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 220 of 310
Found at i:72219166 original size:27 final size:27
Alignment explanation
Indices: 72219136--72219205 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
72219126 TATAGGGTAG
**
72219136 AATTACAAAAATACCCCT-AGTTTGTAA
1 AATTACAAAAATACCCCTGA-TTTACAA
*
72219163 AATTACCAAAATACCCCTGATTTACAA
1 AATTACAAAAATACCCCTGATTTACAA
*
72219190 AATTATAAAAATACCC
1 AATTACAAAAATACCC
72219206 TTGACTTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.27
Consensus pattern (27 bp):
AATTACAAAAATACCCCTGATTTACAA
Found at i:72219352 original size:27 final size:27
Alignment explanation
Indices: 72219309--72219382 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
72219299 AAATGACTAA
*
72219309 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
72219336 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
72219363 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
72219383 TGACGAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:72219386 original size:27 final size:27
Alignment explanation
Indices: 72219322--72219386 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
72219312 ACCCCTAATA
*
72219322 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
72219349 GGTAAAGTGACCGTAATA-CCCTTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
72219376 GGTAAAATGAC
1 GGTAAAATGAC
72219387 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:72220235 original size:25 final size:24
Alignment explanation
Indices: 72220197--72220266 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
72220187 AGGAAGTGCT
*
72220197 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTACC
*
72220221 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTACC
72220246 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
72220267 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTACC
Found at i:72220279 original size:24 final size:24
Alignment explanation
Indices: 72220196--72220279 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
72220186 GAGGAAGTGC
* *
72220196 TAAAAGGGCTCTGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
*
72220221 GAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
72220245 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
72220269 TAAAAGAGGCT
1 TAAAAG-GGCT
72220280 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 4 0.08
24 10 0.19
25 38 0.73
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:72220475 original size:42 final size:42
Alignment explanation
Indices: 72220414--72220505 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
72220404 TAGTCTCCCC
*
72220414 AAATGGGCTTGCATGCATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
72220456 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
72220498 AAATGGGC
1 AAATGGGC
72220506 CTAAGGGCCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:72220564 original size:31 final size:31
Alignment explanation
Indices: 72220529--72220643 Score: 178
Period size: 31 Copynumber: 3.7 Consensus size: 31
72220519 CGTTTACAAT
* *
72220529 AAAGGCTCCGGCCCAGTGATATGATTAATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
72220560 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
72220591 AAAGGCTTCAGCCGAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
72220622 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
72220644 TCAAGACTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:72227876 original size:26 final size:27
Alignment explanation
Indices: 72227803--72227867 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
72227793 ATTACCAAAG
* * *
72227803 TACCCTCGATTTATAGAATCA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-GTTT
72227830 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
72227857 TACCCTC-ATTT
1 TACCCTCGATTT
72227868 GTGAAATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 29 0.85
28 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCGTTT
Found at i:72228005 original size:134 final size:134
Alignment explanation
Indices: 72227786--72228069 Score: 568
Period size: 134 Copynumber: 2.1 Consensus size: 134
72227776 TGCCCTCGAC
72227786 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATCACTGTTTTACCCTCGATTTACAAAATTA
1 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATCACTGTTTTACCCTCGATTTACAAAATTA
72227851 TCGTTTTACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
66 TCGTTTTACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
72227916 TAGT
131 TAGT
72227920 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATCACTGTTTTACCCTCGATTTACAAAATTA
1 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATCACTGTTTTACCCTCGATTTACAAAATTA
72227985 TCGTTTTACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
66 TCGTTTTACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
72228050 TAGT
131 TAGT
72228054 TTGTAAAATTACCAAA
1 TTGTAAAATTACCAAA
72228070 AAAACACTGG
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
134 150 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.33
Consensus pattern (134 bp):
TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATCACTGTTTTACCCTCGATTTACAAAATTA
TCGTTTTACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
TAGT
Found at i:72228010 original size:26 final size:27
Alignment explanation
Indices: 72227937--72228001 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
72227927 ATTACCAAAG
* * *
72227937 TACCCTCGATTTATAGAATCA-CTGTTT
1 TACCCTCGATTTACAAAATTATC-GTTT
72227964 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTATCGTTT
72227991 TACCCTC-ATTT
1 TACCCTCGATTT
72228002 GTGAAATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 29 0.85
28 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTATCGTTT
Found at i:72228063 original size:27 final size:27
Alignment explanation
Indices: 72228033--72228156 Score: 87
Period size: 27 Copynumber: 4.6 Consensus size: 27
72228023 TATAGGGTAG
72228033 AATTACAAAAATACCCCTAGTTTGTAA
1 AATTACAAAAATACCCCTAGTTTGTAA
* * * *
72228060 AATTACCAAAAA-AACACTGGTTTGT-G
1 AATTA-CAAAAATACCCCTAGTTTGTAA
* *
72228086 AATTGATC-GAAATA-CCCTCAATTTGTAA
1 AATT-A-CAAAAATACCCCT-AGTTTGTAA
* **
72228114 AATTACCAAAATACCCCT-GATTTACAA
1 AATTACAAAAATACCCCTAG-TTTGTAA
72228141 AATTACAAAAATACCC
1 AATTACAAAAATACCC
72228157 TTGACTTTCT
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
26 11 0.15
27 49 0.66
28 14 0.19
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.27
Consensus pattern (27 bp):
AATTACAAAAATACCCCTAGTTTGTAA
Found at i:72228129 original size:134 final size:134
Alignment explanation
Indices: 72227786--72228129 Score: 379
Period size: 134 Copynumber: 2.6 Consensus size: 134
72227776 TGCCCTCGAC
** * *** *
72227786 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATCACTGTTTTACCCTCGATTTACAAAATTA
1 TTGTAAAATTACCAAAAAACACTCGATTTATAGAATCACTGAAATACCCTCAATTTACAAAATTA
* ****
72227851 TCGTTTTACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
66 CCAAAATACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
72227916 TAGT
131 TAGT
** * *** *
72227920 TTGTAAAATTACCAAAGTACCCTCGATTTATAGAATCACTGTTTTACCCTCGATTTACAAAATTA
1 TTGTAAAATTACCAAAAAACACTCGATTTATAGAATCACTGAAATACCCTCAATTTACAAAATTA
* ****
72227985 TCGTTTTACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
66 CCAAAATACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
72228050 TAGT
131 TAGT
* * * **
72228054 TTGTAAAATTACCAAAAAAACACT-GGTTTGT-GAATTGA-TCGAAATACCCTCAATTTGTAAAA
1 TTGTAAAATTACC-AAAAAACACTCGATTTATAGAA-TCACT-GAAATACCCTCAATTTACAAAA
72228116 TTACCAAAATACCC
63 TTACCAAAATACCC
72228130 CTGATTTACA
Statistics
Matches: 190, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
133 4 0.02
134 179 0.94
135 7 0.04
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (134 bp):
TTGTAAAATTACCAAAAAACACTCGATTTATAGAATCACTGAAATACCCTCAATTTACAAAATTA
CCAAAATACCCTCATTTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACAAAAATACCCC
TAGT
Found at i:72228182 original size:56 final size:55
Alignment explanation
Indices: 72228094--72228379 Score: 179
Period size: 56 Copynumber: 5.1 Consensus size: 55
72228084 TGAATTGATC
* * * *
72228094 GAAATACCC-TCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACA
1 GAAATACCCTTGACTTTCTAAAATTACCAAAATACCCCTGATTTACAAAATTACT
* * * * *
72228148 AAAATACCCTTGACTTTCTAAAAATTA-TATAAATA-CCATTAGTTTACTAAATTACT
1 GAAATACCCTTGACTTTCT-AAAATTACCA-AAATACCCCTGA-TTTACAAAATTACT
* * * * * * * ** ** *
72228204 GAAATACCTTTG-GTTTGTAGATTTACCAAAACACCCTTG-TAGGATGAAATGACT
1 GAAATACCCTTGACTTTCTAAAATTACCAAAATACCCCTGAT-TTACAAAATTACT
* * * * *
72228258 AAAATACCCCTAATTAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACA
1 GAAATA-CCCT--TGACTTTCTAAAATTACCAAAATACCCCTGATTTACAAAATTACT
* ** *
72228316 GAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACT
1 GAAATACCCTTGACTTTCT-AAAATTACCA-AAATACCCCTGATTTACAAAATTACT
72228372 GAAATACC
1 GAAATACC
72228380 TTTGGTTTGT
Statistics
