Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 44 of 170
Found at i:12747806 original size:18 final size:19
Alignment explanation
Indices: 12747783--12747830 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
12747773 GGACTGGAAA
12747783 TCATATTTTTGTT-GTTTT
1 TCATATTTTTGTTCGTTTT
*
12747801 TCATATTTTTTTTCGTTTT
1 TCATATTTTTGTTCGTTTT
*
12747820 TTATGATTTTT
1 TCAT-ATTTTT
12747831 ATATTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 12 0.46
19 8 0.31
20 6 0.23
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (19 bp):
TCATATTTTTGTTCGTTTT
Found at i:12748051 original size:18 final size:19
Alignment explanation
Indices: 12748028--12748064 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12748018 CTATTTAAAT
12748028 CTAAATT-TTTAATTTCTC
1 CTAAATTATTTAATTTCTC
*
12748046 CTAAATTATTTACTTTCTC
1 CTAAATTATTTAATTTCTC
12748065 TTCTACTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.19, G:0.00, T:0.54
Consensus pattern (19 bp):
CTAAATTATTTAATTTCTC
Found at i:12750310 original size:24 final size:24
Alignment explanation
Indices: 12750283--12750329 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
12750273 ATAGATATAG
12750283 ATTAAAGAAAATCTATATTTTAAA
1 ATTAAAGAAAATCTATATTTTAAA
* * *
12750307 ATTATAGTAATTCTATATTTTAA
1 ATTAAAGAAAATCTATATTTTAA
12750330 TATACTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTAAAGAAAATCTATATTTTAAA
Found at i:12751027 original size:21 final size:21
Alignment explanation
Indices: 12751001--12751056 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
12750991 AATAGCGGTG
*
12751001 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
12751022 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
12751043 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
12751057 AACAGCGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:12754054 original size:6 final size:6
Alignment explanation
Indices: 12754043--12754092 Score: 82
Period size: 6 Copynumber: 8.2 Consensus size: 6
12754033 TTTGCAACCC
*
12754043 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAGGGG AAGGGG AAAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG
12754092 A
1 A
12754093 GAAGAAGGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:12754099 original size:18 final size:17
Alignment explanation
Indices: 12754043--12754100 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
12754033 TTTGCAACCC
12754043 AAGGGGAAGGGGA-AAGGG
1 AAGGGGAAGGGGAGAA--G
**
12754061 AAGGGGAAGGGGAAGGGG
1 AAGGGGAAGGGG-AGAAG
12754079 AAGGGGAAAGGGGAGAAG
1 AAGGGG-AAGGGGAGAAG
12754097 AAGG
1 AAGG
12754101 TAACAGACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 26 0.79
19 7 0.21
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (17 bp):
AAGGGGAAGGGGAGAAG
Found at i:12756309 original size:23 final size:23
Alignment explanation
Indices: 12756283--12756334 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
12756273 TTATTTTTAA
*
12756283 ATTTTGAATTATTTACAGATAAT
1 ATTTAGAATTATTTACAGATAAT
**
12756306 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTACAGATAAT
12756329 ATTTAG
1 ATTTAG
12756335 TGATAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTTAGAATTATTTACAGATAAT
Found at i:12756310 original size:13 final size:13
Alignment explanation
Indices: 12756292--12756371 Score: 73
Period size: 13 Copynumber: 6.6 Consensus size: 13
12756282 AATTTTGAAT
*
12756292 TATTTACAGATAA
1 TATTTAGAGATAA
12756305 TATTTAGA-AT--
1 TATTTAGAGATAA
*
12756315 TATTTAGTGATAA
1 TATTTAGAGATAA
*
12756328 TATTTAGTGATAA
1 TATTTAGAGATAA
12756341 TATTTAG-GAT--
1 TATTTAGAGATAA
* *
12756351 TCTTTAGTGATAA
1 TATTTAGAGATAA
12756364 TATTTAGA
1 TATTTAGA
12756372 AAAAATCTAG
Statistics
Matches: 56, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
10 13 0.23
11 5 0.09
12 5 0.09
13 33 0.59
ACGTcount: A:0.38, C:0.03, G:0.14, T:0.46
Consensus pattern (13 bp):
TATTTAGAGATAA
Found at i:12756340 original size:36 final size:36
Alignment explanation
Indices: 12756300--12756370 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
12756290 ATTATTTACA
12756300 GATAATATTTAGAATTATTTAGTGATAATATTTAGT
1 GATAATATTTAGAATTATTTAGTGATAATATTTAGT
* *
12756336 GATAATATTTAGGATTCTTTAGTGATAATATTTAG
1 GATAATATTTAGAATTATTTAGTGATAATATTTAG
12756371 AAAAAATCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.46
Consensus pattern (36 bp):
GATAATATTTAGAATTATTTAGTGATAATATTTAGT
Found at i:12763648 original size:13 final size:13
Alignment explanation
Indices: 12763632--12763676 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
12763622 TAAATTTTGA
12763632 AATATTTAGTGAT
1 AATATTTAGTGAT
12763645 AATATTTAG-GAT
1 AATATTTAGTGAT
12763657 --TATTTAGTGAT
1 AATATTTAGTGAT
12763668 AATATTTAG
1 AATATTTAG
12763677 GAAAAATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.24
11 3 0.10
12 3 0.10
13 16 0.55
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.47
Consensus pattern (13 bp):
AATATTTAGTGAT
Found at i:12763651 original size:23 final size:23
Alignment explanation
Indices: 12763625--12763676 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
12763615 TTATTTTTAA
*
12763625 ATTTTGAAATATTTAGTGATAAT
1 ATTTAGAAATATTTAGTGATAAT
* *
12763648 ATTTAGGATTATTTAGTGATAAT
1 ATTTAGAAATATTTAGTGATAAT
12763671 ATTTAG
1 ATTTAG
12763677 GAAAAATCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (23 bp):
ATTTAGAAATATTTAGTGATAAT
Found at i:12763677 original size:23 final size:23
Alignment explanation
Indices: 12763634--12763678 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
12763624 AATTTTGAAA
12763634 TATTTAGTGATAATATTTAGGAT
1 TATTTAGTGATAATATTTAGGAT
12763657 TATTTAGTGATAATATTTAGGA
1 TATTTAGTGATAATATTTAGGA
12763679 AAAATCTAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.47
Consensus pattern (23 bp):
TATTTAGTGATAATATTTAGGAT
Found at i:12767483 original size:42 final size:42
Alignment explanation
Indices: 12767424--12767508 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
12767414 TTATCCTAAG
12767424 TATTCACGAGGTTCAAACAAGACTTTTTTCTCATATCAATCA
1 TATTCACGAGGTTCAAACAAGACTTTTTTCTCATATCAATCA
12767466 TATTCACGAGGTTCAAACAAGACTTTTTTCTCATATCAATCA
1 TATTCACGAGGTTCAAACAAGACTTTTTTCTCATATCAATCA
12767508 T
1 T
12767509 TTAACTTCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (42 bp):
TATTCACGAGGTTCAAACAAGACTTTTTTCTCATATCAATCA
Found at i:12774513 original size:19 final size:19
Alignment explanation
Indices: 12774491--12774529 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12774481 TATATAATGT
12774491 ACTACTATTAT-TATATATA
1 ACTACTATTATATAT-TATA
*
12774510 ACTATTATTATATATTATA
1 ACTACTATTATATATTATA
12774529 A
1 A
12774530 TAAAAGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
ACTACTATTATATATTATA
Found at i:12774515 original size:16 final size:16
Alignment explanation
Indices: 12774494--12774524 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12774484 ATAATGTACT
12774494 ACTATTATTATATATA
1 ACTATTATTATATATA
12774510 ACTATTATTATATAT
1 ACTATTATTATATAT
12774525 TATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
ACTATTATTATATATA
Found at i:12779254 original size:21 final size:22
Alignment explanation
Indices: 12779228--12779274 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
12779218 CTCTGCTCAA
*
12779228 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
12779249 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
12779271 ACTC
1 ACTC
12779275 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:12785214 original size:36 final size:35
Alignment explanation
Indices: 12785174--12785245 Score: 81
Period size: 36 Copynumber: 2.0 Consensus size: 35
12785164 TGATGACCAT
* * *
12785174 TGTGAAAGTGAATATGAGGGTATGCTATTCATGCCA
1 TGTGAAAGTAAATAAGAGGATATGCTA-TCATGCCA
* * *
12785210 TGTGATAGTAAATAAGTGGATATGTTATCATGCCA
1 TGTGAAAGTAAATAAGAGGATATGCTATCATGCCA
12785245 T
1 T
12785246 ATGATAGAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
35 9 0.30
36 21 0.70
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAAGTAAATAAGAGGATATGCTATCATGCCA
Found at i:12786608 original size:206 final size:206
Alignment explanation
Indices: 12786254--12786672 Score: 793
Period size: 206 Copynumber: 2.0 Consensus size: 206
12786244 ATTTGGTTTT
* *
12786254 AAGAAAAAAGATATCTTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
1 AAGAAAAAAAATATATTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
*
12786319 CCTTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
66 CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
12786384 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
131 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
12786449 GATACAACTAA
196 GATACAACTAA
*
12786460 AAGAAAAAAAATATATTTGTAACTTCAAAATTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
1 AAGAAAAAAAATATATTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
12786525 CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
66 CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
*
12786590 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATGTGGTATT
131 TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
12786655 GATACAACTAA
196 GATACAACTAA
12786666 AAGAAAA
1 AAGAAAA
12786673 TATCGATACC
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
