAATAATAT
34425271 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:34425993 original size:21 final size:21
Alignment explanation
Indices: 34425958--34426007 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
34425948 AAATTAAATT
*
34425958 TAATATTTTTCATAA-AGATAAA
1 TAATA-TTATCATAAGA-ATAAA
34425980 TAATATTATCATAAGAATAAA
1 TAATATTATCATAAGAATAAA
*
34426001 TATTATT
1 TAATATT
34426008 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (21 bp):
TAATATTATCATAAGAATAAA
Found at i:34428729 original size:194 final size:185
Alignment explanation
Indices: 34428434--34428906 Score: 614
Period size: 194 Copynumber: 2.5 Consensus size: 185
34428424 AACCTTTTCA
34428434 ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
1 ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
* * ***
34428499 CCGGGCGAAGCCATCCATGA-AGAATAAATGTTGTTTCATTTTTAATAA-TAAAAGAAAATTTTT
66 CCGGGCGAAGCCATCCAT-ACAGAATAAATGTTGTTTCATTTTTAATAACAAAAAAAAAAAAATT
* * *
34428562 GGTTTTTTGCACATTTTGCTACATTTTTCAAAATTAATAAAGCTATAAATATAAATGTAAAA-GC
130 GG-TTTCTGCACA-TTT--TAC-TATTT----A--AAT--AGCTATAAATAAAAATGTAAAATGC
34428626 TATT
182 TATT
34428630 -C-TGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
1 ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
*** *
34428693 CCGGGCGAAGCCATCCATACAGAATGTGTTTTGTTTCATTTTTAATAACCAAAAAAAAAAAAATT
66 CCGGGCGAAGCCATCCATACAGAATAAATGTTGTTTCATTTTTAATAA-CAAAAAAAAAAAAATT
* *
34428758 GGTTTCTGCACATTTTACTATTTACATAGCTATAAATAAAAATGTAAAATGCTTTT
130 GGTTTCTGCACATTTTACTATTTAAATAGCTATAAATAAAAATGTAAAATGCTATT
34428814 CAACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGA
1 --ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGA
* *
34428879 GTCCGCGCGAAGCCATCCATGCAGAATA
64 GTCCGGGCGAAGCCATCCATACAGAATA
34428907 TCACAAAGAA
Statistics
Matches: 252, Mismatches: 17, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
183 21 0.08
184 5 0.02
185 2 0.01
187 2 0.01
188 85 0.34
191 4 0.02
192 3 0.01
193 1 0.00
194 107 0.42
195 10 0.04
196 12 0.05
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (185 bp):
ACGTGGTTTCGTGGTGTAGTTGGTTATCACGTCAGTCTAACACACTGAAGGTCTCCGGTTCGAGT
CCGGGCGAAGCCATCCATACAGAATAAATGTTGTTTCATTTTTAATAACAAAAAAAAAAAAATTG
GTTTCTGCACATTTTACTATTTAAATAGCTATAAATAAAAATGTAAAATGCTATT
Found at i:34430160 original size:19 final size:20
Alignment explanation
Indices: 34430136--34430183 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
34430126 TACTTAAATT
34430136 TTTTATTTAT-A-TATTTTAA
1 TTTTATTTATGAGTATTTT-A
34430155 TTTTA-TTATGAGTATTTTA
1 TTTTATTTATGAGTATTTTA
*
34430174 TTATATTTAT
1 TTTTATTTAT
34430184 TTTATATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 4 0.16
19 11 0.44
20 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTATTTATGAGTATTTTA
Found at i:34430245 original size:22 final size:22
Alignment explanation
Indices: 34430220--34430263 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34430210 TCTAATTGAG
34430220 TTGGTGTCATGAGTGCTAAGAA
1 TTGGTGTCATGAGTGCTAAGAA
34430242 TTGGTGTCATGAGTGCTAAGAA
1 TTGGTGTCATGAGTGCTAAGAA
34430264 CCAATCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (22 bp):
TTGGTGTCATGAGTGCTAAGAA
Found at i:34439983 original size:21 final size:21
Alignment explanation
Indices: 34439958--34440023 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 21
34439948 AGAAAACATA
34439958 AAAATAAAAAAAATATTTTTT