Matches: 171, Mismatches: 47, Indels: 26
0.70 0.19 0.11
Matches are distributed among these distances:
53 1 0.01
54 30 0.18
55 29 0.17
56 71 0.42
57 5 0.03
58 34 0.20
59 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (55 bp):
GAAATACCCTTGACTTTCTAAAATTACCAAAATACCCCTGATTTACAAAATTACT
Found at i:72228310 original size:168 final size:168
Alignment explanation
Indices: 72228105--72228439 Score: 634
Period size: 168 Copynumber: 2.0 Consensus size: 168
72228095 AAATACCCTC
72228105 AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
1 AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
* *
72228170 AATTATATAAATACCATTAGTTTACTAAATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAA
66 AATTATAGAAATACCATTAGTTTACAAAATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAA
72228235 CACCCTTGTAGGATGAAATGACTAAAATACCCCTAATT
131 CACCCTTGTAGGATGAAATGACTAAAATACCCCTAATT
*
72228273 AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
*
72228338 AATTATAGAAATACCATTGGTTTACAAAATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAA
66 AATTATAGAAATACCATTAGTTTACAAAATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAA
72228403 CACCCTTGTAGGATGAAATGACTAAAATACCCCTAAT
131 CACCCTTGTAGGATGAAATGACTAAAATACCCCTAAT
72228440 AGGTAAAAAG
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 163 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (168 bp):
AATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAAAAATACCCTTGACTTTCTAAA
AATTATAGAAATACCATTAGTTTACAAAATTACTGAAATACCTTTGGTTTGTAGATTTACCAAAA
CACCCTTGTAGGATGAAATGACTAAAATACCCCTAATT
Found at i:72228375 original size:27 final size:27
Alignment explanation
Indices: 72228302--72228387 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
72228292 ATACCCCTGA
* * *
72228302 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
72228330 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
72228358 TTTACAAAATTACTGAAATACCTTTGG
1 TTTACAAAATTACTGAAATACCATTGG
72228385 TTT
1 TTT
72228388 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
27 23 0.47
28 7 0.14
29 19 0.39
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:72228606 original size:27 final size:27
Alignment explanation
Indices: 72228574--72228625 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
72228564 GACTAAAATA
72228574 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAAAGACCGTAAAG
**
72228601 CCCCTATAGGGTAAAGTGACCGTAA
1 CCCCTATAGGGTAAAAAGACCGTAA
72228626 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.17
Consensus pattern (27 bp):
CCCCTATAGGGTAAAAAGACCGTAAAG
Found at i:72228656 original size:142 final size:142
Alignment explanation
Indices: 72228400--72228682 Score: 521
Period size: 142 Copynumber: 2.0 Consensus size: 142
72228390 AGATTTACCA
* *
72228400 AAACACCCTTGTAGGATGAAATGACTAAAATACCCCTAATAGGTAAAAAGACCGCAGAGCCCCTG
1 AAACACCCTTGTAGGATGAAATGACTAAAATACCCCTAATAGGTAAAAAGACCGCAAAGCCCCTA
72228465 TAGGGTAAAGTGACCGTAATACCCTTGTATGGTAAAATAACGAATATGCCCTTATGTTCCGTATG
66 TAGGGTAAAGTGACCGTAATACCCTTGTATGGTAAAATAACGAATATGCCCTTATGTTCCGTATG
72228530 ACTAATGTGCTC
131 ACTAATGTGCTC
*
72228542 AAACACCCTTGTAGGATGAAATGACTAAAATACCCCTAATAGGTAAAAAGACCGTAAAGCCCCTA
1 AAACACCCTTGTAGGATGAAATGACTAAAATACCCCTAATAGGTAAAAAGACCGCAAAGCCCCTA
*
72228607 TAGGGTAAAGTGACCGTAATACCCTTGTATGGTAAAATGACGAATATGCCCTTATGTTCCGTATG
66 TAGGGTAAAGTGACCGTAATACCCTTGTATGGTAAAATAACGAATATGCCCTTATGTTCCGTATG
*
72228672 ACTGATGTGCT
131 ACTAATGTGCT
72228683 TAGGATTTAC
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 136 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (142 bp):
AAACACCCTTGTAGGATGAAATGACTAAAATACCCCTAATAGGTAAAAAGACCGCAAAGCCCCTA
TAGGGTAAAGTGACCGTAATACCCTTGTATGGTAAAATAACGAATATGCCCTTATGTTCCGTATG
ACTAATGTGCTC
Found at i:72229488 original size:42 final size:42
Alignment explanation
Indices: 72229441--72229533 Score: 186
Period size: 42 Copynumber: 2.2 Consensus size: 42
72229431 AATGGAGGAA
72229441 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
1 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
72229483 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
1 GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
72229525 GAAATGGGC
1 GAAATGGGC
72229534 CTAAGGGCCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (42 bp):
GAAATGGGCTTGCATACATTCATTGACATTACATGTGATATT
Found at i:72237666 original size:5 final size:5
Alignment explanation
Indices: 72237651--72237742 Score: 55
Period size: 5 Copynumber: 17.2 Consensus size: 5
72237641 TTTTTAGTTC
* *
72237651 TTTATT TTTAT TTTAT TTTAT TATT-T GTTAT TGTT-T GTTATT TTATAT
1 TTTA-T TTTAT TTTAT TTTAT T-TTAT TTTAT T-TTAT TTTA-T TT-TAT
*
72237699 TTTAT ATTTAT TTTAGT TTCT-T TCTTAA TTTAT TTTAT TTTAT T
1 TTTAT -TTTAT TTTA-T TT-TAT T-TTAT TTTAT TTTAT TTTAT T
72237743 ATTCTGCTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 23
0.70 0.06 0.23
Matches are distributed among these distances:
4 4 0.06
5 39 0.57
6 23 0.33
7 3 0.04
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:72237912 original size:12 final size:12
Alignment explanation
Indices: 72237897--72237947 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
72237887 TTACTATATA
*
72237897 TTTTATTATTCT
1 TTTTATTCTTCT
72237909 TTTTATTCTTCT
1 TTTTATTCTTCT
*
72237921 TCTTATTCTTCT
1 TTTTATTCTTCT
* *
72237933 TATTATTCTTAT
1 TTTTATTCTTCT
72237945 TTT
1 TTT
72237948 AAGTATGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTCTTCT
Found at i:72239414 original size:5 final size:5
Alignment explanation
Indices: 72239395--72239428 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
72239385 TTTTATTCGT
*
72239395 TTTAT TTTAA TTTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA -TTTAA TTTAA TTTAA TTTAA TTT
72239429 TTATGTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTAA
Found at i:72239414 original size:11 final size:11
Alignment explanation
Indices: 72239394--72239429 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
72239384 ATTTTATTCG
*
72239394 TTTTATTTTAA
1 TTTTAATTTAA
72239405 TTTTAATTTAA
1 TTTTAATTTAA
72239416 -TTTAATTTAA
1 TTTTAATTTAA
72239426 TTTT
1 TTTT
72239430 TATGTTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.43
11 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTAATTTAA
Found at i:72239469 original size:26 final size:24
Alignment explanation
Indices: 72239425--72239479 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
72239415 ATTTAATTTA
72239425 ATTTTTATGTTTATGTTTATTTCT
1 ATTTTTATGTTTATGTTTATTTCT
*
72239449 ATTTTTAGTTGTTT-TGTTTTATTTTT
1 ATTTTTA--TGTTTATG-TTTATTTCT
72239475 ATTTT
1 ATTTT
72239480 CTTATACTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 7 0.26
25 2 0.07
26 18 0.67
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.75
Consensus pattern (24 bp):
ATTTTTATGTTTATGTTTATTTCT
Found at i:72241352 original size:18 final size:18
Alignment explanation
Indices: 72241321--72241400 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
72241311 ATTGTTAATG
*
72241321 TTTTTAACAA-TTTTACAA
1 TTTTT-ACAATTTTTATAA
*
72241339 TTTTTATAATTTTTAGTAA
1 TTTTTACAATTTTTA-TAA
*
72241358 -TTTTGCAATTTTTA-ATA
1 TTTTTACAATTTTTATA-A
*
72241375 TTTTTAAATATTTGTTATAA
1 TTTTTACA-ATTT-TTATAA
72241395 TTTTTA
1 TTTTTA
72241401 ATTTTAAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
16 1 0.02
17 4 0.08
18 27 0.55
19 6 0.12
20 10 0.20
21 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTTTACAATTTTTATAA
Found at i:72241387 original size:27 final size:27
Alignment explanation
Indices: 72241304--72241402 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 27
72241294 TATTTTTTTA
* *
72241304 TTTACAAATTGTTAATGTTTTTAACA-AT
1 TTTAC-AATTTTTAATATTTTTAA-ATAT
*
72241332 TTTACAATTTTT-ATAATTTTT-AGTAAT
1 TTTACAATTTTTAAT-ATTTTTAAAT-AT
*
72241359 TTTGCAATTTTTAATATTTTTAAATATT
1 TTTACAATTTTTAATATTTTTAAATA-T
*
72241387 TGTTATAATTTTTAAT
1 T-TTACAATTTTTAAT
72241403 TTTAAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.05
27 31 0.54
28 11 0.19
29 12 0.21
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (27 bp):
TTTACAATTTTTAATATTTTTAAATAT
Found at i:72243440 original size:30 final size:32
Alignment explanation
Indices: 72243404--72243468 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
72243394 AAAATAATTA
**
72243404 TTAGTGATTGA-TT-TGGTATTTTTTTTAAAT
1 TTAGTGATTGAGTTATAATATTTTTTTTAAAT
*
72243434 TTAGTGATTGAGTTATAATTTTTTTTTTAAAT
1 TTAGTGATTGAGTTATAATATTTTTTTTAAAT
72243466 TTA
1 TTA
72243469 ATGGCTGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 11 0.37
31 2 0.07
32 17 0.57
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (32 bp):
TTAGTGATTGAGTTATAATATTTTTTTTAAAT
Found at i:72243833 original size:22 final size:21
Alignment explanation
Indices: 72243795--72243839 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
72243785 GAAAATTAAT
72243795 AATTATTATTAATTAATTATA
1 AATTATTATTAATTAATTATA
* *
72243816 AATTTTTATTAAATTAATTTTA
1 AATTATTATT-AATTAATTATA
72243838 AA