206 208 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (206 bp):
AAGAAAAAAAATATATTTGTAACTTCAAAAGTGTAGGGAGTCAGAATATAGAATTGGTATCAATA
CATTATCCCGAGTATCAATACTCAAGGTAAATTTATCGAAACCTTGCGAAAGGTACCGATAGTTT
TTTACGTTTGGGAATTTTGGTGAGAAATAGAATGAAAGTTTGGTATCAATTTTTCATATGGTATT
GATACAACTAA
Found at i:12788008 original size:19 final size:19
Alignment explanation
Indices: 12787986--12788025 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
12787976 AATAATTTTG
*
12787986 ATCAAGTAAAATAAAATTA
1 ATCAAATAAAATAAAATTA
* *
12788005 ATCAAATCAACTAAAATTA
1 ATCAAATAAAATAAAATTA
12788024 AT
1 AT
12788026 ATGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.28
Consensus pattern (19 bp):
ATCAAATAAAATAAAATTA
Found at i:12789872 original size:16 final size:16
Alignment explanation
Indices: 12789851--12789884 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12789841 TACCATAGTG
*
12789851 AAATGACTTTATGATT
1 AAATGACTTTATAATT
*
12789867 AAATGAGTTTATAATT
1 AAATGACTTTATAATT
12789883 AA
1 AA
12789885 TAGTCGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (16 bp):
AAATGACTTTATAATT
Found at i:12790077 original size:14 final size:14
Alignment explanation
Indices: 12790058--12790086 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12790048 AATAATCATG
12790058 GTTTTCTCCAAAAT
1 GTTTTCTCCAAAAT
12790072 GTTTTCTCCAAAAT
1 GTTTTCTCCAAAAT
12790086 G
1 G
12790087 AAAACGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (14 bp):
GTTTTCTCCAAAAT
Found at i:12793188 original size:29 final size:28
Alignment explanation
Indices: 12793156--12793211 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 28
12793146 TTTTTTAATT
12793156 AATAAAATT-ATAAATCTATAAAATTATTG
1 AATAAAATTAATAAAT-TA-AAAATTATTG
*
12793185 AATATAATTAGATAAATTAAAAATTAT
1 AATAAAATTA-ATAAATTAAAAATTAT
12793212 AAAAATCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 16 0.67
30 2 0.08
31 6 0.25
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (28 bp):
AATAAAATTAATAAATTAAAAATTATTG
Found at i:12793258 original size:17 final size:17
Alignment explanation
Indices: 12793236--12793280 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
12793226 TTTTAATTAA
12793236 ATAAATATGA-TTTATAT
1 ATAAATATGATTTTAT-T
12793253 ATAAATATGATTTTATT
1 ATAAATATGATTTTATT
*
12793270 TTAAATATGAT
1 ATAAATATGAT
12793281 AATAATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (17 bp):
ATAAATATGATTTTATT
Found at i:12793733 original size:17 final size:17
Alignment explanation
Indices: 12793701--12793734 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12793691 TGACATTCAT
*
12793701 AATAATTTTTAATATAA
1 AATAATTTTGAATATAA
*
12793718 AATAATTTTGATTATAA
1 AATAATTTTGAATATAA
12793735 TCTTGATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
AATAATTTTGAATATAA
Found at i:12802568 original size:26 final size:26
Alignment explanation
Indices: 12802538--12802589 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
12802528 AGGTTCTATT
*
12802538 TTTATAGACTAAGAAACTAAAATTAA
1 TTTATAGAATAAGAAACTAAAATTAA
*
12802564 TTTATAGAATAAGAAACTATAATTAA
1 TTTATAGAATAAGAAACTAAAATTAA
12802590 GGCAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (26 bp):
TTTATAGAATAAGAAACTAAAATTAA
Found at i:12805334 original size:22 final size:22
Alignment explanation
Indices: 12805306--12805352 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
12805296 AAAGTGCCAC
12805306 ATTCGTTACTCAAGCAACTACG
1 ATTCGTTACTCAAGCAACTACG
*
12805328 ATTCGTTACTCATGCAACTACG
1 ATTCGTTACTCAAGCAACTACG
12805350 ATT
1 ATT
12805353 AAAATATACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.32
Consensus pattern (22 bp):
ATTCGTTACTCAAGCAACTACG
Found at i:12814847 original size:21 final size:21
Alignment explanation
Indices: 12814818--12814863 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12814808 AATATTAATT
*
12814818 TATA-AATTTATTGTGTATCA
1 TATATAATTTATTGTGTAGCA
* *
12814838 TATATAATTTTTTGTTTAGCA
1 TATATAATTTATTGTGTAGCA
12814859 TATAT
1 TATAT
12814864 TATTCAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (21 bp):
TATATAATTTATTGTGTAGCA
Found at i:12817107 original size:13 final size:13
Alignment explanation
Indices: 12817089--12817133 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
12817079 TGGGACAGAC
12817089 TCAAGGAAGAGTT
1 TCAAGGAAGAGTT
* * **
12817102 TCAAGGGACAGAC
1 TCAAGGAAGAGTT
12817115 TCAAGGAAGAGTT
1 TCAAGGAAGAGTT
12817128 TCAAGG
1 TCAAGG
12817134 GTCAGATAAA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.31, T:0.18
Consensus pattern (13 bp):
TCAAGGAAGAGTT
Found at i:12817109 original size:26 final size:26
Alignment explanation
Indices: 12817080--12817139 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
12817070 AAGCAGGTCT
12817080 GGGACAGACTCAAGGAAGAGTTTCAA
1 GGGACAGACTCAAGGAAGAGTTTCAA
12817106 GGGACAGACTCAAGGAAGAGTTTCAA
1 GGGACAGACTCAAGGAAGAGTTTCAA
*
12817132 GGGTCAGA
1 GGGACAGA
12817140 TAAAACCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (26 bp):
GGGACAGACTCAAGGAAGAGTTTCAA
Found at i:12822874 original size:13 final size:13
Alignment explanation
Indices: 12822856--12822883 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12822846 CAAAAATCAT
12822856 ATGAAGTGTCAAC
1 ATGAAGTGTCAAC
12822869 ATGAAGTGTCAAC
1 ATGAAGTGTCAAC
12822882 AT
1 AT
12822884 TGTACTACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.25
Consensus pattern (13 bp):
ATGAAGTGTCAAC
Found at i:12826346 original size:221 final size:221
Alignment explanation
Indices: 12825951--12826389 Score: 657
Period size: 221 Copynumber: 2.0 Consensus size: 221
12825941 CTTCCAAGAA
* * * * * *
12825951 GGGTTTCCAATCTCTTTACTCACTCCATTCAGTGAACGTACTTAAAAGCACACATATGGAATTAG
1 GGGTTTCCAATATCTTTACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTAG
12826016 CAAACGGTCAGTACTAAGTACTATTCCAAATTTGGAGCAAAATGCATGCAAATAAGAGATCAAAT
66 CAAACGGTCAGTACTAAGTACTATTCCAAATTTGGAGCAAAATGCATGCAAATAAGAGATCAAAT
* * * * * * *
12826081 ACACAATCCCATAGCATAAAAAACCATAACATAAAACAAAAGCAAAGCTTTCAGCTTCATATAAT
131 ACAAAATCCCATAGCATAAAAAACCATAACACAAAACAAAAGCAAAGCTTCCAACTCCATACAAC
12826146 TTGCATTTTTTTAAAAGGTTATAAAG
196 TTGCATTTTTTTAAAAGGTTATAAAG
12826172 GGGTTTCCAATATCTTTGA-TCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTA
1 GGGTTTCCAATATCTTT-ACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTA
* * * *
12826236 GCGAACTGTCAGTACTAAGTACTTTTCCAAATTCT-GAGCAAAATGCATGCAGATAAGAGATCAA
65 GCAAACGGTCAGTACTAAGTACTATTCCAAATT-TGGAGCAAAATGCATGCAAATAAGAGATCAA
* * *
12826300 GTACAAAATCCCATAGCATAAAAAACCATAACACAAACCTAAAGCAAAGCTTCCAACTCCATACA
129 ATACAAAATCCCATAGCATAAAAAACCATAACACAAAACAAAAGCAAAGCTTCCAACTCCATACA
*
12826365 ACTTGGATTTTTTTAAAAGGTTATA
194 ACTTGCATTTTTTTAAAAGGTTATA
12826390 TATTGTTTCT
Statistics
Matches: 195, Mismatches: 21, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
221 193 0.99
222 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (221 bp):
GGGTTTCCAATATCTTTACTCACTCCACTCAGTGAACGTACCTAAAAGCAAAAATAAGGAATTAG
CAAACGGTCAGTACTAAGTACTATTCCAAATTTGGAGCAAAATGCATGCAAATAAGAGATCAAAT
ACAAAATCCCATAGCATAAAAAACCATAACACAAAACAAAAGCAAAGCTTCCAACTCCATACAAC
TTGCATTTTTTTAAAAGGTTATAAAG
Found at i:12827183 original size:2 final size:2
Alignment explanation
Indices: 12827176--12827209 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
12827166 GAAATGAGCG
* *
12827176 TA TA TA TA TA CA TA TA TA TA TA TA TA TA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12827210 GGTGTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (2 bp):
TA
Found at i:12830275 original size:23 final size:22
Alignment explanation
Indices: 12830224--12830275 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
12830214 CCTCGTCTTT
*
12830224 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
12830246 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
12830269 TTCTTTT
1 TTCTTTT
12830276 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:12843818 original size:13 final size:13
Alignment explanation
Indices: 12843800--12843824 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12843790 TTTTTTTTCT
12843800 AAATGAAAATGAA
1 AAATGAAAATGAA
12843813 AAATGAAAATGA
1 AAATGAAAATGA
12843825 CTTGGAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AAATGAAAATGAA
Found at i:12848684 original size:10 final size:10
Alignment explanation
Indices: 12848669--12848702 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
12848659 AATTTAGATT
12848669 TTTAGTTTTC
1 TTTAGTTTTC
*
12848679 TTTAGTGTTTT
1 TTTAGT-TTTC
12848690 TTTAGTTTTC
1 TTTAGTTTTC
12848700 TTT
1 TTT
12848703 TATGTTTGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.09, C:0.06, G:0.12, T:0.74
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:12848695 original size:11 final size:10
Alignment explanation
Indices: 12848667--12848709 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
12848657 TTAATTTAGA
12848667 TTTTTAGTTT
1 TTTTTAGTTT
*
12848677 TCTTTAGTGTT
1 TTTTTAGT-TT
12848688 TTTTTAGTTT
1 TTTTTAGTTT
12848698 TCTTTTATGTTT
1 T-TTTTA-GTTT
12848710 GCTTAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.36
11 14 0.50
12 4 0.14
ACGTcount: A:0.09, C:0.05, G:0.12, T:0.74
Consensus pattern (10 bp):
TTTTTAGTTT
Found at i:12871811 original size:22 final size:23
Alignment explanation
Indices: 12871766--12871811 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12871756 GTGCATCTCA