1 AAAATAAAAAAAATATTTTTT
*
34439979 AAAATGAAAATTATAA-ATTTTTT
1 AAAAT-AAAA--AAAATATTTTTT
* * *
34440002 AAAA-AATATAAATAATTTTT
1 AAAATAAAAAAAATATTTTTT
34440022 AA
1 AA
34440024 CCAGATTCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
19 2 0.06
20 8 0.22
21 8 0.22
22 4 0.11
23 11 0.31
24 3 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAAATAAAAAAAATATTTTTT
Found at i:34450053 original size:18 final size:18
Alignment explanation
Indices: 34450010--34450053 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
34450000 AGTGAAATTT
*
34450010 ATATGAAAATCCCTGAAGA
1 ATAT-AAAATCCCAGAAGA
* *
34450029 ATTTAAAATCCCAGAAGG
1 ATATAAAATCCCAGAAGA
34450047 ATATAAA
1 ATATAAA
34450054 GTTTCTCGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (18 bp):
ATATAAAATCCCAGAAGA
Found at i:34457433 original size:20 final size:20
Alignment explanation
Indices: 34457403--34457459 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
34457393 TGTTGGAATA
*
34457403 TCCTTTTCATTTTCCTTTTT
1 TCCTCTTCATTTTCCTTTTT
*
34457423 TCAC-CTTCATTTTCTTTTTT
1 TC-CTCTTCATTTTCCTTTTT
34457443 TCCTCTTCATTTTCCTT
1 TCCTCTTCATTTTCCTT
34457460 GACTTTCATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.07, C:0.28, G:0.00, T:0.65
Consensus pattern (20 bp):
TCCTCTTCATTTTCCTTTTT
Found at i:34462488 original size:43 final size:43
Alignment explanation
Indices: 34462364--34462523 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 43
34462354 TTACGTGTTA
* *
34462364 TCATGTAAGACCACGTCTGGGACATTGGCATCGACT-TATGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGA-TATTTGATT
* *
34462407 TACGTGTAAGACCATGCCTGGGACATTGGCATCG-TATTTGATT
1 T-CATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * *
34462450 TCATGTAAGACCCTGTCTGGGACAGTGTCATCGATATTTGATT
1 TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
* * **
34462493 ACATGTAAGACAATGTCTGGGATGTTGGCAT
1 TCATGTAAGACCATGTCTGGGACATTGGCAT
34462524 TGTATGAGTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
42 28 0.29
43 41 0.42
44 29 0.30
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
TCATGTAAGACCATGTCTGGGACATTGGCATCGATATTTGATT
Found at i:34468520 original size:6 final size:6
Alignment explanation
Indices: 34468509--34468535 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34468499 AAAAGAAGAG
34468509 AAACCC AAACCC AAACCC AAACCC AAA
1 AAACCC AAACCC AAACCC AAACCC AAA
34468536 TAGGCCGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCC
Found at i:34470195 original size:27 final size:27
Alignment explanation
Indices: 34470165--34470218 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
34470155 TATGTCTATT
34470165 TCTGATTGTAACATAGCCATGGGTTTC
1 TCTGATTGTAACATAGCCATGGGTTTC
34470192 TCTGATTGTAACATAGCCATGGGTTTC
1 TCTGATTGTAACATAGCCATGGGTTTC
34470219 GTTGACCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (27 bp):
TCTGATTGTAACATAGCCATGGGTTTC
Found at i:34471547 original size:8 final size:7
Alignment explanation
Indices: 34471516--34471543 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
34471506 CTCGAATTCG
34471516 TAAAAAA
1 TAAAAAA
34471523 TAAAAAA
1 TAAAAAA
34471530 TAAAAAA
1 TAAAAAA
34471537 TAAAAAA
1 TAAAAAA
34471544 ATAACATGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:34474693 original size:21 final size:21
Alignment explanation
Indices: 34474669--34474715 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