1 AA
72243840 ATTCAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATTATTATTAATTAATTATA
Found at i:72258531 original size:17 final size:17
Alignment explanation
Indices: 72258509--72258545 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
72258499 ATGCACTAAC
* *
72258509 ATGAAAATGTAATGACA
1 ATGAAAACGCAATGACA
72258526 ATGAAAACGCAATGACA
1 ATGAAAACGCAATGACA
72258543 ATG
1 ATG
72258546 TATACTTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (17 bp):
ATGAAAACGCAATGACA
Found at i:72258992 original size:17 final size:18
Alignment explanation
Indices: 72258970--72259004 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
72258960 TTCTTCGTTT
72258970 CTTTCTCAT-TTTAGCAA
1 CTTTCTCATCTTTAGCAA
*
72258987 CTTTCTCTTCTTTAGCAA
1 CTTTCTCATCTTTAGCAA
72259005 TAGCTTCCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.26, G:0.06, T:0.49
Consensus pattern (18 bp):
CTTTCTCATCTTTAGCAA
Found at i:72259454 original size:24 final size:24
Alignment explanation
Indices: 72259422--72259492 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
72259412 CTGTCAGGAG
72259422 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
72259446 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
**
72259470 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGTTGATAAGGGA
72259493 GGAAATCAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.38, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:72261674 original size:46 final size:46
Alignment explanation
Indices: 72261606--72261788 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
72261596 TATATATACA
* * *
72261606 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
72261652 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
72261698 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
* * *
72261744 TATCTCATACACATTTCGCATTAGCCATTCGACTTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATAT
72261789 ATACACTTCC
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:72261833 original size:47 final size:47
Alignment explanation
Indices: 72261762--72262046 Score: 383
Period size: 47 Copynumber: 6.1 Consensus size: 47
72261752 ACACATTTCG
* * * * * * *
72261762 CATTAGCCATTCGACTTTACCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
*
72261809 CATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
72261856 CATTGGTCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
72261903 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACCTTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
72261950 CATTGGTCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* * ** *
72261997 CATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
72262044 CAT
1 CAT
72262047 AAAATCCTAA
Statistics
Matches: 211, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 1 0.00
47 210 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.35
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:72261901 original size:94 final size:94
Alignment explanation
Indices: 72261802--72262046 Score: 427
Period size: 94 Copynumber: 2.6 Consensus size: 94
72261792 CACTTCCACG
* *
72261802 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACATTCATCACATTGGTCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTTATCACATTGGTCATT
72261867 CGGCCTTATCACACATATGCATGTTCACA
66 CGGCCTTATCACACATATGCATGTTCACA
*
72261896 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACCTTTATCACATTGGTCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTTATCACATTGGTCATT
72261961 CGGCCTTATCACACATATGCATGTTCACA
66 CGGCCTTATCACACATATGCATGTTCACA
* * **
72261990 TTCATCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTTATCACAT
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTTATCACAT
72262047 AAAATCCTAA
Statistics
Matches: 143, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 143 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTTATCACATTGGTCATT
CGGCCTTATCACACATATGCATGTTCACA
Found at i:72261926 original size:22 final size:21
Alignment explanation
Indices: 72261899--72261973 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 21
72261889 GTTCACATTC
72261899 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGG-CATTCGGCCTT
* *
72261921 ATCACATATATGCATGTTC-ACCTTT
1 ATCACAT-T-GGCA--TTCGGCC-TT
72261946 ATCACATTGGTCATTCGGCCTT
1 ATCACATTGG-CATTCGGCCTT
72261968 ATCACA
1 ATCACA
72261974 CATATGCATG
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
22 18 0.43
23 6 0.14
24 6 0.14
25 12 0.29
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (21 bp):
ATCACATTGGCATTCGGCCTT
Found at i:72261950 original size:25 final size:25
Alignment explanation
Indices: 72261825--72261952 Score: 69
Period size: 25 Copynumber: 5.4 Consensus size: 25
72261815 CCATTCTGCC
*
72261825 TTATCACATATATGCATGTTCACAT
1 TTATCACATATATGCATGTTCACCT
* * *
72261850 TCATCACAT-T-GGTCA--TTCGGCC-
1 TTATCACATATATG-CATGTTC-ACCT
* *
72261872 TTATCACACATATGCATGTTCACAT
1 TTATCACATATATGCATGTTCACCT
* * *
72261897 TCATCACAT-T-GGCCA--TTCGGCC-
1 TTATCACATATATG-CATGTTC-ACCT
72261919 TTATCACATATATGCATGTTCACCT
1 TTATCACATATATGCATGTTCACCT
72261944 TTATCACAT
1 TTATCACAT
72261953 TGGTCATTCG
Statistics
Matches: 72, Mismatches: 17, Indels: 28
0.62 0.15 0.24
Matches are distributed among these distances:
22 21 0.29
23 10 0.14
24 11 0.15
25 30 0.42
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (25 bp):
TTATCACATATATGCATGTTCACCT
Found at i:72264373 original size:13 final size:13
Alignment explanation
Indices: 72264355--72264380 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72264345 ATTTTTATTT
72264355 TTAACATAAAATA
1 TTAACATAAAATA
72264368 TTAACATAAAATA
1 TTAACATAAAATA
72264381 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:72271176 original size:11 final size:10
Alignment explanation
Indices: 72271148--72271181 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
72271138 AGCCTGTAAG
72271148 TATTCTGAAT
1 TATTCTGAAT
*
72271158 TTTTCTGAAT
1 TATTCTGAAT
72271168 ATATTCTGAAT
1 -TATTCTGAAT
72271179 TAT
1 TAT
72271182 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:72276390 original size:24 final size:24
Alignment explanation
Indices: 72276358--72276426 Score: 102
Period size: 24 Copynumber: 2.9 Consensus size: 24
72276348 GTCAGGAGAG
72276358 GATTTAGGAGTTGATAAGGGATAA
1 GATTTAGGAGTTGATAAGGGATAA
* *
72276382 GATTTAGGAGTTGACAAGGGATAG
1 GATTTAGGAGTTGATAAGGGATAA
**
72276406 GATTTAGGAGCAGATAAGGGA
1 GATTTAGGAGTTGATAAGGGA
72276427 GGAAATCTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.25
Consensus pattern (24 bp):
GATTTAGGAGTTGATAAGGGATAA
Found at i:72277877 original size:28 final size:28
Alignment explanation
Indices: 72277845--72277954 Score: 111
Period size: 27 Copynumber: 4.0 Consensus size: 28
72277835 AAGCGTCCTA
* *
72277845 GTGGCTATACCACAAATTATCTGATCTG
1 GTGGCTCTGCCACAAATTATCTGATCTG
* *
72277873 GTGGCTCTGCCACATATT-TCTGTTCTG
1 GTGGCTCTGCCACAAATTATCTGATCTG
*
72277900 GTGGCTCTGCCAC-GATTATCTGTATCTG
1 GTGGCTCTGCCACAAATTATCTG-ATCTG
* * *
72277928 GTGACTCTGTCAC--ATTATCTGTTCTG
1 GTGGCTCTGCCACAAATTATCTGATCTG
72277954 G
1 G
72277955 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.11
27 33 0.46
28 30 0.42
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (28 bp):
GTGGCTCTGCCACAAATTATCTGATCTG
Found at i:72277902 original size:27 final size:26
Alignment explanation
Indices: 72277860--72277954 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
72277850 TATACCACAA
*
72277860 ATTATCTGATCTGGTGGCTCTGCCAC
1 ATTATCTGTTCTGGTGGCTCTGCCAC
*
72277886 ATATTTCTGTTCTGGTGGCTCTGCCAC
1 AT-TATCTGTTCTGGTGGCTCTGCCAC
* *
72277913 GATTATCTGTATCTGGTGACTCTGTCAC
1 -ATTATCTGT-TCTGGTGGCTCTGCCAC
72277941 ATTATCTGTTCTGG
1 ATTATCTGTTCTGG
72277955 CAGCCATGCT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.11
27 37 0.61
28 17 0.28
ACGTcount: A:0.15, C:0.23, G:0.22, T:0.40
Consensus pattern (26 bp):
ATTATCTGTTCTGGTGGCTCTGCCAC
Found at i:72280023 original size:23 final size:23
Alignment explanation
Indices: 72279993--72280043 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
72279983 TGAGCTTTCA
72279993 ATTCTTTTAACTCTGTCAGAGTC
1 ATTCTTTTAACTCTGTCAGAGTC
*
72280016 ATTCTTTTAACTCTGTCGGAGTC
1 ATTCTTTTAACTCTGTCAGAGTC
72280039 ATTCT
1 ATTCT
72280044 GTACGGAGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTCTTTTAACTCTGTCAGAGTC
Found at i:72287790 original size:20 final size:23
Alignment explanation
Indices: 72287742--72287799 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
72287732 CTAGTGATAA
*
72287742 ACATTTCAGTGCTAGTGAAAGTG
1 ACATTTCAGTGCTAGTGAAAGTC
*
72287765 ACATTTCGGTGC-AGT-AAAG-C
1 ACATTTCAGTGCTAGTGAAAGTC
72287785 ACATTT--GTGCTAGTG
1 ACATTTCAGTGCTAGTG
72287800 GAGTGATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 4 0.13
19 3 0.10
20 6 0.19
21 4 0.13
22 3 0.10
23 11 0.35
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (23 bp):
ACATTTCAGTGCTAGTGAAAGTC
Found at i:72293422 original size:68 final size:66
