Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 46 of 770
Found at i:13233937 original size:46 final size:46
Alignment explanation
Indices: 13233762--13233937 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
13233752 TGTAACCTGC
* * * *
13233762 CCATAAGTGAACTCGGACTCAACTAAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
13233808 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ATAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCACAT
* *
13233858 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
*
13233901 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
13233938 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
44 1 0.01
46 64 0.58
47 28 0.25
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCACAT
Found at i:13233956 original size:46 final size:46
Alignment explanation
Indices: 13233813--13233956 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
13233803 CGCATCCATA
* *
13233813 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTATATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--AATATC-CT
* * ** *
13233862 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAATATCC-T
*
13233905 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAATATCCT
13233952 AGTGA
1 AGTGA
13233957 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 5 0.06
45 2 0.03
46 34 0.44
47 29 0.38
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAAATATCCT
Found at i:13237876 original size:311 final size:311
Alignment explanation
Indices: 13237278--13237924 Score: 901
Period size: 311 Copynumber: 2.1 Consensus size: 311
13237268 TGACATTATT
*
13237278 ATGTGATGTTATGGATGTTATTTTTGGTATAGTTGGAAGTTTAGTTTTCTTTTATAATGTAATTA
1 ATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAAGTTTAGTTTTCTTTTATAATGTAATTA
*
13237343 AACTTTTACTAATGATTAAGCTAAATTACACTGTTTTTTGGTTATGGTAATTTTTTTAACCACTT
66 AACTTTTACTAATGATTAAGCTAAATTACACTGTTTTTTGATTATGGTAATTTTTTTAACCACTT
* *
13237408 TGATACCTAAAGTCACTTTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAACGTCAGAGAC
131 TGATACCTAAAGTCACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTACGAACGTCAGAGAC
* * ** * *
13237473 AAAATTGTTGGTAGAGTCATAAATTTGGATTATCAAAGTGAGAAAATAAAAGTATAATTGAAGGC
196 AAAATTGTTCGTAGAGTCAGAAACCTAGATTATCAAAATGAGAAAAT-AAAGTATAATTGAAGGC
* *
13237538 AAAATGATGAATGTTATCCACGGACTTGTGAAATTTGAATTTTGAACATATC
260 AAAATGATGAATGTTATCCACGGACTTGTAAAATTTGAATTTCGAACATATC
*
13237590 ATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTA
1 ATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAAGTTTAGTTTTCTTTTATAATGTAATTA
* * * *
13237655 AGA-TTTT-CTAATTATTAAGCTAAATTATACTGTTTTCTT-ATTGTGTTAA-TTTTTTAACCAC
66 A-ACTTTTACTAATGATTAAGCTAAATTACACTGTTTT-TTGATTATGGTAATTTTTTTAACCAC
* * * * * *
13237716 TTTTATATCTAAAGTTACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTATGAATGT-TGAA
129 TTTGATACCTAAAGTCACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTACGAACGTCAG-A
** * * *
13237780 GATGACATTGTTCGTAGGACAGTCAGAAACCTAGATTATCAAAATGAGAAAAT-TAGTATATTTG
193 GACAAAATTGTTCGTA-G--AGTCAGAAACCTAGATTATCAAAATGAGAAAATAAAGTATAATTG
* * *
13237844 AAGGCGAAATGATGAATGTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATC
255 AAGGCAAAATGATGAATGTTATCCACGGACTTGTAAAATTTGAATTTCGAACATATC
*
13237901 ATGTGACGTTATGGATGTTATTTT
1 ATGTGATGTTATGGATGTTATTTT
13237925 GACACATTAG
Statistics
Matches: 297, Mismatches: 32, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
309 1 0.00
310 78 0.26
311 119 0.40
312 70 0.24
313 29 0.10
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (311 bp):
ATGTGATGTTATGGATGTTATTTTTGCTATAGTTGGAAGTTTAGTTTTCTTTTATAATGTAATTA
AACTTTTACTAATGATTAAGCTAAATTACACTGTTTTTTGATTATGGTAATTTTTTTAACCACTT
TGATACCTAAAGTCACATTTCATTTAGTCATTTATCAATTTAGGGGAGGTACGAACGTCAGAGAC
AAAATTGTTCGTAGAGTCAGAAACCTAGATTATCAAAATGAGAAAATAAAGTATAATTGAAGGCA
AAATGATGAATGTTATCCACGGACTTGTAAAATTTGAATTTCGAACATATC
Found at i:13241581 original size:34 final size:36
Alignment explanation
Indices: 13241529--13241604 Score: 95
Period size: 34 Copynumber: 2.2 Consensus size: 36
13241519 CTAGTATATA
* *
13241529 ATTA-AACTGATAACATAAACTCAATTAAA-ATTTT
1 ATTATAACTAATAACATAAAATCAATTAAATATTTT
* *
13241563 -TTATAACTAATAACATAAAATTAGTTAAATATTTT
1 ATTATAACTAATAACATAAAATCAATTAAATATTTT
13241598 ATTATAA
1 ATTATAA
13241605 AAAGTATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 3 0.09
34 21 0.60
35 5 0.14
36 6 0.17
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (36 bp):
ATTATAACTAATAACATAAAATCAATTAAATATTTT
Found at i:13243412 original size:99 final size:99
Alignment explanation
Indices: 13243234--13243453 Score: 255
Period size: 99 Copynumber: 2.2 Consensus size: 99
13243224 AAATGCTCCT
** * * * *
13243234 AAAAGATGGAGTTTATACGGCTCAACCTATTTACTCAGAGCACAGGGTTAACTTAGTTCAAACCA
1 AAAAGATGGAGTTTATACAACTCAACCGATTTACTCAGAACACAGGGTTAACTCAATTCAAACCA
* * * *
13243299 ATCAGCTTAATAGTCATGTTGGAAGTAGCCT-TCC
66 ATAAGCTCAATAGTCATATTGGAAGTAACCTCT-C
* * ** *
13243333 AGAAGATGGAGTTTATACAACTCAACCGGTTTACTCAGAACGTAGGGTTAACTCAATT-AAAGCT
1 AAAAGATGGAGTTTATACAACTCAACCGATTTACTCAGAACACAGGGTTAACTCAATTCAAA-CC
* *
13243397 AATAATCTCAGTAGTCATATTGGAAGTAACCTCTC
65 AATAAGCTCAATAGTCATATTGGAAGTAACCTCTC
13243432 AAAAGATGGAGTTTATACAACT
1 AAAAGATGGAGTTTATACAACT
13243454 AAATTGGTTT
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
98 3 0.03
99 97 0.96
100 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (99 bp):
AAAAGATGGAGTTTATACAACTCAACCGATTTACTCAGAACACAGGGTTAACTCAATTCAAACCA
ATAAGCTCAATAGTCATATTGGAAGTAACCTCTC
Found at i:13243513 original size:99 final size:99
Alignment explanation
Indices: 13243307--13243528 Score: 252
Period size: 99 Copynumber: 2.2 Consensus size: 99
13243297 CAATCAGCTT
* *
13243307 AATAGTCATGTTGGAAGTAGCCT-TCCAGAAGATGGAGTTTATACAACTCAACCGGTTTACTCAG
1 AATAGTCATGTTGGAAGTAGCCTCTCCAAAAGATGGAGTTTATACAACTAAACCGGTTTACTCAG
* * *
13243371 AACGTAGGGTTAACTCAATTAAAGCTAATAATCTC
66 AACGTAGAGATAACTCAATTAAA-CTAATAAACTC
* * * ** **
13243406 AGTAGTCATATTGGAAGTAACCTCT-CAAAAGATGGAGTTTATACAACTAAATTGGTTTACTTGG
1 AATAGTCATGTTGGAAGTAGCCTCTCCAAAAGATGGAGTTTATACAACTAAACCGGTTTACTCAG
* **
13243470 AGCGTAGAGATAACTCGGTTCAAA-TAGATAAACTC
66 AACGTAGAGATAACTCAATT-AAACTA-ATAAACTC
*
13243505 AATGGTCATGTTGGAAGTAGCCTC
1 AATAGTCATGTTGGAAGTAGCCTC
13243529 CAAGATGCGC
Statistics
Matches: 101, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
98 2 0.02
99 95 0.94
100 4 0.04
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (99 bp):
AATAGTCATGTTGGAAGTAGCCTCTCCAAAAGATGGAGTTTATACAACTAAACCGGTTTACTCAG
AACGTAGAGATAACTCAATTAAACTAATAAACTC
Found at i:13245776 original size:30 final size:30
Alignment explanation
Indices: 13245742--13245800 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13245732 CATCAATCAT
* *
13245742 AGAGACAACCATCTACATTGCCAATGCCAC
1 AGAGACAACCATCCACAATGCCAATGCCAC
* * *
13245772 AGAGAGATCCATCCACAATGTCAATGCCA
1 AGAGACAACCATCCACAATGCCAATGCCA
13245801 ATGCCAATAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.37, C:0.31, G:0.15, T:0.17
Consensus pattern (30 bp):
AGAGACAACCATCCACAATGCCAATGCCAC
Found at i:13246980 original size:313 final size:311
Alignment explanation
Indices: 13246324--13247201 Score: 1196
Period size: 313 Copynumber: 2.8 Consensus size: 311
13246314 TGTGATGTTG
* * *
13246324 TGGATGTTTTTTTTAGTATAGTTGGAAGTTTAGTTTTCTTTTATAATATAATTAAACTTTTACTA
1 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
* * *
13246389 ATGATTAAGTTAAATTATATTGTTTTTTCTTATTGTGTTAATTTTTAAAACCACTTTGATATCTA
66 ATGATTAAGCTAAATTATACTG--TTTTCTTATTGTGTTAATTTTT--GACCACTTTGATATCTA
*
13246454 AAGTTACTTTTCA-TTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTT
127 AAGTTACATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTT
* * ** *
13246518 GGTAGAGTAGTCATAAATTTGGATTATCAAAATGAGAATAAA-AGTATAATTGAAGGCAAAATGA
192 GGTAGGGCAGTCATAAACATGGATTATCAAAATGAGAA-AAATAGTATAATTGAAGGCGAAATGA
* * * **
13246582 TGAATGTTATCCATGGACTTGTGAAATTTGAATTTTGAACTTATCATGTGATGGTA
256 TGAATGTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACAGTA
* * *
13246638 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTCTATAATGTAATTAATCTTTTTCTA
1 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
* *
13246703 ATGATTAAGCTAAATTTTACTGTTTTCTTATTGTGTTAATTTCTTGACCACTTTTATATCTAAAG
66 ATGATTAAGCTAAATTATACTGTTTTCTTATTGTGTTAATTT-TTGACCACTTTGATATCTAAAG
**
13246768 TTACATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACGGCATTGTTGGT
130 TTACATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTTGGT
*
13246833 AGGGCAGTCATAAACATGGATTATCAAAAATGAGAAAAATAGTAGAATTGAAGGCGAAATGATGA
195 AGGGCAGTCATAAACATGGATTATC-AAAATGAGAAAAATAGTATAATTGAAGGCGAAATGATGA
* * *
13246898 TTGTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACATTC
259 ATGTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACAGTA
* *
13246951 TGGATGTTATTTTTGGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAGCTTTTACTA
1 TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
* ** * *
13247016 ATGATTAAGCTAAATTATACTATTTTC-TA-AAT-TT--TTTTAG-CCACTTTGATATTTAAAGT
66 ATGATTAAGCTAAATTATACTGTTTTCTTATTGTGTTAATTTTTGACCACTTTGATATCTAAAGT
* * * * *
13247075 TGCATTTCATTTAGTCATTTATCGATTTAAGGGAGGTATGAATGTTGGAGACAAAATTGTTGGGA
131 TACATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTTGGTA
* * * * * ** * *
13247140 AGGCATTCACAAACCTAGATTATGGAAATGAGAAAAATATTATAATTGAAGGTGAAATGATG
196 GGGCAGTCATAAACATGGATTATCAAAATGAGAAAAATAGTATAATTGAAGGCGAAATGATG
13247202 GACTTGTGAA
Statistics
Matches: 504, Mismatches: 56, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
305 34 0.07
306 93 0.18
307 2 0.00
308 3 0.01
310 2 0.00
311 28 0.06
312 98 0.19
313 166 0.33
314 78 0.15
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (311 bp):
TGGATGTTATTTTTAGTATAGTTGGAGGTTTAGTTTTCTTTTATAATGTAATTAAACTTTTACTA
ATGATTAAGCTAAATTATACTGTTTTCTTATTGTGTTAATTTTTGACCACTTTGATATCTAAAGT
TACATTTCATTTAGTCATTTATCGATTTAGGGGAGGTACGAATGTTGGAGACAACATTGTTGGTA
GGGCAGTCATAAACATGGATTATCAAAATGAGAAAAATAGTATAATTGAAGGCGAAATGATGAAT
GTTATCCATGGACTTGTAAAATTTGAATTTCGAACTTATAATGTGACAGTA
Found at i:13247024 original size:18 final size:18
Alignment explanation
Indices: 13246988--13247026 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
13246978 GTTTAGTTTT
13246988 CTTTTATAATGTAATTAAG
1 CTTTTATAATG-AATTAAG
13247007 CTTTTACTAATG-ATTAAG
1 CTTTTA-TAATGAATTAAG
13247025 CT
1 CT
13247027 AAATTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 6 0.32
20 5 0.26
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (18 bp):
CTTTTATAATGAATTAAG
Found at i:13248565 original size:14 final size:14
Alignment explanation
Indices: 13248548--13248575 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13248538 AAATTAAATC
13248548 TCTAAGATTACAAA
1 TCTAAGATTACAAA
13248562 TCTAAGATTACAAA
1 TCTAAGATTACAAA
13248576 ATCATATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
TCTAAGATTACAAA
Found at i:13248630 original size:36 final size:37
Alignment explanation
Indices: 13248578--13248674 Score: 132
Period size: 36 Copynumber: 2.7 Consensus size: 37
13248568 ATTACAAAAT
13248578 CATATC-T-TCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
*
13248612 CATATCATATCTAAGATTGCATATCATATCTAATATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
13248650 --TATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
13248675 TGAAGATTAT
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
34 6 0.10
35 1 0.02
36 35 0.60
38 16 0.28
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.40
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:13248682 original size:17 final size:19
Alignment explanation
Indices: 13248585--13248674 Score: 143
Period size: 19 Copynumber: 4.9 Consensus size: 19
13248575 AATCATATCT
13248585 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
13248602 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13248621 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
13248640 TCTAATATTG--TATCATA
1 TCTAAGATTGCATATCATA
13248657 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