34474659 TTAAATTTTG
34474669 AAAATTG-GTTTTTAAAAATAA
1 AAAATTGCGTTTTTAAAAA-AA
* * *
34474690 AAAAATGCTTTTTTTAAAAAA
1 AAAATTGCGTTTTTAAAAAAA
34474711 AAAAT
1 AAAAT
34474716 CTCAATTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (21 bp):
AAAATTGCGTTTTTAAAAAAA
Found at i:34475777 original size:17 final size:18
Alignment explanation
Indices: 34475745--34475779 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34475735 AGGTTTAGGT
*
34475745 TTAAATTTTTTTAATTAA
1 TTAAATTTTTTAAATTAA
34475763 TTAAA-TTTTTAAATTAA
1 TTAAATTTTTTAAATTAA
34475780 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTTTTTAAATTAA
Found at i:34478205 original size:21 final size:21
Alignment explanation
Indices: 34478172--34478211 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34478162 ACCTTAAACC
*
34478172 TTAAGATTTAGGGCTCAAGGT
1 TTAAGATTCAGGGCTCAAGGT
* *
34478193 TTAAGGTTCAGGGTTCAAG
1 TTAAGATTCAGGGCTCAAG
34478212 TTCAAGTCCG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.10, G:0.30, T:0.33
Consensus pattern (21 bp):
TTAAGATTCAGGGCTCAAGGT
Found at i:34483977 original size:44 final size:44
Alignment explanation
Indices: 34483923--34484020 Score: 151
Period size: 44 Copynumber: 2.2 Consensus size: 44
34483913 GGTTTAGGAA
* *
34483923 TTGTCACTTCGATCCAATCCATTGCAACTTCAGGGAGATAAGAC
1 TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
* * *
34483967 TTGTAGCTTCGATCCACTTCACTGCAACTTCAGGGAGATAAGAC
1 TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
34484011 TTGTAACTTC
1 TTGTAACTTC
34484021 AATCTGCTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
TTGTAACTTCGATCCAATCCACTGCAACTTCAGGGAGATAAGAC
Found at i:34484041 original size:44 final size:44
Alignment explanation
Indices: 34483945--34484421 Score: 266
Period size: 44 Copynumber: 10.7 Consensus size: 44
34483935 TCCAATCCAT
* * **
34483945 TGCAACTTCAGGGAGATAAGACTTGTAGCTTCGATCCACTTCAC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
*
34483989 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCGC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
* * * ** * *
34484033 TGCTACTTCAGGGAGATGAGATTTGTGTCTTCAATTTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
* * * * *
34484077 TGCAACCTCAGGGAGATAA-AATGTGTAGCTGT-AATTTGC-TCTGC
1 TGCAACTTCAGGGAGATAAGACT-TGTAACT-TCAATCTGCTTC-AC
*** * ** * *
34484121 TGCAACTTCAAAAAGATAAGATTTGTTATTTTTAACCTGCTTCAC
1 TGCAACTTCAGGGAGATAAGACTTG-TAACTTCAATCTGCTTCAC
* * ** * *
34484166 TGCAATTTTAGGGAGATAAGGTTTG-AGTCTTTAATCTG-TTCCAC
1 TGCAACTTCAGGGAGATAAGACTTGTA-ACTTCAATCTGCTT-CAC
** * *
34484210 TGCAACTTCAAAGAGATAAGATTTGTAGCCCGTCTTCAATCTGC-TCTAC
1 TGCAACTTCAGGGAGATAAGACTTGTA-----ACTTCAATCTGCTTC-AC
* * * * *
34484259 TGCAACTTCAGGGTGATTAGACTTGTAGCTTAAATCTGCTCCAC
1 TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
* * * * ** * *
34484303 TACAACTTTAGGGAGATAAGATTTGCTATCTTTGATTTAC-TCTAC
1 TGCAACTTCAGGGAGATAAGACTTG-TAACTTCAATCTGCTTC-AC
* * * * * * * *
34484348 TGCAACTTCAGTGAGATAAGATTTTCTATCTTCGATTTACTCCAC
1 TGCAACTTCAGGGAGATAAGA-CTTGTAACTTCAATCTGCTTCAC
34484393 TGCAACTTCAGGGAGATAAGACTTGTAAC
1 TGCAACTTCAGGGAGATAAGACTTGTAAC
34484422 ACCCCCTAAC
Statistics
Matches: 338, Mismatches: 74, Indels: 42
0.74 0.16 0.09
Matches are distributed among these distances:
43 6 0.02
44 192 0.57
45 97 0.29
46 6 0.02
48 1 0.00
49 36 0.11