Alignment explanation
Indices: 72293350--72293521 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
72293340 CATCATGTGT
* * * *
72293350 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
72293413 TGTAG
62 TGTAG
** * *
72293418 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
72293483 AG
65 AG
* * * *
72293485 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
72293522 GGTGGTACTA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:72293455 original size:64 final size:64
Alignment explanation
Indices: 72293374--72293545 Score: 202
Period size: 67 Copynumber: 2.7 Consensus size: 64
72293364 AGACATTATG
* * *
72293374 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
72293438 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
72293503 AA
63 AA
* * * *
72293505 AT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
72293546 GTATAAGAGA
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
63 9 0.10
64 25 0.28
66 22 0.25
67 32 0.36
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:72297704 original size:36 final size:36
Alignment explanation
Indices: 72297636--72297708 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
72297626 ACGATAGGAG
*
72297636 TCTGTTGAAAAAACTTCAGGTAAAATCGACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAATCAACATGGAT
**
72297672 TCTGTTGGTAAAACTTCAGGTAAAA-CTAACATGGAT
1 TCTGTTGAAAAAACTTCAGGTAAAATC-AACATGGAT
72297708 T
1 T
72297709 GATTAGATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.03
36 32 0.97
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (36 bp):
TCTGTTGAAAAAACTTCAGGTAAAATCAACATGGAT
Found at i:72314566 original size:59 final size:59
Alignment explanation
Indices: 72314478--72314595 Score: 211
Period size: 59 Copynumber: 2.0 Consensus size: 59
72314468 GAAAGACTAT
72314478 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCAC-ACTCGTGAACCCACACATTGGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAAC-CGTGAACCCACACATTGGAGATAG
*
72314537 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCTACACATTGGAGATAG
1 TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCCACACATTGGAGATAG
72314596 CAATAGCAAG
Statistics
Matches: 57, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
59 55 0.96
60 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.25, T:0.15
Consensus pattern (59 bp):
TATAGTAGAGCAAAAAGAAAGAGAAGTGGCACAACCGTGAACCCACACATTGGAGATAG
Found at i:72317828 original size:2 final size:2
Alignment explanation
Indices: 72317821--72317854 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
72317811 CATTCCGAAG
* *
72317821 TA TA TA TA TA TA CA TA TA TA TG TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72317855 AGTATGCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:72318467 original size:27 final size:28
Alignment explanation
Indices: 72318304--72318454 Score: 241
Period size: 28 Copynumber: 5.4 Consensus size: 28
72318294 GAGATTGGCG
* * * *
72318304 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
72318333 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
72318361 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
72318389 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
72318417 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
72318444 CTGAGTGTGCG
1 CTAAGTGTGCG
72318455 GACTTAATAT
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.21
28 78 0.67
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:72332670 original size:27 final size:27
Alignment explanation
Indices: 72332646--72332707 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
72332636 AATGTGGCGT
*
72332646 AGCCACTAATAATAG-AATACATGGCAA
1 AGCCACTAA-AATAGTAAAACATGGCAA
*
72332673 AGCCACCAAAATAGTAAAACATGGCAA
1 AGCCACTAAAATAGTAAAACATGGCAA
72332700 AGCCACTA
1 AGCCACTA
72332708 GTACAGTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.48, C:0.23, G:0.15, T:0.15
Consensus pattern (27 bp):
AGCCACTAAAATAGTAAAACATGGCAA
Found at i:72336533 original size:16 final size:16
Alignment explanation
Indices: 72336512--72336543 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
72336502 AATCGGGTTG
*
72336512 AGAAAATTATTTAATT
1 AGAAAATTAATTAATT
72336528 AGAAAATTAATTAATT
1 AGAAAATTAATTAATT
72336544 TAAATTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
AGAAAATTAATTAATT
Found at i:72342524 original size:17 final size:18
Alignment explanation
Indices: 72342483--72342525 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
72342473 TGTATTTACT
72342483 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
72342501 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
72342518 TATTATAT
1 TATTATAT
72342526 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:72343512 original size:6 final size:6
Alignment explanation
Indices: 72343501--72343532 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
72343491 TCTGTACCTG
*
72343501 ACTGTT ACTGTT ACTGTT ACTATT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
72343533 CCTTACGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (6 bp):
ACTGTT
Found at i:72346328 original size:43 final size:43
Alignment explanation
Indices: 72346261--72346360 Score: 182
Period size: 43 Copynumber: 2.3 Consensus size: 43
72346251 CTTTAAGCAT
72346261 CCGCACACTTAGTGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
1 CCGCACACTTA--GCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
72346306 CCGCACACTTAGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
1 CCGCACACTTAGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
72346349 CCGCACACTTAG
1 CCGCACACTTAG
72346361 TGCCATCTCA
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 44 0.80
45 11 0.20
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
CCGCACACTTAGCTTTAAGGTTTAGGCGAAGCTAGAATGATTA
Found at i:72351118 original size:19 final size:20
Alignment explanation
Indices: 72351094--72351131 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
72351084 GGTACCACCA
72351094 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
72351113 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
72351132 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:72351468 original size:93 final size:93
Alignment explanation
Indices: 72351361--72351531 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
72351351 GCCCCTAAGT
* * *
72351361 GAACTCAGACTCAACTCAACTAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
72351426 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
72351454 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
72351519 CGAGTTCGGATGC
66 CGAGTTCGGATGC
72351532 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:72351521 original size:46 final size:46
Alignment explanation
Indices: 72351356--72351528 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
72351346 AACCCGCCCC
* * * * * *
72351356 TAAGTGAACTCAGACTCAACTCAACTAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
72351402 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
72351450 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
72351495 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
72351529 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 29 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:72351547 original size:46 final size:45
Alignment explanation
Indices: 72351406--72351547 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
72351396 CATCCATAAA
72351406 TGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
72351453 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
*
72351499 TGAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
72351545 TGA
1 TGA
72351548 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 32 0.42
47 31 0.40
49 3 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:72351985 original size:30 final size:30
Alignment explanation
Indices: 72351951--72352010 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
72351941 ATTTAATACG
72351951 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
72351981 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
72352011 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:72358711 original size:19 final size:20
Alignment explanation
Indices: 72358687--72358724 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
72358677 GGTACCACCA
72358687 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
72358706 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
72358725 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:72359020 original size:46 final size:45
Alignment explanation
Indices: 72358953--72359119 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
72358943 CGCCCCTAAG
*
72358953 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCATCCATAAA
* * *
72358999 TGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-T-CA
1 TGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCATCCATAAA
* * * *