13248675 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 26 0.39
19 41 0.61
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13248831 original size:21 final size:20
Alignment explanation
Indices: 13248793--13248832 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
13248783 TTGGACTTCG
**
13248793 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
13248813 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
13248833 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:13249103 original size:45 final size:45
Alignment explanation
Indices: 13249039--13249206 Score: 241
Period size: 45 Copynumber: 3.8 Consensus size: 45
13249029 ACTATTTTTG
*
13249039 ATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGTTATCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
* *
13249084 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
* * *
13249128 ATCTACTCCCCGTCTAATACAAAGATGCCAAATCTGTTATC-TCTT
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTC-A
* *
13249173 ATTTGCTCTCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
13249207 ATCTTGGATC
Statistics
Matches: 110, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
44 42 0.38
45 68 0.62
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCA
Found at i:13249159 original size:89 final size:89
Alignment explanation
Indices: 13249039--13249206 Score: 257
Period size: 89 Copynumber: 1.9 Consensus size: 89
13249029 ACTATTTTTG
* *
13249039 ATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGTTATCT-TCAATCTGCTCCCCGTCTAATA
1 ATCTACTCCCCGTCTAATACAAAGAAGCCAAATCTGTTATCTCT-AATCTGCTCCCCGTCTAATA
13249103 CAGAGACGCCAAATCTGCTTCTTCA
65 CAGAGACGCCAAATCTGCTTCTTCA
* * * *
13249128 ATCTACTCCCCGTCTAATACAAAGATGCCAAATCTGTTATCTCTTATTTGCTCTCCGTCTAATAC
1 ATCTACTCCCCGTCTAATACAAAGAAGCCAAATCTGTTATCTCTAATCTGCTCCCCGTCTAATAC
*
13249193 AGAGATGCCAAATC
66 AGAGACGCCAAATC
13249207 ATCTTGGATC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
89 70 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (89 bp):
ATCTACTCCCCGTCTAATACAAAGAAGCCAAATCTGTTATCTCTAATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:13249305 original size:78 final size:78
Alignment explanation
Indices: 13249176--13249361 Score: 300
Period size: 78 Copynumber: 2.4 Consensus size: 78
13249166 ATCTCTTATT
* *
13249176 TGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGTTCAGATCTAC
1 TGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATATAC
*
13249241 TGTGTCTTCGATC
66 TATGTCTTCGATC
* * *
13249254 TGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTTAATGAAGGTCAGATATAC
1 TGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATATAC
13249319 TATGTCTTCGATC
66 TATGTCTTCGATC
* *
13249332 TGCTCTCCGTCGAATATAGAGATGCCAAAT
1 TGCTCTCCGTCTAATACAGAGATGCCAAAT
13249362 TTGTTTCTTC
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 98 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
TGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTCAGATATAC
TATGTCTTCGATC
Found at i:13249653 original size:78 final size:78
Alignment explanation
Indices: 13249524--13249738 Score: 324
Period size: 78 Copynumber: 2.8 Consensus size: 78
13249514 GAAGACATTC
* * *
13249524 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCTTG
1 GAAGGTCATATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
13249589 GATCTGCTTCAAT
66 GATCTGCTTCAAT
* *
13249602 GAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
1 GAAGGT-CATATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
13249666 GGATCTGCTTCAAT
65 GGATCTGCTTCAAT
* * * **
13249680 GAAGGTCATATCTGCTGTGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 GAAGGTCATATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
13249739 TGTTTCTTCG
Statistics
Matches: 124, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
77 2 0.02
78 121 0.98
79 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (78 bp):
GAAGGTCATATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTG
GATCTGCTTCAAT
Found at i:13249777 original size:376 final size:376
Alignment explanation
Indices: 13249176--13249958 Score: 1271
Period size: 376 Copynumber: 2.1 Consensus size: 376
13249166 ATCTCTTATT
* *
13249176 TGCTCTCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGTTCAGATCTAC
1 TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGTCCAGATCTAC
* *
13249241 TGTGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTTAATGA
66 TATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGA
*
13249306 AGGTCAGATATACTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATTTGTTTCTT
131 AGGTCAGATATACTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTT
* *
13249371 CGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAATACGTG
196 CGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTG
* *
13249436 AAAGCCAAATCTGCTATGTCTTCGATCTGCTCCTTGTCAACGCAAGGATGCCAAATCATCTTGGA
261 AAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGA
* * *
13249501 TCTACTTCGATGTGAAGACATTCGAAGGTTAGATCTGCTATGTCTTCGATC
326 TCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATC
* *
13249552 TGCTCCCCGTCTAATACAGAGATGTCAAATCATCTTGGATCTGCTTCAATGAAGGTCCA-ATCTG
1 TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAA-GTCCAGATCTA
* * *
13249616 TTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATG
65 CTATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATG
* * * * *
13249681 AAGGTCATATCTGCTGTGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCT
130 AAGGTCAGATATACTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCT
13249746 TCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT
195 TCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGT
* *
13249811 GAAAGCCAAATCTGCTATGTTTTCGATCTACTCCTTGTAAATGCAAGGATGCCAAATCATCTTGG
260 GAAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGG
*
13249876 ATCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGTTATGTCTTCGATC
325 ATCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATC
** * * **
13249928 TGCTTTCCATCGAATATGGAGATGCCAAATC
1 TGCTCCCCGTCTAATACAGAGATGCCAAATC
13249959 TGTTATTTTC
Statistics
Matches: 374, Mismatches: 32, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
376 370 0.99
377 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (376 bp):
TGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGTCCAGATCTAC
TATGTCTTCGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAATGA
AGGTCAGATATACTATGTCTTCGATCTGCTCTCCGTCGAATATAGAGATGCCAAATCTGTTTCTT
CGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTG
AAAGCCAAATCTGCTATGTCTTCGATCTACTCCTTGTAAACGCAAGGATGCCAAATCATCTTGGA
TCTACTTCAATGTGAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATC
Found at i:13250017 original size:44 final size:44
Alignment explanation
Indices: 13249946--13250044 Score: 137
Period size: 44 Copynumber: 2.2 Consensus size: 44
13249936 ATCGAATATG
* * * *
13249946 GAGATGCCAAATCTGTTATTTTCGATCTGCTCTCTGACAATACA
1 GAGACGCCAAAACTGCTATTTTCGATCTGCTCCCTGACAATACA
*
13249990 GAGACGCCAAAACTGCTATCTTT-GATCTGTTCCCTGACAATACA
1 GAGACGCCAAAACTGCTAT-TTTCGATCTGCTCCCTGACAATACA
13250034 GAGACGCCAAA
1 GAGACGCCAAA
13250045 TCATCTTAGA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
44 46 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (44 bp):
GAGACGCCAAAACTGCTATTTTCGATCTGCTCCCTGACAATACA
Found at i:13258445 original size:19 final size:19
Alignment explanation
Indices: 13258410--13258515 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
13258400 TCTTATCTTT
13258410 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
*
13258427 TAAGATTGCATATCGTATC
1 TAAGATTGCATATCATATC
*
13258446 TAATATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
13258464 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
13258481 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
13258500 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
13258516 TGAAGATTAT
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
17 24 0.30
18 14 0.17
19 42 0.52
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:13258471 original size:54 final size:55
Alignment explanation
Indices: 13258410--13258515 Score: 187
Period size: 54 Copynumber: 1.9 Consensus size: 55
13258400 TCTTATCTTT
* *
13258410 TAAGATTGTATCATATCTAAGATTGCATATCGTATCTAATATTGCA-ATCATATC
1 TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCATATC
13258464 TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCAT
1 TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCAT
13258516 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
54 44 0.90
55 5 0.10
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (55 bp):
TAAGATTGTATCATATCTAAGATTGCATATCATATCTAAGATTGCATATCATATC
Found at i:13258669 original size:19 final size:18
Alignment explanation
Indices: 13258624--13258672 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
13258614 TGGACTGAAC
*
13258624 TTGGATTTCTTTTTTTTT
1 TTGGATTTATTTTTTTTT
13258642 TT-GAGTTTATTATTTTTTT
1 TTGGA-TTTATT-TTTTTTT
13258661 TTGGATTTATTT
1 TTGGATTTATTT
13258673 CTGAGTCCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 2 0.07
18 8 0.30
19 15 0.56
20 2 0.07
ACGTcount: A:0.12, C:0.02, G:0.12, T:0.73
Consensus pattern (18 bp):
TTGGATTTATTTTTTTTT
Found at i:13275033 original size:92 final size:92
Alignment explanation
Indices: 13274872--13275226 Score: 487
Period size: 92 Copynumber: 3.8 Consensus size: 92
13274862 TTACAAGTCT
* * * * *
13274872 TATCTCCCTGAAGTTGTAGTAGAGCAAACTGAAAATAGCAAATCTTCTTTCCCTGAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CAAA-A-CAAATCTTATTTCCCTGAAGTTGCAGT
13274937 GGAACAGATTGAAGCTATAAACTACAGATCC
62 GGAACAGATTGAAGCTATAAACTACAGATCC
* *
13274968 TATCTCTCTGAAGTTGTAGTAGAGCAGATCAAAACAAATCATATTTCCCTGAAGTTGCAGTGGAA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTGGAA
13275033 CAGATTGAAGCTATAAACTACAGATCC
66 CAGATTGAAGCTATAAACTACAGATCC
* * * * *
13275060 TATCTCTCTGAAGTTGCAGTAGAGCAGGTGAAAACAAATCTTACTTCCCTGAAGTTACGGTGGAA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTGGAA
*
13275125 CAGATTGAAGCCATAAACTACAGATCC
66 CAGATTGAAGCTATAAACTACAGATCC
* * **
13275152 TATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAACAAGCCTTATCTT-CCTGAAGTTGCAGTGGA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTAT-TTCCCTGAAGTTGCAGTGGA
* *
13275216 GCAGACTGAAG
65 ACAGATTGAAG
13275227 ATAGCAACTT
Statistics
Matches: 236, Mismatches: 22, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
92 203 0.86
93 3 0.01
94 3 0.01
95 1 0.00
96 26 0.11
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (92 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAATCTTATTTCCCTGAAGTTGCAGTGGAA
CAGATTGAAGCTATAAACTACAGATCC
Found at i:13275209 original size:41 final size:43
Alignment explanation
Indices: 13275159--13275305 Score: 140
Period size: 44 Copynumber: 3.4 Consensus size: 43
13275149 TCCTATCTCT
*
13275159 CTGAAGTTGCAGTAGAGCAGGTCGA-A-ACAAGCCTTATCTTC
1 CTGAAGTTGCAGTGGAGCAGGTCGAGATACAAGCCTTATCTTC
* *
13275200 CTGAAGTTGCAGTGGAGCA-GACTGAAGATAGCAA-CTTTATCTTC
1 CTGAAGTTGCAGTGGAGCAGGTC-G-AGATA-CAAGCCTTATCTTC
* * * * * *
13275244 TTGAAGTTACAGTGGAGTAGGTCAATATTACAAGCCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGGTCGAGA-TACAAGCCTTATCTTC
*
13275288 CTGAAGTTGCAATGGAGC
1 CTGAAGTTGCAGTGGAGC
13275306 GGACTAGAGT
Statistics
Matches: 83, Mismatches: 15, Indels: 13
0.75 0.14 0.12
Matches are distributed among these distances:
40 2 0.02
41 19 0.23
42 1 0.01
43 6 0.07
44 50 0.60
45 5 0.06
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAGGTCGAGATACAAGCCTTATCTTC
Found at i:13277353 original size:27 final size:29
Alignment explanation
Indices: 13277284--13277346 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
13277274 TGTTATTCTC
* * *
13277284 GTATATATTTTTTTTCTAAATTTATTTAT
1 GTATATATATGTTTTCTAAATCTATTTAT
13277313 GTATATATATGTTTT-TAAATCTATTATAT
1 GTATATATATGTTTTCTAAATCTATT-TAT
13277342 GTATA
1 GTATA
13277347 AGTGTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 9 0.30
29 21 0.70
