Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 269 of 333
Found at i:88830478 original size:93 final size:93
Alignment explanation
Indices: 88830365--88830536 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
88830355 GCCCATAAGT
*
88830365 GAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88830430 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
88830458 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
88830523 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
88830537 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:88830532 original size:46 final size:46
Alignment explanation
Indices: 88830357--88830532 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
88830347 TGTAACCCGC
* * *
88830357 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
88830403 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
88830453 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
88830496 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88830533 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.58
47 27 0.25
49 1 0.01
50 7 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:88834928 original size:3 final size:3
Alignment explanation
Indices: 88834922--88834958 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
88834912 AGGAAAAGTA
* *
88834922 AAT AAT AAT AAT AAT AAT GAT AAT AAT AAG AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
88834959 TGAACAACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:88835077 original size:12 final size:12
Alignment explanation
Indices: 88835033--88835080 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
88835023 AAGAGATAAT
* *
88835033 AAATAGATAAAT
1 AAATATATAAAA
*
88835045 AAATAAATAAAA
1 AAATATATAAAA
*
88835057 TAATATATAAAA
1 AAATATATAAAA
*
88835069 AAATCTATAAAA
1 AAATATATAAAA
88835081 GGGTCGAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (12 bp):
AAATATATAAAA
Found at i:88839069 original size:70 final size:70
Alignment explanation
Indices: 88838954--88839908 Score: 682
Period size: 70 Copynumber: 13.7 Consensus size: 70
88838944 ATGATCCCTC
* * * * *
88838954 CCAAAAAAGTTAGCGCGAGTTCAAGCTTCCC-GCT-ATAATCTTAAGGCTCGTAGATTCAATATA
1 CCAAAATAGTTAGCGTGAGCTCAAGC-TCCCAGCTGA-AATCTTAAGGCTCGTAGGTTCAATATC
88839017 GCAGCCT
64 GCAGCCT
* * * * * * * * *** * * * *
88839024 TCAAAACAATTAACGCGAGCTCAAGCTCCTAGCTAAAATATTAAGGCTTACAGGTTTAGTACCAC
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATCGC
88839089 AGCCT
66 AGCCT
* * * * * *
88839094 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTAAAATATTAAAGCTCGCAGGCTCAA-AACTG
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATC-G
88839158 CAGCCT
65 CAGCCT
* * **
88839164 CCAAAATAGTTAG-GTCGAGCTCAAGCTCCCAGCT-AGAATCTTAAGGCTTGTAGGTTGAATGCC
1 CCAAAATAGTTAGCGT-GAGCTCAAGCTCCCAGCTGA-AATCTTAAGGCTCGTAGGTTCAATATC
88839227 GCAGCCT
64 GCAGCCT
* * * * ** * * *
88839234 CCAAAATATTTAGCTTGAGCTTAATCT-CCAAATTATAATATTAAGGCTCATAGGTTCAATA-CT
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGA-AATCTTAAGGCTCGTAGGTTCAATATC-
88839297 GCAG-CT
64 GCAGCCT
* * * * * * * *
88839303 CCTAAAATAGTTAACGCGAGCTTAAGCTCCCAACTGAAATCTTAAGGCTTGTAGGGTCAATGTCC
1 CC-AAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATCG
88839368 CAGCCT
65 CAGCCT
* * * * * ** * ** * *
88839374 CAAAAAAAGTTAGCATGAGATCAAGTTCCCATTTGAAATATTAAGGCTCACAAGTTCAATACCGC
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATCGC
*
88839439 AACCT
66 AGCCT
* ** * ** * * * * *
88839444 TCAAAATAGTTAATGCGAGCTCAAGCTCTTAACTGAAGTCTTAAGGCTCGCAGGTTCAATACCGT
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATCGC
*
88839509 AGCTT
66 AGCCT
* * * * * * ** * *
88839514 CTAAAACT-GTTAGTGTGAGTTTAAGATCCTAGCTTTAATCTTAAGGCTCGCAGATTCAATATCG
1 CCAAAA-TAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATCG
*
88839578 CAACCT
65 CAGCCT
* * * *
88839584 CCAAAATAGTTAGCGTGAGCTCAAGCTCCAAGCTTG-AATCTTAAGGCTTGTAGGTTTAATGTCG
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGC-TGAAATCTTAAGGCTCGTAGGTTCAATATCG
*
88839648 TAGCCT
65 CAGCCT
* * * *
88839654 CCAAAACAGTTAGCTTGAGCTCAAGCTCCTAGCTGAAATCTTAAGGTTCGTAGGTTCAATATCGC
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATCGC
88839719 AGCCT
66 AGCCT
* * * * * * * * * *
88839724 CTAAAACT-GTTAGTGTGAGTTTAAGATCCCAACTGTAAT-ATAAGGGATCGTAGATTCAATATC
1 CCAAAA-TAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAA-GGCTCGTAGGTTCAATATC
*
88839787 GCAACCT
64 GCAGCCT
* * * * * *
88839794 CCAAAACAATTAGCGTGA---CAAGCTCCAAACTTG-AATCTTAAGGCTTGTAGGTTCAATGTCG
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGC-TGAAATCTTAAGGCTCGTAGGTTCAATATCG
88839855 CAGCCT
65 CAGCCT
* *
88839861 CCAAAACAGTTAGCGTGAGCTTAAGCTCCCAGCTGAAATCTTAAGGCT
1 CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCT
88839909 TGCAGGTCCA
Statistics
Matches: 686, Mismatches: 173, Indels: 52
0.75 0.19 0.06
Matches are distributed among these distances:
67 50 0.07
68 5 0.01
69 25 0.04
70 591 0.86
71 15 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.27
Consensus pattern (70 bp):
CCAAAATAGTTAGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGCTCGTAGGTTCAATATCGC
AGCCT
Found at i:88839996 original size:207 final size:208
Alignment explanation
Indices: 88839536--88840005 Score: 540
Period size: 207 Copynumber: 2.3 Consensus size: 208
88839526 GTGTGAGTTT
* * *
88839536 AAGATCCTAGCTT-TAATCTTAAGGCTCGCAGATTCAATATCGCAACCTCCAAAATAGTTAGCGT
1 AAGATCCTAG-TTGTAATATTAAGGCTCGCAGATTCAATATCGCAACCTCCAAAACAATTAGCGT
* * *
88839600 GAGCTCAAGCTCCAAGCTTGAATCTTAAGGCTTGTAGGTTTAATGTCGTAGCCTCCAAAACAGTT
65 GA-C-CAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCGCAGCCTCCAAAACAGTT
* * * * * *
88839665 AGCTTGAGCTCAAGCTCCTAGCTGAAATCTTAAGGTTCGTAGGTTCAATATCGCAGCCTCTAAAA
128 AGCGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGTTCGCAGGTCCAATATCACAACCTCTAAAA
* **** * *
88839730 CTGTTAGTGTGAGTTT
193 CTATTAACACGAGCTC
* ** * *
88839746 AAGATCCCAACTGTAATA-TAAGGGATCGTAGATTCAATATCGCAACCTCCAAAACAATTAGCGT
1 AAGATCCTAGTTGTAATATTAA-GGCTCGCAGATTCAATATCGCAACCTCCAAAACAATTAGCGT
88839810 GA-CAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCGCAGCCTCCAAAACAGTTAG
65 GACCAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCGCAGCCTCCAAAACAGTTAG
* *
88839874 CGTGAGCTTAAGCTCCCAGCTGAAATCTTAAGGCTT-GCAGGTCCAGTA-CTACAACCT-TCAAA
130 CGTGAGCTCAAGCTCCCAGCTGAAATCTTAAGG-TTCGCAGGTCCAATATC-ACAACCTCT-AAA
88839936 A-TAATTAACACGAGCTC
192 ACT-ATTAACACGAGCTC
* * * * *
88839953 AAGCTCCTAGTTGTAATATTAAGGCTCACAAATTCATTATCGCAGCCTCCAAA
1 AAGATCCTAGTTGTAATATTAAGGCTCGCAGATTCAATATCGCAACCTCCAAA
88840006 GCAGTTAATG
Statistics
Matches: 217, Mismatches: 36, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
206 3 0.01
207 153 0.71
208 5 0.02
209 4 0.02
210 52 0.24
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (208 bp):
AAGATCCTAGTTGTAATATTAAGGCTCGCAGATTCAATATCGCAACCTCCAAAACAATTAGCGTG
ACCAAGCTCCAAACTTGAATCTTAAGGCTTGTAGGTTCAATGTCGCAGCCTCCAAAACAGTTAGC
GTGAGCTCAAGCTCCCAGCTGAAATCTTAAGGTTCGCAGGTCCAATATCACAACCTCTAAAACTA
TTAACACGAGCTC
Found at i:88840167 original size:18 final size:18
Alignment explanation
Indices: 88840120--88840167 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
88840110 AGCCTAAAAT
* **
88840120 TTTGCCTAAGTTTGAGGG
1 TTTGCTTAAGTTTGAAAG
* *
88840138 TTTACTTGAGTTTGAAAG
1 TTTGCTTAAGTTTGAAAG
88840156 TTTGCTTAAGTT
1 TTTGCTTAAGTT
88840168 AAAAATTTGC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.46
Consensus pattern (18 bp):
TTTGCTTAAGTTTGAAAG
Found at i:88848265 original size:18 final size:18
Alignment explanation
Indices: 88848234--88848271 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88848224 AATTCTTTCC
*
88848234 TTGGTATTATTTCACTTA
1 TTGGTATTATTTCAATTA
88848252 TTGGTTATTA-TTCAATTA
1 TTGG-TATTATTTCAATTA
88848270 TT
1 TT
88848272 TTCTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.24, C:0.08, G:0.11, T:0.58
Consensus pattern (18 bp):
TTGGTATTATTTCAATTA
Found at i:88848567 original size:5 final size:6
Alignment explanation
Indices: 88848549--88848595 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
88848539 TAATTTAGTC
* * *
88848549 TTATTT TTATTT TTATTT TAATGTT TTATTT TTAATT TAATTT TTAT
1 TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT TTATTT TTAT
88848596 ATTCTAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:88848577 original size:19 final size:18
Alignment explanation
Indices: 88848551--88848595 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
88848541 ATTTAGTCTT
*
88848551 ATTTTTATTTTTATTTTA
1 ATTTTTATTTTTAATTTA
88848569 ATGTTTTATTTTTAATTTA
1 AT-TTTTATTTTTAATTTA
88848588 ATTTTTAT
1 ATTTTTAT
88848596 ATTCTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTTTATTTTTAATTTA
Found at i:88856125 original size:17 final size:18
Alignment explanation
Indices: 88856103--88856138 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
88856093 AAGAATACTA
88856103 TTTTATATTAAAAG-TTT
1 TTTTATATTAAAAGATTT
*
88856120 TTTTATATTTAAAGATTT
1 TTTTATATTAAAAGATTT
88856138 T
1 T
88856139 ATTTTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (18 bp):
TTTTATATTAAAAGATTT
Found at i:88861065 original size:26 final size:26
Alignment explanation
Indices: 88861035--88861099 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
88861025 GCAACTCTTA
* *
88861035 TGAGCATCTCG-TTATATGGCTCTTCG
1 TGAGCATCCCGATTA-AAGGCTCTTCG
* *
88861061 TGAGCTTCCCGATTAAAGGCTCTTTG
1 TGAGCATCCCGATTAAAGGCTCTTCG
*
88861087 TGAGCTTCCCGAT
1 TGAGCATCCCGAT
88861100 ATGACTCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 31 0.91
27 3 0.09
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
TGAGCATCCCGATTAAAGGCTCTTCG
Found at i:88864539 original size:46 final size:45
Alignment explanation
Indices: 88864407--88864576 Score: 134
Period size: 46 Copynumber: 3.7 Consensus size: 45
88864397 ACTTGTGTGA
* *
88864407 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATT-ATGA-A-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-C-TTGA-GAGAGT
* * * * *
88864453 GCTGGT-TAAGACCATCTCTAGGACATGGCATCAGCATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGA-GAGT