* *
12871766 CTTAACCCCTTAAGGTCACAACC
1 CTTAACCCCATAAGATCACAACC
*
12871789 CTTAACCCCATAA-ATCACCACC
1 CTTAACCCCATAAGATCACAACC
12871811 C
1 C
12871812 CGAACACCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.33, C:0.43, G:0.04, T:0.20
Consensus pattern (23 bp):
CTTAACCCCATAAGATCACAACC
Found at i:12872304 original size:24 final size:24
Alignment explanation
Indices: 12872258--12872304 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
12872248 TTATTTTACT
**
12872258 TTTTAAGATATTTTAAGTTTTTAG
1 TTTTAAGATATTTTAAGAATTTAG
* *
12872282 TTTTAAGATCTTTTAGGAATTTA
1 TTTTAAGATATTTTAAGAATTTA
12872305 TTTCTTGCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (24 bp):
TTTTAAGATATTTTAAGAATTTAG
Found at i:12886643 original size:41 final size:41
Alignment explanation
Indices: 12886611--12886692 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
12886601 ATATTTTATT
12886611 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
*
12886652 TTATGTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
12886693 CAATTAGGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.29, C:0.06, G:0.16, T:0.49
Consensus pattern (41 bp):
TTATCTTTTAGTAGTTTATTAGAATAAGGGAATTATTTTCC
Found at i:12889869 original size:24 final size:24
Alignment explanation
Indices: 12889825--12889875 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
12889815 TTCTGAGATA
*
12889825 CTTGAAGAGTTCACTTAGAAAGGG
1 CTTGAAGAGTTCACCTAGAAAGGG
* *
12889849 CTTGAAGAGTTCACCTGGAAATGG
1 CTTGAAGAGTTCACCTAGAAAGGG
12889873 CTT
1 CTT
12889876 ATTCTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.27
Consensus pattern (24 bp):
CTTGAAGAGTTCACCTAGAAAGGG
Found at i:12890454 original size:19 final size:19
Alignment explanation
Indices: 12890430--12890467 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12890420 GAGATATATT
12890430 TTTAGGTAGATAAATCTTA
1 TTTAGGTAGATAAATCTTA
*
12890449 TTTAGGTAGATAAGTCTTA
1 TTTAGGTAGATAAATCTTA
12890468 GAATAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (19 bp):
TTTAGGTAGATAAATCTTA
Found at i:12890563 original size:41 final size:41
Alignment explanation
Indices: 12890505--12890587 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
12890495 ATATTTTATT
**
12890505 TTATCTTTTAGTTGTTTATTAGAATAAGGGAATTATTTTCC
1 TTATCTTTTAGTTGTTTATTAGAATAAAAGAATTATTTTCC
*
12890546 TTATGTTTTA-TTAGTTTATTAGAATAAAAGAATTATTTTCC
1 TTATCTTTTAGTT-GTTTATTAGAATAAAAGAATTATTTTCC
12890587 T
1 T
12890588 AATTAGGTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 2 0.05
41 36 0.95
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (41 bp):
TTATCTTTTAGTTGTTTATTAGAATAAAAGAATTATTTTCC
Found at i:12904403 original size:20 final size:19
Alignment explanation
Indices: 12904380--12904418 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
12904370 GTGGAATTAT
12904380 TAAAAAAATAATTAAAACTA
1 TAAAAAAAT-ATTAAAACTA
*
12904400 TAAAAAAATTTTAAAACTA
1 TAAAAAAATATTAAAACTA
12904419 AAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (19 bp):
TAAAAAAATATTAAAACTA
Found at i:12904413 original size:19 final size:19
Alignment explanation
Indices: 12904380--12904433 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
12904370 GTGGAATTAT
*
12904380 TAAAAAAATAATTAAAACTA
1 TAAAAAAAT-TTTAAAACTA
12904400 TAAAAAAATTTTAAAACTA
1 TAAAAAAATTTTAAAACTA
* *
12904419 -AAATAAATTGTAAAA
1 TAAAAAAATTTTAAAA
12904434 AGAATTAAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
18 13 0.42
19 9 0.29
20 9 0.29
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAAAAATTTTAAAACTA
Found at i:12904434 original size:19 final size:19
Alignment explanation
Indices: 12904380--12904434 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
12904370 GTGGAATTAT
12904380 TAAAAAAATAATT-AAAACTA
1 TAAAAAAAT--TTAAAAACTA
*
12904400 TAAAAAAATTTTAAAACTA
1 TAAAAAAATTTAAAAACTA
*
12904419 -AAATAAATTGTAAAAA
1 TAAAAAAATT-TAAAAA
12904435 GAATTAAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 10 0.32
19 12 0.39
20 9 0.29
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAAAAATTTAAAAACTA
Found at i:12904461 original size:9 final size:8
Alignment explanation
Indices: 12904446--12904482 Score: 65
Period size: 8 Copynumber: 4.5 Consensus size: 8
12904436 AATTAAACAT
12904446 TATAAAAA
1 TATAAAAA
12904454 TATAAAAA
1 TATAAAAA
12904462 TATAAAAA
1 TATAAAAA
12904470 TATTAAAAA
1 TA-TAAAAA
12904479 TATA
1 TATA
12904483 TATAGAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (8 bp):
TATAAAAA
Found at i:12905265 original size:43 final size:43
Alignment explanation
Indices: 12905005--12905259 Score: 203
Period size: 43 Copynumber: 6.0 Consensus size: 43
12904995 CCTATAGTGG
* * ** * *
12905005 CGCTTTTCTAACAAACGCCGCTA-AAAACATTGACCTTTAGCGG
1 CGCTTTTATCACAAACGCCGCTATAACTCA-AGACCTTTAGCGA
* * * * * * *
12905048 CGC-TTTACCAAAAATGCCACTATAGCTCAAGACTTTTAGCGG
1 CGCTTTTATCACAAACGCCGCTATAACTCAAGACCTTTAGCGA
* * * * * *
12905090 CGCTTTTCT-ACAAGCACCACTATAGCTCAAGACATTTAGCGA
1 CGCTTTTATCACAAACGCCGCTATAACTCAAGACCTTTAGCGA
** * *
12905132 CGCTTTTCCCACAAACGCCGCTATAACTCAAGAGCTTTAGCAA
1 CGCTTTTATCACAAACGCCGCTATAACTCAAGACCTTTAGCGA
* **
12905175 CGCTTTTATCACAAACACCGCTATAGA-TCGTGACCTTTAGCGA
1 CGCTTTTATCACAAACGCCGCTATA-ACTCAAGACCTTTAGCGA
* * *
12905218 CACTTTTTTCACAAACGCCGCTATAACTCAATACCTTTAGCG
1 CGCTTTTATCACAAACGCCGCTATAACTCAAGACCTTTAGCG
12905260 GCACTTCTCA
Statistics
Matches: 167, Mismatches: 40, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
42 63 0.38
43 103 0.62
44 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (43 bp):
CGCTTTTATCACAAACGCCGCTATAACTCAAGACCTTTAGCGA
Found at i:12905472 original size:34 final size:35
Alignment explanation
Indices: 12905429--12905494 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
12905419 TTATGAAAAT
12905429 TTTAATTTTA-AAACTAAATATAA-AAATTAATGAA
1 TTTAATTTTAGAAACTAAA-ATAATAAATTAATGAA
**
12905463 TTTAATTTTAGAATTTAAAATAATAAATTAAT
1 TTTAATTTTAGAAACTAAAATAATAAATTAAT
12905495 AACACAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (35 bp):
TTTAATTTTAGAAACTAAAATAATAAATTAATGAA
Found at i:12906977 original size:28 final size:28
Alignment explanation
Indices: 12906937--12906997 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
12906927 AAAACAAGAA
*
12906937 TCAAATTAGTTCAA-CTCCAAGTCCTTAG
1 TCAAATCAGTTCAACCT-CAAGTCCTTAG
* *
12906965 TCAAATCAGTTCAACCTCAAGTTCTTTG
1 TCAAATCAGTTCAACCTCAAGTCCTTAG
12906993 TCAAA
1 TCAAA
12906998 AGAAAAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (28 bp):
TCAAATCAGTTCAACCTCAAGTCCTTAG
Found at i:12909572 original size:24 final size:24
Alignment explanation
Indices: 12909539--12909589 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
12909529 TTTATATAAA
*
12909539 TTTTATATAAAGAATTATTAAAAT
1 TTTTACATAAAGAATTATTAAAAT
12909563 TTTTACATAAAGAATTATTAAAAT
1 TTTTACATAAAGAATTATTAAAAT
12909587 TTT
1 TTT
12909590 AAGTAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTTACATAAAGAATTATTAAAAT
Found at i:12910022 original size:22 final size:21
Alignment explanation
Indices: 12909996--12910055 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 21
12909986 ACCCTTGAAA
12909996 CCCTAAATCCCTAAATCTTAAC
1 CCCTAAA-CCCTAAATCTTAAC
* *
12910018 CCCTAACCCCCTAACTCTTAAC
1 CCCTAA-ACCCTAAATCTTAAC
*
12910040 CCCTAAACCTTAAATC
1 CCCTAAACCCTAAATC
12910056 CCAACACTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 7 0.22
22 25 0.78
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTAAACCCTAAATCTTAAC
Found at i:12910369 original size:21 final size:20
Alignment explanation
Indices: 12910337--12910400 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
12910327 CCCTAAACTT
*
12910337 TAAATCCTTAACTCTTAACCC
1 TAAA-CCTTAACTCATAACCC
* *
12910358 TAAACCTCTAACCCCTAACCCC
1 TAAACCT-TAACTCATAA-CCC
*
12910380 TAAACCTTAAATCATAACCC
1 TAAACCTTAACTCATAACCC
12910400 T
1 T
12910401 TACACCATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.19
21 19 0.53
22 10 0.28
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.27
Consensus pattern (20 bp):
TAAACCTTAACTCATAACCC
Found at i:12910420 original size:7 final size:7
Alignment explanation
Indices: 12910405--12910438 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
12910395 AACCCTTACA
12910405 CCATAAT
1 CCATAAT
*
12910412 CCCTAAT
1 CCATAAT
12910419 CCATAAT
1 CCATAAT
12910426 CCATAAAT
1 CCAT-AAT
12910434 CCATA
1 CCATA
12910439 CTCCCTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (7 bp):
CCATAAT
Found at i:12910447 original size:15 final size:15
Alignment explanation
Indices: 12910405--12910447 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
12910395 AACCCTTACA
12910405 CCATAATCCCT-AAT
1 CCATAATCCCTAAAT
*
12910419 CCATAATCCATAAAT
1 CCATAATCCCTAAAT
*
12910434 CCATACTCCCTAAA
1 CCATAATCCCTAAA
12910448 CCTTAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.26
Consensus pattern (15 bp):
CCATAATCCCTAAAT
Found at i:12910685 original size:23 final size:25
Alignment explanation
Indices: 12910658--12910712 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
12910648 TAAATAATAG
*
12910658 TATTTTAATT-TTTCCATGTGTT-T
1 TATTTTAATTATTTCCACGTGTTAT
* *
12910681 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCCACGTGTTAT
12910707 TATTTT
1 TATTTT
12910713 TTTTGAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 4 0.16