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (29 bp):
GTATATATATGTTTTCTAAATCTATTTAT
Found at i:13277537 original size:2 final size:2
Alignment explanation
Indices: 13277530--13277560 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
13277520 TTATTATACG
13277530 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13277561 TGGTATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13278733 original size:127 final size:128
Alignment explanation
Indices: 13278417--13278747 Score: 423
Period size: 129 Copynumber: 2.6 Consensus size: 128
13278407 AAAAATTCCT
* * * *
13278417 TAAAACGAAGGTAATGTTTGATGTTTGGAAATTCGGGAAATCGTGCCCTACCGTGCTGGGTTTTG
1 TAAAAC-AAGGCAATGTTTGATGCTTGGAAATTCGGG-AATCGTGCCCTATCGTGCTGGGTTTCG
* * * * * *
13278482 ATTTCCCGTTTGTTCAAGATAATCGAACCTTCCTTTAGAATTTCATTTGTATTTTTTCTAAATTC
64 ATTTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTTCTTCTAAATTC
* *
13278547 TAAAACAAGACAATGTTTGATGCTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGCTTGGAAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* *
13278612 TTTCTCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTCCATTCGTA-TTCTT-TAAATTC
65 TTTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTTCTTCTAAATTC
** * * * *
13278674 TAAAACAAGGCAATGTTCAATGCTTGGAAGTTCGTGGAATAGTGCTCTATCGTGCTGGGTTTCGG
1 TAAAACAAGGCAATGTTTGATGCTTGGAAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTTCGA
*
13278739 TTTTCCGTT
65 TTTCCCGTT
13278748 GGACTAAATA
Statistics
Matches: 175, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
126 1 0.01
127 69 0.39
128 4 0.02
129 92 0.53
130 9 0.05
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.38
Consensus pattern (128 bp):
TAAAACAAGGCAATGTTTGATGCTTGGAAATTCGGGAATCGTGCCCTATCGTGCTGGGTTTCGAT
TTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTTCTTCTAAATTC
Found at i:13281116 original size:27 final size:27
Alignment explanation
Indices: 13281075--13281126 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
13281065 GTAAAGATGA
* *
13281075 CAAATTATCAGATTAACTGAATCATGT
1 CAAAATATCAAATTAACTGAATCATGT
13281102 CAAAATATCAAATTAACTGAATCAT
1 CAAAATATCAAATTAACTGAATCAT
13281127 AAAATTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (27 bp):
CAAAATATCAAATTAACTGAATCATGT
Found at i:13283824 original size:27 final size:29
Alignment explanation
Indices: 13283755--13283817 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
13283745 GTTATTCTTG
* *
13283755 TATATATAT-TTTTTTCTAAATTTATTTA
1 TATATATATATGTTTTCTAAATCTATTTA
13283783 TATATATATATGTTTT-TAAATCTA-TTA
1 TATATATATATGTTTTCTAAATCTATTTA
*
13283810 TATGTATA
1 TATATATA
13283818 AGTGTTTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
28 16 0.52
29 5 0.16
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (29 bp):
TATATATATATGTTTTCTAAATCTATTTA
Found at i:13285186 original size:127 final size:128
Alignment explanation
Indices: 13284870--13285200 Score: 432
Period size: 129 Copynumber: 2.6 Consensus size: 128
13284860 AAAAATTCCT
* * *
13284870 TAAAACGAAGGTAATGTTTGATGTTTGGAAATTCGGGAAATCGTGCCCTACCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTTGATGCTTGGAAATTCGGG-AATCGTGCCCTATCGTGCTGGGTTTCG
* * * * * *
13284935 ATTTCCCGTTTGTTCAAGATAATCGAACCTTCCTTTAGAATTTCATTTGTATTTTTTCTAAATTC
64 ATTTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTTCTTCTAAATTC
* *
13285000 TAAAACAAGACAATGTTTGATGCTTGGAAATTCGGGGAATCGTGCCCTATCGTGTTGGGTTTCGA
1 TAAAACAAGGCAATGTTTGATGCTTGGAAATTC-GGGAATCGTGCCCTATCGTGCTGGGTTTCGA
* *
13285065 TTTCTCGTTTGTTCAAAATAATCAAATATTCCTTTAGAATTCCATTCGTA-TTCTT-TAAATTC
65 TTTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTTCTTCTAAATTC
** * * * *
13285127 TAAAACAAGGCAATGTTCAATGCTTGGAAGTTCGTGGAATAGTGCTCTATCGTGCTGGGTTTCGG
1 TAAAACAAGGCAATGTTTGATGCTTGGAAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTTCGA
*
13285192 TTTTCCGTT
65 TTTCCCGTT
13285201 GGACTAAATA
Statistics
Matches: 176, Mismatches: 23, Indels: 7
0.85 0.11 0.03
Matches are distributed among these distances:
126 1 0.01
127 69 0.39
128 4 0.02
129 93 0.53
130 9 0.05
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (128 bp):
TAAAACAAGGCAATGTTTGATGCTTGGAAATTCGGGAATCGTGCCCTATCGTGCTGGGTTTCGAT
TTCCCGTTTGTTCAAAATAATCAAACATTCCTTTAGAATTCCATTCGTATTTCTTCTAAATTC
Found at i:13286225 original size:26 final size:26
Alignment explanation
Indices: 13286192--13286301 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
13286182 TGATACAAAT
13286192 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * * *
13286218 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13286244 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
13286270 TGATAATGGGTTACGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13286296 TGATAA
1 TGATAA
13286302 GAATTTCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:13288324 original size:135 final size:137
Alignment explanation
Indices: 13288081--13288365 Score: 520
Period size: 135 Copynumber: 2.1 Consensus size: 137
13288071 GAGTAGTCTC
13288081 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
13288146 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTA-C
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
13288210 ACTGTTA
131 ACTGTTA
*
13288217 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
13288281 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
13288346 ACTGTTA
131 ACTGTTA
**
13288353 CCTGAATGGGCTT
1 CCCAAATGGGCTT
13288366 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 105 0.73
136 39 0.27
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:13292120 original size:26 final size:26
Alignment explanation
Indices: 13292062--13292169 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
13292052 TGATACAAAT
13292062 TGATAATGGGTTAGGTAAATG-TTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * *
13292087 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13292113 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13292139 TGATAATGGGTTA-GTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13292164 TGATAA
1 TGATAA
13292170 GAATTTCATG
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 37 0.49
26 39 0.51
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:13292122 original size:51 final size:51
Alignment explanation
Indices: 13292062--13292169 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
13292052 TGATACAAAT
13292062 TGATAATGGGTTAGGTAAATG-TTCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGATTA-GTAAATATTCCA
* * *
13292113 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGATTAGTAAATATTCCA
13292164 TGATAA
1 TGATAA
13292170 GAATTTCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
51 37 0.70
52 16 0.30
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTTCATGATAATGGATTAGTAAATATTCCA
Found at i:13294173 original size:136 final size:137
Alignment explanation
Indices: 13293928--13294213 Score: 520
Period size: 136 Copynumber: 2.1 Consensus size: 137
13293918 GAGTAGTCTC
13293928 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
13293993 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
13294058 ACTGTTA
131 ACTGTTA
*
13294065 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
13294129 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
13294194 ACTGTTA
131 ACTGTTA
**
13294201 CCTGAATGGGCTT
1 CCCAAATGGGCTT
13294214 AGGCCCAATA
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 124 0.86
137 20 0.14
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:13297015 original size:16 final size:18
Alignment explanation
Indices: 13296994--13297026 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
13296984 GAACCAGAGA
13296994 AGAAGAA-GA-AGAAGAT
1 AGAAGAATGAGAGAAGAT
13297010 AGAAGAATGAGAGAAGA
1 AGAAGAATGAGAGAAGA
13297027 ATGAATATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.33, T:0.06
Consensus pattern (18 bp):
AGAAGAATGAGAGAAGAT
Found at i:13297030 original size:11 final size:10
Alignment explanation
Indices: 13296989--13297027 Score: 53
Period size: 9 Copynumber: 3.9 Consensus size: 10
13296979 AGAATGAACC
13296989 AGAGAAGAAG
1 AGAGAAGAAG
13296999 A-AGAAGAAG
1 AGAGAAGAAG
*
13297008 ATAGAAGAATG
1 AGAGAAGAA-G
13297019 AGAGAAGAA
1 AGAGAAGAA
13297028 TGAATATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 9 0.35
10 8 0.31
11 9 0.35
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (10 bp):
AGAGAAGAAG
Found at i:13302019 original size:9 final size:9
Alignment explanation
Indices: 13302005--13302035 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
13301995 TACCCATTAT
13302005 ATGACTTCA
1 ATGACTTCA
13302014 ATGACTTCA
1 ATGACTTCA
13302023 ATGACTTCA
1 ATGACTTCA
13302032 ATGA
1 ATGA
13302036 TTTTGACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (9 bp):
ATGACTTCA
Found at i:13303176 original size:99 final size:99
Alignment explanation
Indices: 13302999--13303290 Score: 276
Period size: 99 Copynumber: 2.9 Consensus size: 99
13302989 GAAAGGCTCT
* *
13302999 CAGAAGATCGAGTTTATACAGA-TCAACCAATTTACTC--AGAACCTAGGGTTAACTCAGTTCAA
1 CAGAAGATGGAATTTATAC-GACTCAACCAATTTACTCGGAGAA--TAGGGTTAACTCAGTTCAA
* ** *
13303061 GCAAACCAGTTTAATAATCATATTGGAAGTAGAATAC
63 GAAAATAAGTTCAATAATCATATTGGAAGTAGAATAC
* * ** * *
13303098 CAGAAGAT-GAAGTTTATACGGCTCAATCGGTTTGCTCGGA-ATGTAGGGTTAACTC-GATTCAA
1 CAGAAGATGGAA-TTTATACGACTCAACCAATTTACTCGGAGA-ATAGGGTTAACTCAG-TTCAA
* * ** *
13303160 GAAAATAAGTTCAATAATCATATTAGAAATAGCCTGC
63 GAAAATAAGTTCAATAATCATATTGGAAGTAGAATAC
13303197 CAGAAGATGGAATTTATACGACTCAACCAATTTACTCGGAGAATAGGGTTAACTCAGTTCAA-AC
1 CAGAAGATGGAATTTATACGACTCAACCAATTTACTCGGAGAATAGGGTTAACTCAGTTCAAGA-
** *
13303261 AAATAA-TCTCAATGGTGATATTGGAAGTAG
65 AAATAAGT-TCAATAATCATATTGGAAGTAG
13303291 CCTTCAAGCT
Statistics
Matches: 155, Mismatches: 27, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
98 6 0.04
99 142 0.92
100 6 0.04
101 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (99 bp):
CAGAAGATGGAATTTATACGACTCAACCAATTTACTCGGAGAATAGGGTTAACTCAGTTCAAGAA
AATAAGTTCAATAATCATATTGGAAGTAGAATAC
Found at i:13306364 original size:88 final size:88
Alignment explanation
Indices: 13306213--13306388 Score: 289
Period size: 88 Copynumber: 2.0 Consensus size: 88
13306203 TCATTTAGCC
* *
13306213 ATTTATCGATTTAAGGGAGGTGCTAATATTGGAGACAACATTGTTGGGATGACAACCAAAAACTT
1 ATTTATCGATTTAAGGGAGGTGCTAATATTGGAGACAACATTATTGGGAGGACAACCAAAAACTT
13306278 AGATTATCAAAATGAGGAAAATA
66 AGATTATCAAAATGAGGAAAATA
* * * *
13306301 ATTTATCGATTTAAGGGAGGTGCTAATGTTGGAGACGACATTATTGGGAGGACAATCATAAACTT
1 ATTTATCGATTTAAGGGAGGTGCTAATATTGGAGACAACATTATTGGGAGGACAACCAAAAACTT
*
13306366 GGATTATCAAAATGAGGAAAATA
66 AGATTATCAAAATGAGGAAAATA
13306389 GTATAGTTGA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 81 1.00
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (88 bp):
ATTTATCGATTTAAGGGAGGTGCTAATATTGGAGACAACATTATTGGGAGGACAACCAAAAACTT
AGATTATCAAAATGAGGAAAATA
Found at i:13311799 original size:26 final size:26
Alignment explanation
Indices: 13311763--13311846 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
13311753 CATGAAATTC
13311763 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13311789 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13311815 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13311841 TTATCA
1 TTATCA
13311847 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13319538 original size:38 final size:38
Alignment explanation
Indices: 13319431--13319594 Score: 238
Period size: 38 Copynumber: 4.3 Consensus size: 38
13319421 ATATTCGATG
13319431 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
13319469 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* *
13319509 AATATCCTGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
13319547 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
13319585 TATATTCGGG
1 TATATCCGGG
13319595 CCCTCGTGCC
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
38 73 0.65
39 10 0.09
40 29 0.26
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:13319648 original size:43 final size:43