*
88864500 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGAG-GT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAGAGT
* *
88864544 AAACTAGTGTAAAACATGTCTGGGACATGCATC
1 --GCTAGTGTAAGACATGTCTGGGACATGCATC
88864577 AACTACGAGA
Statistics
Matches: 99, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
44 6 0.06
45 7 0.07
46 59 0.60
47 22 0.22
48 5 0.05
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAGAGT
Found at i:88864570 original size:93 final size:92
Alignment explanation
Indices: 88864407--88864577 Score: 213
Period size: 93 Copynumber: 1.8 Consensus size: 92
88864397 ACTTGTGTGA
* * * *
88864407 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAAAGCTGGTTAAGACCATCTCT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATGAGGAAAGCTAGTTAAGAACATCTCT
88864472 AGGACATGGCATCAGCATTGAGACGAGT
66 AGGACAT-GCATCAGCATTGAGACGAGT
** *
88864500 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGA-GAGGTAAA-CTAGTGTAA-AACATG
1 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCC-ACATGAGG-AAAGCTAGT-TAAGAACATC
*
88864562 TCTGGGACATGCATCA
63 TCTAGGACATGCATCA
88864578 ACTACGAGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
92 6 0.09
93 54 0.81
94 7 0.10
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATGAGGAAAGCTAGTTAAGAACATCTCT
AGGACATGCATCAGCATTGAGACGAGT
Found at i:88869335 original size:21 final size:22
Alignment explanation
Indices: 88869292--88869337 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
88869282 TAACTCATGT
*
88869292 GTTTTTTCTAAAAATAAGCTAA
1 GTTTTTTCTAAAAATAAGATAA
88869314 GTTTTGTTCT-AAAATAA-ATAA
1 GTTTT-TTCTAAAAATAAGATAA
88869335 GTT
1 GTT
88869338 GACTGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 12 0.55
23 4 0.18
ACGTcount: A:0.39, C:0.07, G:0.11, T:0.43
Consensus pattern (22 bp):
GTTTTTTCTAAAAATAAGATAA
Found at i:88870487 original size:106 final size:95
Alignment explanation
Indices: 88870386--88870575 Score: 258
Period size: 95 Copynumber: 2.0 Consensus size: 95
88870376 TAACATAATG
* *
88870386 ATAATGATGAATATTAAAAATATATAATTCCATTATATAGTTACATATTTATTAATTTATTTATA
1 ATAATGATGTATA-T-AAAATATAT--TT-CATTATATAATTACATATTTATTAATTTATTTATA
88870451 TAAATAA-ATGAATTATTAATTAAAATATTTTTAAC
61 TAAATAATAT-AATTATTAATTAAAATATTTTTAAC
* * *
88870486 ATAATGCTGTATATAAAATATATTTTATTATATAATTACATATTTATTATTTTATTTATATAAAT
1 ATAATGATGTATATAAAATATATTTCATTATATAATTACATATTTATTAATTTATTTATATAAAT
*
88870551 AATATATTTATTAATTAAAA-ATTTT
66 AATATAATTATTAATTAAAATATTTT
88870576 AAAAAATTTA
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
94 5 0.06
95 53 0.64
96 4 0.05
98 9 0.11
99 1 0.01
100 11 0.13
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.48
Consensus pattern (95 bp):
ATAATGATGTATATAAAATATATTTCATTATATAATTACATATTTATTAATTTATTTATATAAAT
AATATAATTATTAATTAAAATATTTTTAAC
Found at i:88870588 original size:17 final size:17
Alignment explanation
Indices: 88870563--88870611 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
88870553 TATATTTATT
**
88870563 AATTAAAAATTTTAAAA
1 AATTAAAAATAATAAAA
*
88870580 AATTTAAAATAATAAAA
1 AATTAAAAATAATAAAA
*
88870597 AATAAAAAAT-ATAAA
1 AATTAAAAATAATAAA
88870612 TTTAAGTAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
16 5 0.19
17 22 0.81
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AATTAAAAATAATAAAA
Found at i:88873597 original size:22 final size:21
Alignment explanation
Indices: 88873560--88873607 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
88873550 TCAGGAATAT
*
88873560 TTTATGTATATCTTTTCCTT-A
1 TTTATGTATATATTTT-CTTGA
88873581 TTTATGTATATTATTTTCTTGA
1 TTTATGTATA-TATTTTCTTGA
88873603 TTTAT
1 TTTAT
88873608 AAGCTAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.21, C:0.08, G:0.06, T:0.65
Consensus pattern (21 bp):
TTTATGTATATATTTTCTTGA
Found at i:88894818 original size:21 final size:20
Alignment explanation
Indices: 88894790--88894829 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
88894780 TGGCCCGTGT
88894790 CCTTACACGACCATGACACG
1 CCTTACACGACCATGACACG
*
88894810 CCTTCACACGGCCATGACAC
1 CCTT-ACACGACCATGACAC
88894830 ACCTGTGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.42, G:0.15, T:0.15
Consensus pattern (20 bp):
CCTTACACGACCATGACACG
Found at i:88895965 original size:46 final size:47
Alignment explanation
Indices: 88895867--88896075 Score: 134
Period size: 46 Copynumber: 4.5 Consensus size: 47
88895857 CGATGCCATA
* * * **
88895867 TCCCAGAAATGGTCTTACACT-GAC--ACGTCTCGAAGCCGATATATG
1 TCCCAGACATGGTCTTACACTAG-CTTACGTCTCGAGGCCAATGCATG
** * *
88895912 TTTCAGACAT-TTCTTACACTAGCTTACGTCTCGAGGCCGATGCATG
1 TCCCAGACATGGTCTTACACTAGCTTACGTCTCGAGGCCAATGCATG
* * * *
88895958 TCCCAGACAT-GT-TATACACTAGCACT-CCTCTCAATGCCAATGCCATG
1 TCCCAGACATGGTCT-TACACTAGC-TTACGTCTCGAGGCCAATG-CATG
* *
88896005 TCCCAGACATGGTCTTACACT-GACTTTCGTAAT--ATGGCCAATGCATG
1 TCCCAGACATGGTCTTACACTAG-CTTACGT-CTCGA-GGCCAATGCATG
*
88896052 TCCCAGACAT-GTCTTGCACTAGCT
1 TCCCAGACATGGTCTTACACTAGCT
88896076 CACACAAGTG
Statistics
Matches: 131, Mismatches: 20, Indels: 25
0.74 0.11 0.14
Matches are distributed among these distances:
44 10 0.08
45 9 0.07
46 59 0.45
47 33 0.25
48 18 0.14
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
TCCCAGACATGGTCTTACACTAGCTTACGTCTCGAGGCCAATGCATG
Found at i:88901682 original size:46 final size:47
Alignment explanation
Indices: 88901596--88901816 Score: 172
Period size: 46 Copynumber: 4.7 Consensus size: 47
88901586 GTATATCTGT
* *
88901596 GCCGATACTATGTCCCAAACATGGTCTTACACT-GAC--ACGTCTCGTA-
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAG-CTTACGTCTCGTAG
* *
88901642 GCCGATGCATGTTCCAGACATGTCTTACACTAGCTTACGTCTTG-AG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGTAG
* * * *
88901688 GCCGATGCATGTCCCAGACATGTTTTACACTAGCACT-CGTCTC-AAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACGTCTCGTAG
* * * * * *
88901734 GCTGATGCCATGTCCCAGACATGGTTTTACACTGGCTTTCATAAT-GT-G
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGT-CTCGTAG
* *
88901782 GCCAATGCATGTCCCAGACATGTCTTGCACTAGCT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT
88901817 CACACAAGCA
Statistics
Matches: 143, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 69 0.48
47 30 0.21
48 19 0.13
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGTAG
Found at i:88902241 original size:47 final size:47
Alignment explanation
Indices: 88902172--88902266 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
88902162 ATGAAGAGAT
88902172 AGTGAAAGAGAACAGATGGTAGCTAGGCTTTGGTATTATTTTATCAC
1 AGTGAAAGAGAACAGATGGTAGCTAGGCTTTGGTATTATTTTATCAC
88902219 AGTGAAAGAGAACAGATGGTAGCTAGGCTTTGGTATTATTTTATCAC
1 AGTGAAAGAGAACAGATGGTAGCTAGGCTTTGGTATTATTTTATCAC
88902266 A
1 A
88902267 TAATATGACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.32
Consensus pattern (47 bp):
AGTGAAAGAGAACAGATGGTAGCTAGGCTTTGGTATTATTTTATCAC
Found at i:88903321 original size:40 final size:40
Alignment explanation
Indices: 88903277--88903352 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
88903267 TAGTGCCACA
88903277 TATAGCCGAAGCTAT-TCCAATTCGCACACTAAGTGCTTTC
1 TATAGCCGAAGCTATCTCCAA-TCGCACACTAAGTGCTTTC
* * *
88903317 TATAGCCGAAGTTATCTCGAATCGCGCACTAAGTGC
1 TATAGCCGAAGCTATCTCCAATCGCACACTAAGTGC
88903353 CAAGCATAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 28 0.88
41 4 0.12
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (40 bp):
TATAGCCGAAGCTATCTCCAATCGCACACTAAGTGCTTTC
Found at i:88908308 original size:39 final size:40
Alignment explanation
Indices: 88908265--88908348 Score: 143
Period size: 39 Copynumber: 2.1 Consensus size: 40
88908255 ATAGGGGTAA
*
88908265 ATAAAGGTACTGAATGACTGACTGTTACTGAATGATATT-
1 ATAAAGGTACTGAATGACTAACTGTTACTGAATGATATTG
*
88908304 ATAAAGGTTCTGAATGACTAACTGTTACTGAATGATATTG
1 ATAAAGGTACTGAATGACTAACTGTTACTGAATGATATTG
88908344 ATAAA
1 ATAAA
88908349 TTGATTGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 37 0.88
40 5 0.12
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (40 bp):
ATAAAGGTACTGAATGACTAACTGTTACTGAATGATATTG
Found at i:88908336 original size:18 final size:18
Alignment explanation
Indices: 88908272--88908338 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
88908262 TAAATAAAGG
*
88908272 TACTGAATGACTGACTGT
1 TACTGAATGACTAACTGT
* **
88908290 TACTGAATGATATTATAAAGGT
1 TACTGAATG--A--CTAACTGT
88908312 T-CTGAATGACTAACTGT
1 TACTGAATGACTAACTGT
88908329 TACTGAATGA
1 TACTGAATGA
88908339 TATTGATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
17 6 0.16
18 17 0.46
19 1 0.03
20 1 0.03
21 7 0.19
22 5 0.14
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (18 bp):
TACTGAATGACTAACTGT
Found at i:88910498 original size:19 final size:21
Alignment explanation
Indices: 88910474--88910518 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
88910464 ACATCATTTT
*
88910474 CAGAAGC-CCGAAG-GCTAAA
1 CAGAAGCACAGAAGTGCTAAA
*
88910493 CAGAAGCACATAAGTGCTAAA
1 CAGAAGCACAGAAGTGCTAAA
88910514 CAGAA
1 CAGAA
88910519 ACCCCATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (21 bp):
CAGAAGCACAGAAGTGCTAAA
Found at i:88910584 original size:42 final size:43
Alignment explanation
Indices: 88910489--88910604 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 43
88910479 GCCCGAAGGC
* * * * *
88910489 TAAACAGAAGCACATAAGTGCTAAACAGAAACCCCATAAGGGT
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAAACCCATAAGAGT
* * * *
88910532 TGAACAGAAGCTCAAAAGAGCTGAAC-GAAAACTCATATGAGT
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAAACCCATAAGAGT
***
88910574 TAAACAGAAGCTCGTGAGAGCTAAACA-AAAA
1 TAAACAGAAGCTCAAAAGAGCTAAACAGAAAA
88910605 GTAAACACGA
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 37 0.64
43 21 0.36
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (43 bp):
TAAACAGAAGCTCAAAAGAGCTAAACAGAAAACCCATAAGAGT
Found at i:88912551 original size:69 final size:69
Alignment explanation
Indices: 88912437--88912726 Score: 321
Period size: 69 Copynumber: 4.2 Consensus size: 69
88912427 TATTGTCGAC
* * * * * **
88912437 AAAATCGAGGTTCGTAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCGAGAGCAAAGCTCTTAG
1 AAAATCAAGGTTCGCAAGCGAAGAGTCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAG
*
88912502 TTGT
66 ATGT
* * * * *
88912506 AAAATCAAGGTTCGCAAGTGAAGAGTCGCGAACTCCAAAAAAGTTAGCTAGAGCAAAGCTCCCAA
1 AAAATCAAGGTTCGCAAGCGAAGAGTCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAG
88912571 ATGT
66 ATGT
* * * * *
88912575 AAAATTAAGGTTCGTAGGTGAAGAGTCGCGACCTTCAAAACAGTTAGCGAGAGCAAAGCTCCCAG
1 AAAATCAAGGTTCGCAAGCGAAGAGTCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAG
88912640 CA-GT
66 -ATGT
* * * * *
88912644 AAAACCAAGGATCGCAAGCAAAGAGTTGCGACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCAG
1 AAAATCAAGGTTCGCAAGCGAAGAGTCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAG
* *
88912709 CTGC
66 ATGT
* *
88912713 ACAATAAAGGTTCG
1 AAAATCAAGGTTCG
88912727 TAGACAAAAA
Statistics
Matches: 183, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
69 182 0.99
70 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (69 bp):
AAAATCAAGGTTCGCAAGCGAAGAGTCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAG
ATGT
Found at i:88912689 original size:138 final size:138
Alignment explanation
Indices: 88912444--88912707 Score: 377
Period size: 138 Copynumber: 1.9 Consensus size: 138
88912434 GACAAAATCG
* ** **
88912444 AGGTTCGTAGGCGAAGAGCCGCGACCTCCAAAATAGTTAGCGAGAGCAAAGCTCTTAGTTGTAAA
1 AGGTTCGTAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
* * **
88912509 ATCAAGGTTCGCAAGTGAAGAGTCGCGAACTCCAAAAAAGTTAGCT-AGAGCAAAGCTCCCAAAT
66 ACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAG-TGAGAGCAAAGCTCCCAAAT
88912573 GTAAAATTA
130 GTAAAATTA
* * *
88912582 AGGTTCGTAGGTGAAGAGTCGCGACCTTCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
1 AGGTTCGTAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
* * *
88912647 ACCAAGGATCGCAAGCAAAGAGTTGCGACCTCCAAAACAGTTAGTGAGAGCAAAGCTCCCA
66 ACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAGTGAGAGCAAAGCTCCCA
88912708 GCTGCACAAT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
137 1 0.01
138 109 0.99
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (138 bp):
AGGTTCGTAGGCGAAGAGCCGCGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCAGTAAA
ACCAAGGATCGCAAGCAAAGAGTCGCGAACTCCAAAAAAGTTAGTGAGAGCAAAGCTCCCAAATG
TAAAATTA
Found at i:88913105 original size:102 final size:102
Alignment explanation
Indices: 88912928--88913129 Score: 314
Period size: 102 Copynumber: 2.0 Consensus size: 102
88912918 GAAAAACAAG
* * *
88912928 AATACAAGATTATTATTCAATTACATCACCAACCCCCAATACCCTAGACAGCATTGATAGGAGCG
1 AATACAAGATTATTATTCAATTACATCACCAACCCCCAACACCCTAGACAGCATTGACAAGAGCG
* *
88912993 ACACCCTCAACAGCTGATGAAGCAACAGTAACACCCC
66 ACACCCTCAACAACTGATGAAGCAACAATAACACCCC
* * * *
88913030 AATACAAGATTATTATTCAATTACATCACTAACCCCCAACACCCTGGTCCGCATTGACAAGAGCG
1 AATACAAGATTATTATTCAATTACATCACCAACCCCCAACACCCTAGACAGCATTGACAAGAGCG
*
88913095 ACACCTTCAACAACTGATGAAGCAACAATAACACC
66 ACACCCTCAACAACTGATGAAGCAACAATAACACC
88913130 TCTAGTTACC
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 90 1.00
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.19
Consensus pattern (102 bp):
AATACAAGATTATTATTCAATTACATCACCAACCCCCAACACCCTAGACAGCATTGACAAGAGCG
ACACCCTCAACAACTGATGAAGCAACAATAACACCCC
Found at i:88924121 original size:90 final size:90
Alignment explanation
Indices: 88923949--88924118 Score: 281
Period size: 91 Copynumber: 1.9 Consensus size: 90
88923939 GCATCACATC
88923949 CAAAATGTGTACACAAATTTCACCAGAAAAAAATATAAAAATAAATTAATAACTATAATTTCATT
1 CAAAATGTGTACACAAATTTCACCAGAAAAAAATATAAAAATAAATTAATAACTATAATTTCATT
88924014 GAAAGCATTACTTTTCAATTACTTT
66 GAAAGCATTACTTTTCAATTACTTT
* *
88924039 CAAAATGTGTACACAAATTTCACCAGAAAAAAAATATAAACA-AAA-TAATAAATTTATAATTTC
1 CAAAATGTGTACACAAATTTCACCAG-AAAAAAATATAAAAATAAATTAAT-AA-CTATAATTTC
88924102 ATTGAAAGCATTACTTT
63 ATTGAAAGCATTACTTT
88924119 CAAAATGTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
89 4 0.05
90 31 0.41
91 40 0.53
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (90 bp):
CAAAATGTGTACACAAATTTCACCAGAAAAAAATATAAAAATAAATTAATAACTATAATTTCATT
GAAAGCATTACTTTTCAATTACTTT
Found at i:88924134 original size:91 final size:89
Alignment explanation
Indices: 88923949--88924162 Score: 265
Period size: 91 Copynumber: 2.5 Consensus size: 89
88923939 GCATCACATC
88923949 CAAAATGTGTACACAAATTTCACCAGAAAAAAATATAAAAATAAATTAATAACTATAATTTCATT
1 CAAAATGTGTACACAAATTTCACCAGAAAAAAATATAAAAATAAATTAATAACTATAATTTCATT
*
88924014 GAAAGCATTACTTTTCAATTACTTT
66 GAAAGCATTACTTTTCAA-TAATTT
* *
88924039 CAAAATGTGTACACAAATTTCACCAGAAAAAAAATATAAACA-AAA-TAATAAATTTATAATTTC
1 CAAAATGTGTACACAAATTTCACCAG-AAAAAAATATAAAAATAAATTAAT-AA-CTATAATTTC
88924102 ATTGAAAGCATTA-----C-----TTT
63 ATTGAAAGCATTACTTTTCAATAATTT
*
88924119 CAAAATGTGTACA-AAATTTCACCAGAAAAAAATAAAAAAATAAA
1 CAAAATGTGTACACAAATTTCACCAGAAAAAAATATAAAAATAAA
88924163 ATGATAAATT
Statistics
Matches: 116, Mismatches: 4, Indels: 19
0.83 0.03 0.14
Matches are distributed among these distances:
78 13 0.11
79 15 0.13
80 16 0.14
86 1 0.01
89 4 0.03
90 31 0.27
91 36 0.31
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (89 bp):
CAAAATGTGTACACAAATTTCACCAGAAAAAAATATAAAAATAAATTAATAACTATAATTTCATT
GAAAGCATTACTTTTCAATAATTT
Found at i:88926533 original size:667 final size:666
Alignment explanation
Indices: 88925261--88926593 Score: 2657
Period size: 667 Copynumber: 2.0 Consensus size: 666
88925251 AAAATGTTTG
88925261 GACTGATTGGGTTGTTTAAATTTTTTATTTAATAGCAGATTTTGAGGTTTTTTTTCTAAAATCCC
1 GACTGATTGGGTTGTTTAAATTTTTTATTTAATAGCAGATTTTGAGGTTTTTTTTCTAAAATCCC
88925326 AACACTATCTATGCCTATAAAAGGCCATGATTCTTAAGGGTTTTTACACACTTTCATACCCTCTT
66 AACACTATCTATGCCTATAAAAGGCCATGATTCTTAAGGGTTTTTACACACTTTCATACCCTCTT
88925391 AGAATTTTCCGACCGAAATTATGTTGCTTTCAAAAATCTCTTTTTTCATCATTTGTGTTTTATAA
131 AGAATTTTCCGACCGAAATTATGTTGCTTTCAAAAATCTCTTTTTTCATCATTTGTGTTTTATAA
88925456 ATATTCCGGTGATAAAAAAAGGCATTGTTCGTTCCATTGATCGTGGTAGAGGTGCTACTACTTCG
196 ATATTCCGGTGATAAAAAAAGGCATTGTTCGTTCCATTGATCGTGGTAGAGGTGCTACTACTTCG
88925521 ATTACTATTGTTGTTGTATCTTAGGAGATTTTCGAACAACGTTACTCTAAATATCGTAGGAGCGG
261 ATTACTATTGTTGTTGTATCTTAGGAGATTTTCGAACAACGTTACTCTAAATATCGTAGGAGCGG
88925586 TCGAATCTATCTTAAGGAAACCGTGTTTCACGGGCCTCAACATTTCATAAAATCTCAATTCTCAT
326 TCGAATCTATCTTAAGGAAACCGTGTTTCACGGGCCTCAACATTTCATAAAATCTCAATTCTCAT
88925651 TTGTTTTAATTGTTTATTATGGCTTTATTTGATTTTCATATTTGATAAATTAACTATAAATAATT
391 TTGTTTTAATTGTTTATTATGGCTTTATTTGATTTTCATATTTGATAAATTAACTATAAATAATT
88925716 ATGTTCATATTTTATTTTATATGTTTTTATTTATTATTAATTATTTTTGTTCGCTAACGTGTTTT
456 ATGTTCATATTTTATTTTATATGTTTTTATTTATTATTAATTATTTTTGTTCGCTAACGTGTTTT
88925781 GTCCAACATGGTTCAGTTAAAGTGGATTCAAGTCATGTTGCTGCAGGAGGAACCTTGAGGGACGA
521 GTCCAACATGGTTCAGTTAAAGTGGATTCAAGTCATGTTGCTGCAGGAGGAACCTTGAGGGACGA
88925846 ACACGGGGTATGGATCATTGGCATTAGTCGTCAACTAGGAAAATGCTCAATTTTGGAGGTTGAAT
586 ACACGGGGTATGGATCATTGGCATTAGTCGTCAACTAGGAAAATGCTCAATTTTGGAGGTTGAAT
88925911 TATGGGGTATTTTGGA
651 TATGGGGTATTTTGGA
88925927 GACTGATTGGGTTGTTTAAATTTTTTATTTAATAGCAGATTTTGAGGTTTTTTTTCTAAAATCCC
1 GACTGATTGGGTTGTTTAAATTTTTTATTTAATAGCAGATTTTGAGGTTTTTTTTCTAAAATCCC
88925992 AACACTATCTATGCCTATAAAAGGCCATGATTCTTAAGGGTTTTTACACACTTTCATACCCTCTT
66 AACACTATCTATGCCTATAAAAGGCCATGATTCTTAAGGGTTTTTACACACTTTCATACCCTCTT
88926057 AGAATTTTTCCGACCGAAATTATGTTGCTTTCAAAAATCTCTTTTTTCATCATTTGTGTTTTATA
131 AGAA-TTTTCCGACCGAAATTATGTTGCTTTCAAAAATCTCTTTTTTCATCATTTGTGTTTTATA
88926122 AATATTCCGGTGATAAAAAAAGGCATTGTTCGTTCCATTGATCGTGGTAGAGGTGCTACTACTTC
195 AATATTCCGGTGATAAAAAAAGGCATTGTTCGTTCCATTGATCGTGGTAGAGGTGCTACTACTTC
88926187 GATTACTATTGTTGTTGTATCTTAGGAGATTTTCGAACAACGTTACTCTAAATATCGTAGGAGCG
260 GATTACTATTGTTGTTGTATCTTAGGAGATTTTCGAACAACGTTACTCTAAATATCGTAGGAGCG
88926252 GTCGAATCTATCTTAAGGAAACCGTGTTTCACGGGCCTCAACATTTCATAAAATCTCAATTCTCA
325 GTCGAATCTATCTTAAGGAAACCGTGTTTCACGGGCCTCAACATTTCATAAAATCTCAATTCTCA
88926317 TTTGTTTTAATTGTTTATTATGGCTTTATTTGATTTTCATATTTGATAAATTAACTATAAATAAT
390 TTTGTTTTAATTGTTTATTATGGCTTTATTTGATTTTCATATTTGATAAATTAACTATAAATAAT
88926382 TATGTTCATATTTTATTTTATATGTTTTTATTTATTATTAATTATTTTTGTTCGCTAACGTGTTT
455 TATGTTCATATTTTATTTTATATGTTTTTATTTATTATTAATTATTTTTGTTCGCTAACGTGTTT
88926447 TGTCCAACATGGTTCAGTTAAAGTGGATTCAAGTCATGTTGCTGCAGGAGGAACCTTGAGGGACG
520 TGTCCAACATGGTTCAGTTAAAGTGGATTCAAGTCATGTTGCTGCAGGAGGAACCTTGAGGGACG
88926512 AACACGGGGTATGGATCATTGGCATTAGTCGTCAACTAGGAAAATGCTCAATTTTGGAGGTTGAA
585 AACACGGGGTATGGATCATTGGCATTAGTCGTCAACTAGGAAAATGCTCAATTTTGGAGGTTGAA
88926577 TTATGGGGTATTTTGGA
650 TTATGGGGTATTTTGGA
88926594 TGGTCTATCA
Statistics
Matches: 666, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
666 134 0.20
667 532 0.80
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (666 bp):
GACTGATTGGGTTGTTTAAATTTTTTATTTAATAGCAGATTTTGAGGTTTTTTTTCTAAAATCCC
AACACTATCTATGCCTATAAAAGGCCATGATTCTTAAGGGTTTTTACACACTTTCATACCCTCTT
AGAATTTTCCGACCGAAATTATGTTGCTTTCAAAAATCTCTTTTTTCATCATTTGTGTTTTATAA
ATATTCCGGTGATAAAAAAAGGCATTGTTCGTTCCATTGATCGTGGTAGAGGTGCTACTACTTCG
ATTACTATTGTTGTTGTATCTTAGGAGATTTTCGAACAACGTTACTCTAAATATCGTAGGAGCGG
TCGAATCTATCTTAAGGAAACCGTGTTTCACGGGCCTCAACATTTCATAAAATCTCAATTCTCAT
TTGTTTTAATTGTTTATTATGGCTTTATTTGATTTTCATATTTGATAAATTAACTATAAATAATT
ATGTTCATATTTTATTTTATATGTTTTTATTTATTATTAATTATTTTTGTTCGCTAACGTGTTTT
GTCCAACATGGTTCAGTTAAAGTGGATTCAAGTCATGTTGCTGCAGGAGGAACCTTGAGGGACGA
ACACGGGGTATGGATCATTGGCATTAGTCGTCAACTAGGAAAATGCTCAATTTTGGAGGTTGAAT
TATGGGGTATTTTGGA
Found at i:88929084 original size:5 final size:5
Alignment explanation
Indices: 88929074--88929117 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
88929064 ATCCTAAAAA
* * * *
88929074 TAAAG TAAAG TAAAG TAAAG TATAG TAAAT TAAAT TAAAT TAAA
1 TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAAG TAAA
88929118 TTATTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (5 bp):
TAAAG
Found at i:88929125 original size:3 final size:3
Alignment explanation
Indices: 88929117--88929156 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
88929107 ATTAAATTAA
88929117 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
88929157 AAACACCGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:88933218 original size:37 final size:37