72359046 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCATCCATAAA
*
72359092 TGAACTTGGACTCAACTCAACGAGTTCG
1 TGAACTCGGACTCAACTCAACGAGTTCG
72359120 AATGCTCAAC
Statistics
Matches: 100, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 1 0.01
46 53 0.53
47 28 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCATCCATAAA
Found at i:72359064 original size:93 final size:93
Alignment explanation
Indices: 72358954--72359124 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
72358944 GCCCCTAAGT
* *
72358954 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
*
72359019 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGAATGCCTAGTTACATCTCAC
* * * * *
72359047 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
72359112 CGAGTTCGAATGC
66 CGAGTTCGAATGC
72359125 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGAACTCAACTCAA
CGAGTTCGAATGCCTAGTTACATCTCAC
Found at i:72362125 original size:27 final size:26
Alignment explanation
Indices: 72362085--72362196 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
72362075 AGCATGGCTG
* *
72362085 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
72362111 CCAGATACATATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
72362139 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
72362166 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
72362193 CCAG
1 CCAG
72362197 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:72362179 original size:54 final size:54
Alignment explanation
Indices: 72362085--72362196 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
72362075 AGCATGGCTG
* *
72362085 CCAGAACAGATAATGTGACAGAGTCACCAGATACATATAATCGTGGCAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
* * * *
72362139 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
72362193 CCAG
1 CCAG
72362197 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAACCA
Found at i:72363633 original size:24 final size:24
Alignment explanation
Indices: 72363606--72363652 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
72363596 CTAGATTTCC
**
72363606 TCCCTTATCTGCTCCGAAATCCTA
1 TCCCTTATCAACTCCGAAATCCTA
*
72363630 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCGAAATCCT
72363653 CTCCTGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.38, G:0.04, T:0.34
Consensus pattern (24 bp):
TCCCTTATCAACTCCGAAATCCTA
Found at i:72365656 original size:46 final size:46
Alignment explanation
Indices: 72365589--72365764 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
72365579 TGTAACCCGC
*
72365589 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
72365635 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGC-A--T
* *** * **
72365682 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
72365729 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
72365765 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 64 0.59
47 10 0.09
48 26 0.24
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:72365711 original size:94 final size:93
Alignment explanation
Indices: 72365597--72365769 Score: 292
Period size: 94 Copynumber: 1.8 Consensus size: 93
72365587 GCCCATAAGT
** *
72365597 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
72365662 CGAGCTCGGGATGCCTAGTTACATCTCTC
66 CGAGCTC-GGATGCCTAGTTACATCTCTC
*
72365691 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
72365756 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
72365770 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 7 0.09
94 67 0.91
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:72365784 original size:46 final size:44
Alignment explanation
Indices: 72365594--72365784 Score: 111
Period size: 46 Copynumber: 4.1 Consensus size: 44
72365584 CCCGCCCATA
* ** ** **
72365594 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
72365639 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCCCA---A-ATC-CT
* * * *
72365690 --CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGCCCAAATCC-T
72365733 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
72365780 AGTGA
1 AGTGA
72365785 CATGTCACTT
Statistics
Matches: 112, Mismatches: 17, Indels: 32
0.70 0.11 0.20
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 61 0.54
47 5 0.04
48 29 0.26
49 3 0.03
51 4 0.04
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:72372336 original size:12 final size:12
Alignment explanation
Indices: 72372319--72372344 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
72372309 GACTCTTAAG
72372319 TTTATTTGGGTT
1 TTTATTTGGGTT
72372331 TTTATTTGGGTT
1 TTTATTTGGGTT
72372343 TT
1 TT
72372345 CTAGTATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.00, G:0.23, T:0.69
Consensus pattern (12 bp):
TTTATTTGGGTT
Found at i:72392405 original size:18 final size:19
Alignment explanation
Indices: 72392378--72392417 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
72392368 TCTATAGACT
* *
72392378 TTTGGGTTTT-ATTTTGGA
1 TTTGGATTTTAATTTGGGA
72392396 TTTGGATTTTAATTTGGGA
1 TTTGGATTTTAATTTGGGA
72392415 TTT
1 TTT
72392418 CTAGCATGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.15, C:0.00, G:0.25, T:0.60
Consensus pattern (19 bp):
TTTGGATTTTAATTTGGGA
Found at i:72400184 original size:48 final size:48
Alignment explanation
Indices: 72400058--72400339 Score: 275
Period size: 48 Copynumber: 5.9 Consensus size: 48
72400048 AGTACCAATT
* * * **
72400058 CCATGTCCCCAACATGGTCTTACA-T-GAATCCACATATCATTACCGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCA--CATATATCATCGCCGATG
** * * * **
72400106 CCATGT-TTAGACATGGTCTTACTCTGGCACACATATCATCGTTGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
* *
72400153 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * *
72400201 CCATGTCCCAAACAAGGTCTTACACTGGCATATATATCATCGCTGATG
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
* * * ***
72400249 CCATGTCCCAGACATGGTCTTAC-GTAGGCAAATATATCATTATCGATG
1 CCATGTCCCAAACATGGTCTTACACT-GGCACATATATCATCGCCGATG
* * *
72400297 CCATGTCCCAGACATTGTCTTACACAGGCACATATATCATCGC
1 CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGC
72400340 TCATGCTGTA
Statistics
Matches: 192, Mismatches: 37, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
47 33 0.17
48 157 0.82
49 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAAACATGGTCTTACACTGGCACATATATCATCGCCGATG
Found at i:72400257 original size:96 final size:95
Alignment explanation
Indices: 72400058--72400345 Score: 355
Period size: 96 Copynumber: 3.0 Consensus size: 95
72400048 AGTACCAATT
* * **
72400058 CCATGTCCCCAACATGGTCTTACAT-GAATCCACATATCATTACCGATGCCATGT-TTAGACATG
1 CCATGTCCCAAACATGGTCTTACATGGCA--CACATATCATTACCGATGCCATGTCCCAGACATG
* * *
72400121 GTCTTACTCTGGCACACATATCATCGTTGATG
64 GTCTTACACTGGCACATATATCATCGCTGATG
* * *
72400153 CCATGTCCCAAACATGGTCTTACACTGGCACACATATCATCACCGATGCCATGTCCCAAACAAGG
1 CCATGTCCCAAACATGGTCTTACA-TGGCACACATATCATTACCGATGCCATGTCCCAGACATGG
*
72400218 TCTTACACTGGCATATATATCATCGCTGATG
65 TCTTACACTGGCACATATATCATCGCTGATG
* * * * * *
72400249 CCATGTCCCAGACATGGTCTTACGTAGGCAAATATATCATTATCGATGCCATGTCCCAGACATTG
1 CCATGTCCCAAACATGGTCTTACAT-GGCACACATATCATTACCGATGCCATGTCCCAGACATGG
* *
72400314 TCTTACACAGGCACATATATCATCGCTCATG
65 TCTTACACTGGCACATATATCATCGCTGATG
72400345 C
1 C
72400346 TGTAACAGCC
Statistics
Matches: 166, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
95 47 0.28
96 117 0.70
97 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (95 bp):
CCATGTCCCAAACATGGTCTTACATGGCACACATATCATTACCGATGCCATGTCCCAGACATGGT
CTTACACTGGCACATATATCATCGCTGATG
Found at i:72401966 original size:28 final size:28
Alignment explanation
Indices: 72401928--72402109 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
72401918 TAAATTGTAC
*
72401928 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
72401956 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
72401984 AGCACTAAGTGTGCGAATTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
72402012 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
72402040 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
72402068 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
72402095 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
72402110 GACTTAATAT
Statistics
Matches: 149, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.16
28 125 0.84
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:72410526 original size:19 final size:19
Alignment explanation
Indices: 72410504--72410540 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
72410494 ATATTTTTTT
* *
72410504 ATTTTATTAATTAAAATTC
1 ATTTTAGTAAGTAAAATTC
72410523 ATTTTAGTAAGTAAAATT
1 ATTTTAGTAAGTAAAATT
72410541 ACTTTACGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (19 bp):
ATTTTAGTAAGTAAAATTC
Found at i:72410978 original size:11 final size:9
Alignment explanation
Indices: 72410960--72411010 Score: 59
Period size: 10 Copynumber: 5.4 Consensus size: 9
72410950 CTATAATTCT
72410960 TTTTTATAAA
1 TTTTTAT-AA
72410970 TTGTTTATAA
1 TT-TTTATAA
72410980 TTTTTATAA