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCAC
Found at i:34484143 original size:88 final size:88
Alignment explanation
Indices: 34483986--34484368 Score: 209
Period size: 89 Copynumber: 4.3 Consensus size: 88
34483976 CGATCCACTT
* * * *** *
34483986 CACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTTCGCTGCTACTTCAGGGAGATG
1 CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
34484051 AGATTTGTGTCTTCAATTTGCTC
66 AGATTTGTGTCTTCAATTTGCTC
* *
34484074 CACTGCAACCTCAGGGAGATAA-AATGTGTAGCTGT-AATTTGC-TCTGCTGCAACTTCAAAAAG
1 CACTGCAACCTCAGGGAGATAAGAAT-TGTAACT-TCAATCTGCTTC-GCTGCAACTTCAAAAAG
* * * ** *
34484136 ATAAGATTTGTTATTTTTAACCTGCTT
63 ATAAGATTTG-TGTCTTCAATTTGCTC
** * ** * * * *
34484163 CACTGCAATTTTAGGGAGATAAGGTTTG-AGTCTTTAATCTG-TTCCACTGCAACTTCAAAGAGA
1 CACTGCAACCTCAGGGAGATAAGAATTGTA-ACTTCAATCTGCTT-CGCTGCAACTTCAAAAAGA
*
34484226 TAAGATTTGTAGCCCGTCTTCAATCTGCTC
64 TAAGATTTGT-----GTCTTCAATTTGCTC
* * * * * * * * * * * ***
34484256 TACTGCAACTTCAGGGTGATTAGACTTGTAGCTTAAATCTGCTCCACTACAACTTTAGGGAGATA
1 CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
* ** *
34484321 AGATTTGCTATCTTTGATTTACTC
66 AGATTTG-TGTCTTCAATTTGCTC
* * *
34484345 TACTGCAACTTCAGTGAGATAAGA
1 CACTGCAACCTCAGGGAGATAAGA
34484369 TTTTCTATCT
Statistics
Matches: 227, Mismatches: 51, Indels: 33
0.73 0.16 0.11
Matches are distributed among these distances:
87 4 0.02
88 58 0.26
89 96 0.42
90 2 0.01
93 64 0.28
94 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (88 bp):
CACTGCAACCTCAGGGAGATAAGAATTGTAACTTCAATCTGCTTCGCTGCAACTTCAAAAAGATA
AGATTTGTGTCTTCAATTTGCTC
Found at i:34484285 original size:49 final size:49
Alignment explanation
Indices: 34484192--34484287 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 49
34484182 TAAGGTTTGA
* * *
34484192 GTCTTTAATCTGTTCCACTGCAACTTCAAAGAGATAAGATTTGTAGCCC
1 GTCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGACTTGTAGCCC
* ** * *
34484241 GTCTTCAATCTGCTCTACTGCAACTTCAGGGTGATTAGACTTGTAGC
1 GTCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGACTTGTAGC
34484288 TTAAATCTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (49 bp):
GTCTTCAATCTGCTCCACTGCAACTTCAAAGAGATAAGACTTGTAGCCC
Found at i:34485553 original size:42 final size:42
Alignment explanation
Indices: 34485506--34485610 Score: 167
Period size: 42 Copynumber: 2.5 Consensus size: 42
34485496 TATGACACAC
34485506 AAGTGCCTGAAACGACACACGAGGTG-CTTGATACGACACATA
1 AAGTGCCTGAAACGACACACGAGGTGTC-TGATACGACACATA
*
34485548 AAGTGCCTGAAACGACACATGAGGTGTCTGATACGACACATA
1 AAGTGCCTGAAACGACACACGAGGTGTCTGATACGACACATA
34485590 AAGTGCCTGATATACGACACA
1 AAGTGCCTGA-A-ACGACACA
34485611 TAAAGTGTCT
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
42 49 0.83
43 2 0.03
44 8 0.14
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (42 bp):
AAGTGCCTGAAACGACACACGAGGTGTCTGATACGACACATA
Found at i:34485608 original size:23 final size:22
Alignment explanation
Indices: 34485506--34485617 Score: 124
Period size: 21 Copynumber: 5.2 Consensus size: 22
34485496 TATGACACAC
**
34485506 AAGTGCCTGAA-ACGACACACG
1 AAGTGCCTGAATACGACACATA
* *
34485527 AGGTGCTTG-ATACGACACATA
1 AAGTGCCTGAATACGACACATA
*
34485548 AAGTGCCTGAA-ACGACACATG
1 AAGTGCCTGAATACGACACATA
* *
34485569 AGGTGTCTG-ATACGACACATA
1 AAGTGCCTGAATACGACACATA
34485590 AAGTGCCTGATATACGACACATA
1 AAGTGCCTGA-ATACGACACATA
34485613 AAGTG
1 AAGTG