Alignment explanation
Indices: 88933142--88933225 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
88933132 ATAAATTATA
* * *
88933142 TTTAATAAAATAAAATATTTATTATATTTATTTGTTT
1 TTTAATATAATAAAATATTTATGATATTTATTGGTTT
*
88933179 TTTAATATAATAAAATATTTATGGTATTTA-TGGTATT
1 TTTAATATAATAAAATATTTATGATATTTATTGGT-TT
*
88933216 TTTTATATAA
1 TTTAATATAA
88933226 ATATTTTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
36 3 0.07
37 38 0.93
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (37 bp):
TTTAATATAATAAAATATTTATGATATTTATTGGTTT
Found at i:88933312 original size:17 final size:17
Alignment explanation
Indices: 88933292--88933342 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
88933282 TATTTAATGT
88933292 ATTATATTTTTTAAAAA
1 ATTATATTTTTTAAAAA
**
88933309 ATTAT-TTTTAAATAAAA
1 ATTATATTTTTTA-AAAA
88933326 ATTA-A-TTTTTAAAAA
1 ATTATATTTTTTAAAAA
88933341 AT
1 AT
88933343 AAAATATTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTATATTTTTTAAAAA
Found at i:88933326 original size:18 final size:18
Alignment explanation
Indices: 88933305--88933338 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
88933295 ATATTTTTTA
88933305 AAAAATT-ATTTTTAAAT
1 AAAAATTAATTTTTAAAT
88933322 AAAAATTAATTTTTAAA
1 AAAAATTAATTTTTAAA
88933339 AAATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAAATTAATTTTTAAAT
Found at i:88936736 original size:434 final size:429
Alignment explanation
Indices: 88935875--88937564 Score: 1727
Period size: 434 Copynumber: 3.9 Consensus size: 429
88935865 ACTAGCCTAA
* *
88935875 GGCTAAATGGAGTTTA-TTCGAGCATGAAATTAAGCATACTCGATTG-GGATTTAAAAATGGATT
1 GGCTAAATGG-GTTTAGTT-GAGCATGAAATTAATCATACTCAATTGAGG-TTT-AAAATGGATT
** ** * * * *
88935938 TGCACGTAATGGTAATGAGTGAAAATGAGGAAGGACTTAAAAAACAATTGAACCAAAAATAAGAA
62 TAAAAATAATGGTGAT-AGTGAAAAGGAGAAAAGACTTAAAAAA-AATTGAACCAAAAATAAGAA
* * *
88936003 AATCGAAAAAAAAATGGAAGTAAACTTGAATAGCTACTAATG-AGTGAAAAAGAAAAGAATTGTT
125 AATCGAAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCA-TGAAAGAGAAAAGAATTGTT
* * * *
88936067 GTTAATTCTATTAAAGTGTGTTTTTTCCAAGCTACCATTACAAGGTATTTATATATTTTTCATAT
189 TTTAATTCTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTTTCATAT
* * *
88936132 GACAAATTTAGCATGATTCCTT-CTAAGATTATGCCTAACAACCAACTAAAGTCAATTTTTTTTA
254 GCCAAATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAATAAATTTTTTTTA
* * * * **
88936196 TATTCCTAGATTTTGACAAATTCACAATCTGATTTTTAGTCAGCCACTAATTCAACAACTTTTCA
319 TATTCATAGAGTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCA
** * * *
88936261 ATTTGGCCCCTTTTATTGCTTATCGTTCCAATTTGTAGCCCAATTTGCTA
384 ATTT-GCCAATTTTATTGCTT-CCTTTCCAA-TT-TAGCCCAATTTGCTT
* ** * *
88936311 GGCTAAATAAGGTTTAGTTGAGCATGAAATTAATCATACTCAATTTTGGTTTAAAATGAATTTCA
1 GGCTAAAT-GGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGAGGTTTAAAATGGATTTAA
** * * * * *
88936376 GCACAAAGATGATAGTTGAAAAGGAGAAAAGACTTAAAAAGAAATTGAACTAAAAATAAGGAAAT
65 AAATAATGGTGATAG-TGAAAAGGAGAAAAGACTTAAAAA-AAATTGAACCAAAAATAAGAAAAT
* *
88936441 -GAGAAAAAAATGGCAGTAAACTTCAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTTTA
128 CGAAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTTTA
* * *
88936505 ATTCTATTTAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACACTTTTCATTTGCCA
193 ATTCTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTTTCATATGCCA
* * * *
88936570 AGTTTAGCATGATTAC-TCATACGATTATGCCTAACAACCAACTAAAATAAGATTTTTTTTTATA
258 AATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAATAA-A-TTTTTTTTATA
* * * * * *
88936634 TTCATAGAGCTTGACAAAACCATATTATGATTTTTTATCAGCCACTAATTCTGCAACTTTTCAAT
321 TTCATAGAGTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAAT
*
88936699 TTGACCAATTTTATTGTTTCCCTTTCCAATTTAGCCCAATTTGCTT
386 TTG-CCAATTTTATTGCTT-CCTTTCCAATTTAGCCCAATTTGCTT
* * *
88936745 GGCTAAATGGGTTTTAGTTGAGCATGAAATTGATCATACTCGATTGAGGTTTAAAATTGGATTTG
1 GGCTAAATGGG-TTTAGTTGAGCATGAAATTAATCATACTCAATTGAGGTTTAAAA-TGGATTTA
*** * * ** *
88936810 ATTGTAATGGTGATAAGTGAAAAGGAGAAAAGGC-------AAATAG-A-CTTAAA-AAGCAAAT
64 AAAATAATGGTGAT-AGTGAAAAGGAGAAAAGACTTAAAAAAAATTGAACCAAAAATAAGAAAAT
* * * *
88936865 -G-GAAAAAAATTGCTAGCAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTATTTTT
128 CGAAAAAAAAATGGC-AGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTTT
** * * * * * *
88936928 AATTCTATTCCAGTTTGTTTTTTCCAAGTCACCATTACAGGGTATTTATATATTTTTCATCTGCC
192 AATTCTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTTTCATATGCC
* * * *
88936993 AAATTTAGCATGATT-CTTCCTAAGATTATGTCTAACAATCAACTAAAATCAAATTTTCTTTCTA
257 AAATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAAT-AAATTTTTTTTATA
* * * * *
88937057 TTCATA-AGGTTTGACAAATTCACAATCTGGTTTTTAATTAGCCACTAGTTCTCCAAC-TTTCAA
321 TTCATAGA-GTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAA
* * *
88937120 TTTCGCCTATTTTATTACTTCTTGTTCCAATTTAGCCCAATTTGCTT
385 TTT-GCCAATTTTATTGCTTCCT-TTCCAATTTAGCCCAATTTGCTT
* * * * * *
88937167 GGCCAAATTGGGTTTAGTTGAGCATGAAACTAATCATACTCTATTGGGGTTGGAAAGTGGATTTA
1 GGCTAAA-TGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGAGGTT-TAAAATGGATTTA
* * *
88937232 AAAATAATGGTGATAGGTGAAAGGGAGAAAGGACTTAAAAAGCAATTGAACCAAAAATAAGAAAA
64 AAAATAATGGTGATA-GTGAAAAGGAGAAAAGACTTAAAAA-AAATTGAACCAAAAATAAG-AAA
* * * * **
88937297 ATGGAAAAAAAAATGACAGTACACTTGAATACCTACTGATATATGAAAGAGAAAAGAATTGTTTT
126 ATCGAAAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTT
** * * * * *
88937362 TAATTCT-TTAACAACGTGCTTTTTCGAAGCCACCCTTACAAGGTATTTATCTCTTTTTTTTTTT
191 TAATTCTATTAA-AGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTA-CAC-----ATTTTT
* * * *
88937426 CATATGCAAAAATTAGTATGATTCC-TCCTAAGATTATGCCTAACAACCAACTAAAATCAGATTT
249 CATATGCCAAATTTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAAT-AAATTT
* * * * *
88937490 TTTTTCTATTAATAGAGTTTGA-AAAATTCACAATCTGGTTCTTAATCAGTCACTAATTCTGCAA
313 TTTTTATATTCATAGAGTTTGACAAAA-TCACAATCTGATTTTTAATCAGCCACTAATTCTGCAA
88937554 CTTTTCAATTT
377 CTTTTCAATTT
88937565 TGCCTTGTAA
Statistics
Matches: 1040, Mismatches: 167, Indels: 88
0.80 0.13 0.07
Matches are distributed among these distances:
421 3 0.00
422 119 0.11
423 73 0.07
424 153 0.15
425 5 0.00
426 1 0.00
427 5 0.00
430 4 0.00
431 1 0.00
432 4 0.00
433 6 0.01
434 226 0.22
435 173 0.17
436 137 0.13
437 5 0.00
440 3 0.00
441 111 0.11
442 11 0.01
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.34
Consensus pattern (429 bp):
GGCTAAATGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGAGGTTTAAAATGGATTTAAA
AATAATGGTGATAGTGAAAAGGAGAAAAGACTTAAAAAAAATTGAACCAAAAATAAGAAAATCGA
AAAAAAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAGAATTGTTTTTAATT
CTATTAAAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTACACATTTTTCATATGCCAAAT
TTAGCATGATTCCTTCCTAAGATTATGCCTAACAACCAACTAAAATAAATTTTTTTTATATTCAT
AGAGTTTGACAAAATCACAATCTGATTTTTAATCAGCCACTAATTCTGCAACTTTTCAATTTGCC
AATTTTATTGCTTCCTTTCCAATTTAGCCCAATTTGCTT
Found at i:88939065 original size:21 final size:20
Alignment explanation
Indices: 88939035--88939073 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
88939025 ATAGAGTACA
*
88939035 GGTCTGACACAGCCGTGTGAG
1 GGTCTCACAC-GCCGTGTGAG
*
88939056 GGTCTCACACGCTGTGTG
1 GGTCTCACACGCCGTGTG
88939074 CCCACCAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (20 bp):
GGTCTCACACGCCGTGTGAG
Found at i:88939700 original size:15 final size:15
Alignment explanation
Indices: 88939684--88939713 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88939674 AAACAAAAAG
88939684 AAAAGAAACAGAGAGA
1 AAAAGAAA-AGAGAGA
88939700 AAAAGAAAAGAGAG
1 AAAAGAAAAGAGAG
88939714 CGTCCAGGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAGAGAGA
Found at i:88944222 original size:432 final size:432
Alignment explanation
Indices: 88943207--88944310 Score: 1380
Period size: 432 Copynumber: 2.5 Consensus size: 432
88943197 GGGTGTTACA
* *
88943207 AAATGGGGTTTAGTTCAA-CATGAAATTAATCATACTCGATTGGGGTTTAAAATTTGATTTGAAC
1 AAATGGGGTTTAGTT-AAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTGAAC
*
88943271 GTAATTGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGAATTGAACCAAAAATAAGGAAATGGA
65 GTAATTGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGAATTGAACCAAAAATAAGGAAATGAA
* * * *
88943336 AAAAAATGGCAGTAAACTTGAATAACGACTGATGCGTGAAAGAGAAAAGAATTGTTATTAATTCT
130 AAAAAATGGCAGTAAACTTGAATAGCTACTAATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCT
* *
88943401 ATTATAGTGTG-TTTTTCAAATCCACCATACAAGGTAGGCATTTATACTCTTTTCATATGCCAAA
195 ATTATAGTGTGTTTTTTCAAAGCCACCATACAAGGT----ATTTATACTCTTTTCATATACCAAA
* * * ** *
88943465 TTTAGCATGATTCCTCCTTAGACTATGCTTAACAACCAACTAAAATCAGTTTTTTTTTTCTATCC
256 TTTAGCATGATTCCTCCTAAGACTATGCCTAACAACCAACTAAAATAAGAATTTTTATTCTATCC
* * * *
88943530 ATAGAGTTTGACAAATTCACAATCTATTTTTTAGTCAGTCATTAATTCTGCAACTTTTCAATTTG
321 ATAAAGTTTGAAAAATTCACAATCTATTTTTTAATCAGCCATTAATTCTGCAACTTTTCAATTTG
** * ** *
88943595 GCCTTTTTTTATTGCTTCTTGTTCTAATTTAGCCCAATTGGCTTGGT
386 GCCTCATTTTATTACTTCCCGTTCCAATTTAGCCCAATTGGCTTGGT
* * * * *
88943642 AAATGGTGTTTAGTTAAGAATGAAATTAATCACACTCTATTGGGGTTTAAAAGTGGATTTCAACG
1 AAATGGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTGAACG
* * * **
88943707 TAATTGTGATAGGTGAAAAGGATAAAAGA-TTTAGCAGAAATTGAACCAAAAATAAGGAAATGGA
66 TAATTGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAG-AATTGAACCAAAAATAAGGAAAT-GA
* * *
88943771 AAGAAAATGGCAGTAAACTTGAGTAGCTACTAATGCGTGAAAGAGAAAAGAATTCTTTTTAA-TC
129 AAAAAAATGGCAGTAAACTTGAATAGCTACTAATGCGTGAAAGAGAAAAGAATTGTTTTTAATTC
**
88943835 TATTCCAGTGTGTTTTTTCAAAGCCACCATACAAGGTATTTATACTCTTTTCATATACCAAATTT
194 TATTATAGTGTGTTTTTTCAAAGCCACCATACAAGGTATTTATACTCTTTTCATATACCAAATTT
* * * * **
88943900 AGTATTATTCCTCCTAAGATTATTCCTAACAACCAACTAAAATAAGAATTTTTATT-TATTTATA
259 AGCATGATTCCTCCTAAGACTATGCCTAACAACCAACTAAAATAAGAATTTTTATTCTATCCATA
* * *
88943964 AAGTTTGAAAAATTCACAATTTGA-TTTTTAATTAGCCGA-TAATTCTGTAACTTTTCAATTTGG
324 AAGTTTGAAAAATTCACAATCT-ATTTTTTAATCAGCC-ATTAATTCTGCAACTTTTCAATTTGG
*
88944027 CC-CATTTTATTACTTCCCGTTCCAATTTAGCCCAATTTGCTTGGTT
387 CCTCATTTTATTACTTCCCGTTCCAATTTAGCCCAATTGGCTTGG-T
* * * * * **