1 TTTTTATAA
72410989 TTTTTAATAA
1 TTTTT-ATAA
*
72410999 ATTTTA-AA
1 TTTTTATAA
72411007 TTTT
1 TTTT
72411011 AAAAATACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 5 0.14
9 13 0.35
10 14 0.38
11 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:72411005 original size:10 final size:10
Alignment explanation
Indices: 72410960--72411003 Score: 56
Period size: 9 Copynumber: 4.4 Consensus size: 10
72410950 CTATAATTCT
72410960 TTTTTATAAA
1 TTTTTATAAA
72410970 TTGTTTAT-AA
1 TT-TTTATAAA
72410980 TTTTTAT-AA
1 TTTTTATAAA
72410989 TTTTTAATAAA
1 TTTTT-ATAAA
72411000 TTTT
1 TTTT
72411004 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 12 0.39
10 8 0.26
11 11 0.35
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTTATAAA
Found at i:72428025 original size:41 final size:41
Alignment explanation
Indices: 72427965--72428136 Score: 236
Period size: 41 Copynumber: 4.2 Consensus size: 41
72427955 AAACACTTCT
* *
72427965 TTTTCATTCGTTATCCTTTTCGAATAACATCGTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGAATAACATCCTTTTCAACA
* * *
72428006 TTTTCATTTGTTATTCTTTTTGGATAACATCCTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGAATAACATCCTTTTCAACA
* *
72428047 TTTTCATTTGTTATTCTTTTCGAATAACTTCCTTTTCAACA
1 TTTTCATTTGTTATCCTTTTCGAATAACATCCTTTTCAACA
* * * * *
72428088 TTTTCATTTTTTATCCTTTTCGGATAACTTTCTTTTCAACC
1 TTTTCATTTGTTATCCTTTTCGAATAACATCCTTTTCAACA
72428129 TTTTCATT
1 TTTTCATT
72428137 GATTCAGAAA
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.21, C:0.20, G:0.06, T:0.53
Consensus pattern (41 bp):
TTTTCATTTGTTATCCTTTTCGAATAACATCCTTTTCAACA
Found at i:72428825 original size:31 final size:31
Alignment explanation
Indices: 72428782--72428849 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
72428772 AAAATTCAAT
72428782 AACACTACAAACCCATTCATGAAAAGTCCCTA
1 AACA-TACAAACCCATTCATGAAAAGTCCCTA
*
72428814 AACATACAAACCCATTCATGAAAAGTCCTTA
1 AACATACAAACCCATTCATGAAAAGTCCCTA
72428845 AACAT
1 AACAT
72428850 TTAATATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 31 0.89
32 4 0.11
ACGTcount: A:0.46, C:0.28, G:0.06, T:0.21
Consensus pattern (31 bp):
AACATACAAACCCATTCATGAAAAGTCCCTA
Found at i:72429849 original size:68 final size:69
Alignment explanation
Indices: 72429730--72429861 Score: 180
Period size: 68 Copynumber: 1.9 Consensus size: 69
72429720 TAAATTAAAA
* *
72429730 AATACATTTAATTAATTCATATTTTTATATATAAAAATATTTATATATAATATAATTTAGTGCAC
1 AATACATTTAATTAATTCATATTTTTATATATAAAAATATTTACATATAATATAAATTAGTGCAC
72429795 ATAT
66 ATAT
* * *
72429799 AATA-ATTTAATTAATTTATATTTTTATCTATAAAAGAT-TTTACCCT-TAATATAAATTAGTGC
1 AATACATTTAATTAATTCATATTTTTATATATAAAA-ATATTTA-CATATAATATAAATTAGTGC
72429861 A
64 A
72429862 TTGGATTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
68 49 0.88
69 7 0.12
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (69 bp):
AATACATTTAATTAATTCATATTTTTATATATAAAAATATTTACATATAATATAAATTAGTGCAC
ATAT
Found at i:72433214 original size:12 final size:12
Alignment explanation
Indices: 72433197--72433221 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
72433187 CAGAGGCTAT
72433197 TAACAATATTTA
1 TAACAATATTTA
72433209 TAACAATATTTA
1 TAACAATATTTA
72433221 T
1 T
72433222 GTTATAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAACAATATTTA
Found at i:72437583 original size:13 final size:13
Alignment explanation
Indices: 72437565--72437598 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
72437555 ACCTCCTTGG
72437565 ATTAAATTATTAA
1 ATTAAATTATTAA
72437578 ATTAAAATTATTAA
1 ATT-AAATTATTAA
72437592 A-TAAATT
1 ATTAAATT
72437599 GAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 5 0.25
13 4 0.20
14 11 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATTATTAA
Found at i:72440588 original size:18 final size:19
Alignment explanation
Indices: 72440557--72440592 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
72440547 AAAATAAAAA
72440557 TTAATTGAAGAAAAATAAT
1 TTAATTGAAGAAAAATAAT
*
72440576 TTAATT-AATAAAAATAA
1 TTAATTGAAGAAAAATAA
72440593 ATTAGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (19 bp):
TTAATTGAAGAAAAATAAT
Found at i:72440595 original size:19 final size:20
Alignment explanation
Indices: 72440545--72440595 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
72440535 ATAATAGTTT
*
72440545 TAAAAATAAAAATTAATTGAA
1 TAAAAAT-AAATTTAATTGAA
*
72440566 GAAAAAT-AATTTAATT-AA
1 TAAAAATAAATTTAATTGAA
72440584 TAAAAATAAATT
1 TAAAAATAAATT
72440596 AGAAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 12 0.46
21 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
TAAAAATAAATTTAATTGAA
Found at i:72442274 original size:24 final size:24
Alignment explanation
Indices: 72442231--72442276 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
72442221 ATTGGTCATT
*
72442231 GAGAGATTTGAGGAGCAATATTTG
1 GAGAGATTTGAGAAGCAATATTTG
72442255 GAGAGATTTGAGCAAG-AATATT
1 GAGAGATTTGAG-AAGCAATATT
72442277 AGGATTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.28
Consensus pattern (24 bp):
GAGAGATTTGAGAAGCAATATTTG
Found at i:72442480 original size:19 final size:19
Alignment explanation
Indices: 72442456--72442495 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
72442446 CAAGGGTGCG
72442456 ATGATCATTGATTTTCAGA
1 ATGATCATTGATTTTCAGA
72442475 ATGATCATTGATTTTCAGA
1 ATGATCATTGATTTTCAGA
72442494 AT
1 AT
72442496 AAGAGTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (19 bp):
ATGATCATTGATTTTCAGA
Found at i:72442992 original size:27 final size:27
Alignment explanation
Indices: 72442953--72443148 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
72442943 AGAGGTCGAT
* *
72442953 AAATGACCGAAATACCTCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
72442980 AAATGACCAAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
72443007 GAATGATCGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
72443034 GAATGGTCGAAATACTCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
72443061 AAATGACTGAAATGCCCCCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * **
72443088 AAATCACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
72443115 AAATGACCGAAATACCCCCATAGAGCA
1 AAATGACCGAAATACCCCCATAGGGTA
72443142 AAATGAC
1 AAATGAC
72443149 TGTTATACCC
Statistics
Matches: 139, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:72458861 original size:35 final size:35
Alignment explanation
Indices: 72458822--72458969 Score: 165
Period size: 35 Copynumber: 4.2 Consensus size: 35
72458812 CCATGATGAT
72458822 GGTATATAGGTCCTTC-AGGGTGACACCGTGTAAAC
1 GGTATATAGGTCCTTCGA-GGTGACACCGTGTAAAC
* *
72458857 GGTATGTAGG-CCTTCCGAGGCGACACCGTGTAAAC
1 GGTATATAGGTCCTT-CGAGGTGACACCGTGTAAAC
* * * * * *
72458892 AGTATGTAGGTCTTTCGTGGTGACACCATGTAAAT
1 GGTATATAGGTCCTTCGAGGTGACACCGTGTAAAC
* *
72458927 GGTATATAGGTCCTTCGGGGTGACACCCTGTAAAC
1 GGTATATAGGTCCTTCGAGGTGACACCGTGTAAAC
*
72458962 GATATATA
1 GGTATATA
72458970 AATCCTACTG
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
34 4 0.04
35 87 0.92
36 4 0.04
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (35 bp):
GGTATATAGGTCCTTCGAGGTGACACCGTGTAAAC
Found at i:72460291 original size:11 final size:11
Alignment explanation
Indices: 72460275--72460303 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
72460265 GTTACAAATT
72460275 ATAAAATAAGA
1 ATAAAATAAGA
72460286 ATAAAATAAGA
1 ATAAAATAAGA
72460297 ATAAAAT
1 ATAAAAT
72460304 TTATAAATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (11 bp):
ATAAAATAAGA
Found at i:72463455 original size:16 final size:16
Alignment explanation
Indices: 72463418--72463459 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
72463408 TTAATCATAT
*
72463418 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
72463434 TT-AAATATATTATAA
1 TTAAAATATATTATAA
72463449 TTAAAATATAT
1 TTAAAATATAT
72463460 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:72463466 original size:14 final size:15
Alignment explanation
Indices: 72463427--72463468 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
72463417 TTTAAACATA
*
72463427 ATTATTATTAAATAT
1 ATTATAATTAAATAT
72463442 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
72463456 A-TATAATTTAATA
1 ATTATAATTAAATA
72463469 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:72466879 original size:48 final size:48
Alignment explanation
Indices: 72466827--72467057 Score: 453
Period size: 48 Copynumber: 4.8 Consensus size: 48
72466817 ATTTCTTGAT
72466827 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
72466875 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCTTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
72466923 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
72466971 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
72467019 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
72467058 GTAATTTTTA
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 181 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (48 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:72480369 original size:79 final size:81