25 10 0.40
26 6 0.24
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (25 bp):
TATTTTAATTATTTCCACGTGTTAT
Found at i:12911107 original size:82 final size:82
Alignment explanation
Indices: 12910802--12911097 Score: 337
Period size: 82 Copynumber: 3.6 Consensus size: 82
12910792 TGTTTTAGAG
* ** * * *
12910802 GCGCTTTTCCAAAAACGCCGCTAAAGACCACAGCATTAGCAGCGCTTTTT-AAGAAACGTCGCTT
1 GCGCTTTTTCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTTTTTCAA-AAACGCCGC-T
12910866 AAA-CCTCGAGCATTAGCA
64 AAATCCTCGAGCATTAGCA
* * * ** * *
12910884 GTGCTTTTTTAAAAACGCCGCTAAAACCCTA-AAAATTAGCGGTGGTTTTTCAAAAACGCCGCTA
1 GCGCTTTTTCAAAAACGCCGCTAAATCCC-AGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTA
* * *
12910948 AATCCTAGAGAATTAGCG
65 AATCCTCGAGCATTAGCA
* * *
12910966 GCGCTTTTTCAAAAATGCCACTAAATCCCAGAGCATTAGCGACGCTTTTTCAAAAACGCCGCTAA
1 GCGCTTTTTCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
*
12911031 ATCCCCGAGCATTAGCA
66 ATCCTCGAGCATTAGCA
* * *
12911048 GCGCTTTTTCAAAAACACCGCTAAATCCCTGAGCATTAGCGGCACTTTTT
1 GCGCTTTTTCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTTTTT
12911098 TTAAGACGCC
Statistics
Matches: 176, Mismatches: 34, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
81 5 0.03
82 168 0.95
83 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (82 bp):
GCGCTTTTTCAAAAACGCCGCTAAATCCCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAA
ATCCTCGAGCATTAGCA
Found at i:12911113 original size:41 final size:41
Alignment explanation
Indices: 12910796--12911097 Score: 306
Period size: 41 Copynumber: 7.4 Consensus size: 41
12910786 TAAAATTGTT
* * ** **
12910796 TTAGAGGCGCTTTTCCAAAAACGCCGCTAAAGACCACAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGAGCA
* *
12910837 TTAGCAGCGCTTTTT-AAGAAACGTCGCTTAAA--CCTCGAGCA
1 TTAGCGGCGCTTTTTCAA-AAACGCCGC-TAAATCCCT-GAGCA
* * * * * **
12910878 TTAGCAGTGCTTTTTTAAAAACGCCGCTAAAACCCTAAAAA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGAGCA
* * *
12910919 TTAGCGGTGGTTTTTCAAAAACGCCGCTAAAT-CCTAGAGAA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCT-GAGCA
* * *
12910960 TTAGCGGCGCTTTTTCAAAAATGCCACTAAATCCCAGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGAGCA
* *
12911001 TTAGCGACGCTTTTTCAAAAACGCCGCTAAATCCCCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGAGCA
* *
12911042 TTAGCAGCGCTTTTTCAAAAACACCGCTAAATCCCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGAGCA
*
12911083 TTAGCGGCACTTTTT
1 TTAGCGGCGCTTTTT
12911098 TTAAGACGCC
Statistics
Matches: 220, Mismatches: 33, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
40 11 0.05
41 198 0.90
42 11 0.05
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTGAGCA
Found at i:12911238 original size:40 final size:39
Alignment explanation
Indices: 12911183--12911287 Score: 115
Period size: 40 Copynumber: 2.7 Consensus size: 39
12911173 AAATCTCAGC
12911183 TAATGCTC-ATTTTTAGCGGCACTTTTCGAAAAACACCGCG
1 TAATGCTCGATTTTTAGCGGCA-TTTTCGAAAAACACCG-G
* * * * * *
12911223 -AATGCTCGATCTTTAGTGGTGATTTTCGTAAAGCGCCGG
1 TAATGCTCGATTTTTAGCGG-CATTTTCGAAAAACACCGG
12911262 TAATGCTCGATTTTTAGCGGCATTTT
1 TAATGCTCGATTTTTAGCGGCATTTT
12911288 TATCCAAACG
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 13 0.25
40 39 0.74
41 1 0.02
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (39 bp):
TAATGCTCGATTTTTAGCGGCATTTTCGAAAAACACCGG
Found at i:12916094 original size:50 final size:50
Alignment explanation
Indices: 12916016--12916507 Score: 399
Period size: 50 Copynumber: 9.8 Consensus size: 50
12916006 TTTCTTGTAC
* * * * * **
12916016 TGCCAATGCCATATACTAGATATGGTCTTACATAGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** * * *
12916066 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCGCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
** * *
12916116 TGCCAACACTATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * *
12916166 TGCCAACGCCATGTCCCAGACATGGTCTT-C-T--G---TTTGAATATAGCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT-CATATCG-G
* * * * * ** * * *
12916211 TGCCAAAGCTATGTCACAAACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * **
12916260 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
12916310 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * ** *
12916360 TGCCAACGCTATGTCCCAGACATATTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
12916410 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
12916466 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12916508 TTACCCAAAT
Statistics
Matches: 351, Mismatches: 73, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.01
44 4 0.01
45 24 0.07
46 2 0.01
47 1 0.00
48 2 0.01
49 37 0.11
50 231 0.66
51 2 0.01
52 3 0.01
53 2 0.01
56 41 0.12
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:12916374 original size:244 final size:244
Alignment explanation
Indices: 12915945--12916438 Score: 855
Period size: 244 Copynumber: 2.0 Consensus size: 244
12915935 AGGATACTCG
* * *
12915945 GGTCTTCTGTTTGAATATAACATGCCAAAGTTATGTCCTAGACATATTCTTACATGGGATGTTTC
1 GGTCTTCTGTTTGAATATAACATGCCAAAGCTATGTCCTAAACATAGTCTTACATGGGATGTTTC
* *
12916010 TTGTACTGCCAATGCCATATACTAGATATGGTCTTACATAGGAGTTCTCATATCGGTGCCCATGT
66 TTGTACTGCCAATGCCATATACCAGATATGGTCTTACATAGGAGTTCTCATATCGGTGCCCATGC
* *
12916075 CATGTCCCAGACATGGTCTTACGGGGGACCGCTCATCTTGGTGCCAACACTATGTCCCAGACATG
131 CATGTCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGGTGCCAACACTATGTCCCAGACATA
12916140 GTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
196 GTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
*
12916189 GGTCTTCTGTTTGAATATAGCATGCCAAAGCTATGTCAC-AAACATAGTCTTACATGGGATGTTT
1 GGTCTTCTGTTTGAATATAACATGCCAAAGCTATGTC-CTAAACATAGTCTTACATGGGATGTTT
* *
12916253 CTTGTACTGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATG
65 CTTGTACTGCCAATGCCATATACCAGATATGGTCTTACATAGGAGTTCTCATATCGGTGCCCATG
* *
12916318 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCTATGTCCCAGACAT
130 CCATGTCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGGTGCCAACACTATGTCCCAGACAT
*
12916383 ATTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
195 AGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
12916433 GGTCTT
1 GGTCTT
12916439 ACATGGGACC
Statistics
Matches: 236, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
244 235 1.00
245 1 0.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (244 bp):
GGTCTTCTGTTTGAATATAACATGCCAAAGCTATGTCCTAAACATAGTCTTACATGGGATGTTTC
TTGTACTGCCAATGCCATATACCAGATATGGTCTTACATAGGAGTTCTCATATCGGTGCCCATGC
CATGTCCCAGACATGGTCTTACGGGGGACCGCTCATCTCGGTGCCAACACTATGTCCCAGACATA
GTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACAT
Found at i:12921050 original size:17 final size:16
Alignment explanation
Indices: 12921020--12921056 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
12921010 GACCATTGAG
*
12921020 TTTATTTATTTTTATT
1 TTTATTTATGTTTATT
12921036 TTTATATTATGTTTATT
1 TTTAT-TTATGTTTATT
12921053 TTTA
1 TTTA
12921057 GTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTATTTATGTTTATT
Found at i:12934769 original size:14 final size:14
Alignment explanation
Indices: 12934752--12934784 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
12934742 AATAATAAAT
*
12934752 GAAAATCAAAGGAA
1 GAAAATAAAAGGAA
12934766 GAAAATAAAAGGAA
1 GAAAATAAAAGGAA
12934780 GAAAA
1 GAAAA
12934785 AGGAAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.03, G:0.21, T:0.06
Consensus pattern (14 bp):
GAAAATAAAAGGAA
Found at i:12941978 original size:17 final size:17
Alignment explanation
Indices: 12941956--12942001 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
12941946 TGAGTGAGAT
12941956 AAAGTGAAAAAGGTCA-A
1 AAAGTGAAAAA-GTCAGA
*
12941973 AAAGTGACAAAGTCAGA
1 AAAGTGAAAAAGTCAGA
12941990 AAAGTAGAAAAA
1 AAAGT-GAAAAA
12942002 ATCATTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.61, C:0.07, G:0.22, T:0.11
Consensus pattern (17 bp):
AAAGTGAAAAAGTCAGA
Found at i:12949801 original size:41 final size:41
Alignment explanation
Indices: 12949743--12949933 Score: 310
Period size: 41 Copynumber: 4.6 Consensus size: 41
12949733 CTTAATTTAA
* *
12949743 CAGATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
12949785 CAGATCACCGGCACTTAGCCTGCTAGGTTTGTAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
12949826 CAGATCACCGGCACTTAGCCTGTTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* *
12949867 CAGATCACCGGCACTTAGCGTACTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
12949908 CAGATCACCGGCACTTAGCTTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
12949934 CCGTATAGTC
Statistics
Matches: 139, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
41 135 0.97
42 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:12957437 original size:41 final size:41
Alignment explanation
Indices: 12957379--12957569 Score: 301
Period size: 41 Copynumber: 4.6 Consensus size: 41
12957369 CTTAATTTAA
* * *
12957379 CAGATTCACCAGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
12957421 CAGATCACCGACACTTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
* * *
12957462 CAGATTACCGGTACTTAGCCTGTTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
*
12957503 CAGATCACCGGCAATTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
12957544 CAGATCACCGGCACTTAGCCTGCTAG