34485618 TCTATTGGCA
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
20 2 0.03
21 54 0.73
22 1 0.01
23 17 0.23
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (22 bp):
AAGTGCCTGAATACGACACATA
Found at i:34487500 original size:89 final size:88
Alignment explanation
Indices: 34487332--34488066 Score: 548
Period size: 89 Copynumber: 8.3 Consensus size: 88
34487322 AATCGGTTCT
* * * ** * * *
34487332 ACTGCAACTTTAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAA-TCTCAGGGAGAT
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCTACTGCAACT-TCAGGGAGAT
* * * *
34487396 AAGACTTGTGA-CTTCAACCTGCTTC
64 AAGATTTAT-ATCTTCAATCTGCTCC
* * * * *
34487421 ACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCTACTTTACTGCAACTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* *
34487486 TATTTACTATCTTCAATCTACTCC
66 GATTTA-TATCTTCAATCTGCTCC
* * * * * *
34487510 ACTACATCTTCAGGGAGATAAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* * * **
34487575 GGTTTATAGT-TTTAATCTACTTT
66 GATTTATA-TCTTCAATCTGCTCC
* * * * ** *
34487598 ACTGCAGCTTCAGAGAGATAAGATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
* *
34487663 AGACTTGTA-AT-TTCAACCTCCTCC
65 AGA-TT-TATATCTTCAATCTGCTCC
* * * * * *
34487687 ACTACAACTTTAGGGAGATAAGGA-TTATAGCTTTAATCTGCTTTACTGTAACTTCAGAGAGATA
1 ACTGCAACTTCAGGGAGATAA-GATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
* * * *
34487751 AGATTTGCTATCTTCAGTTTGTTCC
65 AGATTT-ATATCTTCAATCTGCTCC
* * * * *
34487776 ACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
* *
34487841 TATTTGTTATCTTCAATCTGCTCC
66 GATTT-ATATCTTCAATCTGCTCC
* * * * * * *
34487865 ACTGTAACCTCAGGGAGATAAGACTTATAA-TTTCAACCTGCTCCACCGCAACTTCAGCGAGATA
1 ACTGCAACTTCAGGGAGATAAGATTTATAACTTT-AATCTGCTCTACTGCAACTTCAGGGAGATA
* * * * *
34487929 AGGTTTATAGCTTTAATCTTCTCT
65 AGATTTATATCTTCAATCTGCTCC
* * ** * * * * * * * *
34487953 TCTGAAACTTCAAAGAGACAAGATTTGCTATCTTCAGTCTGCTCCACTGCAATTTCAGGGAGACA
1 ACTGCAACTTCAGGGAGATAAGATTT-ATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
* ** *
34488018 AGATTTGTGGCTTTAATCTGCTCC
65 AGATTTATATCTTCAATCTGCTCC
34488042 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
34488067 CACCATGATG
Statistics
Matches: 511, Mismatches: 120, Indels: 30
0.77 0.18 0.05
Matches are distributed among these distances:
86 1 0.00
87 2 0.00
88 141 0.28
89 358 0.70
90 7 0.01
91 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (88 bp):
ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTGCAACTTCAGGGAGATAA
GATTTATATCTTCAATCTGCTCC
Found at i:34487523 original size:133 final size:133
Alignment explanation
Indices: 34487331--34487840 Score: 617
Period size: 133 Copynumber: 3.8 Consensus size: 133
34487321 TAATCGGTTC
* * * * * * *
34487331 TACTGCAACTTTAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAATC-TCAGGGAGA
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGC-ATCTTCAGGGAGA
* * *
34487395 TAAGACTTGTGACTTCAACCTGCTTCACTGCAACTTTAGGGAGATAAGGTTTATAACTTTAATCT
65 TAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCT
34487460 ACTT
130 ACTT
* * *
34487464 TACTGCAACTTCAGAGAGATAATATTTACTATCTTCAATCTACTCCACTACATCTTCAGGGAGAT
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * *
34487529 AAGATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGTTTTAATCTA
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
34487594 CTT
131 CTT
* * * * *