Alignment explanation
Indices: 72480233--72480417 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
72480223 TTGAATGATG
*
72480233 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
72480297 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * **
72480312 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
72480374 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
72480392 ACCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72480418 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.64
80 32 0.35
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:72480424 original size:40 final size:40
Alignment explanation
Indices: 72480233--72480417 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
72480223 TTGAATGATG
* * * *
72480233 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
72480273 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72480313 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
72480352 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
72480393 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
72480418 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:72480439 original size:79 final size:79
Alignment explanation
Indices: 72480286--72480450 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
72480276 GGACTAAGAT
* * **
72480286 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACAAGTTACTAA
*
72480351 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
72480365 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACAAGTTA-C
* *
72480428 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
72480444 CCGAAGG
1 CCGAAGG
72480451 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACAAGTTACTAA
ATCCGGGTTAAATC
Found at i:72486389 original size:21 final size:21
Alignment explanation
Indices: 72486363--72486409 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
72486353 CGACGGTGGA
** *
72486363 GGTGGCTAGTGGTTGTCCAAT
1 GGTGGCTAGTGGAGGTCCAAC
72486384 GGTGGCTAGTGGAGGTCCAAC
1 GGTGGCTAGTGGAGGTCCAAC
72486405 GGTGG
1 GGTGG
72486410 TCGACGGTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.45, T:0.26
Consensus pattern (21 bp):
GGTGGCTAGTGGAGGTCCAAC
Found at i:72501047 original size:29 final size:29
Alignment explanation
Indices: 72500984--72501051 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
72500974 TAATCAACCG
72500984 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
72501013 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
72501042 CGCACACTTA
1 CGCACACTTA
72501052 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:72501221 original size:29 final size:29
Alignment explanation
Indices: 72501158--72501225 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
72501148 TAATCAACCA
*
72501158 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
72501187 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
72501216 CGCACACTTA
1 CGCACACTTA
72501226 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:72501366 original size:29 final size:30
Alignment explanation
Indices: 72501327--72501405 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
72501317 CTTAATAATC
72501327 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
72501357 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
72501386 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
72501406 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:72501399 original size:174 final size:174
Alignment explanation
Indices: 72500873--72501374 Score: 941
Period size: 174 Copynumber: 2.9 Consensus size: 174
72500863 AACTCAAAGT
* *
72500873 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
* *
72500938 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
72501003 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
72501047 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
72501112 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
72501177 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
72501221 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
*
72501286 GAAAATATACATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
72501351 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
72501375 TGTACAATTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:72518123 original size:31 final size:31
Alignment explanation
Indices: 72518085--72518146 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
72518075 TTTATAATAA
*
72518085 CTTAACCAATTTATACTTAATCGATCCCTGT
1 CTTAACCAATTTATACCTAATCGATCCCTGT
72518116 CTTAACCAATTTATACCTAATCGATCCCTGT
1 CTTAACCAATTTATACCTAATCGATCCCTGT
72518147 AGAGATGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.06, T:0.37
Consensus pattern (31 bp):
CTTAACCAATTTATACCTAATCGATCCCTGT
Found at i:72518204 original size:22 final size:22
Alignment explanation
Indices: 72518179--72518222 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
72518169 TTATTACTTG
72518179 ATTTGACAT-GTATACTT-ACACA
1 ATTTG-CATAGTATA-TTCACACA
72518201 ATTTGCATAGTATATTCACACA
1 ATTTGCATAGTATATTCACACA
72518223 CAACAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (22 bp):
ATTTGCATAGTATATTCACACA
Found at i:72518375 original size:3 final size:3
Alignment explanation
Indices: 72518367--72518518 Score: 295
Period size: 3 Copynumber: 50.7 Consensus size: 3
72518357 GAGGCATTCC
72518367 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
72518415 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
72518463 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
72518511 AAG AAG AA
1 AAG AAG AA
72518519 CAAAAGTGTG
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
3 147 1.00
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:72523792 original size:20 final size:20
Alignment explanation
Indices: 72523737--72523792 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
72523727 TTTTTCTTTT
*
72523737 TGTTAATTTC-TTTACTTTAA
1 TGTTATTTTCATTT-CTTTAA
* * * *
72523757 TTTTGTTTTTAATTCTTTAA
1 TGTTATTTTCATTTCTTTAA
72523777 TGTTATTTTCATTTCT
1 TGTTATTTTCATTTCT
72523793 ATTTTTATCT
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (20 bp):
TGTTATTTTCATTTCTTTAA
Found at i:72526390 original size:6 final size:6
Alignment explanation
Indices: 72526379--72526411 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
72526369 TATTCATATA
72526379 TTATTT TTATTT TTATTT TTATTT TTATTT TTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTA
72526412 AATTAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:72528183 original size:21 final size:21
Alignment explanation
Indices: 72528132--72528185 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
72528122 TATTCATCAA
* *
72528132 ATACTTAT-AAAAAAATGTAT
1 ATACTTATCAAATAAATATAT
***
72528152 ATACACCTCAAATAAATATAT
1 ATACTTATCAAATAAATATAT
72528173 ATACTTATCAAAT
1 ATACTTATCAAAT
72528186 GCATTTGCCG
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (21 bp):
ATACTTATCAAATAAATATAT
Found at i:72528237 original size:13 final size:13
Alignment explanation
Indices: 72528219--72528246 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
72528209 ATCAATTGCT
72528219 TACCAAATGCATA
1 TACCAAATGCATA
72528232 TACCAAATGCATA
1 TACCAAATGCATA
72528245 TA
1 TA
72528247 TATTTAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (13 bp):
TACCAAATGCATA
Found at i:72530182 original size:25 final size:25
Alignment explanation
Indices: 72530137--72530185 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
72530127 TATTTGTTTA
*
72530137 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
72530162 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
72530186 AAAACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:72540246 original size:28 final size:28
Alignment explanation
Indices: 72540178--72540259 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
72540168 GATTATAAAT
*
72540178 AATAGCCTTTGTTGTA--AACTATGAAAAG
1 AATAGCCTTTG-TG-ACGAACTCTGAAAAG
* *
72540206 AATAGTCGTTGTGACGAACTCTGAAAAG
1 AATAGCCTTTGTGACGAACTCTGAAAAG
*
72540234 AATAGCCTTTGTGGCGAACTCTGAAA
1 AATAGCCTTTGTGACGAACTCTGAAA
72540260 TGGATGCCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 1 0.02
27 2 0.04
28 43 0.93
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (28 bp):
AATAGCCTTTGTGACGAACTCTGAAAAG
Found at i:72540296 original size:27 final size:27
Alignment explanation
Indices: 72540222--72540296 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
72540212 CGTTGTGACG
* * * *
72540222 AACTCTGAAAAGAATAGCCTTTGTGGCG
1 AACTCTGAAATGGATA-CCTTTCTGGCA
*
72540250 AACTCTGAAATGGATGCCTTTCTGGCA
1 AACTCTGAAATGGATACCTTTCTGGCA
*
72540277 AATTCTG-AATGGATCACCTT
1 AACTCTGAAATGGAT-ACCTT
72540297 AGTGGTATGT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.18
27 19 0.49
28 13 0.33
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (27 bp):
AACTCTGAAATGGATACCTTTCTGGCA