1 CAGATCACCGGCACTTAGCCTGCTAG
12957570 ACGTATAGTC
Statistics
Matches: 136, Mismatches: 13, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
41 132 0.97
42 4 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.29
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATT
Found at i:12963134 original size:24 final size:24
Alignment explanation
Indices: 12963082--12963140 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
12963072 ACAATGATGA
*
12963082 TATGAATTAATAAATGATAAATGC
1 TATGAATTGATAAATGATAAATGC
* * *
12963106 CATGAATTGATAAATGATATATGG
1 TATGAATTGATAAATGATAAATGC
12963130 TATGAATTGAT
1 TATGAATTGAT
12963141 GATGAAATGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (24 bp):
TATGAATTGATAAATGATAAATGC
Found at i:12965407 original size:9 final size:9
Alignment explanation
Indices: 12965393--12965421 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
12965383 CATGGTGTTA
12965393 AACACATTT
1 AACACATTT
12965402 AACACATTT
1 AACACATTT
12965411 AACACATTT
1 AACACATTT
12965420 AA
1 AA
12965422 AAACCATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (9 bp):
AACACATTT
Found at i:12976561 original size:16 final size:15
Alignment explanation
Indices: 12976523--12976577 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
12976513 TAAACATACC
*
12976523 TATTAAATATAA-TT
1 TATTAAAAATAATTT
12976537 TATTAAAAAATAATTT
1 TATT-AAAAATAATTT
*
12976553 TAATTAAAATATTATTT
1 T-ATTAAAA-ATAATTT
12976570 TATTAAAA
1 TATTAAAA
12976578 TGTTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 4 0.11
15 7 0.20
16 14 0.40
17 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAAAAATAATTT
Found at i:12976578 original size:16 final size:16
Alignment explanation
Indices: 12976523--12976578 Score: 62
Period size: 17 Copynumber: 3.6 Consensus size: 16
12976513 TAAACATACC
*
12976523 TATT-AAATA-TAATT
1 TATTAAAATATTATTT
* *
12976537 TATTAAAAAATAATTT
1 TATTAAAATATTATTT
12976553 TAATTAAAATATTATTT
1 T-ATTAAAATATTATTT
12976570 TATTAAAAT
1 TATTAAAAT
12976579 GTTTAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.12
15 4 0.12
16 12 0.35
17 14 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTAAAATATTATTT
Found at i:12977478 original size:22 final size:22
Alignment explanation
Indices: 12977452--12977493 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
12977442 AATTTTTTTA
12977452 TATTCAAATGATATTATAAATT
1 TATTCAAATGATATTATAAATT
*
12977474 TATTCAAATTATATTATAAA
1 TATTCAAATGATATTATAAA
12977494 AGTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTCAAATGATATTATAAATT
Found at i:12985372 original size:162 final size:162
Alignment explanation
Indices: 12985105--12985433 Score: 622
Period size: 162 Copynumber: 2.0 Consensus size: 162
12985095 TTTGAGGGAC
*
12985105 GAATTTGTACTATCCCATATATTTGAGAGATAGCGAATACCGAATTGCAAAGTATTTAGTGTGGG
1 GAATTTGTACTATCCCATATATTTGAGAGATAGCAAATACCGAATTGCAAAGTATTTAGTGTGGG
*
12985170 TTCATATCTCATGATTACTTTGTCGGAGTGGTAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
66 TTCATATCTCATGATTACTTTGTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
*
12985235 CATGAAAAGAATCATAATAAATGGTTTAAATG
131 CATGAAAAGAATCATAATAAATGGTTTAAATA
12985267 GAATTTGTACTATCCCATATATTTGAGAGATAGCAAATACCGAATTGCAAAGTATTTAGTGTGGG
1 GAATTTGTACTATCCCATATATTTGAGAGATAGCAAATACCGAATTGCAAAGTATTTAGTGTGGG
*
12985332 TTCATATCTCATGATTACTTTTTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
66 TTCATATCTCATGATTACTTTGTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
12985397 CATGAAAAGAATCATAATAAATGGTTTAAATA
131 CATGAAAAGAATCATAATAAATGGTTTAAATA
12985429 GAATT
1 GAATT
12985434 ATGGAAAGTG
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
162 163 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (162 bp):
GAATTTGTACTATCCCATATATTTGAGAGATAGCAAATACCGAATTGCAAAGTATTTAGTGTGGG
TTCATATCTCATGATTACTTTGTCGGAGTGATAACCGGGTTAAGGCTAAAAAGGATTTAGTTAAT
CATGAAAAGAATCATAATAAATGGTTTAAATA
Found at i:12985683 original size:23 final size:23
Alignment explanation
Indices: 12985653--12985704 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
12985643 TAGATTTTTC
12985653 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
12985676 CTAAATATTATTACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
12985699 CAAAAT
1 CTAAAT
12985705 TTAAAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:12988748 original size:36 final size:36
Alignment explanation
Indices: 12988701--12988770 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
12988691 ATTAAGTTTC
12988701 GATATGAAACTTAAAAAAGTATAAATTTACCTTTTT
1 GATATGAAACTTAAAAAAGTATAAATTTACCTTTTT
12988737 GATATGAAACTTAAAAAAGTATAAATTTACCTTT
1 GATATGAAACTTAAAAAAGTATAAATTTACCTTT
12988771 ATTTTAGAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (36 bp):
GATATGAAACTTAAAAAAGTATAAATTTACCTTTTT
Found at i:12989727 original size:14 final size:14
Alignment explanation
Indices: 12989708--12989734 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12989698 ATTATGAAAT
12989708 AAAATCATATTACA
1 AAAATCATATTACA
12989722 AAAATCATATTAC
1 AAAATCATATTAC
12989735 GATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAATCATATTACA
Found at i:12995709 original size:17 final size:18
Alignment explanation
Indices: 12995689--12995725 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
12995679 TAAGGTTTTT
12995689 ATAATAATAAA-AA-TAAA
1 ATAAT-ATAAAGAACTAAA
12995706 ATAATATAAAGAACTAAA
1 ATAATATAAAGAACTAAA
12995724 AT
1 AT
12995726 TAGAGACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.28
17 7 0.39
18 6 0.33
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (18 bp):
ATAATATAAAGAACTAAA
Found at i:13009913 original size:23 final size:24
Alignment explanation
Indices: 13009861--13009922 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 24
13009851 GTTAAAACCA
*
13009861 CCAATAACAATATGCAAAAAATTCTG
1 CCAATAA-AA-ATGCAAAAAATGCTG
*
13009887 CCAATAAAAATGCAAACAA-GCTG
1 CCAATAAAAATGCAAAAAATGCTG
13009910 CCAATAAAAATGC
1 CCAATAAAAATGC
13009923 GATAAATTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 16 0.47
24 9 0.26
25 2 0.06
26 7 0.21
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.18
Consensus pattern (24 bp):
CCAATAAAAATGCAAAAAATGCTG
Found at i:13011876 original size:322 final size:321
Alignment explanation
Indices: 13011284--13011933 Score: 1095
Period size: 322 Copynumber: 2.0 Consensus size: 321
13011274 AAGATTAATC
* *
13011284 AAGAAATTGAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAACCGACAATGACACTTTCTT
1 AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
* *
13011349 GGCAATGTTTGGGATCGATCTTGGGGTTCAAGATTTCATGTTTGGGGCTGATTTAGATAAGAATA
66 GGCAATGTTCGGGATCGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATAAGAATA
* *
13011414 AATGAAAAAAATAGAGTAAAAGATATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATATG
131 AATGAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATATG
* *
13011479 TTAAAATGGGAGGTGTAGGCGACAACAACAATAAGAGAAAGAAAGAAAATTGCAGAGAAAAGAGG
196 TTAAAATGGGAGGTGTAGGCAACAACAACAATAAGAGAAAGAAAGAAAATTGAAGAGAAAAGAGG
* *
13011544 AGAGGAAGAGGGTGAACAGCTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAGATACAAA
261 AGAGGAAGAGGGTGAACAACTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAAATACAAA
13011605 AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
1 AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
* * *
13011670 GGCAATGTTCGGGATTGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATGAGGATA
66 GGCAATGTTCGGGATCGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATAAGAATA
13011735 AATGGAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATAT
131 AAT-GAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATAT
* * * *
13011800 GTTATAATGGGAGGTGTAGGCAACGACAATAATAGGAGAAAGAAAGAAAATTGAAGAGAAAAGAG
195 GTTAAAATGGGAGGTGTAGGCAACAACAACAATAAGAGAAAGAAAGAAAATTGAAGAGAAAAGAG
* * * *
13011865 GAGAGGAAGAGGGTGAACAATTAGGGTAGGTAAAAATTGAATTAGAGGCTAAAAAATACAAT
260 GAGAGGAAGAGGGTGAACAACTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAAATACAAA
13011927 AA-AAATT
1 AAGAAATT
13011934 TGTATTTATA
Statistics
Matches: 307, Mismatches: 21, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
321 131 0.43
322 176 0.57
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (321 bp):
AAGAAATTAAAGAGAAAAGAGATCTTACCCAAGCTAGTTGAAAGAAACGACAATGACACTTTCTT
GGCAATGTTCGGGATCGATCTTGGGGTTCAAGATTTCATATTTGGGGCTGATTTAGATAAGAATA
AATGAAAAAAATAGACTAAAAGAGATGGTGCACAATCTTGATGCAAAAATAAGAAGAAAGATATG
TTAAAATGGGAGGTGTAGGCAACAACAACAATAAGAGAAAGAAAGAAAATTGAAGAGAAAAGAGG
AGAGGAAGAGGGTGAACAACTAGGGTAGGTAAAAATTAAATTAGAGGATAAAAAATACAAA
Found at i:13012405 original size:24 final size:25
Alignment explanation
Indices: 13012373--13012419 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
13012363 AGAAACTTGT
*
13012373 ATTATTCATGAATT-GATTAATAAA
1 ATTATTCATGAATTAAATTAATAAA
13012397 ATTATTCATGAATTAAATTAATA
1 ATTATTCATGAATTAAATTAATA
13012420 TATTTTGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (25 bp):
ATTATTCATGAATTAAATTAATAAA
Found at i:13015317 original size:24 final size:21
Alignment explanation
Indices: 13015273--13015320 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13015263 TCTTTTCAGT
13015273 AACTTCTTCTTCTGCAGCAAC
1 AACTTCTTCTTCTGCAGCAAC
** *
13015294 AACTTCTTCTTCTATAGCATC
1 AACTTCTTCTTCTGCAGCAAC
13015315 AACTTC