34487597 TACTGCAGCTTCAGAGAGATAAGATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGAT
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * * * *
34487662 AAGACTTGTAATTTCAACCTCCTCCACTACAACTTTAGGGAGATAAGGATTATAGCTTTAATCTG
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
34487727 CTT
131 CTT
* * * ** * * * *
34487730 TACTGTAACTTCAGAGAGATAAGATTTGCTATCTTCAGTTTGTTCCACTGGAACTTCAGGTAGAC
1 TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
* * * * * * * *
34487795 AAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
66 AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAA
34487841 TATTTGTTAT
Statistics
Matches: 325, Mismatches: 51, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
132 3 0.01
133 322 0.99
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (133 bp):
TACTGCAACTTCAGAGAGATAAGATTTGCTATCTTCAATCTACTCCACTGCATCTTCAGGGAGAT
AAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTTTATAGCTTTAATCTA
CTT
Found at i:34487779 original size:222 final size:222
Alignment explanation
Indices: 34487332--34488066 Score: 782
Period size: 222 Copynumber: 3.3 Consensus size: 222
34487322 AATCGGTTCT
* * * * ** * *
34487332 ACTGCAACTTTAGGGAAATAAGATTTCCTATTTTTAGTCTACTCCACTGCAA-TCTCAGGGAGAT
1 ACTGCAACTTCAGGGAGACAAGATTT-ATAGCTTTAATCTACTCTACTGCAACT-TCAGGGAGAT
* * * * * * ** *
34487396 AAGACTTGTGA-CTTCAACCTGCTTCACTGCAACTTTAGGGAGATAAGGTTTATAACTTT-AATC
64 AAGATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAA-TTTCAACC
* ** ** * * * * * ** *
34487459 TACTTTACTGCAACTTCAGAGAGATAA-TATTTACTATCTTCAATCTACTCCACT-ACATCTTCA
128 TCCTCCACCACAACTTCAGCGAGATAAGGA-TTA-TAGCTTTAATCTGCTCTTCTGA-AACTTCA
* * **
34487522 GGGAGATAAGATTTG-TAACTTCAACCTGCTCC
190 GAGAGATAAGATTTGCTATCTTCAGTCTGCTCC
* * * * * *
34487554 ACTGCAACTTCAGGGAGATAAGGTTTATAGTTTTAATCTACTTTACTGCAGCTTCAGAGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
* * *
34487619 GATTTGTTATCTTCCATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTCC
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAATTTCAACCTCC
* * * *
34487684 TCCACTACAACTTTAGGGAGATAAGGATTATAGCTTTAATCTGCT-TTACTGTAACTTCAGAGAG
131 TCCACCACAACTTCAGCGAGATAAGGATTATAGCTTTAATCTGCTCTT-CTGAAACTTCAGAGAG
* *
34487748 ATAAGATTTGCTATCTTCAGTTTGTTCC
195 ATAAGATTTGCTATCTTCAGTCTGCTCC
* *
34487776 ACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
* * *
34487841 TATTTGTTATCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACTTATAATTTCAACCTGC
66 GATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAATTTCAACCTCC
* * * *
34487906 TCCACCGCAACTTCAGCGAGATAAGGTTTATAGCTTTAATCTTCTCTTCTGAAACTTCAAAGAGA
131 TCCACCACAACTTCAGCGAGATAAGGATTATAGCTTTAATCTGCTCTTCTGAAACTTCAGAGAGA
*
34487971 CAAGATTTGCTATCTTCAGTCTGCTCC
196 TAAGATTTGCTATCTTCAGTCTGCTCC
* * * * *
34487998 ACTGCAATTTCAGGGAGACAAGATTTGTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
34488063 GATT
66 GATT
34488067 CACCATGATG
Statistics
Matches: 432, Mismatches: 73, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
221 74 0.17
222 355 0.82
223 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (222 bp):
ACTGCAACTTCAGGGAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAA
GATTTGTTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGATAAGACTTATAATTTCAACCTCC
TCCACCACAACTTCAGCGAGATAAGGATTATAGCTTTAATCTGCTCTTCTGAAACTTCAGAGAGA
TAAGATTTGCTATCTTCAGTCTGCTCC
Done.