Alignment explanation
Indices: 13319587--13319711 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 43
13319577 GCTGGTATTA
* *
13319587 TATTCGGGCCCTCGTGCCTAGTAGGCTTCATGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * *
13319630 TATTCGGGCTTTCGTGCCTAGCAGGCTTCATACTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
* * * *
13319673 TATTCAGGCCTTCATGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGA
13319712 AATGAAATGT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.15, C:0.24, G:0.30, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTG
Found at i:13324284 original size:3 final size:3
Alignment explanation
Indices: 13324276--13324631 Score: 181
Period size: 3 Copynumber: 120.3 Consensus size: 3
13324266 TATTTTACCG
13324276 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * **
13324324 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTT TTA TTA CTA TTA ACA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * * *
13324372 TAA GTA TTA TTA TCA CT- TTA TT- TTA TTA TCA CTA TCA TTT TTG TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * ** *
13324418 TTA TTC TTA CTA TTA TT- TTT TTA CTA CTA TCA TCTA ACA -TA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
** * * ** *
13324462 TTA TTA CAAA TT- TTT TTA TTA TCA TTA TTA CCA TTA -TA TTTA CTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * ** * * *
13324507 CTA TCA TTA TTA GTA TTA TTA TTA TTA TTA TTA CCA TTG GTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
13324555 TTG TTA CTA TTA TT- TCTA TTA CTA TTA CTA TTA TTA TTA -TA CTG
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
13324599 TTC TTA TCA CTA TTA -TA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13324632 AGTTTTTTTT
Statistics
Matches: 257, Mismatches: 83, Indels: 26
0.70 0.23 0.07
Matches are distributed among these distances:
2 15 0.06
3 237 0.92
4 5 0.02
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:13324796 original size:15 final size:15
Alignment explanation
Indices: 13324766--13324799 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13324756 ATATTATCAC
*
13324766 CATTAATATTATTAT
1 CATTAATATTACTAT
*
13324781 CATTACTATTACTAT
1 CATTAATATTACTAT
13324796 CATT
1 CATT
13324800 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (15 bp):
CATTAATATTACTAT
Found at i:13326635 original size:2 final size:2
Alignment explanation
Indices: 13326578--13326616 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13326568 GGTATTTAAA
*
13326578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13326617 ATAGTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13327216 original size:30 final size:31
Alignment explanation
Indices: 13327182--13327245 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
13327172 GTGGCTAGGG
*
13327182 TTTCTTAGTT-TTTTTTTTTGGGGTTAGGTT
1 TTTCTTAGTTCTTTTTTTTTAGGGTTAGGTT
**
13327212 TTTCTTTTTTCTTTTTTTTTAGGGTTAGGTT
1 TTTCTTAGTTCTTTTTTTTTAGGGTTAGGTT
13327243 TTT
1 TTT
13327246 TTGGGGGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 8 0.27
31 22 0.73
ACGTcount: A:0.06, C:0.05, G:0.19, T:0.70
Consensus pattern (31 bp):
TTTCTTAGTTCTTTTTTTTTAGGGTTAGGTT
Found at i:13328328 original size:217 final size:217
Alignment explanation
Indices: 13328103--13328788 Score: 1143
Period size: 217 Copynumber: 3.2 Consensus size: 217
13328093 GTGATCTGAA
13328103 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
13328168 GTCTCGAGGCT-AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAA-TACC
65 GTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
13328231 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAAAAAT
129 TCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAAAAAT
*
13328295 TGAAAATACCTCAGCATGTCTTGAG
193 TGAAAATACCTCAGCGTGTCTTGAG
**
13328320 GCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
13328384 TCCTGAGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTAC
66 TCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA-AACAGAAATTGAAATTAC
*
13328447 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAAT
128 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAAT
13328512 TGAAAATACCTCA-CGTGTCTTGAG
193 TGAAAATACCTCAGCGTGTCTTGAG
** *
13328536 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
13328601 TCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
66 T-CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCT
* *
13328666 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTG
130 CAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTG
* *
13328731 AAATTACCTCAGCGTGTCCTGAG
195 AAAATACCTCAGCGTGTCTTGAG
*
13328754 GCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
13328789 TTTGAAACAG
Statistics
Matches: 443, Mismatches: 15, Indels: 21
0.92 0.03 0.04
Matches are distributed among these distances:
214 19 0.04
215 49 0.11
216 60 0.14
217 240 0.54
218 57 0.13
219 18 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (217 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTC
AGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGA
AAATACCTCAGCGTGTCTTGAG
Found at i:13328595 original size:145 final size:145
Alignment explanation
Indices: 13328103--13328788 Score: 1091
Period size: 143 Copynumber: 4.7 Consensus size: 145
13328093 GTGATCTGAA
13328103 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
13328168 GT-CTCGAGGCT-AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTG-AAATAC
66 GTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATAC
13328230 CTCAGCGTGTCCCGAG
130 CTCAGCGTGTCCCGAG
* * *
13328246 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAATTACCTCAGCG
* ** *
13328311 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTAC
65 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATAC
*
13328375 CTCAGCGTGTCCTGAG
130 CTCAGCGTGTCCCGAG
*
13328391 GCTCAACTCA--TCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAATTACCTCAGCG
*
13328454 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGAAAAT
65 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAAAT
**
13328519 ACCTCA-CGTGTCTTGAG
128 ACCTCAGCGTGTCCCGAG
** *
13328536 GCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTCAGCGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
* *
13328600 GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACC
66 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACC
13328665 TCAGCGTGTCCCGAG
131 TCAGCGTGTCCCGAG
*
13328680 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCTCAGCG
*
13328745 TGTCCTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTT
65 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
13328789 TTTGAAACAG
Statistics
Matches: 499, Mismatches: 31, Indels: 23
0.90 0.06 0.04
Matches are distributed among these distances:
142 2 0.00
143 147 0.29
144 88 0.18
145 138 0.28
146 106 0.21
147 18 0.04
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (145 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGCGT
GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACC
TCAGCGTGTCCCGAG
Found at i:13328790 original size:74 final size:73
Alignment explanation
Indices: 13328098--13328802 Score: 1092
Period size: 72 Copynumber: 9.7 Consensus size: 73
13328088 CATGTGTGAT
*
13328098 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
13328163 AGCGTGT-
66 AGCGTGTC
13328170 CTCGAGGCT-AACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAA-TACCT
1 CT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCT
13328232 CAGCGTGTC
65 CAGCGTGTC
* * *
13328241 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTGAAATTACCT
*
13328306 CAGCATGTC
65 CAGCGTGTC
* **
13328315 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--TTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
13328378 AGCGTGTC
66 AGCGTGTC
*
13328386 CTGAGGCTCAACTCA--TCTCGCAATATGAGTTGATTTTTTTAACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAATTACCT
13328449 CAGCGTGTC
65 CAGCGTGTC
* *
13328458 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAAAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCT
13328523 CA-CGTGTC
65 CAGCGTGTC
* ** *
13328531 TTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
13328595 AGCGTGTC
66 AGCGTGTC
*
13328603 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
13328667 AGCGTGTC
66 AGCGTGTC
* *
13328675 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTGAAATTACCT
13328740 CAGCGTGTC
65 CAGCGTGTC
*
13328749 CTGAGGCTCAACTCACCTCTCGCAGTATGAGTTGATTTTTTTTG-AAACAGAAAT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAACAGAAAT
13328803 AAAAACATCA
Statistics
Matches: 586, Mismatches: 31, Indels: 30
0.91 0.05 0.05
Matches are distributed among these distances:
69 18 0.03
70 19 0.03
71 124 0.21
72 191 0.33
73 58 0.10
74 160 0.27
75 16 0.03
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTC
AGCGTGTC
Found at i:13337053 original size:19 final size:19
Alignment explanation
Indices: 13337029--13337065 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13337019 GCGAACGAGT
13337029 ATGGAT-ATGCAATGAATGA
1 ATGGATCATG-AATGAATGA
13337048 ATGGATCATGAATGAATG
1 ATGGATCATGAATGAATG
13337066 CATGAATGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (19 bp):
ATGGATCATGAATGAATGA
Found at i:13338720 original size:2 final size:2
Alignment explanation
Indices: 13338713--13338738 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13338703 ATAAAAATAC
13338713 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
13338739 GCATATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13339072 original size:39 final size:38
Alignment explanation
Indices: 13338947--13339072 Score: 116
Period size: 39 Copynumber: 3.3 Consensus size: 38
13338937 ATAATTTGTA
* * *
13338947 ATAATA-ATATATACACAATATGGTATTTAAAATATATAT
1 ATAATATATATATA-ACTA-ATGGTATTAAAAATATATAC
* * *
13338986 AT-ATATATGTAT-A-TAATAGTATTTAAGAATATATAC
1 ATAATATATATATAACTAATGGTA-TTAAAAATATATAC
* *
13339022 ATAAGAAATATATAACTAATGGTATTAAAAAATATATAC
1 ATAATATATATATAACTAATGGTATT-AAAAATATATAC
13339061 ATAATATATATA
1 ATAATATATATA
13339073 AAATACCTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
35 5 0.07
36 14 0.21
37 8 0.12
38 6 0.09
39 35 0.51
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.37
Consensus pattern (38 bp):
ATAATATATATATAACTAATGGTATTAAAAATATATAC
Found at i:13339074 original size:24 final size:24
Alignment explanation
Indices: 13339016--13339075 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
13339006 ATTTAAGAAT
* *
13339016 ATATACATAAGAAATATATAACTA
1 ATATATATAAAAAATATATAACTA
*
13339040 ATGGTAT-TAAAAAATATAT-ACATA
1 AT-ATATATAAAAAATATATAAC-TA
13339064 ATATATATAAAA
1 ATATATATAAAA
13339076 TACCTAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
23 5 0.17
24 22 0.76
25 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (24 bp):
ATATATATAAAAAATATATAACTA
Found at i:13342120 original size:26 final size:26
Alignment explanation
Indices: 13342084--13342193 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
13342074 CATGAAATTC
13342084 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
13342110 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13342136 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
13342162 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13342188 TTATCA
1 TTATCA
13342194 ATTTGTACCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13342607 original size:8 final size:8
Alignment explanation
Indices: 13342596--13342620 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
13342586 AAGTGGGAAA
13342596 GTGGCTAG
1 GTGGCTAG
13342604 GTGGCTAG
1 GTGGCTAG
13342612 GTGGCTAG
1 GTGGCTAG
13342620 G
1 G
13342621 GTTTCTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.52, T:0.24
Consensus pattern (8 bp):
GTGGCTAG
Found at i:13342657 original size:31 final size:30
Alignment explanation
Indices: 13342630--13342703 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 30
13342620 GGTTTCTTAG
13342630 TTTTTTTTTTGGGGGGTTAGGTTTTTCTTT
1 TTTTTTTTTTGGGGGGTTAGGTTTTTCTTT