1 AACTTC
13015321 CTTCACAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.31, G:0.06, T:0.38
Consensus pattern (21 bp):
AACTTCTTCTTCTGCAGCAAC
Found at i:13033149 original size:25 final size:25
Alignment explanation
Indices: 13033121--13033174 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
13033111 AGCCTAAAGT
13033121 TGATGTAGTTTTATGAACAAAATAA
1 TGATGTAGTTTTATGAACAAAATAA
13033146 TGATGTAGTTTTATGAACAAAATAA
1 TGATGTAGTTTTATGAACAAAATAA
13033171 TGAT
1 TGAT
13033175 CAAACTCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.37
Consensus pattern (25 bp):
TGATGTAGTTTTATGAACAAAATAA
Found at i:13041608 original size:15 final size:15
Alignment explanation
Indices: 13041588--13041618 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13041578 GTTAAGTAAG
13041588 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
13041603 TGAAAGGTTAAGAGT
1 TGAAAGGTCAAGAGT
13041618 T
1 T
13041619 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:13045966 original size:15 final size:15
Alignment explanation
Indices: 13045946--13045976 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13045936 GTTATGTAAG
13045946 TGAAAGGTCAAGAGT
1 TGAAAGGTCAAGAGT
*
13045961 TGAAAGGTTAAGAGT
1 TGAAAGGTCAAGAGT
13045976 T
1 T
13045977 ATGTTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.32, T:0.26
Consensus pattern (15 bp):
TGAAAGGTCAAGAGT
Found at i:13047727 original size:57 final size:57
Alignment explanation
Indices: 13047652--13047784 Score: 187
Period size: 57 Copynumber: 2.3 Consensus size: 57
13047642 TTATTTCTAC
* **
13047652 ATTTATGTTGT-ATTAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGTGCAT
1 ATTTATGTTGTCA-AAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
* * * *
13047709 ATTTATGTTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTGATGCACAT
1 ATTTATGTTGTCAAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
13047766 ATTTATGTTGTCAAAATGT
1 ATTTATGTTGTCAAAATGT
13047785 GAATAATGGC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.47
Consensus pattern (57 bp):
ATTTATGTTGTCAAAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGCACAT
Found at i:13047809 original size:57 final size:57
Alignment explanation
Indices: 13047652--13047800 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 57
13047642 TTATTTCTAC
* * * ** * **
13047652 ATTTATGTTGT-ATTAATGTAATTTATAGTTGCTGTCAAAATGTCTCTTAATGTGCAT
1 ATTTATGTTGTCA-AAATGTAATTAATAGCTATTGTCATAATGTCTCTTAATGCACAT
* * * * *
13047709 ATTTATGTTGTCCAAATGTAATTTATAGTTGTTGTCATAATGTCTCTTGATGCACAT
1 ATTTATGTTGTCAAAATGTAATTAATAGCTATTGTCATAATGTCTCTTAATGCACAT
*
13047766 ATTTATGTTGTCAAAATGTGAA-TAATGGCTATTGT
1 ATTTATGTTGTCAAAATGT-AATTAATAGCTATTGT
13047801 TTCAATGTCC
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
57 76 0.97
58 2 0.03
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (57 bp):
ATTTATGTTGTCAAAATGTAATTAATAGCTATTGTCATAATGTCTCTTAATGCACAT
Found at i:13049278 original size:13 final size:13
Alignment explanation
Indices: 13049260--13049290 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
13049250 GTATATTTTT
13049260 TTTCATATAACCA
1 TTTCATATAACCA
13049273 TTTCATATAACCA
1 TTTCATATAACCA
13049286 TTTCA
1 TTTCA
13049291 CTTAAATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (13 bp):
TTTCATATAACCA
Found at i:13049809 original size:20 final size:20
Alignment explanation
Indices: 13049751--13049892 Score: 108
Period size: 20 Copynumber: 7.1 Consensus size: 20
13049741 ATAAATTCAT
* * *
13049751 AACAAGAGCACCGAAGTGCG
1 AACAAGGGCACCAAAGTGCA
* *
13049771 GACAGGGGCA-CAAATGTGCA
1 AACAAGGGCACCAAA-GTGCA
* *
13049791 AACAAGGGCACCATAGTGCG
1 AACAAGGGCACCAAAGTGCA
*
13049811 AAC-AGGGACACCAAAGTGTA
1 AACAAGGG-CACCAAAGTGCA
* * *
13049831 TACAGGGGCACCAAAGTGTA
1 AACAAGGGCACCAAAGTGCA
* *
13049851 TACAGGGGCACCAAAGTGCA
1 AACAAGGGCACCAAAGTGCA
* * *
13049871 AACAAAGGCATCGAAGTGCA
1 AACAAGGGCACCAAAGTGCA
13049891 AA
1 AA
13049893 TCCCGTACAA
Statistics
Matches: 98, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
19 7 0.07
20 85 0.87
21 6 0.06
ACGTcount: A:0.39, C:0.22, G:0.29, T:0.10
Consensus pattern (20 bp):
AACAAGGGCACCAAAGTGCA
Found at i:13049809 original size:40 final size:39
Alignment explanation
Indices: 13049751--13049889 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
13049741 ATAAATTCAT
* *
13049751 AACAAGAGCACCGAAGTGCGGACAGGGGCA-CAAATGTGCA
1 AACAAGGGCACC-AAGTGCGAACAGGGGCACCAAA-GTGCA
* *
13049791 AACAAGGGCACCATAGTGCGAACAGGGACACCAAAGTGTA
1 AACAAGGGCACCA-AGTGCGAACAGGGGCACCAAAGTGCA
* * *
13049831 TACAGGGGCACCAAAGTG-TATACAGGGGCACCAAAGTGCA
1 AACAAGGGCACC-AAGTGCGA-ACAGGGGCACCAAAGTGCA
* *
13049871 AACAAAGGCATCGAAGTGC
1 AACAAGGGCA-CCAAGTGC
13049890 AAATCCCGTA
Statistics
Matches: 80, Mismatches: 13, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
39 2 0.03
40 72 0.90
41 6 0.08
ACGTcount: A:0.38, C:0.22, G:0.29, T:0.10
Consensus pattern (39 bp):
AACAAGGGCACCAAGTGCGAACAGGGGCACCAAAGTGCA
Found at i:13063775 original size:17 final size:17
Alignment explanation
Indices: 13063755--13063827 Score: 74
Period size: 17 Copynumber: 4.3 Consensus size: 17
13063745 TTGGCAGATA
13063755 AGTATCACCTGGCGGAC
1 AGTATCACCTGGCGGAC
* * *
13063772 AGTATCGCCCGGCAGAC
1 AGTATCACCTGGCGGAC
* * *
13063789 AGCATCACCTGGAGAAC
1 AGTATCACCTGGCGGAC
* *
13063806 AGTATCGCCTGACGGAC
1 AGTATCACCTGGCGGAC
13063823 AGTAT
1 AGTAT
13063828 TACGTACCAG
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 42 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.16
Consensus pattern (17 bp):
AGTATCACCTGGCGGAC
Found at i:13063824 original size:34 final size:34
Alignment explanation
Indices: 13063758--13063824 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
13063748 GCAGATAAGT
* * *
13063758 ATCACCTGGCGGACAGTATCGCCCGGCAGACAGC
1 ATCACCTGGAGAACAGTATCGCCCGACAGACAGC
* *
13063792 ATCACCTGGAGAACAGTATCGCCTGACGGACAG
1 ATCACCTGGAGAACAGTATCGCCCGACAGACAG
13063825 TATTACGTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.28, T:0.13
Consensus pattern (34 bp):
ATCACCTGGAGAACAGTATCGCCCGACAGACAGC
Found at i:13069731 original size:18 final size:18
Alignment explanation
Indices: 13069708--13069746 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
13069698 GACACAGTAG
13069708 AAGCATGATCGTCACTCT
1 AAGCATGATCGTCACTCT
13069726 AAGCATGATCGTCACTCT
1 AAGCATGATCGTCACTCT
13069744 AAG
1 AAG
13069747 TCACTTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.26
Consensus pattern (18 bp):
AAGCATGATCGTCACTCT
Found at i:13073814 original size:3 final size:3
Alignment explanation
Indices: 13073806--13073929 Score: 205
Period size: 3 Copynumber: 41.7 Consensus size: 3
13073796 CATTCTCTAT
* *
13073806 TTC TTC TTC TTT TTC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* *
13073854 TTC TTC TTC TTC TT- TTC TTC TTT TTC TTC TTC TTC TTC TTT TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
13073901 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
13073930 TCAGATCAGA
Statistics
Matches: 112, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
2 2 0.02
3 110 0.98
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:13080010 original size:19 final size:19
Alignment explanation
Indices: 13079988--13080034 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
13079978 CACACAAACT
*
13079988 GCATCCTGGGACACGAAGC
1 GCATCCTGGAACACGAAGC
* *
13080007 GCATCCTAGAACACGAAGT
1 GCATCCTGGAACACGAAGC
*
13080026 GTATCCTGG
1 GCATCCTGG
13080035 TGCATAAGTG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (19 bp):
GCATCCTGGAACACGAAGC
Found at i:13085831 original size:20 final size:21
Alignment explanation
Indices: 13085790--13085831 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
13085780 AATATTTATA
*
13085790 TATTAATATAAGTTTTAAAAT
1 TATTAATATAAGTTTCAAAAT
13085811 TATTAAT-TAAG-TTCAATAAT
1 TATTAATATAAGTTTCAA-AAT
13085831 T
1 T
13085832 GAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 8 0.42
21 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (21 bp):
TATTAATATAAGTTTCAAAAT
Found at i:13089843 original size:44 final size:44
Alignment explanation
Indices: 13089647--13089843 Score: 136
Period size: 44 Copynumber: 4.5 Consensus size: 44
13089637 GATCTGCTCT
* * *
13089647 ACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCC
1 ACTACTGCTCAGGGAGATAGGATCTACAATCTTCAACCTACTCC
* ***** * * *
13089691 ACTACTGCTCAGGAAGATAGGA-CTGGTGGCTTAAATCTGCTTCC
1 ACTACTGCTCAGGGAGATAGGATCTACAATCTTCAACCTAC-TCC
* * * *
13089735 TACTA-T-CT-TGGGAAGATAGGAT-T-CATCGTCTTCGATCTACTCC
1 -ACTACTGCTCAGGG-AGATAGGATCTACA--ATCTTCAACCTACTCC
* * *
13089778 ACTACTGCTTAAGGAGGTAGGATCTACAATCTTCAACCTACTCC
1 ACTACTGCTCAGGGAGATAGGATCTACAATCTTCAACCTACTCC
13089822 ACTACTGCTCAGGGAGATAGGA
1 ACTACTGCTCAGGGAGATAGGA
13089844 CTGGTGGCTT
Statistics
Matches: 113, Mismatches: 29, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
42 6 0.05
43 24 0.21
44 74 0.65
45 7 0.06
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (44 bp):
ACTACTGCTCAGGGAGATAGGATCTACAATCTTCAACCTACTCC
Found at i:13089937 original size:132 final size:132
Alignment explanation
Indices: 13089567--13089956 Score: 586
Period size: 131 Copynumber: 3.0 Consensus size: 132
13089557 TACTGCAACT
* * * *
13089567 TCAGGGAGATAAGG-CTGGTGGTTTAAATCTGTTTCCCTACTACCTCGGGAAGATAAGACTCGCC