Found at i:72543696 original size:50 final size:50
Alignment explanation
Indices: 72543620--72543817 Score: 216
Period size: 50 Copynumber: 3.8 Consensus size: 50
72543610 TTTCTTGTAC
* * **
72543620 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** * *
72543670 TGCCCACGCCATGTCCTAGACATGGTCTTACGGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
72543720 TGCCAATTCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
72543776 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
72543818 TTACCCAAAT
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
50 77 0.64
53 2 0.02
56 41 0.34
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:72548366 original size:11 final size:11
Alignment explanation
Indices: 72548329--72548368 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
72548319 TCCTTCATTC
72548329 ATCATTCCTCA
1 ATCATTCCTCA
* *
72548340 AGCATCCCTCA
1 ATCATTCCTCA
72548351 ATCATTCCTCA
1 ATCATTCCTCA
*
72548362 TTCATTC
1 ATCATTC
72548369 TCATCATCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.25, C:0.38, G:0.03, T:0.35
Consensus pattern (11 bp):
ATCATTCCTCA
Found at i:72557527 original size:93 final size:93
Alignment explanation
Indices: 72557368--72557539 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
72557358 AGGATGTTTG
* * *
72557368 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAG
*
72557433 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * ** * *
72557461 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAG
72557526 TTGAGTCCAAGTTC
66 TTGAGTCCAAGTTC
72557540 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCAAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:72563382 original size:55 final size:54
Alignment explanation
Indices: 72563295--72563549 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
72563285 ATTAGGGTTT
* * *
72563295 AAGGATACCGTGTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
72563350 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
72563405 AAAGG-TCCCAAGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
72563458 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * **
72563507 AAGGATACCACGTAAGACCATGACAAGTTATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
72563550 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 12 0.07
55 65 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:72563501 original size:108 final size:110
Alignment explanation
Indices: 72563306--72563502 Score: 310
Period size: 108 Copynumber: 1.8 Consensus size: 110
72563296 AGGATACCGT
*
72563306 GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCAT
1 GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
*
72563371 GTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCAA
66 GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCAA
* * *
72563416 GTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGACCA
1 GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACCA
*
72563478 TGTCAAGACATGGCAATGGTAAGTT
65 TGTCAAGACATGGCAATGATAAGTT
72563503 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.60
109 7 0.09
110 22 0.28
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
GTAAGACCATACCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCAT
GTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCAA
Found at i:72563767 original size:16 final size:16
Alignment explanation
Indices: 72563746--72563776 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
72563736 ATAAATTTGA
72563746 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
72563762 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
72563777 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:72567251 original size:43 final size:42
Alignment explanation
Indices: 72567138--72567287 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 42
72567128 CAATGCCAAC
* * *
72567138 GTCCCAGACGTGGTCTTACATGT-AATTAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGTAAATCAAATA-CGATGCCA-T
* * *
72567181 GTCCCA-ACCAGGGTCTTATAC-AAAATCAAATACGATGCCGAT
1 GTCCCAGA-CATGGTCTTACACGTAAATCAAATACGATGCC-AT
*
72567223 GTCCCAGACATGGTCTTACACGTAAATCATAAGT-CGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAATCA-AA-TACGATGCC-AT
* *
72567267 ATCCCAGACGT-GTCTTACACG
1 GTCCCAGACATGGTCTTACACG
72567288 ATAACACATA
Statistics
Matches: 87, Mismatches: 13, Indels: 14
0.76 0.11 0.12
Matches are distributed among these distances:
42 26 0.30
43 41 0.47
44 19 0.22
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAAATCAAATACGATGCCAT
Found at i:72568443 original size:42 final size:42
Alignment explanation
Indices: 72568385--72568472 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
72568375 AAATTTTCAC
*
72568385 AAAT-ACTAATTCACATATAATAACCTTAGAAAATAATATTA
1 AAATAACTAATTCACATATAATAAACTTAGAAAATAATATTA
72568426 AAATAACTAATTCACATATAATAAACTTAGAAAATAATATTA
1 AAATAACTAATTCACATATAATAAACTTAGAAAATAATATTA
72568468 AAATA
1 AAATA
72568473 TTTTTTTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 4 0.09
42 41 0.91
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (42 bp):
AAATAACTAATTCACATATAATAAACTTAGAAAATAATATTA
Found at i:72569035 original size:75 final size:76
Alignment explanation
Indices: 72568906--72569155 Score: 283
Period size: 75 Copynumber: 3.3 Consensus size: 76
72568896 TAGGCAAATG
* * *
72568906 CTTTCATCAGTTAATTTGACTAGTGC-AGGGAGCACCATTATACTCG-TCGATTTATCCGACTAG
1 CTTTCATCAGTTTATCTGACTAGTGCTAGGCA-CACCATTATACTCGTTCGATTTATCCGACTAG
**
72568969 CATTGGGCGTAA
65 CATTGGGCACAA
* *
72568981 CTTTCGTCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCG-TTTATTCGACTAGC
1 CTTTCATCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGATTTATCCGACTAGC
* *
72569045 ACTGGACACAA
66 ATTGGGCACAA
* * * * * *
72569056 CTTTCATAAATTTACCAGACTAGTGCTAGGCACACCGTTATACTCGTT-GATTTATCCAACTAGC
1 CTTTCATCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGATTTATCCGACTAGC
*
72569120 GTTGGGCACAA
66 ATTGGGCACAA
** * *
72569131 CTTTCATTTGTTTATTTGGCTAGTG
1 CTTTCATCAGTTTATCTGACTAGTG
72569156 ATGGGAACAT
Statistics
Matches: 145, Mismatches: 27, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
74 1 0.01
75 137 0.94
76 7 0.05
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (76 bp):
CTTTCATCAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGATTTATCCGACTAGC
ATTGGGCACAA
Found at i:72569184 original size:150 final size:150
Alignment explanation
Indices: 72568923--72569192 Score: 326
Period size: 150 Copynumber: 1.8 Consensus size: 150
72568913 CAGTTAATTT
* * ** *
72568923 GACTAGTGCAGGGAGCACCATTATACTCGTCGATTTATCCGACTAGCATTGGGCGTAACTTTCGT
1 GACTAGTGCAGGCAGCACCATTATACTCGTCGATTTATCCAACTAGCATTGGGCACAACTTTCAT
* * *
72568988 CAGTTTATCTGACTAGTGCTAGGCACACCATTATACTCGTTCGTTTATTCGACTAGCACTGGACA
66 CAGTTTATCTGACTAGTGATAGGAACACCATTATACTCGTTCGTTTATCCGACTAGCACTGGACA
72569053 CAACTTTCATAAATTTACCA
131 CAACTTTCATAAATTTACCA
* * *
72569073 GACTAGTGCTAGGCA-CACCGTTATACTCGTTGATTTATCCAACTAGCGTTGGGCACAACTTTCA
1 GACTAGTGC-AGGCAGCACCATTATACTCGTCGATTTATCCAACTAGCATTGGGCACAACTTTCA
** * * * ** ** * *
72569137 TTTGTTTATTTGGCTAGTGATGGGAACATTATTATGTTTGTTGGTTTATCCGACTA
65 TCAGTTTATCTGACTAGTGATAGGAACACCATTATACTCGTTCGTTTATCCGACTA
72569193 ACATGGGGCC
Statistics
Matches: 97, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
150 93 0.96
151 4 0.04
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (150 bp):
GACTAGTGCAGGCAGCACCATTATACTCGTCGATTTATCCAACTAGCATTGGGCACAACTTTCAT
CAGTTTATCTGACTAGTGATAGGAACACCATTATACTCGTTCGTTTATCCGACTAGCACTGGACA
CAACTTTCATAAATTTACCA
Found at i:72573052 original size:11 final size:11
Alignment explanation
Indices: 72573014--72573055 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
72573004 AAAGCATGTG
*
72573014 ATTATGTGATT
1 ATTAAGTGATT
*
72573025 ATTAAGCGATT
1 ATTAAGTGATT
*
72573036 A-GAAGTGATT
1 ATTAAGTGATT
72573046 ATTAAGTGAT
1 ATTAAGTGAT
72573056 ATGTGATTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (11 bp):
ATTAAGTGATT
Found at i:72574300 original size:50 final size:50
Alignment explanation
Indices: 72574239--72574498 Score: 254
Period size: 50 Copynumber: 5.2 Consensus size: 50
72574229 TTCGGCCACG
** * * *
72574239 TGTGTAGTACTAAGTTTAGGCTTCTACGTGTACCAAATCGTTAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
* * * * * *
72574289 TGTGTAGTACTAAGTGCAGGCTACTATGCGAACCAGATAGCTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGTCACA
* * *
72574340 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
* * * * *
72574390 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGCTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TT-AGGTCACA
* * * * *
72574441 TGTGTAGTACTAAGTACATGCTACTACGTGTATTCA-ATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATAGTTAGGTCACA
72574491 TGTGTAGT
1 TGTGTAGT
72574499 GTAACACCCC
Statistics
Matches: 169, Mismatches: 36, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 88 0.52
51 78 0.46
52 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACA
Done.