***
13342660 TTTCTTTTTTTTTAGGGTTAGGTTTTT-TTT
1 TTT-TTTTTTTGGGGGGTTAGGTTTTTCTTT
13342690 TCTTTTTTTTTGGG
1 T-TTTTTTTTTGGG
13342704 TTAGGTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
30 14 0.39
31 22 0.61
ACGTcount: A:0.04, C:0.04, G:0.22, T:0.70
Consensus pattern (30 bp):
TTTTTTTTTTGGGGGGTTAGGTTTTTCTTT
Found at i:13342687 original size:27 final size:27
Alignment explanation
Indices: 13342643--13342715 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 27
13342633 TTTTTTTGGG
13342643 GGGTTAGGTTTTTCTTTTTTCTTTTTTTTT
1 GGGTTAGG--TTT-TTTTTTCTTTTTTTTT
13342673 AGGGTTAGGTTTTTTTTTCTTTTTTTTT
1 -GGGTTAGGTTTTTTTTTCTTTTTTTTT
13342701 GGGTTAGGTTTTTTT
1 GGGTTAGGTTTTTTT
13342716 GGGGGGGCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 15 0.36
28 16 0.38
29 3 0.07
31 8 0.19
ACGTcount: A:0.05, C:0.04, G:0.21, T:0.70
Consensus pattern (27 bp):
GGGTTAGGTTTTTTTTTCTTTTTTTTT
Found at i:13343198 original size:26 final size:26
Alignment explanation
Indices: 13343168--13343265 Score: 169
Period size: 26 Copynumber: 3.8 Consensus size: 26
13343158 ATTGATAGGG
13343168 TTAGGTAAATGTTCCATGATAATGGA
1 TTAGGTAAATGTTCCATGATAATGGA
* *
13343194 TTAGGTAAATATTCCATGATAATGGG
1 TTAGGTAAATGTTCCATGATAATGGA
*
13343220 TTAGGTAAATGTTCCATGATAATGGT
1 TTAGGTAAATGTTCCATGATAATGGA
13343246 TTAGGTAAATGTTCCATGAT
1 TTAGGTAAATGTTCCATGAT
13343266 GGGCATTTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (26 bp):
TTAGGTAAATGTTCCATGATAATGGA
Found at i:13344778 original size:25 final size:26
Alignment explanation
Indices: 13344750--13344801 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
13344740 TTTACAGTTT
13344750 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
13344775 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
13344801 T
1 T
13344802 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:13350230 original size:26 final size:26
Alignment explanation
Indices: 13350201--13350308 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
13350191 TGGTACAAAT
13350201 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
13350227 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13350253 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
13350279 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13350305 TGAT
1 TGAT
13350309 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13353612 original size:2 final size:2
Alignment explanation
Indices: 13353605--13353629 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13353595 CCTTTCTCCA
13353605 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13353630 AACCTTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13354253 original size:16 final size:16
Alignment explanation
Indices: 13354232--13354262 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13354222 TTTTTTATTA
*
13354232 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
13354248 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
13354263 AAACGAATAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:13357141 original size:17 final size:17
Alignment explanation
Indices: 13357119--13357179 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
13357109 CACACGGGAA
13357119 TACAAACTAATATATAG
1 TACAAACTAATATATAG
* * * *
13357136 TACAAATTAACTCCTTCAAAA
1 TACAAACTAA-T--AT-ATAG
13357157 TACAAACTAATATATAG
1 TACAAACTAATATATAG
13357174 TACAAA
1 TACAAA
13357180 TACTATTTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
20 2 0.06
21 11 0.34
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (17 bp):
TACAAACTAATATATAG
Found at i:13357190 original size:36 final size:38
Alignment explanation
Indices: 13357117--13357192 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
13357107 TTCACACGGG
*
13357117 AATACAAACTAATATATAGTACAAATTAACTCCTTCAA
1 AATACAAACTAATATATAGTACAAATTAACTACTTCAA
*
13357155 AATACAAACTAATATATAGTACAAA-T-ACTATTTCAA
1 AATACAAACTAATATATAGTACAAATTAACTACTTCAA
13357191 AA
1 AA
13357193 CAATAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 10 0.28
37 1 0.03
38 25 0.69
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (38 bp):
AATACAAACTAATATATAGTACAAATTAACTACTTCAA
Found at i:13357333 original size:30 final size:29
Alignment explanation
Indices: 13357298--13357356 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
13357288 GAGTTAGATC
13357298 AAATTAAAATTTGATGTATAAAATTACACA
1 AAATTAAAATTT-ATGTATAAAATTACACA
* *
13357328 AAATTAAAGTTTATGTATATAATTACACA
1 AAATTAAAATTTATGTATAAAATTACACA
13357357 CTAAACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.36
Consensus pattern (29 bp):
AAATTAAAATTTATGTATAAAATTACACA
Found at i:13357368 original size:31 final size:29
Alignment explanation
Indices: 13357311--13357369 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
13357301 TTAAAATTTG
**
13357311 ATGTATAAAATTACACAAAATTAAAGTTT
1 ATGTATAAAATTACACAAAACCAAAGTTT
*
13357340 ATGTATATAATTACACACTAAACCAAAGTT
1 ATGTATAAAATTACACA--AAACCAAAGTT
13357370 AATATATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
31 9 0.36
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (29 bp):
ATGTATAAAATTACACAAAACCAAAGTTT
Found at i:13357829 original size:3 final size:3
Alignment explanation
Indices: 13357488--13357795 Score: 203
Period size: 3 Copynumber: 102.7 Consensus size: 3
13357478 CATCATCATC
13357488 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* ** * * * *
13357536 ATT ATT ATT ACT ATT AAC ATA AGT ATT ATT ATC ACT -TT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
* * * * * * * * * * *
13357581 ATC ACT ATCA ATT TTT GTA ATT ATT CTT ACT ATT ATT TTT TTT ACT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * ** * * * *
13357627 ACT ATC ATCT AAC A-T ACT ATT ATT ACT ATT -TT TTT ATT ATC ATT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
13357671 ATT ACC ATT A-T ATTT ACT ACT ATC ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
13357716 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT TTT GTT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
13357764 ATT -TCT ATT ACT ATT ACT ACT ATT ATT ATT AT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT AT
13357796 ACTGTTCTTA
Statistics
Matches: 235, Mismatches: 60, Indels: 20
0.75 0.19 0.06
Matches are distributed among these distances:
2 7 0.03
3 219 0.93
4 9 0.04
ACGTcount: A:0.31, C:0.09, G:0.01, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:13357994 original size:15 final size:15
Alignment explanation
Indices: 13357964--13357997 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13357954 ATATTATCAC
*
13357964 CATTAATATTATTAT
1 CATTAATATTACTAT
*
13357979 CATTACTATTACTAT
1 CATTAATATTACTAT
13357994 CATT
1 CATT
13357998 TTTTAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (15 bp):
CATTAATATTACTAT
Found at i:13365614 original size:20 final size:20
Alignment explanation
Indices: 13365571--13365615 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
13365561 ACTATTTTGT
13365571 TATGGGCCAACTGTATTGAA
1 TATGGGCCAACTGTATTGAA
*
13365591 -ATGGGCCCAACTGTGTT-AA
1 TATGGG-CCAACTGTATTGAA
13365610 TATGGG
1 TATGGG
13365616 TAAGGCGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
TATGGGCCAACTGTATTGAA
Found at i:13373769 original size:137 final size:137
Alignment explanation
Indices: 13373523--13373809 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
13373513 CATTGGGACT
**
13373523 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
13373588 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
13373653 CATATAC
131 CATATAC
*
13373660 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
13373725 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAG
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
*
13373790 CATATGC
131 CATATAC
13373797 AAGCCCATTTGGG
1 AAGCCCATTTGGG
13373810 GAGACTACTC
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATAC
Found at i:13374094 original size:25 final size:27
Alignment explanation
Indices: 13374057--13374109 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
13374047 TCAAACATGC
13374057 ATTTAAGTCAATTTAACC-C-TAGGGGT
1 ATTTAAGTCAATTT-ACCTCTTAGGGGT
*
13374083 ATTTTAGT-AATTTACCTCTTAGGGGT
1 ATTTAAGTCAATTTACCTCTTAGGGGT
13374109 A
1 A
13374110 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 6 0.25
26 15 0.62
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (27 bp):
ATTTAAGTCAATTTACCTCTTAGGGGT
Found at i:13375631 original size:26 final size:26
Alignment explanation
Indices: 13375595--13375730 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
13375585 CATGAAATTC
*
13375595 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
13375621 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
13375647 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
13375673 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
13375699 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
13375725 TTATCA
1 TTATCA
13375731 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:13379874 original size:64 final size:64
Alignment explanation
Indices: 13379800--13379927 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
13379790 TTATTCATAA
*
13379800 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAACATCCTAATTATTTGACATAAGCAT
* * *
13379864 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAATATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAACATCCTAATTATTTGACATAAGCAT
13379928 AGATACATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTGGATTCATTTCGATCATAACATCCTAATTATTTGACATAAGCAT
Found at i:13380089 original size:88 final size:88
Alignment explanation
Indices: 13379995--13380796 Score: 890
Period size: 88 Copynumber: 9.0 Consensus size: 88
13379985 GTGAATTCAC
* *
13379995 GAGCCTTTACCCCCTAAGCAGTAGGGT-ACAGGCTGAAAGATTACAGATATTATCTCCCTAAGCA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAA-ATTACAGATCTTATCTCCCTAAGCA
* * *
13380059 GCAGTAGAGCAAATCGAAGACGGT
65 GTAGTGGAGCAGATCGAAGACGGT
* * * * *
13380083 TAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACCGATCTTGTCTCCCTAAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
13380148 TAGTGGAGCAGATCGAAGACGGT
66 TAGTGGAGCAGATCGAAGACGGT
* * *
13380171 GAGCCTTAACCCCCTAAGCAGTAAGCAGTAGGGTAACAGGCTAAAAATTACCGATCTTGTCTCCC
1 GAGCCTTAA-CCCC----C--TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCC
*
13380236 TAAGTAGTAGTGGAGCAGATCGAAGACGGT
59 TAAGCAGTAGTGGAGCAGATCGAAGACGGT
* * * * *
13380266 GAGCCTTAACCCCCTAAGCAGTAGGATAATAGGCTGGAAATTTCAAATCTTATCTCCCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* **
13380331 TAGTGGAGCAGATCAAAGATAGT
66 TAGTGGAGCAGATCGAAGACGGT
* * * * * *
13380354 AAGCCTTAAACCTCTAAGCAGTAGGGTAACAGGCTAAAAATTACCGATCTTGTCTCCCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* *
13380419 TAGTAGAGCAGATCAAAGACGGT
66 TAGTGGAGCAGATCGAAGACGGT
* * * *
13380442 GAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAGATTACAGATCTTATCACCCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* ** *
13380507 TAGGGGAAAAGATCGAAGAAGGT
66 TAGTGGAGCAGATCGAAGACGGT
* * * * *
13380530 GAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCT-AGAAATTACAGATCTTGTCTCCCCAAGTA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGA-AAATTACAGATCTTATCTCCCTAAGCA
** * **
13380594 GTAGCAGAGTAGATCGAAGATAGT
65 GTAGTGGAGCAGATCGAAGACGGT
* * * * * *
13380618 AAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGGAAATTTCAGATCTTACCTCCCTAAGCAA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* * *
13380683 TAGTGGAGTAGATCAAATACGGT
66 TAGTGGAGCAGATCGAAGACGGT
* * * * * * * *
13380706 TAGCCTTAACTCCCTAAGCAGTAGGGTAACAGTCTGGAGATTACAGATCCTATCACCCTAAACAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
* *
13380771 TAAG-GGAACAGATCGAAGACAGT
66 T-AGTGGAGCAGATCGAAGACGGT
13380794 GAG
1 GAG
13380797 TATTATTTTT
Statistics
Matches: 607, Mismatches: 96, Indels: 22
0.84 0.13 0.03
Matches are distributed among these distances:
87 1 0.00
88 501 0.83
89 16 0.03
90 1 0.00
93 1 0.00
94 4 0.01
95 83 0.14
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACGGT
Found at i:13380501 original size:44 final size:45
Alignment explanation
Indices: 13380453--13380597 Score: 120
Period size: 44 Copynumber: 3.3 Consensus size: 45
13380443 AGCCTTAACC
13380453 CCCTAAGTAGTAGGGTAATAGGCT-GAAGATTACAGATCTTATCA
1 CCCTAAGTAGTAGGGTAATAGGCTAGAAGATTACAGATCTTATCA
* * * * * ** * * *
13380497 CCCTAAGCAGTAGGGGAA-AAGATCGAAGA--AGGTGAGCCTTAACC
1 CCCTAAGTAGTAGGGTAATAGGCTAGAAGATTA-CAGA-TCTTATCA
* *
13380541 CCCTAAGTAGTAGGGTAATAGGCTAGAA-ATTACAGATCTTGTCT
1 CCCTAAGTAGTAGGGTAATAGGCTAGAAGATTACAGATCTTATCA
*
13380585 CCCCAAGTAGTAG
1 CCCTAAGTAGTAG
13380598 CAGAGTAGAT
Statistics
Matches: 74, Mismatches: 21, Indels: 12
0.69 0.20 0.11
Matches are distributed among these distances:
42 1 0.01
43 5 0.07
44 59 0.80
45 8 0.11
46 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (45 bp):
CCCTAAGTAGTAGGGTAATAGGCTAGAAGATTACAGATCTTATCA
Found at i:13380646 original size:264 final size:263
Alignment explanation
Indices: 13379995--13380789 Score: 1007
Period size: 264 Copynumber: 3.0 Consensus size: 263
13379985 GTGAATTCAC
* * *
13379995 GAGCCTTTACCCCCTAAGCAGTAGGGT-ACAGGCTGAAAGATTACAGATATTATCTCCCTAAGCA
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTG-AA-ATTACAGATCTTATCTCCCTAAGCA
* * ** *
13380059 GCAGTAGAGCAAATCGAAGACGGTTAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAAT
64 GTAGTAGAGCAGATCGAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAAT
* *
13380124 TACCGATCTTGTCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAG
129 TACCGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCT-A-
* * * * * * * *
13380189 CAGTAAGCAGTAGGGTAACAGGCTAAAAATTACCGATCTTGTCTCCCTAAGTAGTAGTGGAGCAG
192 -AGT----AGTAGGGTAACAGGCTGAAGATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAG
*
13380254 ATCGAAGACGGT
252 ATCGAAGAAGGT
* * *
13380266 GAGCCTTAACCCCCTAAGCAGTAGGATAATAGGCTGGAAATTTCAAATCTTATCTCCCTAAGCAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCT-GAAATTACAGATCTTATCTCCCTAAGCAG
* * * *
13380331 TAGTGGAGCAGATCAAAGATAGTAAGCCTTAAACCTCTAAGCAGTAGGGTAACAGGCTAAAAATT
65 TAGTAGAGCAGATCGAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATT
*
13380396 ACCGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGT
130 ACCGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGT
* *
13380461 AGTAGGGTAATAGGCTGAAGATTACAGATCTTATCACCCTAAGCAGTAGGGGAAAAGATCGAAGA
195 AGTAGGGTAACAGGCTGAAGATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGA
13380526 AGGT
260 AGGT
* * * *
13380530 GAGCCTTAACCCCCTAAGTAGTAGGGTAATAGGCTAGAAATTACAGATCTTGTCTCCCCAAGTAG
1 GAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCT-GAAATTACAGATCTTATCTCCCTAAGCAG
* * * **
13380595 TAGCAGAGTAGATCGAAGATAGTAAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGGAAATT
65 TAGTAGAGCAGATCGAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATT
* * ** * * * * * *
13380660 TCAGATCTTACCTCCCTAAGCAATAGTGGAGTAGATCAAATACGGTTAGCCTTAACTCCCTAAGC
130 ACCGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGT
* * * * *
13380725 AGTAGGGTAACAGTCTGGAGATTACAGATCCTATCACCCTAAACAGTAAGGGAACAGATCGAAGA
195 AGTAGGGTAACAGGCTGAAGATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGA
13380790 CAGTGAGTAT
Statistics
Matches: 458, Mismatches: 64, Indels: 11
0.86 0.12 0.02
Matches are distributed among these distances:
264 283 0.62
268 3 0.01
270 1 0.00
271 162 0.35
272 8 0.02
273 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.22
Consensus pattern (263 bp):
GAGCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTAGAGCAGATCGAAGATAGTAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTA
CCGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCCCTAAGTA
GTAGGGTAACAGGCTGAAGATTACAGATCTTATCACCCTAAGCAGTAGGGGAACAGATCGAAGAA
GGT
Found at i:13380817 original size:15 final size:15
Alignment explanation
Indices: 13380797--13380831 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13380787 AGACAGTGAG
* *
13380797 TATTATTTTTTTTAC
1 TATTATTTCTATTAC
13380812 TATTATTTCTATTAC
1 TATTATTTCTATTAC
13380827 TATTA
1 TATTA
13380832 CTACTATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTATTTCTATTAC
Found at i:13381043 original size:15 final size:15
Alignment explanation
Indices: 13381013--13381046 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13381003 ATATTATCAC
*
13381013 CATTAATATTATTAT
1 CATTAATATTACTAT
*
13381028 CATTACTATTACTAT
1 CATTAATATTACTAT
13381043 CATT
1 CATT
13381047 TTTTTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (15 bp):
CATTAATATTACTAT
Found at i:13382474 original size:2 final size:2
Alignment explanation
Indices: 13382467--13382493 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13382457 CCTTCCTCCA
13382467 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
13382494 AACCTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13383259 original size:28 final size:26
Alignment explanation
Indices: 13383227--13383278 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
13383217 AAAAAATCTT
*
13383227 TAAAAATTGTAAACAAAAACTAATATCA
1 TAAAAATTAT-AACAAAAA-TAATATCA
*
13383255 TAAAAATTATTACAAAAATAATAT
1 TAAAAATTATAACAAAAATAATAT
13383279 TTGCAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 7 0.32
28 9 0.41
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.29
Consensus pattern (26 bp):
TAAAAATTATAACAAAAATAATATCA
Found at i:13385974 original size:17 final size:17
Alignment explanation
Indices: 13385952--13386012 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
13385942 CACACGGGAA
13385952 TACAAACTAATATATAG
1 TACAAACTAATATATAG
* * * *
13385969 TACAAATTAACTCCTTCAAAA
1 TACAAACTAA-T--AT-ATAG
13385990 TACAAACTAATATATAG
1 TACAAACTAATATATAG
13386007 TACAAA
1 TACAAA
13386013 TACTCTTTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 17 0.53
18 2 0.06
20 2 0.06
21 11 0.34
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.28
Consensus pattern (17 bp):
TACAAACTAATATATAG
Found at i:13386023 original size:36 final size:38
Alignment explanation
Indices: 13385950--13386025 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 38
13385940 TTCACACGGG
13385950 AATACAAACTAATATATAGTACAAATTAACTCCTTCAA
1 AATACAAACTAATATATAGTACAAATTAACTCCTTCAA
*
13385988 AATACAAACTAATATATAGTACAAA-T-ACTCTTTCAA
1 AATACAAACTAATATATAGTACAAATTAACTCCTTCAA
13386024 AA
1 AA
13386026 CAATAAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
36 11 0.30
37 1 0.03
38 25 0.68
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (38 bp):
AATACAAACTAATATATAGTACAAATTAACTCCTTCAA
Found at i:13386103 original size:21 final size:21
Alignment explanation
Indices: 13386079--13386119 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13386069 ATGACCCAGA
13386079 TTTTCTTAACTAGATATGTGT
1 TTTTCTTAACTAGATATGTGT
* *
13386100 TTTTTTTAACTAGATTTGTG
1 TTTTCTTAACTAGATATGTG
13386120 AGAGTTAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.56
Consensus pattern (21 bp):
TTTTCTTAACTAGATATGTGT
Found at i:13387506 original size:195 final size:195
Alignment explanation
Indices: 13387077--13387551 Score: 449
Period size: 195 Copynumber: 2.4 Consensus size: 195
13387067 CTACGAATGC
* * * * * * * * *
13387077 ATGATGTCAATAATTTCTATTTGAATCCTATAAATTAAATAAACTATAAGATTGAT-ATTCACAA
1 ATGATGACAATAATTTATATATGAATCCCAAAAATTAAATAAATTATAAAATTCATCTTTC-CAA
* ** * * ** *
13387141 AAAAAATGTAATATTAAGAACTGTAGAAGAATAAATGAAGATGATGGTTTGTATTTGAACTCTAA
65 AACACGTGTAATATTAAGAACTGTACAAGAACAAATGAAGATGATGGCATGTATTTGAACACTAA
* * * * * *
13387206 AAATCAAATCAATTATACGATCGATCTTCACAAACACGTGTAATATTGAGAACTACATATGAATA
130 AAATCAAATAAATTATACGAACAATCTTAACAAACACGTGTAACATTGAAAACTACATATGAATA
13387271 A
195 A
* ***** * * *
13387272 ATGATGACAATAATTTATATTTGAATTTTGTAGATTAAATAAATTATAATATTCATCTTTGCAAA
1 ATGATGACAATAATTTATATATGAATCCCAAAAATTAAATAAATTATAAAATTCATCTTTCCAAA
* *
13387337 GCACGTGTAATATTAATAACTGTACAAGAACAAATGAAGACT-ATGGCATGTATTCT-AACACTA
66 ACACGTGTAATATTAAGAACTGTACAAGAACAAATGAAGA-TGATGGCATGTATT-TGAACACTA
* * * * *
13387400 GAAATCAAATAAATTATAGGAACAATCTTAACAAATATGTGTAACATT-AAAAC-ACGTATGTGA
129 AAAATCAAATAAATTATACGAACAATCTTAACAAACACGTGTAACATTGAAAACTAC--ATATGA
*
13387463 ATGA
192 ATAA
* **
13387467 ATGAAT-ACGATAATTTATATATGAATCCCAAAAATTAAATAAATTATAAAATTGTTCTTTCCAA
1 ATG-ATGACAATAATTTATATATGAATCCCAAAAATTAAATAAATTATAAAATTCATCTTTCCAA
* *
13387531 AACATGTGCAATATTAAGAAC
65 AACACGTGTAATATTAAGAAC
13387552 AACATAAGAT
Statistics
Matches: 225, Mismatches: 49, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
193 2 0.01
194 4 0.02
195 213 0.95
196 6 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (195 bp):
ATGATGACAATAATTTATATATGAATCCCAAAAATTAAATAAATTATAAAATTCATCTTTCCAAA
ACACGTGTAATATTAAGAACTGTACAAGAACAAATGAAGATGATGGCATGTATTTGAACACTAAA
AATCAAATAAATTATACGAACAATCTTAACAAACACGTGTAACATTGAAAACTACATATGAATAA
Found at i:13395891 original size:13 final size:13
Alignment explanation
Indices: 13395873--13395898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13395863 GGGATTTGTT
13395873 TTAACTAAACTAA
1 TTAACTAAACTAA
13395886 TTAACTAAACTAA
1 TTAACTAAACTAA
13395899 GAATGCACAG
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:13396802 original size:13 final size:13
Alignment explanation
Indices: 13396784--13396809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13396774 AACAAATCGA
13396784 ACACGGGTGTGTC
1 ACACGGGTGTGTC
13396797 ACACGGGTGTGTC
1 ACACGGGTGTGTC
13396810 CCTATCGAGC
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:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
ACACGGGTGTGTC
Found at i:13405848 original size:60 final size:60
Alignment explanation
Indices: 13405734--13405849 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
13405724 ATGTGAAATC
* *
13405734 AACACGGCCTGGACTTCCGTACACGGGCAAACCACACGCCCGTGTAGTTCTAGCAGGCTT
1 AACACGGCCTGGACTTCCGTACACGGGCAAACCACACACCCGTGTACTTCTAGCAGGCTT
* * * * * * *
13405794 AACATGGCTTGGACTTCCTTACACGGGTAGACCACACACCCGTGTCCTTTTAGCAG
1 AACACGGCCTGGACTTCCGTACACGGGCAAACCACACACCCGTGTACTTCTAGCAG
13405850 AATCGAGCAC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (60 bp):
AACACGGCCTGGACTTCCGTACACGGGCAAACCACACACCCGTGTACTTCTAGCAGGCTT
Found at i:13408757 original size:14 final size:14
Alignment explanation
Indices: 13408738--13408767 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13408728 ACAACCTAAA
13408738 AATTTTTAATTCTC
1 AATTTTTAATTCTC
13408752 AATTTTTAATTCTC
1 AATTTTTAATTCTC
13408766 AA
1 AA
13408768 AAATCAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTTAATTCTC
Found at i:13415382 original size:13 final size:13
Alignment explanation
Indices: 13415364--13415389 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13415354 GGGATTTGTT
13415364 TTAACTAAACTAA
1 TTAACTAAACTAA
13415377 TTAACTAAACTAA
1 TTAACTAAACTAA
13415390 GAATGCACAG
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:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:13416290 original size:61 final size:61
Alignment explanation
Indices: 13416222--13416350 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
13416212 GTGCTTCAAA
* *
13416222 CCGTGTTAGAGTCTGTTGAATA-GACACG-GCCATGTGGTCTACCCGTGTAAGG-AAGTCTAGG
1 CCGTGTTAGAGTCTGCT-AACACGACACGAG-CATGTGGTCTACCCGTGT-AGGAAAGTCTAGG
* ** *
13416283 CCGTGTTAGAGTCTGCTAACACTACACGAGTGTGTGGTGTACCCGTGTAGGAAAGTCTAGG
1 CCGTGTTAGAGTCTGCTAACACGACACGAGCATGTGGTCTACCCGTGTAGGAAAGTCTAGG
13416344 CCGTGTT
1 CCGTGTT
13416351 GATTTCCCAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
60 6 0.10
61 52 0.88
62 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (61 bp):
CCGTGTTAGAGTCTGCTAACACGACACGAGCATGTGGTCTACCCGTGTAGGAAAGTCTAGG
Found at i:13418688 original size:34 final size:34
Alignment explanation
Indices: 13418645--13418712 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
13418635 GCATTTTTGA
* *
13418645 CACTGTACTGAGATGGGCTAAGGCCCAA-ACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
*
13418678 CACTGATACTGAAAAGGGCTTAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAGACTGT
13418713 TCAACTGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 5 0.17