88944073 AAATGGGGTTTAGTTGAGCATGAATTTAATCATACTCGATTGAGATTTAATAGTGGATTTGATTG
1 AAATGGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTGAACG
*** * *
88944138 TAACAATGATAAGTGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACAAAAAATAAGGAAATGAA
66 TAATTGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAG-AATTGAACCAAAAATAAGGAAATGAA
* ** * * *
88944203 AAAAAATTAGCTTTAAACTTGAATAGCTAC-AGATGCGTGAAAGATAAAACAATGGTTTTTAATT
130 AAAAAA-TGGCAGTAAACTTGAATAGCTACTA-ATGCGTGAAAGAGAAAAGAATTGTTTTTAATT
* *
88944267 TTATTATAGTGTGGTTTTTTCCAAGCCACCATTACAAGGTATTT
193 CTATTATAGTGT-GTTTTTTCAAAGCCACCA-TACAAGGTATTT
88944311 GTAATAGGCC
Statistics
Matches: 570, Mismatches: 86, Indels: 26
0.84 0.13 0.04
Matches are distributed among these distances:
430 35 0.06
431 146 0.26
432 147 0.26
433 10 0.02
434 24 0.04
435 129 0.23
436 79 0.14
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (432 bp):
AAATGGGGTTTAGTTAAGCATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTGAACG
TAATTGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGAATTGAACCAAAAATAAGGAAATGAAA
AAAAATGGCAGTAAACTTGAATAGCTACTAATGCGTGAAAGAGAAAAGAATTGTTTTTAATTCTA
TTATAGTGTGTTTTTTCAAAGCCACCATACAAGGTATTTATACTCTTTTCATATACCAAATTTAG
CATGATTCCTCCTAAGACTATGCCTAACAACCAACTAAAATAAGAATTTTTATTCTATCCATAAA
GTTTGAAAAATTCACAATCTATTTTTTAATCAGCCATTAATTCTGCAACTTTTCAATTTGGCCTC
ATTTTATTACTTCCCGTTCCAATTTAGCCCAATTGGCTTGGT
Found at i:88945155 original size:11 final size:11
Alignment explanation
Indices: 88945139--88945163 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
88945129 TCGGTGGCTA
88945139 CGATGGAGCTG
1 CGATGGAGCTG
88945150 CGATGGAGCTG
1 CGATGGAGCTG
88945161 CGA
1 CGA
88945164 CGGCCTGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.20, G:0.44, T:0.16
Consensus pattern (11 bp):
CGATGGAGCTG
Found at i:88945832 original size:14 final size:14
Alignment explanation
Indices: 88945813--88945856 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
88945803 ATTTTTTATT
*
88945813 ATTTTTATACTTTC
1 ATTTTTATATTTTC
*
88945827 ATTTTTAT-TTTTT
1 ATTTTTATATTTTC
*
88945840 ATTTTTTTATTTTC
1 ATTTTTATATTTTC
88945854 ATT
1 ATT
88945857 AAATACAGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTTTATATTTTC
Found at i:88945836 original size:30 final size:28
Alignment explanation
Indices: 88945792--88945856 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 28
88945782 CATTTTCCGC
*
88945792 CTTTAATTTATATTTTTTATTATTTTTAT
1 CTTTCATTTATATTTTTTATT-TTTTTAT
*
88945821 ACTTTCATTTTTATTTTTTATTTTTTTAT
1 -CTTTCATTTATATTTTTTATTTTTTTAT
88945850 -TTTCATT
1 CTTTCATT
88945857 AAATACAGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
27 7 0.21
29 7 0.21
30 19 0.58
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (28 bp):
CTTTCATTTATATTTTTTATTTTTTTAT
Found at i:88948959 original size:188 final size:186
Alignment explanation
Indices: 88948723--88949362 Score: 752
Period size: 188 Copynumber: 3.4 Consensus size: 186
88948713 TCTAGTCCAC
* * * *
88948723 CTGAAGTTGTAGTGGGTTGGAATAAAGCTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGT-G
1 CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
* * *
88948787 AAACAAGGTGAAGCTATAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGTTATCATA
66 AAACAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTA-CATA
* *
88948852 ACGAATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCAATACT
130 GC-AATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACT
* * * * * *
88948910 CTTGAAGTTGTAGTGGGTTGGAATGAAA-CTACTATAGCGACTCTTATCTCACTGAAGTTATAGT
1 C-TGAAGTTGCAGTGGGTTGGAAT-AAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGT
* * * * *
88948974 -GGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTACAATGGATTGGAATGAAGCTACCA
64 AGAAACAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTA-CA
* * * * * *
88949038 TAGCAAATCTTATCTTCTTGAAGTTGCAATGAAGTAAGATGAAGCTACAAATCCTATACCC
128 TAGC-AATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CT
* * **
88949099 CTGAAGTTGCAATGGGTTGGAATAAAGCTACAATAGCAAATCTTATCTTGCTAAAGTTGTAGTAG
1 CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
* * * * **
88949164 AGA-AAGATAAAGCTACAAATCCTACAACCCTAAAGTTGTAGTGGGTTGGAATGAAGCTACAATA
66 AAACAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTAC-ATA
* *
88949228 GCACATTTTATGA-CCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACAT
130 GCA-ATCTTATCATCC-TGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATAC-T
* * * *
88949287 CTAAAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTAAAGTTGTAGTAG
1 CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
*
88949352 AAA-AACATGAA
66 AAACAAGATGAA
88949363 ACTTTAAATT
Statistics
Matches: 383, Mismatches: 61, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
187 8 0.02
188 369 0.96
189 6 0.02
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (186 bp):
CTGAAGTTGCAGTGGGTTGGAATAAAGCTACAATAGCGAATCTTATCTCCCTAAAGTTGTAGTAG
AAACAAGATGAAGCTACAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGCTACATAG
CAATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCTATACT
Found at i:88949030 original size:44 final size:44
Alignment explanation
Indices: 88948982--88949131 Score: 133
Period size: 44 Copynumber: 3.3 Consensus size: 44
88948972 GTGGAGCAAG
*
88948982 ATGAAGCTACAAATCCTATACCCCTGAAGTTACAATGGATTGGA
1 ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGATTGGA
* * * * * *
88949026 ATGAAGCTACCATAGCAAATCTTAT-CTTCTTGAAGTTGCAATGAAGT-AA
1 ATGAAG----C-TA-CAAATCCTATAC-CCCTGAAGTTGCAATGGATTGGA
*
88949075 GATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGA
1 -ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGATTGGA
*
88949120 ATAAAGCTACAA
1 ATGAAGCTACAA
88949132 TAGCAAATCT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
44 41 0.51
45 4 0.05
46 1 0.01
48 1 0.01
49 4 0.05
50 30 0.37
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGATTGGA
Found at i:88949068 original size:50 final size:50
Alignment explanation
Indices: 88949004--88949157 Score: 126
Period size: 50 Copynumber: 3.2 Consensus size: 50
88948994 ATCCTATACC
*
88949004 CCTGAAGTTACAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCTT
1 CCTGAAGTTGCAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCTT
* * * * * *
88949054 CTTGAAGTTGCAATGAAGT-AAGATGAAG----C-TA-CAAATCCTATAC-C
1 CCTGAAGTTGCAATGGATTGGA-ATGAAGCTACCATAGCAAATCTTAT-CTT
* * *
88949098 CCTGAAGTTGCAATGGGTTGGAATAAAGCTACAATAGCAAATCTTATCTT
1 CCTGAAGTTGCAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCTT
* *
88949148 GCTAAAGTTG
1 CCTGAAGTTG
88949158 TAGTAGAGAA
Statistics
Matches: 76, Mismatches: 18, Indels: 20
0.67 0.16 0.18
Matches are distributed among these distances:
44 29 0.38
45 4 0.05
46 1 0.01
49 4 0.05
50 38 0.50
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (50 bp):
CCTGAAGTTGCAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCTT
Found at i:88949362 original size:94 final size:94
Alignment explanation
Indices: 88948726--88949345 Score: 683
Period size: 94 Copynumber: 6.6 Consensus size: 94
88948716 AGTCCACCTG
* * * * *
88948726 AAGTTGTAGTGGGTTGGAATAAAGCTACAATGGCGAATCTTATCTCCCTGAAGTTGCAGT-GAAA
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGA
* *
88948790 CAAGGTGAAGCTATAAATCCTATACCCCTA
66 -AAGATGAAGCTACAAATCCTATACCCCTA
* * * *
88948820 AAGTTACAGTGGGTTGGAATGAAGTTATC-ATAACGAATCTTATCATCCTGAAGTTGCAGTGGAG
1 AAGTTGCAGTGGGTTGGAATGAAGCTA-CAATAGCGAATCTTATCTTCCTGAAGTTGCAGTGGAG
* * * * *
88948884 CAAGATGAAGCTACAAATCCAATACTCTTG
65 AAAGATGAAGCTACAAATCCTATACCCCTA
* * * * **
88948914 AAGTTGTAGTGGGTTGGAATGAAACTACTATAGCGACTCTTATC-TCACTGAAGTTATAGTGGAG
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTC-CTGAAGTTGCAGTGGAG
* *
88948978 CAAGATGAAGCTACAAATCCTATACCCCTG
65 AAAGATGAAGCTACAAATCCTATACCCCTA
* * * * * * * * *
88949008 AAGTTACAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCTTCTTGAAGTTGCAATGAAGT
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGA
*
88949073 AAGATGAAGCTACAAATCCTATACCCCTG
66 AAGATGAAGCTACAAATCCTATACCCCTA
* * * * * * *
88949102 AAGTTGCAATGGGTTGGAATAAAGCTACAATAGCAAATCTTATCTTGCTAAAGTTGTAGTAGAGA
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGA
* * *
88949167 AAGATAAAGCTACAAATCCTACAACCCTA
66 AAGATGAAGCTACAAATCCTATACCCCTA
* * **
88949196 AAGTTGTAGTGGGTTGGAATGAAGCTACAATAGC-ACATTTTAT-GACCTTGAAGTTGCAGTGGA
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGA-ATCTTATCTTCC-TGAAGTTGCAGTGGA
* **
88949259 GCAAGATGAAGCTACAAATCCTATACATCTA
64 GAAAGATGAAGCTACAAATCCTATACCCCTA
* *
88949290 AAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTAAAGTTG
1 AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTG
88949346 TAGTAGAAAA
Statistics
Matches: 438, Mismatches: 79, Indels: 18
0.82 0.15 0.03
Matches are distributed among these distances:
93 5 0.01
94 425 0.97
95 8 0.02
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (94 bp):
AAGTTGCAGTGGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAGTGGAGA
AAGATGAAGCTACAAATCCTATACCCCTA
Found at i:88949390 original size:282 final size:280
Alignment explanation
Indices: 88948720--88949391 Score: 771
Period size: 282 Copynumber: 2.4 Consensus size: 280
88948710 GATTCTAGTC
* * * * *
88948720 CACCTGAAGTTGTAGTGGGTTGGAATAAAGCTACAATGGCGAATCTTATCTCCCTGAAGTTGCAG
1 CACCTAAAGTTGCAGT-GGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAG
* * * * *
88948785 TGAAACAAGGTGAAGCTATAAATCCTATACCCCTAAAGTTACAGTGGGTTGGAATGAAGTTATCA
65 TGAAA-AAGATGAAGCTATAAATCCTATACCCCTAAAGTTGCAATGGGTTGGAATAAAGCTATCA
* * * * * * *
88948850 TAACGAATCTTATCATCCTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAATCCAATACTCTTGA
129 TAACAAATCTTATCATCCTAAAGTTGCAGTAGAGAAAGATAAAGCTACAAATCCAATACTCCTAA
* * *
88948915 AGTTGTAGTGGGTTGGAATGAAACTACTATAGCGACTCTTATCTCACTGAAGTTATAGTGGAGCA
194 AGTTGTAGTGGGTTGGAATGAAACTACAATAGCGACTCTTATCACACTGAAGTTACAGTGGAGCA
88948980 AGATGAAGCTACAAATCCTATA
259 AGATGAAGCTACAAATCCTATA
* * * * * * * *
88949002 CCCCTGAAGTTACAATGGATTGGAATGAAGCTACCATAGCAAATCTTATCTTCTTGAAGTTGCAA
1 CACCTAAAGTTGCAGTGG-TTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAG
* * *