1 TCAGGGAGAT-AGGACTGGTGGCTTAAATCTGTTTCCCTACTACCTTGGGAAGATAAGATTCACC
* *
13089631 GTCTTTGATCTGCTCTACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTAC
65 GTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTAC
13089696 TGC
130 TGC
* * * * *
13089699 TCAGGAAGATAGGACTGGTGGCTTAAATCTGCTT-CCTACTATCTTGGGAAGATAGGATTCATCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGTTTCCCTACTACCTTGGGAAGATAAGATTCACCG
* * * **
13089763 TCTTCGATCTACTCCACTACTGCTTAAGGAGGTAGGATCTACAATCTTCAACCTACTCCACTACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
13089828 GC
131 GC
* *
13089830 TCAGGGAGATAGGACTGGTGGCTTAAATATGTTTCCCTACTACCTTGGGAAGATAATATTCACCG
1 TCAGGGAGATAGGACTGGTGGCTTAAATCTGTTTCCCTACTACCTTGGGAAGATAAGATTCACCG
*
13089895 TCTTTGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
66 TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
13089957 GCAAACTCAG
Statistics
Matches: 227, Mismatches: 29, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
131 118 0.52
132 109 0.48
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
TCAGGGAGATAGGACTGGTGGCTTAAATCTGTTTCCCTACTACCTTGGGAAGATAAGATTCACCG
TCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACT
GC
Found at i:13090102 original size:89 final size:89
Alignment explanation
Indices: 13089955--13090233 Score: 281
Period size: 89 Copynumber: 3.1 Consensus size: 89
13089945 ACCTACTCCA
* * * * * * * * * *
13089955 CTGCAAACTCAGAGAGGTAAGGCTGGTGTTTTCAATTTGCTTCACTGCCAGTATAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTGACTGCCAATACAGGAAGACAAG
* * *
13090020 ATCTACTATTTTCAGTCTACTCTG
66 ATCTGCTATCTTCAGTCTGCTCTG
* * * * * ** * *
13090044 CTGCAACCTTAGGGAGGCAAGGTTAGTGTCTTTGCTCTGTTTTACTGTCAATACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTGACTGCCAATACAGGAAGACAAG
13090109 ATCTGCTATCTTCAGTCTGCT-TCG
66 ATCTGCTATCTTCAGTCTGCTCT-G
* * * *
13090133 ATGTAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTACTTGGCTGCCAATACAGGAAGACAAG
1 CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTGACTGCCAATACAGGAAGACAAG
*
13090198 ATCTGTTATCTTCAGTCTGCTCTG
66 ATCTGCTATCTTCAGTCTGCTCTG
* *
13090222 CTGTAAATTCAG
1 CTGCAAACTCAG
13090234 AGATATAAGG
Statistics
Matches: 153, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
88 1 0.01
89 151 0.99
90 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (89 bp):
CTGCAAACTCAGGGAGGCAAGGCTAGTGTCTTCGATCTACTTGACTGCCAATACAGGAAGACAAG
ATCTGCTATCTTCAGTCTGCTCTG
Found at i:13090249 original size:89 final size:89
Alignment explanation
Indices: 13090092--13090259 Score: 230
Period size: 89 Copynumber: 1.9 Consensus size: 89
13090082 GTTTTACTGT
* *
13090092 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTCGATGTAAACTCAGGGAGGCAAGGCT
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTCGATGTAAACTCAGAGAGACAAGGCT
* *
13090157 GGTGTCTTCGATCTACTTGGCTGC
66 GGTGGCTTCAATCTACTTGGCTGC
* * * * * *
13090181 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTGC-TCTGCTGTAAATTCAGAGATATAAGGT
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTC-GATGTAAACTCAGAGAGACAAGGC
13090245 TGGTGGCTTCAATCT
65 TGGTGGCTTCAATCT
13090260 GCTCCATTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
88 2 0.03
89 66 0.97
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (89 bp):
CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTGCTTCGATGTAAACTCAGAGAGACAAGGCT
GGTGGCTTCAATCTACTTGGCTGC
Found at i:13090417 original size:44 final size:45
Alignment explanation
Indices: 13090304--13090797 Score: 161
Period size: 44 Copynumber: 10.9 Consensus size: 45
13090294 ATAATTTGTA
* * * *
13090304 GCTTTAATCTGCTCCACTGCAA-TGCTAGGGAAATAAGATTCGATG
1 GCTTCAATCTGCTCCACTGCAACT-TTAGGGAGATAAGATTAGATG
* ** * *
13090349 TCTTCAGCCTGCTCCGCTGTAACTTTAGGGAGATAAG-TCTAG-TG
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT-TAGATG
* * * *
13090393 GCTTCAATCTGCTCCACTGCAACTTTAAGAAGATAAAATCTGCCATAATTTG
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT-T---A-GA--TG
* * * *** * * * *
13090445 TAGCTTTAATATGTTCCACTAG-AACACCAGGGAAATAAGATTCGCTA
1 --GCTTCAATCTGCTCCACT-GCAACTTTAGGGAGATAAGATTAGATG
* * * *
13090492 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTAGATG
* * * ** * *
13090536 ACTTTAATCTGCTCCACTGCAACCTCGGGGAGATAGGATTA-TTG
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATG
* * * * **
13090580 GCTTTAATCTTCTCCACTGTAACTTCAGGGAGATAAGATTTTCCAT-
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA--TTAGATG
* * * * * * * * * *
13090626 -CTTCAGTTTACCCCACTGCAATTTTGGGGGGTTAAGACTT-GCTTT
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTAG-ATG
* * * *
13090671 G-TTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTT-G-TA
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTAGATG
* * * ** * *
13090714 ACTTTAATTTGCTCCACTAAAACTTTAGGGAGATAGGATTA-TTG
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATG
* *
13090758 GCTTTAATCTGCTCTACTGCAACTTTAGGGAGATAAGATT
1 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
13090798 TACCATCTTC
Statistics
Matches: 330, Mismatches: 93, Indels: 53
0.69 0.20 0.11
Matches are distributed among these distances:
43 5 0.02
44 168 0.51
45 118 0.36
46 5 0.02
47 2 0.01
48 1 0.00
52 2 0.01
53 1 0.00
54 27 0.08
55 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (45 bp):
GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTAGATG
Found at i:13090453 original size:143 final size:143
Alignment explanation
Indices: 13090204--13090558 Score: 419
Period size: 143 Copynumber: 2.5 Consensus size: 143
13090194 CAAGATCTGT
* * * * * *
13090204 TATCTTCAGTCTGCTCTGCTGTAAATTCAGAGATATAAGGT-TGGTGGCTTCAATCTGCTCCATT
1 TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAA-GTCTAGTGGCTTCAATCTGCTCCACT
** * * * ** *
13090268 ATAACTTCAGAAAGATAAGATCTACCATAATTTGTAGCTTTAATCTGCTCCACT-GCAATGCTAG
65 GCAACTTAAGAAAGATAAAATCTACCATAATTTGTAGCTTTAATATGCTCCACTAG-AACACCAG
13090332 GGAAATAAGATTCGA
129 GGAAATAAGATTCGA
* * *
13090347 TGTCTTCAGCCTGCTCCGCTGTAACTTTAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
1 TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
* *
13090412 CAACTTTAAG-AAGATAAAATCTGCCATAATTTGTAGCTTTAATATGTTCCACTAGAACACCAGG
66 CAAC-TTAAGAAAGATAAAATCTACCATAATTTGTAGCTTTAATATGCTCCACTAGAACACCAGG
*
13090476 GAAATAAGATTCGC
130 GAAATAAGATTCGA
* * * * ** *
13090490 TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTG
1 TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
13090555 CAAC
66 CAAC
13090559 CTCGGGGAGA
Statistics
Matches: 179, Mismatches: 30, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
142 2 0.01
143 172 0.96
144 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (143 bp):
TATCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGTCTAGTGGCTTCAATCTGCTCCACTG
CAACTTAAGAAAGATAAAATCTACCATAATTTGTAGCTTTAATATGCTCCACTAGAACACCAGGG
AAATAAGATTCGA
Found at i:13090609 original size:88 final size:88
Alignment explanation
Indices: 13090499--13090795 Score: 319
Period size: 88 Copynumber: 3.4 Consensus size: 88
13090489 CTATCTTCAG
* * *
13090499 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACCTCGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCCACTGCAACTTTGG
13090564 GGAGATAGGATTATTGGCTTTAA
66 GGAGATAGGATTATTGGCTTTAA
* * * * * * * * *
13090587 TCTTCTCCACTGTAACTTCAGGGAGATAAGA-TTTTCCATCTTCAGTTTACCCCACTGCAATTTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT--AACTTTAATTTGCTCCACTGCAACTTT
* * * * * * *
13090651 GGGGGGTTAAGACTTGCTTTG-TTCAG
64 GGGGAGATAGGA-TT-ATTGGCTTTAA
* ** *
13090677 TCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCCACTAAAACTTTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCCACTGCAACTTTGG
13090742 GGAGATAGGATTATTGGCTTTAA
66 GGAGATAGGATTATTGGCTTTAA
* *
13090765 TCTGCTCTACTGCAACTTTAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
13090796 TTTACCATCT
Statistics
Matches: 161, Mismatches: 42, Indels: 12
0.75 0.20 0.06
Matches are distributed among these distances:
87 6 0.04
88 62 0.39
89 54 0.34
90 33 0.20
91 6 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (88 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTTAATTTGCTCCACTGCAACTTTGG
GGAGATAGGATTATTGGCTTTAA
Found at i:13091157 original size:24 final size:24
Alignment explanation
Indices: 13091125--13091180 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
13091115 CAGATTGCCC
13091125 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
13091149 CCACTGTAATCTTCAAGGTTCAAT
1 CCACTGTAATCTTCAAGGTTCAAT
*
13091173 CCATTGTA
1 CCACTGTA
13091181 CTTTTGGGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAGGTTCAAT
Found at i:13093143 original size:18 final size:18
Alignment explanation
Indices: 13093122--13093163 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13093112 CTTTGGCCTC
* *
13093122 TCTTTTTTCTTTTCCTTT
1 TCTTTTTCCTTCTCCTTT
*
13093140 TCTTTTTCCTTCTCTTTT
1 TCTTTTTCCTTCTCCTTT
13093158 TCTTTT
1 TCTTTT
13093164 CTTTTTCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TCTTTTTCCTTCTCCTTT
Found at i:13093169 original size:11 final size:11
Alignment explanation
Indices: 13093126--13093170 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
13093116 GGCCTCTCTT
*
13093126 TTTTCTTTTCC
1 TTTTCTTTTTC
13093137 TTTTCTTTTTCC
1 TTTTCTTTTT-C
*
13093149 TTCTCTTTTTC
1 TTTTCTTTTTC
13093160 TTTTCTTTTTC
1 TTTTCTTTTTC