34 20 0.67
35 5 0.17
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAGACTGT
Found at i:13422231 original size:40 final size:40
Alignment explanation
Indices: 13422165--13422241 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
13422155 ACGGTACCAG
* *
13422165 TTGGTGTGTAGGGTTGAATGGGTCGATTATATCCCCATAC
1 TTGGTGTGTAGGCTTGAATGGATCGATTATATCCCCATAC
* *
13422205 TTGGTGTGTAGGTCTTG-GTGGATCGATTTTATCCCCA
1 TTGGTGTGTAGG-CTTGAATGGATCGATTATATCCCCA
13422242 CATGGTGTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.17, C:0.16, G:0.30, T:0.38
Consensus pattern (40 bp):
TTGGTGTGTAGGCTTGAATGGATCGATTATATCCCCATAC
Found at i:13432067 original size:17 final size:16
Alignment explanation
Indices: 13432045--13432078 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
13432035 ATTTTAAATA
*
13432045 TATTTTTTAATTACATT
1 TATTTTTCAATTA-ATT
13432062 TATTTTTCAATTAATT
1 TATTTTTCAATTAATT
13432078 T
1 T
13432079 CAAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTCAATTAATT
Found at i:13432933 original size:12 final size:12
Alignment explanation
Indices: 13432918--13432942 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13432908 TATTTTATTA
13432918 ACGTTAATTGCT
1 ACGTTAATTGCT
13432930 ACGTTAATTGCT
1 ACGTTAATTGCT
13432942 A
1 A
13432943 ATATTATTAG
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:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
ACGTTAATTGCT
Found at i:13433652 original size:194 final size:194
Alignment explanation
Indices: 13433373--13433724 Score: 489
Period size: 194 Copynumber: 1.8 Consensus size: 194
13433363 TAATTTAAAG
*
13433373 AACTACAATGAATGAATAACGACAATAATTTCTATTTGAATCGTATAAATTAAATAAACTATATG
1 AACTACAATGAATGAATAACGACAATAATTTATATTTGAATCGTATAAATTAAATAAACTATATG
**
13433438 ATTGATATTGACAAAACATGTGTAATATTAAGAACTGCATAAGAA-AAATGAAGACGATGGTTTG
66 ATACATATTGACAAAACATGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACGATGGTTTG
*
13433502 TATTTGAACTCTAAAAATCAAATCAATTATACAGTCTATCTTCACAAACACGAGTAATATTGAT
131 TATTTGAACACTAAAAATCAAATCAATTATACAGTCTATCTTCACAAACACGAGTAATATTGAT
* * * *
13433566 AACTACATATGAAT-ACATGACGATAATAATTTATATTTGAATC-TCATAAATTAAATTAATTAT
1 AACTACA-ATGAATGA-ATAACGACAATAATTTATATTTGAATCGT-ATAAATTAAATAAACTAT
* * * * *
13433629 AAT-ATACATCTTCGA-ACAACATGTGTAATATTAAGAATTGCATAAGAATAAATGAAGGCTATG
63 -ATGATACATATT-GACAAAACATGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACGATG
* *
13433692 GTTTGTATTTTAACACTAAAACTCAAATCAATT
126 GTTTGTATTTGAACACTAAAAATCAAATCAATT
13433725 GTCTAATCAA
Statistics
Matches: 138, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
193 9 0.07
194 83 0.60
195 46 0.33
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (194 bp):
AACTACAATGAATGAATAACGACAATAATTTATATTTGAATCGTATAAATTAAATAAACTATATG
ATACATATTGACAAAACATGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACGATGGTTTG
TATTTGAACACTAAAAATCAAATCAATTATACAGTCTATCTTCACAAACACGAGTAATATTGAT
Found at i:13433791 original size:195 final size:195
Alignment explanation
Indices: 13433368--13433825 Score: 490
Period size: 195 Copynumber: 2.4 Consensus size: 195
13433358 ACATGTAATT
* *
13433368 TAAAGAACTACA-ATGAATGA-ATA-ACGACAATAATTTCTATTTGAATCGT-ATAAATTAAATA
1 TAAAGAACTACATATGAAT-ACA-AGACGATAATAATTTATATTTGAATC-TCATAAATTAAATA
* **
13433429 AACTAT-ATGATTGATATTGACAAAACATGTGTAATATTAAGAACTGCATAAGAAAAATGAAGAC
63 AATTATAATGATACATATTGACAAAACATGTGTAATATTAAGAACTGCATAAGAAAAATGAAGAC
* * *
13433493 GATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTATACAGTCTATCTTCACAAACACGAGTA
128 GATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACGAGTA
*
13433558 ATA
193 ACA
** * * *
13433561 TTGATAACTACATATGAATACATGACGATAATAATTTATATTTGAATCTCATAAATTAAATTAAT
1 TAAAGAACTACATATGAATACAAGACGATAATAATTTATATTTGAATCTCATAAATTAAATAAAT
* * * * *
13433626 TATAAT-ATACATCTTCGA-ACAACATGTGTAATATTAAGAATTGCATAAGAATAAATGAAGGCT
66 TATAATGATACATATT-GACAAAACATGTGTAATATTAAGAACTGCATAAGAA-AAATGAAGACG
* * * *
13433689 ATGGTTTGTATTTTAACACTAAAACTCAAATCAATTGT-CTAATCAATCTTCAC-AACTACGTGT
129 ATGGTTTGTATTTGAACACTAAAAATCAAATCAATTATAC-AATCAATCTTCACAAAC-ACGAGT
*
13433752 AACG
192 AACA
* * * *
13433756 TAAAGAATTGA-GTATGAATGA-AAGAAC-ATAATAATTTATATTTGAATCCCGTAAATTAAATA
1 TAAAGAACT-ACATATGAAT-ACAAG-ACGATAATAATTTATATTTGAATCTCATAAATTAAATA
13433818 AATTATAA
63 AATTATAA
13433826 GATTGTTCTT
Statistics
Matches: 220, Mismatches: 33, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
193 11 0.05
194 86 0.39
195 119 0.54
196 4 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.32
Consensus pattern (195 bp):
TAAAGAACTACATATGAATACAAGACGATAATAATTTATATTTGAATCTCATAAATTAAATAAAT
TATAATGATACATATTGACAAAACATGTGTAATATTAAGAACTGCATAAGAAAAATGAAGACGAT
GGTTTGTATTTGAACACTAAAAATCAAATCAATTATACAATCAATCTTCACAAACACGAGTAACA
Found at i:13436227 original size:27 final size:27
Alignment explanation
Indices: 13436162--13436219 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
13436152 GCATTATCAA
* *
13436162 AAAAT-AAAAAATAAAAAATAATCATT
1 AAAATCAAAAATTCAAAAATAATCATT
13436188 AAAATCAAAAATTCAAAAATAATCATT
1 AAAATCAAAAATTCAAAAATAATCATT
13436215 AAAAT
1 AAAAT
13436220 GAAGAATTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.17
27 24 0.83
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (27 bp):
AAAATCAAAAATTCAAAAATAATCATT
Found at i:13438858 original size:136 final size:136
Alignment explanation
Indices: 13438591--13438875 Score: 482
Period size: 136 Copynumber: 2.1 Consensus size: 136
13438581 TATTGGGCCT
**
13438591 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCTTA
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCTTA
* * *
13438656 GCCCCTTATTCAGATAACAGTATGGCCCATAGGCCTATTTCAAAATACATGCAACATCAGTAAAC
66 GCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
13438721 ATATGC
131 ATATGC
* *
13438727 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGG-CTT
*
13438792 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAAT-AA
65 AGCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
13438856 CATATGC
130 CATATGC
13438863 AAGCCCATTTGGG
1 AAGCCCATTTGGG
13438876 GAGACTACTC
Statistics
Matches: 140, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
136 79 0.56
137 61 0.44
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCTTA
GCCCCTTATTCAAATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAAC
ATATGC
Found at i:13440697 original size:26 final size:26
Alignment explanation
Indices: 13440659--13440716 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
13440649 CATGAAATTC
13440659 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
13440685 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
13440711 TTATCA
1 TTATCA
13440717 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:13442322 original size:16 final size:16
Alignment explanation
Indices: 13442303--13442337 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
13442293 AACCTAACCC
*
13442303 AAAAAAAA-ACAAAGA
1 AAAAAAAAGAAAAAGA
13442318 AAAAAAAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
13442334 AAAA
1 AAAA
13442338 CTAACCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.89, C:0.03, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:13442353 original size:17 final size:18
Alignment explanation
Indices: 13442328--13442362 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
13442318 AAAAAAAAGA
13442328 AAAAGAAAAACTAACCCC
1 AAAAGAAAAACTAACCCC
*
13442346 AAAA-AAAACCTAACCCC
1 AAAAGAAAAACTAACCCC
13442363 CCCAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.60, C:0.31, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAAGAAAAACTAACCCC
Found at i:13444526 original size:26 final size:26
Alignment explanation
Indices: 13444485--13444537 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
13444475 GGGGGGACAT
13444485 ATTCATAAACAAATATGTGATTTTGG
1 ATTCATAAACAAATATGTGATTTTGG
* *
13444511 ATTCATAACCATATATGTGATTTTGG
1 ATTCATAAACAAATATGTGATTTTGG
13444537 A
1 A
13444538 CAACTCAGCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.40
Consensus pattern (26 bp):
ATTCATAAACAAATATGTGATTTTGG
Found at i:13444624 original size:27 final size:27
Alignment explanation
Indices: 13444585--13444637 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
13444575 AACGTTACAA
13444585 ATTAAAAGAAAATGTTACCAAATAACT
1 ATTAAAAGAAAATGTTACCAAATAACT
13444612 ATTAAAA-ATAAATGTTACCAAATAAC
1 ATTAAAAGA-AAATGTTACCAAATAAC
13444638 GTTACAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (27 bp):
ATTAAAAGAAAATGTTACCAAATAACT
Found at i:13444636 original size:14 final size:14
Alignment explanation
Indices: 13444594--13444636 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13444584 AATTAAAAGA
13444594 AAATGTTACCAAAT
1 AAATGTTACCAAAT
* * *
13444608 AACTATTA-AAAAT
1 AAATGTTACCAAAT
13444621 AAATGTTACCAAAT
1 AAATGTTACCAAAT
13444635 AA
1 AA
13444637 CGTTACAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.28
Consensus pattern (14 bp):
AAATGTTACCAAAT
Found at i:13445799 original size:97 final size:98
Alignment explanation
Indices: 13445525--13445855 Score: 287
Period size: 98 Copynumber: 3.4 Consensus size: 98
13445515 TGTTTGCACG
* * * * * *
13445525 AACACGTGTAAT-TTAAAGAACTACATATGAATGAATGACGATAATAATTTCTATTTGAATCGT-
1 AACAAGTGTAATATT-AAGAACTGCATAAGAATAAATGACAATAATAATTTATATTTGAATC-TC
* ** * * *
13445588 ATAAATTAAATAAACTATATGATTGATATTGACAA
64 ATAAATTAAATAAATTATACAATCGATCTTCACAA
** * * *
13445623 AACACA-TGTAATATTAAGAACTGCATAAGAATAAATG-CAGACGATAGTTTGTATTTG-AGCTC
1 AACA-AGTGTAATATTAAGAACTGCATAAGAATAAATGACA-ATAATAATTTATATTTGAATCTC
* * *
13445685 TAAAAATCAAATCAATTATACAATCGATCTTCAC-A
64 -ATAAATTAAATAAATTATACAATCGATCTTCACAA
* * * *
13445720 AACAAGAGTAATATTGAGAACTGCATATGAATACATGACAATAATAATTTATATTTGAATCTCAT
1 AACAAGTGTAATATTAAGAACTGCATAAGAATAAATGACAATAATAATTTATATTTGAATCTCAT
* ** * * *
13445785 CAATTAAATAAATTATAGTACCCATCTTCGCAA
66 AAATTAAATAAATTATACAATCGATCTTCACAA
* *
13445818 AACACGTGTAATATTAAGAATTGCATAAGAATAAATGA
1 AACAAGTGTAATATTAAGAACTGCATAAGAATAAATGA
13445856 ATACTATAGT
Statistics
Matches: 181, Mismatches: 43, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
96 2 0.01
97 72 0.40
98 105 0.58
99 2 0.01
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (98 bp):
AACAAGTGTAATATTAAGAACTGCATAAGAATAAATGACAATAATAATTTATATTTGAATCTCAT
AAATTAAATAAATTATACAATCGATCTTCACAA
Found at i:13445873 original size:98 final size:97
Alignment explanation
Indices: 13445619--13445865 Score: 239
Period size: 97 Copynumber: 2.5 Consensus size: 97
13445609 ATTGATATTG
* * *
13445619 ACAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGCAGACGATAGTTTGTATTTGAGCT
1 ACAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATG-AAACTATAGTTTGTATTTGAGCT
* * *
13445684 CTAAAAATCAAATCAATTATACAATCGATCTTC
65 CTAAAAATCAAATAAATTATACAACCCATCTTC
* * * * * * * *
13445717 AC-AAACAAGAGTAATATTGAGAACTGCATATGAATACATGACAA-TAATAATTTATATTTGA-A
1 ACAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATGA-AACT-ATAGTTTGTATTTGAGC
** * **
13445779 TCTCATCAATTAAATAAATTATAGTACCCATCTTC
64 TCT-AAAAATCAAATAAATTATACAACCCATCTTC
* *
13445814 GCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAATACTATAGT
1 ACAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATGAA-ACTATAGT
13445866 CGGTATTTTA
Statistics
Matches: 116, Mismatches: 27, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
96 4 0.03
97 71 0.61
98 40 0.34
99 1 0.01
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.30
Consensus pattern (97 bp):
ACAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATGAAACTATAGTTTGTATTTGAGCTC
TAAAAATCAAATAAATTATACAACCCATCTTC
Found at i:13445893 original size:195 final size:195
Alignment explanation
Indices: 13445541--13445896 Score: 461
Period size: 195 Copynumber: 1.8 Consensus size: 195
13445531 TGTAATTTAA
* *
13445541 AGAACTACATATGAATGAATGACGATAATAATTTCTATTTGAATCGTATAAATTAAATAAACTAT
1 AGAACTACATATGAATGAATGACAATAATAATTTATATTTGAATCGTATAAATTAAATAAACTAT
*** *
13445606 ATGATTGATATTGACAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGCAGACGATAGT
66 ATGACCCATATTGACAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGAAGACGATAGT
** * *
13445671 TTGTATTTGAGCTCTAAAAATCAAATCAATTATACAATCGATCTTCACAAACAAGAGTAATATTG
131 CGGTATTTGAACACTAAAAATCAAATCAATTATACAATCGATCTTCACAAACAAGAGTAATATTG
* * *
13445736 AGAACTGCATATGAAT-ACATGACAATAATAATTTATATTTGAATC-TCATCAATTAAATAAATT
1 AGAACTACATATGAATGA-ATGACAATAATAATTTATATTTGAATCGT-ATAAATTAAATAAACT
* * * * *
13445799 ATA-GTACCCATCTTCG-CAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAATACTA
64 ATATG-ACCCATATT-GACAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGAAGACGA
*
13445862 TAGTCGGTATTTTAACACTAAAACA-CAAATCAATT
127 TAGTCGGTATTTGAACACTAAAA-ATCAAATCAATT
13445897 GTCCGATCAA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
194 3 0.02
195 132 0.96
196 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (195 bp):
AGAACTACATATGAATGAATGACAATAATAATTTATATTTGAATCGTATAAATTAAATAAACTAT
ATGACCCATATTGACAAAACACATGTAATATTAAGAACTGCATAAGAATAAATGAAGACGATAGT
CGGTATTTGAACACTAAAAATCAAATCAATTATACAATCGATCTTCACAAACAAGAGTAATATTG
Found at i:13446628 original size:2 final size:2
Alignment explanation
Indices: 13446615--13446660 Score: 83
Period size: 2 Copynumber: 22.5 Consensus size: 2
13446605 CATCCATAGG
13446615 TA TA TCA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13446658 TA T
1 TA T
13446661 CCTTTTTTCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 41 0.95
3 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13446818 original size:2 final size:2
Alignment explanation
Indices: 13446813--13446846 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13446803 ACACACACAC
13446813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13446847 GCTTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13454162 original size:27 final size:28
Alignment explanation
Indices: 13454119--13454172 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
13454109 AACATTACAA
13454119 ATTAAAAGAAAAATGTTACCAAATAACT
1 ATTAAAAGAAAAATGTTACCAAATAACT
*
13454147 ATTAAAA-ATAAATGTTACCAAATAAC
1 ATTAAAAGAAAAATGTTACCAAATAAC
13454173 GTTACAAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (28 bp):
ATTAAAAGAAAAATGTTACCAAATAACT
Found at i:13454171 original size:14 final size:14
Alignment explanation
Indices: 13454129--13454171 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
13454119 ATTAAAAGAA
13454129 AAATGTTACCAAAT
1 AAATGTTACCAAAT
* * *
13454143 AACTATTA-AAAAT
1 AAATGTTACCAAAT
13454156 AAATGTTACCAAAT
1 AAATGTTACCAAAT
13454170 AA
1 AA
13454172 CGTTACAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.28
Consensus pattern (14 bp):
AAATGTTACCAAAT
Found at i:13455210 original size:98 final size:97
Alignment explanation
Indices: 13455108--13455287 Score: 225
Period size: 97 Copynumber: 1.8 Consensus size: 97
13455098 CAATAATTTC
* * * * ** * *
13455108 TATTTGAATTGTATAAATTAAATAAACTATATGATTGATATTGACAAAACACGTGTAATATTGAG
1 TATTTGAACTCTAAAAATCAAATAAACTATACAATCGATATTCAC-AAACACGTGTAATATTGAG
*
13455173 AACTGCATAAGAATAAATAAAGACGATGGTTTG
65 AACTACATAAGAATAAATAAAGACGATGGTTTG
* * * *
13455206 TATTTGAACTCTAAAAATCAAATCAATTATACAATCGATCTTCACAAACATGTGTAATATTGAGA
1 TATTTGAACTCTAAAAATCAAATAAACTATACAATCGATATTCACAAACACGTGTAATATTGAGA
*
13455271 ACTACATATGAATAAAT
66 ACTACATAAGAATAAAT
13455288 GATGACAATA
Statistics
Matches: 68, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
97 34 0.50
98 34 0.50
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (97 bp):
TATTTGAACTCTAAAAATCAAATAAACTATACAATCGATATTCACAAACACGTGTAATATTGAGA
ACTACATAAGAATAAATAAAGACGATGGTTTG
Found at i:13455270 original size:97 final size:98
Alignment explanation
Indices: 13455152--13455631 Score: 337
Period size: 97 Copynumber: 4.8 Consensus size: 98
13455142 TTGATATTGA
* * *
13455152 CAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATAAAGACGATGGTTTGTATTTGAACTC
1 CAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAACTC
*
13455217 TAAAAATCAAATCAATTATACA-ATCGATC-TT-
66 TAAAAATCAAATCAATTATA-ATATCCATCTTTG
* * * * * ** * *
13455248 CACAAACATGTGTAATATTGAGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATT
1 CA-AAACACGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAA-C
* * *
13455313 TCGT--AGATTAAATAAATTATAATATCCATCTTTG
64 TC-TAAAAATCAAATCAATTATAATATCCATCTTTG
* * * * * * ** * *
13455347 CAAAACACGTGTAATATTAATAATTGTATAAGAACAAATGAAGACTACGGCATGTATTTTAACAC
1 CAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAACTC
* ** * * **
13455412 TAGAAATCAAATCAATTATAGGAACAATCTTAA
66 TAAAAATCAAATCAATTATAATATCCATCTTTG
* * * * * ** *
13455445 C-AAATATGTGTAACATTAA-AACTTGCATAACTGCATATGAATACATGATGATAATAATTTATA
1 CAAAACACGTGTAATATTAAGAAC-TGCATAA--G-A-AT--A-A-ATGAAGACAATGGTTTGTA
* * *
13455508 TTTGAAACTC-ATAAATTAAATAAATTATAATATCCATCTTTG
57 TTTG-AACTCTAAAAATCAAATCAATTATAATATCCATCTTTG
* * * *
13455550 CAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGTTTGTATTTTAACAC
1 CAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAACTC
*
13455615 TAAAACTCAAATCAATT
66 TAAAAATCAAATCAATT
13455632 TTCTGATCAA
Statistics
Matches: 279, Mismatches: 84, Indels: 40
0.69 0.21 0.10
Matches are distributed among these distances:
96 6 0.02
97 97 0.35
98 97 0.35
99 5 0.02
100 2 0.01
101 1 0.00
102 2 0.01
103 2 0.01
104 2 0.01
105 37 0.13
106 26 0.09
107 2 0.01
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (98 bp):
CAAAACACGTGTAATATTAAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAACTC
TAAAAATCAAATCAATTATAATATCCATCTTTG
Found at i:13455353 original size:195 final size:201
Alignment explanation
Indices: 13455073--13455631 Score: 697
Period size: 195 Copynumber: 2.8 Consensus size: 201
13455063 TGTAATTTAA
* * * *
13455073 AGAACTACGTATGAATGAATGATGACAATAATTTCTATTTGAATTGT-ATAAATTAAATAAACTA
1 AGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATT-TCATAAATTAAATAAATTA
** * * * *
13455137 T-ATGATTGAT-ATTGACAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATAAAGACGAT
65 TAAT-ATCCATCTTTG-CAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGAT
* * * *
13455200 GGTTTGTATTTGAACTCTAAAAATCAAATCAATTATA-CAATCGATCTTCACAAACATGTGT-A-
128 GGTTTGTATTTTAACACTAAAAATCAAATCAATTATAGCAA-CAATCTTAACAAACATGTGTAAC
13455262 A-T-A-TTG-
192 ATTAACTTGC
* *
13455268 AGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATTTCGTAGATTAAATAAATTAT
1 AGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATTTCATAAATTAAATAAATTAT
* * * * * *
13455333 AATATCCATCTTTGCAAAACACGTGTAATATTAATAATTGTATAAGAACAAATGAAGACTACGGC
66 AATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGT
* * * *
13455398 ATGTATTTTAACACTAGAAATCAAATCAATTATAGGAACAATCTTAACAAATATGTGTAACATTA
131 TTGTATTTTAACACTAAAAATCAAATCAATTATAGCAACAATCTTAACAAACATGTGTAACATT-
13455463 AAACTTGC
195 -AACTTGC
* * * * **
13455471 ATAACTGCATATGAATACATGATGATAATAATTTATATTTGAAACTCATAAATTAAATAAATTAT
1 AGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATTTCATAAATTAAATAAATTAT
13455536 AATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGT
66 AATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGT
*
13455601 TTGTATTTTAACACTAAAACTCAAATCAATT
131 TTGTATTTTAACACTAAAAATCAAATCAATT
13455632 TTCTGATCAA
Statistics
Matches: 309, Mismatches: 43, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
194 1 0.00
195 150 0.49
196 8 0.03
197 1 0.00
198 1 0.00
201 1 0.00
202 3 0.01
203 144 0.47
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.33
Consensus pattern (201 bp):
AGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATTTCATAAATTAAATAAATTAT
AATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGT
TTGTATTTTAACACTAAAAATCAAATCAATTATAGCAACAATCTTAACAAACATGTGTAACATTA
ACTTGC
Found at i:13455544 original size:203 final size:193
Alignment explanation
Indices: 13455073--13455765 Score: 666
Period size: 195 Copynumber: 3.5 Consensus size: 193
13455063 TGTAATTTAA
* * * *
13455073 AGAACTACGTATGAATGAATGATGACAATAATTTCTATTTG-AATTGTATAAATTAAATAAACTA
1 AGAACTACATATGAAT-AATGATGACAATAATTTATATTTGAAATT-CATAAATTAAATAAATTA
** * * * *
13455137 T-ATGATTGAT-ATTGACAAAACACGTGTAATATTGAGAACTGCATAAGAATAAATAAAGACGAT
64 TAAT-ATCCATCTTTG-CAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGAT
* * * *
13455200 GGTTTGTATTTGAACTCTAAAAATCAAATCAATTATACAATCGATCTTCACAAACATGTGTAATA
127 GGTTTGTATTTTAACACT-AAAATCAAATCAATTATACAATCAATCTTAACAAACATGTGTAATA
13455265 TTG
191 TTG
* * *
13455268 AGAACTACATATGAATAAATGATGACAATAATTTATATTTGAATTTCGTAGATTAAATAAATTAT
1 AGAACTACATATGAAT-AATGATGACAATAATTTATATTTGAAATTCATAAATTAAATAAATTAT
* * * * * *
13455333 AATATCCATCTTTGCAAAACACGTGTAATATTAATAATTGTATAAGAACAAATGAAGACTACGGC
65 AATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGT
* * *
13455398 ATGTATTTTAACACTAGAAATCAAATCAATTATAGGAA-CAATCTTAACAAATATGTGTAACATT
130 TTGTATTTTAACACTA-AAATCAAATCAATTATA-CAATCAATCTTAACAAACATGTGT-A-A-T
13455462 AAAACTTG
190 ---A-TTG
* * * *
13455470 CATAACTGCATATGAATACATGATGATAATAATTTATATTTGAAACTCATAAATTAAATAAATTA
1 -AGAACTACATATGAATA-ATGATGACAATAATTTATATTTGAAATTCATAAATTAAATAAATTA
13455535 TAATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGG
64 TAATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGG
* * * *
13455600 TTTGTATTTTAACACTAAAACTCAAATCAATT-TTCTGATCAATCTTCAC-AACTACT-TGTAAC
129 TTTGTATTTTAACACTAAAA-TCAAATCAATTATAC-AATCAATCTTAACAAAC-A-TGTGTAAT
**
13455662 ATAA
190 ATTG
* *** * ** * *
13455666 AGAATTGTGTATGAACGAATGAACACAATAATTTATATTTG-AATCCATAAATCAAATAAATTAT
1 AGAACTACATATGAA-TAATGATGACAATAATTTATATTTGAAATTCATAAATTAAATAAATTAT
*** ** *
13455730 AATATTGTTCTTT-TTAAACACATGTAATATTAAGAA
65 AATATCCATCTTTGCAAAACACGTGTAATATTAAGAA
13455766 CAGCATAATT
Statistics
Matches: 412, Mismatches: 66, Indels: 42
0.79 0.13 0.08
Matches are distributed among these distances:
193 20 0.05
194 31 0.08
195 176 0.43
196 13 0.03
197 2 0.00
198 1 0.00
201 2 0.00
202 12 0.03
203 154 0.37
204 1 0.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (193 bp):
AGAACTACATATGAATAATGATGACAATAATTTATATTTGAAATTCATAAATTAAATAAATTATA
ATATCCATCTTTGCAAAACACGTGTAATATTAAGAATTGCATAAGAATAAATGAAGACGATGGTT
TGTATTTTAACACTAAAATCAAATCAATTATACAATCAATCTTAACAAACATGTGTAATATTG
Found at i:13456283 original size:26 final size:26
Alignment explanation
Indices: 13456246--13456329 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
13456236 TGATACAAAC
* *
13456246 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
13456272 TGATAATGGGTTAAGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13456298 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
13456324 TGATAA
1 TGATAA
13456330 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:13459432 original size:6 final size:6
Alignment explanation
Indices: 13459421--13459460 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
13459411 TAGGTATATT
* *
13459421 ATATAC ATATAC ATATAC ATATAC ATAAAC ATATGC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
13459461 CCTTTTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:13462609 original size:15 final size:14
Alignment explanation
Indices: 13462580--13462613 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13462570 CATTTTTAAA
*
13462580 ATAATATATATAAT
1 ATAATATAAATAAT
13462594 ATAATCATAAATAAT
1 ATAAT-ATAAATAAT
13462609 ATAAT
1 ATAAT
13462614 TTGCGATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATATAAATAAT
Found at i:13462906 original size:16 final size:17
Alignment explanation
Indices: 13462821--13462908 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
13462811 AAAAGAGATG
13462821 TAAAATAATA-TT-TAA
1 TAAAATAATACTTATAA
* *
13462836 GAAAAATAATACGTAATAA
1 -TAAAATAATAC-TTATAA
13462855 GTAATAATAATA--TATAA
1 -TAA-AATAATACTTATAA
13462872 TTAAAAATAATACTTATAA
1 -T-AAAATAATACTTATAA
*
13462891 TAAAATAAT-TTTATAA
1 TAAAATAATACTTATAA
13462907 TA
1 TA
13462909 TATAATATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 14
0.75 0.08 0.18
Matches are distributed among these distances:
16 17 0.29
17 20 0.34
18 4 0.07
19 11 0.19
20 7 0.12
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (17 bp):
TAAAATAATACTTATAA
Done.