88949067 TGAAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAATGGGTTGGAATAAAGCTA-CA
65 TGAA-AAAGATGAAGCTATAAATCCTATACCCCTAAAGTTGCAATGGGTTGGAATAAAGCTATC-
* * * *
88949131 ATAGCAAATCTTATCTTGCTAAAGTTGTAGTAGAGAAAGATAAAGCTACAAATCCTACA-AC-CC
128 ATAACAAATCTTATCATCCTAAAGTTGCAGTAGAGAAAGATAAAGCTACAAATCC-A-ATACTCC
* * * *
88949194 TAAAGTTGTAGTGGGTTGGAATGAAGCTACAATAGC-ACATTTTATGAC-CTTGAAGTTGCAGTG
191 TAAAGTTGTAGTGGGTTGGAATGAAACTACAATAGCGAC-TCTTATCACAC-TGAAGTTACAGTG
88949257 GAGCAAGATGAAGCTACAAATCCTATA
254 GAGCAAGATGAAGCTACAAATCCTATA
* * *
88949284 CATCTAAAGTTGCAGTAGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTAAAGTTGTAG
1 CACCTAAAGTTGCAGT-GGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAG
* * * **
88949349 TAGAAAAACATGAAACTTTAAATTGTAT-CCCTCTAAAGTTGCA
65 T-GAAAAAGATGAAGCTATAAATCCTATACCC-CTAAAGTTGCA
88949392 GTTGTAACAC
Statistics
Matches: 324, Mismatches: 56, Indels: 20
0.81 0.14 0.05
Matches are distributed among these distances:
281 9 0.03
282 306 0.94
283 8 0.02
284 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (280 bp):
CACCTAAAGTTGCAGTGGTTGGAATGAAGCTACAATAGCGAATCTTATCTTCCTGAAGTTGCAGT
GAAAAAGATGAAGCTATAAATCCTATACCCCTAAAGTTGCAATGGGTTGGAATAAAGCTATCATA
ACAAATCTTATCATCCTAAAGTTGCAGTAGAGAAAGATAAAGCTACAAATCCAATACTCCTAAAG
TTGTAGTGGGTTGGAATGAAACTACAATAGCGACTCTTATCACACTGAAGTTACAGTGGAGCAAG
ATGAAGCTACAAATCCTATA
Found at i:88950529 original size:18 final size:17
Alignment explanation
Indices: 88950502--88950537 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
88950492 ACCCATGTGG
88950502 CCTGCCCGTGTGGACCCA
1 CCTGCCCGTGTGG-CCCA
*
88950520 CCTGCTCGTGTGGCCCA
1 CCTGCCCGTGTGGCCCA
88950537 C
1 C
88950538 ATGGCCCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.08, C:0.44, G:0.28, T:0.19
Consensus pattern (17 bp):
CCTGCCCGTGTGGCCCA
Found at i:88956342 original size:15 final size:15
Alignment explanation
Indices: 88956322--88956351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
88956312 CATTTTATTT
*
88956322 ATATTAGGATAATTA
1 ATATTAAGATAATTA
88956337 ATATTAAGATAATTA
1 ATATTAAGATAATTA
88956352 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:88957913 original size:13 final size:13
Alignment explanation
Indices: 88957897--88957921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88957887 CATAAATAAT
88957897 TTCTTTAAAACCA
1 TTCTTTAAAACCA
88957910 TTCTTTAAAACC
1 TTCTTTAAAACC
88957922 CAAATCCACA
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:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCTTTAAAACCA
Found at i:88958687 original size:36 final size:37
Alignment explanation
Indices: 88958647--88958716 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
88958637 TTTTGCTGGT
88958647 TTTCTA-AGTTTGATTTGGCTTAGGGATATTTTTAGG
1 TTTCTAGAGTTTGATTTGGCTTAGGGATATTTTTAGG
*
88958683 TTTCTAGAGTTTGATTTGGTTTAGGGATATTTTT
1 TTTCTAGAGTTTGATTTGGCTTAGGGATATTTTT
88958717 GTGGTAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.19, C:0.04, G:0.24, T:0.53
Consensus pattern (37 bp):
TTTCTAGAGTTTGATTTGGCTTAGGGATATTTTTAGG
Found at i:88959363 original size:23 final size:23
Alignment explanation
Indices: 88959333--88959377 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
88959323 GTCCGAGTAG
88959333 TGTAGGTCTATTTAACATATTTA
1 TGTAGGTCTATTTAACATATTTA
88959356 TGTAGGTCTATTTAACATATTT
1 TGTAGGTCTATTTAACATATTT
88959378 GTCCAACACT
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:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (23 bp):
TGTAGGTCTATTTAACATATTTA
Found at i:88964347 original size:16 final size:16
Alignment explanation
Indices: 88964323--88964377 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
88964313 TGAATTACTT
*
88964323 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
88964339 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
88964355 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
88964371 ATTACAG
1 ATTACAG
88964378 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:88967912 original size:40 final size:41
Alignment explanation
Indices: 88967767--88967945 Score: 156
Period size: 41 Copynumber: 4.4 Consensus size: 41
88967757 TACTCGATAT
** * * *
88967767 CTCGCACACTAAGTGCTAAAGCATAGCCGAAGCTAT-TATAAT
1 CTCGCACACTAAGTGCTCTA-TATAGCCGAAGCTATCT-CAAC
*
88967809 CTCGCACACTAAGTGCT-TTTCATAGCCGAAGCTATCTCAAC
1 CTCGCACACTAAGTGCTCTAT-ATAGCCGAAGCTATCTCAAC
* * *
88967850 CTCACACACTAAGCGC-CGTATATAGCCGAAGCTAT-TCTGA-
1 CTCGCACACTAAGTGCTC-TATATAGCCGAAGCTATCTC-AAC
*
88967890 CTCGCACACTAAGTGCTCTATATAGCCAAAGCTATCTCGAA-
1 CTCGCACACTAAGTGCTCTATATAGCCGAAGCTATCTC-AAC
*
88967931 -ACGCACACTAAGTGC
1 CTCGCACACTAAGTGC
88967946 CAATCTTAGT
Statistics
Matches: 115, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
40 46 0.40
41 49 0.43
42 20 0.17
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (41 bp):
CTCGCACACTAAGTGCTCTATATAGCCGAAGCTATCTCAAC
Found at i:88969878 original size:18 final size:19
Alignment explanation
Indices: 88969856--88969897 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
88969846 AAAAAGAAAA
*
88969856 AAAAAACAAAAGCAGAA-AC
1 AAAAAGCAAAA-CAGAAGAC
*
88969875 AAAAAGTAAAACAGAAGAC
1 AAAAAGCAAAACAGAAGAC
88969894 AAAA
1 AAAA
88969898 CAGAGAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.74, C:0.12, G:0.12, T:0.02
Consensus pattern (19 bp):
AAAAAGCAAAACAGAAGAC
Found at i:88971483 original size:26 final size:26
Alignment explanation
Indices: 88971454--88971561 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
88971444 TGGTACAAAT
88971454 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
88971480 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88971506 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
**
88971532 TGATAATGATTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
88971558 TGAT
1 TGAT
88971562 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:88972754 original size:8 final size:8
Alignment explanation
Indices: 88972741--88972770 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
88972731 AGATTGGCAC
88972741 AAGCCGAA
1 AAGCCGAA
88972749 AAGCCGAA
1 AAGCCGAA
*
88972757 ATGCCGAA
1 AAGCCGAA
88972765 AAGCCG
1 AAGCCG
88972771 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:88973203 original size:27 final size:26
Alignment explanation
Indices: 88973160--88973313 Score: 122
Period size: 27 Copynumber: 5.9 Consensus size: 26
88973150 AGGAAGCGTC
*
88973160 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAA-TATCTGAT
*
88973187 CTGGTGGCTCTGTCAC-ATA--T-AT
1 CTGGTGGCTCTGCCACAATATCTGAT
** *
88973209 CT-GTCCACTATGCCACAATTATCTGAT
1 CTGGT-GGCTCTGCCACAA-TATCTGAT
* *
88973236 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACA-ATATCTGAT
*
88973263 TTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTG-AT
* *
88973290 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
88973314 GCAGCCTCGC
Statistics
Matches: 100, Mismatches: 17, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
21 2 0.02
22 11 0.11
23 2 0.02
24 2 0.02
25 2 0.02
26 9 0.09
27 69 0.69
28 3 0.03
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATATCTGAT
Found at i:88977022 original size:432 final size:429
Alignment explanation
Indices: 88975924--88977241 Score: 1743
Period size: 432 Copynumber: 3.0 Consensus size: 429
88975914 GGTTTCGACA
* * *
88975924 GTATTTATACACTTTTAATATGTCAAATTTAGCATGATTCTTCCTAAGATTATATGCCTAAAAAC
1 GTATTTATACACTTTTCATATGTCAAATTTAGCAT-ATTCCTCCTAAGA-T-TATGCCTAACAAC
** *
88975989 CAACTAAAATCAGA-TTTTTTT-TATTCACAGAGTTTGACAAATTCACAATTTGATTTTTAATCA
63 CAACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGA-AAATTCACAATCTGATTTTTAATCA
* * * *
88976052 ACCACTAATTCTGCAACTTTTCAATTTTGCCCCTTTTATTGCTTCCCGTTCCAATTTAGCCCAAC
127 ACCACTTATTCTACAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAAT
* *
88976117 TTGCTTGGCTAAATGAGGTTTAGTTGAGCATGAAATTAATTATACTCGATTGTGGTTTAAAAGTG
192 TTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTG-GGTTTAAAAGTG
* * * * *
88976182 GATTTAAATGTACTGGTGATAAGTGAAAAAGGAAAAGGAGAAAGGACTTAAAAAACAATTGAACC
256 GATTTGAACGTAATGGTGAT-AG-G-----TGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACC
* *
88976247 AAAAATAAGGAAATGG-GAGAAAATGGCAGTAAACTTGAATAGCTACTAATGCATGAAAGAGAAA
314 AAAAATAAGGAAATGGAAAG-AAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAA
* * * * *
88976311 AAAATTGTTTTTAATTCTATTTCAGTGTGTTTTTTCCAAAACACCATTAAAAG
378 AAAATTGTTTTT-ATTCTATTCCAATGTGTTTTTTCCAAGACATCATTACAAG
* * * * * **
88976364 GTATTTACAAATTTTTCATATGCCAAATTTAGCATGATTACTTATAAGATTATGCCTAACAACCA
1 GTATTTATACACTTTTCATATGTCAAATTTAGCAT-ATTCCTCCTAAGATTATGCCTAACAACCA
* * *
88976429 ACAAAAATCAGATCTTTTTTCTATTCATGGAGTTTGAAAAATTCACAATCTGATTTTTAATCAGC
65 ACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTG-AAAATTCACAATCTGATTTTTAATCAAC
* * * * *
88976494 CAC-TAGTT-AAGCAACCTTTCAATTTAGCTCATTTTATTGCTTCCCGTTTCAATTTAGCCCAAT
129 CACTTA-TTCTA-CAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAAT
* * * *
88976557 TTGCTTAGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATGCTCGATAGGGATTTAAAATTG
192 TTGCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGG-TTTAAAAGTG
* *
88976622 GATTTGAACGTAATGGTAATAGGTGAAAAGGAGAAAGGACGTAAAAAGCAATTGAACCAAAAATA
256 GATTTGAACGTAATGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACCAAAAATA
* *
88976687 AGGAAATGGAAAGAAATGGCAGTAAACTTGAATAGCTACTGATGCATTAAAGAGAAAAGAATTGT
321 AGGAAATGGAAAGAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAAAATTGT
*
88976752 TTTTCATTCTATTCCAATGTGTTTTTTCCAAGTCATCATTACAAG
386 TTTT-ATTCTATTCCAATGTGTTTTTTCCAAGACATCATTACAAG
* * * *
88976797 GTATTTATACACTTTTCATCTGTCAAAATTAGCACT-TTCCTCCTAAGATTATGCTTAACAGCCA
1 GTATTTATACACTTTTCATATGTCAAATTTAGCA-TATTCCTCCTAAGATTATGCCTAACAACCA
* *
88976861 ACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGAAAATTTCACAATGTAATTTTTAATCAAC
65 ACTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGAAAA-TTCACAATCTGATTTTTAATCAAC
* *
88976926 CACTTATTCTACAACTTTTCAATTTTGCCCTTTTTATTGCTCCCCGTTCCAATTTAGCCCAATTT
129 CACTTATTCTACAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAATTT
* * *