13093171 CATCATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:13093212 original size:7 final size:8
Alignment explanation
Indices: 13093199--13093224 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13093189 TTTTTTGAAA
13093199 TATTTTTT
1 TATTTTTT
13093207 TATTTTTT
1 TATTTTTT
13093215 TATTTTTT
1 TATTTTTT
13093223 TA
1 TA
13093225 AAACTCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TATTTTTT
Found at i:13096220 original size:19 final size:20
Alignment explanation
Indices: 13096196--13096242 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
13096186 TGGTGGACTA
* *
13096196 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
13096215 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
13096235 -AATGCAAA
1 TAATGCAAA
13096243 AAAGAGAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:13098052 original size:15 final size:16
Alignment explanation
Indices: 13098034--13098066 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13098024 AAATGTAAAC
13098034 AAATTTAAAAAT-AAT
1 AAATTTAAAAATGAAT
*
13098049 AAATTTGAAAATGAAT
1 AAATTTAAAAATGAAT
13098065 AA
1 AA
13098067 TAAGGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (16 bp):
AAATTTAAAAATGAAT
Found at i:13098933 original size:23 final size:22
Alignment explanation
Indices: 13098890--13098947 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
13098880 AAAAGGTATC
* *
13098890 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
13098911 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
13098934 TGCATATCATATCT
1 TACAAATCATATCT
13098948 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:13104093 original size:13 final size:13
Alignment explanation
Indices: 13104058--13104093 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
13104048 TTTGAGATCA
*
13104058 TTTTGTTTTTCTT
1 TTTTTTTTTTCTT
*
13104071 TTTCTTTTTTCTT
1 TTTTTTTTTTCTT
13104084 TTTTTTTTTT
1 TTTTTTTTTT
13104094 GGGGGGGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.08, G:0.03, T:0.89
Consensus pattern (13 bp):
TTTTTTTTTTCTT
Found at i:13106397 original size:47 final size:47
Alignment explanation
Indices: 13106346--13106443 Score: 187
Period size: 47 Copynumber: 2.1 Consensus size: 47
13106336 GTCCTGTTCC
*
13106346 AATTTTTCATCGTCCAAGGTAAGTCTATTAACAAATAAATTTCGTTA
1 AATTTTTCATCGTCCAAGGTAAGTCTATTAACAAATAAATGTCGTTA
13106393 AATTTTTCATCGTCCAAGGTAAGTCTATTAACAAATAAATGTCGTTA
1 AATTTTTCATCGTCCAAGGTAAGTCTATTAACAAATAAATGTCGTTA
13106440 AATT
1 AATT
13106444 AAAATGTATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (47 bp):
AATTTTTCATCGTCCAAGGTAAGTCTATTAACAAATAAATGTCGTTA
Found at i:13107526 original size:13 final size:13
Alignment explanation
Indices: 13107508--13107532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13107498 TATTTAGCTA
13107508 GTATTTGACTAGG
1 GTATTTGACTAGG
13107521 GTATTTGACTAG
1 GTATTTGACTAG
13107533 TTAGGCTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
GTATTTGACTAGG
Found at i:13113326 original size:14 final size:14
Alignment explanation
Indices: 13113287--13113327 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
13113277 TTAATATAAA
13113287 CCCTAAACCCCTATC
1 CCCTAAA-CCCTATC
**
13113302 CCCTATCCCCTATC
1 CCCTAAACCCTATC
13113316 CCCTAAACCCTA
1 CCCTAAACCCTA
13113328 AATCATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.24, C:0.54, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAAACCCTATC
Found at i:13113412 original size:7 final size:7
Alignment explanation
Indices: 13113390--13113437 Score: 69
Period size: 7 Copynumber: 6.9 Consensus size: 7
13113380 CCCCAACCCT
13113390 TAAACCA
1 TAAACCA
13113397 TAAACCA
1 TAAACCA
*
13113404 TAAATCA
1 TAAACCA
13113411 TAAACCA
1 TAAACCA
*
13113418 TAATCCA
1 TAAACCA
*
13113425 TAATCCA
1 TAAACCA
13113432 TAAACC
1 TAAACC
13113438 TTAAGATAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:13113488 original size:14 final size:14
Alignment explanation
Indices: 13113366--13113505 Score: 86
Period size: 14 Copynumber: 9.9 Consensus size: 14
13113356 ACCCCCTAAG
*
13113366 CCCTAAACCTTAAA
1 CCCTAAACCATAAA
* * *
13113380 CCCCAACCCTTAAA
1 CCCTAAACCATAAA
*
13113394 CCATAAACCATAAA
1 CCCTAAACCATAAA
* * *
13113408 TCATAAACCATAAT
1 CCCTAAACCATAAA
* *
13113422 CCATAATCCATAAA
1 CCCTAAACCATAAA
* *
13113436 -CCTTAA-GATAGTAA
1 CCCTAAACCATA--AA
*
13113450 CTCCTAAACCTTAAA
1 C-CCTAAACCATAAA
* *
13113465 CCCTATACCATATA
1 CCCTAAACCATAAA
*
13113479 CTCTAAACCATAAA
1 CCCTAAACCATAAA
*
13113493 CCCTAAACTATAA
1 CCCTAAACCATAA
13113506 TAATTAATTC
Statistics
Matches: 95, Mismatches: 26, Indels: 10
0.73 0.20 0.08
Matches are distributed among these distances:
12 3 0.03
13 3 0.03
14 79 0.83
15 3 0.03
16 5 0.05
17 2 0.02
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (14 bp):
CCCTAAACCATAAA
Found at i:13113559 original size:7 final size:7
Alignment explanation
Indices: 13113547--13113582 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
13113537 ACTAGTTAAT
13113547 CTAAACC
1 CTAAACC
13113554 CTAAACC
1 CTAAACC
*
13113561 ATAAA-C
1 CTAAACC
13113567 CTAAACC
1 CTAAACC
13113574 CTAAACC
1 CTAAACC
13113581 CT
1 CT
13113583 TAACAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:13113567 original size:14 final size:14
Alignment explanation
Indices: 13113548--13113642 Score: 61
Period size: 14 Copynumber: 6.8 Consensus size: 14
13113538 CTAGTTAATC
13113548 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
13113562 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
*
13113575 TAAACCCTTAA-CA
1 TAAACCCTAAACCA
* *
13113588 AATAACCTCTAAACCT
1 TA-AACC-CTAAACCA
* *
13113604 TAAACCC-CAACCTT
1 TAAACCCTAAACC-A
* *
13113618 TAAACCATAACCCA
1 TAAACCCTAAACCA
*
13113632 TAAACCTTAAA
1 TAAACCCTAAA
13113643 ATGGTAACAC
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
13 18 0.30
14 30 0.49
15 11 0.18
16 2 0.03
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:13114161 original size:41 final size:41
Alignment explanation
Indices: 13114026--13114271 Score: 268
Period size: 41 Copynumber: 6.0 Consensus size: 41
13114016 TCGCTAAAAA
* * *
13114026 TAGAGCATTAGCGGTGTTTTTTAAAAAATGCCGCTAAAGCCC
1 TAGAGCATTAGCGGCGCTTTTT-AAAAACGCCGCTAAAGCCC
* * ** **
13114068 CAGAGCATTAGCGGCGGTTATTGGAAAACGCCGCTAAA--AA
1 TAGAGCATTAGCGGCGCTT-TTTAAAAACGCCGCTAAAGCCC
* * *
13114108 TAGAGCATTAGCGGTGCTATTTGAAAAACGCCACTAAAG-CC
1 TAGAGCATTAGCGGCGCT-TTTTAAAAACGCCGCTAAAGCCC
13114149 TAGAGCATTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGCCC
1 TAGAGCATTAGCGGCGCTTTTTAA-AAACGCCGCTAAAGCCC
* *
13114191 CA-AGCATTAGTGGCGCCTTTTTAAAAACGCCGCTAAAGCCC
1 TAGAGCATTAGCGGCG-CTTTTTAAAAACGCCGCTAAAGCCC
*
13114232 T-GAGGATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCC
1 TAGAGCATTAGCGGCGC-TTTTTAAAAACGCCGCTAAAGCC
13114272 TCGAAAGCTC
Statistics
Matches: 173, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
40 37 0.21
41 94 0.54
42 40 0.23
43 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (41 bp):
TAGAGCATTAGCGGCGCTTTTTAAAAACGCCGCTAAAGCCC
Found at i:13114241 original size:123 final size:123
Alignment explanation
Indices: 13114026--13114272 Score: 311
Period size: 123 Copynumber: 2.0 Consensus size: 123
13114016 TCGCTAAAAA
* * * *
13114026 TAGAGCATTAGCGGTGTTTTTTAAAAAATGCCGCTAAAGCCCCAGAGCATTAGCGGCGGTTATTG
1 TAGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCCAGAGCATTAGCGGCGCTTATTG
* *
13114091 GAAAACGCCGCTAAAAATAGAGCATTAGCGGTGCTATTTGAAAAACGCCACTAAAGCC
66 AAAAACGCCGCTAAAAATAGAGCATTAGCGGCGCTATTTGAAAAACGCCACTAAAGCC
* *
13114149 TAGAGCATTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGCCCCA-AGCATTAGTGGCGCCTT-TT
1 TAGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCCAGAGCATTAGCGGCG-CTTATT
* ** * * * *
13114212 TAAAAACGCCGCTAAAGCCCT-GAGGATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCC
65 GAAAAACGCCGCTAAA--AATAGAGCATTAGCGGCGCTATTTGAAAAACGCCACTAAAGCC
13114272 T
1 T
13114273 CGAAAGCTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
122 28 0.26
123 77 0.73
124 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (123 bp):
TAGAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGCCCCAGAGCATTAGCGGCGCTTATTG
AAAAACGCCGCTAAAAATAGAGCATTAGCGGCGCTATTTGAAAAACGCCACTAAAGCC
Found at i:13114685 original size:25 final size:25
Alignment explanation
Indices: 13114657--13114706 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13114647 TTCAACATAC
*
13114657 TTAAAAATTCATGTGAAATGCCTTA
1 TTAAAAATTCATGCGAAATGCCTTA
* *
13114682 TTAAAAATTCTTGCGAAATGTCTTA
1 TTAAAAATTCATGCGAAATGCCTTA
13114707 CCGCCCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (25 bp):
TTAAAAATTCATGCGAAATGCCTTA
Found at i:13116939 original size:6 final size:6
Alignment explanation
Indices: 13116925--13116955 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
13116915 AAACATAAAC
13116925 AAATT- AAATTG AAATTG AAATTG AAATTG AA
1 AAATTG AAATTG AAATTG AAATTG AAATTG AA
13116956 GGTAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (6 bp):
AAATTG
Found at i:13118625 original size:13 final size:13
Alignment explanation
Indices: 13118607--13118633 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13118597 ATCATTACTA
13118607 TTATTATTATATT
1 TTATTATTATATT
13118620 TTATTATTATATT
1 TTATTATTATATT
13118633 T
1 T
13118634 ATTTACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATATT
Done.