88976991 TCTTGGCTAAATGGGGTTTAGTTGAGCATGAAACTAATCATACTCAATTGGGGTTTAAAAGTGGA
194 GCTTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATT-GGGTTTAAAAGTGGA
* *
88977056 TTTGAACGTAATGGTGATAAGTGAAAAGGATAAAGGACTTAAAAAGCAATTGAACCAAAAATAAG
258 TTTGAACGTAATGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACCAAAAATAAG
* ** * * *
88977121 AAAATGGAAA-AAATGGCAGTAAACTTGAATAGCTACTGATGTGTGAAAGAGATAACAATTCTTT
323 GAAATGGAAAGAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAAAATTGTTT
* * *
88977185 TTA-ACTATTCCAATGTGTTTTTTCGAAGCCATCATTACAAG
388 TTATTCTATTCCAATGTGTTTTTTCCAAGACATCATTACAAG
88977226 GTATTTATACACTTTT
1 GTATTTATACACTTTT
88977242 TGAGAAAAAT
Statistics
Matches: 773, Mismatches: 93, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
429 51 0.07
430 1 0.00
431 54 0.07
432 255 0.33
433 169 0.22
434 3 0.00
438 26 0.03
439 12 0.02
440 201 0.26
441 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (429 bp):
GTATTTATACACTTTTCATATGTCAAATTTAGCATATTCCTCCTAAGATTATGCCTAACAACCAA
CTAAAATCAGATTTTTTTTCTATTCATGGAGTTTGAAAATTCACAATCTGATTTTTAATCAACCA
CTTATTCTACAACTTTTCAATTTTGCCCATTTTATTGCTTCCCGTTCCAATTTAGCCCAATTTGC
TTGGCTAAATGGGGTTTAGTTGAGCATGAAATTAATCATACTCGATTGGGTTTAAAAGTGGATTT
GAACGTAATGGTGATAGGTGAAAAGGAGAAAGGACTTAAAAAGCAATTGAACCAAAAATAAGGAA
ATGGAAAGAAATGGCAGTAAACTTGAATAGCTACTGATGCATGAAAGAGAAAAAAATTGTTTTTA
TTCTATTCCAATGTGTTTTTTCCAAGACATCATTACAAG
Found at i:88977262 original size:10 final size:11
Alignment explanation
Indices: 88977246--88977275 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
88977236 ACTTTTTGAG
88977246 AAAAATAAAAT
1 AAAAATAAAAT
88977257 -AAAATAAAAT
1 AAAAATAAAAT
88977267 AAAAATAAA
1 AAAAATAAA
88977276 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:88981725 original size:6 final size:5
Alignment explanation
Indices: 88981695--88981724 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
88981685 CAATTTGAGA
88981695 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAA
88981725 AACACAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:88982979 original size:433 final size:432
Alignment explanation
Indices: 88982033--88983520 Score: 1859
Period size: 431 Copynumber: 3.4 Consensus size: 432
88982023 CTTAATTCTA
* * * *
88982033 ACACTTTTTATATACCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAACAACCAATTAAAAT
1 ACACTTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
* * * *
88982098 AAGATTTTTTTTCTATTCATAGAGTTTAACAAATTCACAATCGGATTTTTAATCAACCACTAATT
66 CAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATT
* * ** * * * *
88982163 TTGCAACTTTTCAATTTGG-CTGTTTTATTTCTTCCCATTCCAAGTTAGCCAAATTTGCTTGGCT
131 ATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCATTCCAATTTAGCCCAATTTGCTTGGCT
*
88982227 AAATGCGATTTAGTTGAGA-ATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGAATTTGGAA
196 AAATGCG-TTTAGTTGA-ACATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTT-GAA
* * * * * * * *
88982291 GTAAAGGTGATAAGTGAAAAAGAGAAAAGACTTAAAAAGCAATTGGACAAAAAGTAAGAAAATGG
258 GTAATGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAG
* * * * * * **
88982356 TAAAAAA-TGACAATAAAC-CTGAATAGCTACTGATGCATGAAAGAGAAAAAAGTTATTTTTAAT
323 AAAAAAATTGGCAGTAAACTC-GAATAACTACTGATGCATGAAAAAGAAAAAAATTGCTTTTAAT
* ** *
88982419 TCTATTATAGTATGTTTTTTTGAAGCCACCATTACAAGGTATTGAT
387 TCTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
* * * * *
88982465 AGACTTTCCATATGA-CATATTGAGCATGATTCCTCCTAAGATTATGCCTAATAATCAACTAAAA
1 ACACTTTTCATAT-ATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAA
*
88982529 TTAGA-TTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAAT
65 TCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAAT
* * *
88982593 TATGAAAATTTTCAATTTGGTCCATTTTATTGCTTC-CTGTTCCAATTTAGCCCAATTTGCTTGG
130 TATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTC-ATTCCAATTTAGCCCAATTTGCTTGG
* *
88982657 CCAAATGTCGTTTAGTTGAACATGAAATTAATCATACTTGATTGGGGTTTAAAAGTGGATTTGAA
194 CTAAATG-CGTTTAGTTGAACATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTGAA
* * * *
88982722 TGTAATGATGATGGGTGAAAATGAG-AAAGAACTTAAAAGGTAATTGAACAAAAAATAAGGAACT
258 -GTAATGGTGATAGGTGAAAATGAGAAAAG-ACTTAAAAGGCAATTGAACAAAAAATAAGAAACT
* * *
88982786 AGAAAAAAATTGGCAGTAAACTCGAATATCTACAGATGCGTGAAAAAGAAAAAAATTGCTTTTAA
321 AGAAAAAAATTGGCAGTAAACTCGAATAACTACTGATGCATGAAAAAGAAAAAAATTGCTTTTAA
88982851 TTCTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
386 TTCTATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
* *
88982898 AC-CATTTTCATATATCAAATTTAGCATGATTCCTCCTAAGGTTACGCCTAATAACCAAC-AAAA
1 ACAC-TTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAA
* * **
88982961 TCACATTTGTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCTTTAAT
65 TCAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAAT
* * **
88983026 TATGCAACTTTTCAATTTGGCCCCTTTTATTGCTTCTCATTCCAA-TTAGCCCAATTTGCTTAAC
130 TATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCATTCCAATTTAGCCCAATTTGCTTGGC
* * * **
88983090 TAAATGGGTTTAGTTGAGCATGAAATTAATCATACTCAATTGGGACTTAAAAGTGGATTTGAACG
195 TAAATGCGTTTAGTTGAACATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTGAA-G
* * *
88983155 TAATGGTGATAGGTGAAAATGAGAAAAGACTTGAAAGGCAATTGAACCAAAAATAAAAAACTAGA
259 TAATGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAGA
** * * *
88983220 AAAAAATTGGCAGTAAACTTAAATAACTATTGATGCATGAAAAAGAAAAGAATTGCTTTTAATTT
324 AAAAAATTGGCAGTAAACTCGAATAACTACTGATGCATGAAAAAGAAAAAAATTGCTTTTAATTC
* * *
88983285 TATTTTAGTGTGCTTTTTCCAAGCCACCATTTCAAGGTATTTAT
389 TATTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
* * * * * * * **
88983329 ACATTTTTCATATGTAAAATTTAGCATGATTCTTCATAAGATTATACCTAATGATTAACTAAAAT
1 ACACTTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
* * * ** *
88983394 CAGATTTTTTTTTCTATTCATGGAGTTTGACAAGTTCACAATCTAATAATTAATCAGTCC-TTAA
66 CAGA-TTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAG-CCACTAA
* * * **
88983458 TTCTGAAACTTTTCAATTTGACCCA-TTTATTGCTTCTCGTTCCAATTTTTCCCAATTTGCTTG
129 TTATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCATTCCAATTTAGCCCAATTTGCTTG
88983521 TTTATTTGAA
Statistics
Matches: 916, Mismatches: 121, Indels: 37
0.85 0.11 0.03
Matches are distributed among these distances:
431 332 0.36
432 263 0.29
433 317 0.35
434 4 0.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (432 bp):
ACACTTTTCATATATCAAATTTAGCATGATTCCTCCTAAGATTATGCCTAATAACCAACTAAAAT
CAGATTTTTTTTCTATTCATAGAGTTTGACAAATTCACAATCTGATTTTTAATCAGCCACTAATT
ATGAAACTTTTCAATTTGGCCCATTTTATTGCTTCTCATTCCAATTTAGCCCAATTTGCTTGGCT
AAATGCGTTTAGTTGAACATGAAATTAATCATACTCGATTGGGGTTTAAAAGTGGATTTGAAGTA
ATGGTGATAGGTGAAAATGAGAAAAGACTTAAAAGGCAATTGAACAAAAAATAAGAAACTAGAAA
AAAATTGGCAGTAAACTCGAATAACTACTGATGCATGAAAAAGAAAAAAATTGCTTTTAATTCTA
TTATAGTGTGTTTTTTCCAAGCCACCATTACAAGGTATTTAT
Found at i:88990612 original size:28 final size:28
Alignment explanation
Indices: 88990574--88990631 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
88990564 GACTTATTTA
*
88990574 AATTCTAGTTTTTCACATCTAACCTATT
1 AATTCTAGTTTTTCACATCAAACCTATT
88990602 AATTCTAGTTTTTCACATCAAACCTATT
1 AATTCTAGTTTTTCACATCAAACCTATT
88990630 AA
1 AA
88990632 CTAAGTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.21, G:0.03, T:0.43
Consensus pattern (28 bp):
AATTCTAGTTTTTCACATCAAACCTATT
Found at i:88991537 original size:13 final size:13
Alignment explanation
Indices: 88991506--88991543 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
88991496 TGTTTAAAAT
88991506 CTTTTATTTATTA
1 CTTTTATTTATTA
*
88991519 -TTTTATTTTTTA
1 CTTTTATTTATTA
88991531 CTTTTATTCTATT
1 CTTTTATT-TATT
88991544 TTAAGACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 7 0.33
14 3 0.14
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTATTTATTA
Found at i:88999739 original size:19 final size:19
Alignment explanation
Indices: 88999715--88999769 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
88999705 CTTAAATATC
* *
88999715 TATTTTTTTACTTTTTTTT
1 TATTTTTTTACTATTTTCT
* *
88999734 TATTTTATTGCTATTTTCT
1 TATTTTTTTACTATTTTCT
*
88999753 TATTTTTTCACTATTTT
1 TATTTTTTTACTATTTT
88999770 GCTACCATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.75
Consensus pattern (19 bp):
TATTTTTTTACTATTTTCT
Found at i:89000722 original size:29 final size:30
Alignment explanation
Indices: 89000656--89000732 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
89000646 TTCAAAAAAA
* *
89000656 TAAAAATTGCATTTTGACCCATAAACTTTTC
1 TAAAAATTACATTTT-AACCATAAACTTTTC
* *
89000687 T-TAAATTACATTTTAACCTTAAA-TTTTC
1 TAAAAATTACATTTTAACCATAAACTTTTC
89000715 TAAAAATTACA-TTTAACC
1 TAAAAATTACATTTTAACC
89000733 CCTGAAGTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 13 0.32
29 15 0.38
30 11 0.28
31 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.42
Consensus pattern (30 bp):
TAAAAATTACATTTTAACCATAAACTTTTC
Found at i:89000968 original size:13 final size:15
Alignment explanation
Indices: 89000952--89000988 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
89000942 GAAAAAAGAG
89000952 AAAAAAAA-T-CAGC
1 AAAAAAAATTCCAGC
89000965 AAAAAAAATTTCCAGC
1 AAAAAAAA-TTCCAGC
89000981 AAAAAAAA
1 AAAAAAAA
89000989 AACAACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
15 1 0.05
16 12 0.57
ACGTcount: A:0.70, C:0.14, G:0.05, T:0.11
Consensus pattern (15 bp):
AAAAAAAATTCCAGC
Found at i:89013982 original size:14 final size:13
Alignment explanation
Indices: 89013942--89013979 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
89013932 CACGCTGAGG
89013942 TGTTTTCAAAATC
1 TGTTTTCAAAATC
89013955 TGTTTTTCAAAATC
1 TG-TTTTCAAAATC
89013969 TGTTTTCAAAA
1 TGTTTTCAAAA
89013980 ATCAACTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (13 bp):
TGTTTTCAAAATC
Found at i:89014044 original size:87 final size:75
Alignment explanation
Indices: 89013958--89014114 Score: 239
Period size: 75 Copynumber: 2.1 Consensus size: 75
89013948 CAAAATCTGT
*
89013958 TTTTCAAAATCTG--TTTT-CAAAAATCAACTCATATTGCGAGGAGGTGAGTTGAGCCTCAAGAC
1 TTTTCAAAATCTGTCTTTTAAAAAAATCAACTCATATTGCGA-GAGGTGAGTTGAGCCTCAAGAC
*
89014020 ACGTTGAGGTA
65 ACGATGAGGTA
**
89014031 TTTTCAATTTCTGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAAAATCTGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
89014096 CGATGAGGTA
66 CGATGAGGTA
*
89014106 TTTTAAAAA
1 TTTTCAAAA
89014115 AAATCAACTC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
73 11 0.15
75 42 0.57
76 21 0.28
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (75 bp):
TTTTCAAAATCTGTCTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGATGAGGTA
Found at i:89014121 original size:61 final size:61
Alignment explanation
Indices: 89014046--89014171 Score: 209
Period size: 61 Copynumber: 2.1 Consensus size: 61
89014036 AATTTCTGTC
*
89014046 TTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGATGAGGT-A
1 TTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGATGAGGTAA
* *
89014106 TTTTAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACATGCTGAGGTAA
1 TTTT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGATGAGGTAA
89014168 TTTT
1 TTTT
89014172 CAATTTCTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 4 0.07
61 52 0.85
62 5 0.08
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (61 bp):
TTTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGATGAGGTAA
Found at i:89014413 original size:76 final size:74
Alignment explanation
Indices: 89014112--89014373 Score: 362
Period size: 76 Copynumber: 3.5 Consensus size: 74
89014102 GGTATTTTAA
* * *
89014112 AAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACATGCTGAGGTAATTTTCAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTCAATT
**
89014177 TCTGTCATTC
65 TCTGTTTTTC
* *
89014187 AGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTAATTTCAAT
1 --AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAAT
* *
89014252 TTTTGTTTGTC
64 TTCTGTTTTTC
* * * *
89014263 AAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCTGAAGTGTTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAAT
89014328 TTCTGTTTTTC
64 TTCTGTTTTTC
89014339 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
89014374 TCTCGGGCCA
Statistics
Matches: 164, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
74 40 0.24
76 74 0.45
77 50 0.30
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (74 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTGTTTTTC
Found at i:89014537 original size:79 final size:77
Alignment explanation
Indices: 89014445--89014712 Score: 264
Period size: 77 Copynumber: 3.5 Consensus size: 77
89014435 TTCGTATTTC
* * *
89014445 AAAAAAT-AGCTCATATTGCGAGAGGTGAGTTGAACCCCAGGTCACGATGAGGTATTTCCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTCAATTT
89014509 ATGTTTTTTTTTTA
66 -TG-TTTTTTTTTA
* **
89014523 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAATCACGCATTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACG-A-TGAGGTATTTTCAAT
*
89014588 TTCTG---TTTTTCA
64 TT-TGTTTTTTTTTA
* * *
89014600 AAAAAATCAACTCATATTGCGAAAGGTGAGTT-AAGCATCAGGTCACACGTTGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAA-CCTCAGGT--CACGATGAGGTATTTTCAA
**
89014664 TTTT-TTGCTTTTT-
63 TTTTGTTTTTTTTTA
* * *
89014677 CAAAGATCAACTCATAATT-TGAGAGGTGAGTTGAAC
1 AAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGAAC
89014713 TTCGAGTCGC
Statistics
Matches: 159, Mismatches: 20, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
76 2 0.01
77 84 0.53
78 16 0.10
79 38 0.24
80 1 0.01
81 18 0.11
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (77 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGGTCACGATGAGGTATTTTCAATTT
TGTTTTTTTTTA
Found at i:89015234 original size:15 final size:17
Alignment explanation
Indices: 89015216--89015257 Score: 61
Period size: 15 Copynumber: 2.6 Consensus size: 17
89015206 GAGAAAAAAG
89015216 AGCAAAAAAAA-ATT-C
1 AGCAAAAAAAATATTCC
*
89015231 AGCAAAAAAAATTTTCC
1 AGCAAAAAAAATATTCC
89015248 AGCAAAAAAA
1 AGCAAAAAAA
89015258 CAACAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 11 0.46
16 2 0.08
17 11 0.46
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (17 bp):
AGCAAAAAAAATATTCC
Found at i:89015240 original size:16 final size:17
Alignment explanation
Indices: 89015219--89015257 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
89015209 AAAAAAGAGC
89015219 AAAAAAAAATT-CAGCA
1 AAAAAAAAATTCCAGCA
**
89015235 AAAAAAATTTTCCAGCA
1 AAAAAAAAATTCCAGCA
89015252 AAAAAA
1 AAAAAA
89015258 CAACAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.67, C:0.13, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAAAAAAATTCCAGCA
Found at i:89016072 original size:17 final size:17
Alignment explanation
Indices: 89016014--89016074 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
89016004 TCCGAATTTA
89016014 ATATATATATTTT-T--
1 ATATATATATTTTGTAC
*
89016028 ATA-ACTATATTATGTAC
1 ATATA-TATATTTTGTAC
89016045 ATATATATATTTTGTAC
1 ATATATATATTTTGTAC
89016062 ATATCAT-TATTTT
1 ATAT-ATATATTTT
89016075 ATATTATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
13 1 0.03
14 10 0.26
15 1 0.03
17 24 0.62
18 3 0.08
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (17 bp):
ATATATATATTTTGTAC
Found at i:89020519 original size:17 final size:18
Alignment explanation
Indices: 89020487--89020520 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89020477 TAAAGTTGGG
*
89020487 ATAATTATACATTTAAAA
1 ATAATTAGACATTTAAAA
89020505 ATAATTAGA-ATTTAAA
1 ATAATTAGACATTTAAA
89020521 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATTAGACATTTAAAA
Found at i:89020872 original size:24 final size:24
Alignment explanation
Indices: 89020816--89020890 Score: 73
Period size: 23 Copynumber: 3.1 Consensus size: 24
89020806 TTATATGTTG
*
89020816 AATATGTTAAAAATATTTTAATTA
1 AATATGTTAAAAATATATTAATTA
*
89020840 ATTAT-TTAAAAAT-TATTAATTA
1 AATATGTTAAAAATATATTAATTA
* * *
89020862 TAATATGTTAATTAATAAATTAATAA
1 -AATATGTTAA-AAATATATTAATTA
89020888 AAT
1 AAT
89020891 TTAATTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 8 0.20
23 12 0.29
24 8 0.20
25 6 0.15
26 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
AATATGTTAAAAATATATTAATTA
Found at i:89020895 original size:36 final size:36
Alignment explanation
Indices: 89020827--89020901 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
89020817 ATATGTTAAA
* * * *
89020827 AATATTTTAATTAATTATTTAAAAATTATTAATTAT
1 AATATGTTAATTAATAAATTAAAAAATATTAATTAT
*
89020863 AATATGTTAATTAATAAATTAATAAAAT-TTAATTTT
1 AATATGTTAATTAATAAATTAA-AAAATATTAATTAT
89020899 AAT
1 AAT
89020902 TAAAAATGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (36 bp):
AATATGTTAATTAATAAATTAAAAAATATTAATTAT
Found at i:89021598 original size:4 final size:4
Alignment explanation
Indices: 89021589--89021620 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
89021579 TAGTGAGACT
89021589 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
89021621 ATCTTAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:89024883 original size:11 final size:11
Alignment explanation
Indices: 89024867--89024917 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
89024857 TTACAAGAAA
89024867 TGTAAAAAAAT
1 TGTAAAAAAAT
89024878 TGTAAAAAAA-
1 TGTAAAAAAAT
*
89024888 --TATAAAAAT
1 TGTAAAAAAAT
89024897 TGTAAAAGAAAT
1 TGTAAAA-AAAT
*
89024909 TTTAAAAAA
1 TGTAAAAAA
89024918 GGTAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
8 7 0.21
11 16 0.48
12 10 0.30
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (11 bp):
TGTAAAAAAAT
Found at i:89025093 original size:22 final size:22
Alignment explanation
Indices: 89025065--89025129 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 22
89025055 TATTTTAATT
*
89025065 TTTTAAAATTTATAATCATATA
1 TTTTAAAATTTATAATAATATA
* *
89025087 TTTTAAAATTTTATAAAAAAATA
1 TTTTAAAA-TTTATAATAATATA
*
89025110 TTTTAATATTT-TAATAATAT
1 TTTTAAAATTTATAATAATAT
89025130 TATATATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.19
22 11 0.31
23 18 0.50
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTTTAAAATTTATAATAATATA
Found at i:89025099 original size:30 final size:27
Alignment explanation
Indices: 89025044--89025099 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
89025034 TTTCAATTTT
**
89025044 AATTTATATATTATTTTAATTTTTTAA
1 AATTTATATATTATTTTAAAATTTTAA
89025071 AATTTATAATCATATATTTTAAAATTTTA
1 AATTTAT-AT-AT-TATTTTAAAATTTTA
89025100 TAAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 2 0.08
29 2 0.08
30 13 0.54
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
AATTTATATATTATTTTAAAATTTTAA
Found at i:89025272 original size:10 final size:10
Alignment explanation
Indices: 89025257--89025283 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
89025247 GATCGATCAA
89025257 ATTTAAAAAT
1 ATTTAAAAAT
89025267 ATTTAAAAAT
1 ATTTAAAAAT
89025277 ATTTAAA
1 ATTTAAA
89025284 TATTTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTTAAAAAT
Found at i:89025317 original size:14 final size:14
Alignment explanation
Indices: 89025286--89025350 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 14
89025276 TATTTAAATA
*
89025286 TTTAATATTATAATT
1 TTTAATATT-TTATT
*
89025301 TTTTATATTTTATT
1 TTTAATATTTTATT
* **
89025315 TTTAAAATTTTAAA
1 TTTAATATTTTATT
89025329 TTTAATAATTTTATT
1 TTTAAT-ATTTTATT
*
89025344 TTAAATA
1 TTTAATA
89025351 AATCTAATTA
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
14 20 0.51
15 19 0.49
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTAATATTTTATT
Found at i:89026964 original size:36 final size:36
Alignment explanation
Indices: 89026891--89026967 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
89026881 ACAATTAATT
* *
89026891 AAATTTTTTAAAATTTAAAAATTCAAAAAATGTATA
1 AAATTTTTTAAAATTTAAAAATTCAAAAAAGGCATA
*
89026927 AAATTTTTTAAAA-TTAAAAATT-ATTAAAAGGGCATA
1 AAATTTTTTAAAATTTAAAAATTCA--AAAAAGGCATA
89026963 AAATT
1 AAATT
89026968 ATAAAAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
34 1 0.03
35 9 0.25
36 26 0.72
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (36 bp):
AAATTTTTTAAAATTTAAAAATTCAAAAAAGGCATA
Found at i:89029335 original size:28 final size:30
Alignment explanation
Indices: 89029303--89029362 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
89029293 TTATAATATT
89029303 AATAATTTAAAAA-ACAT-TAAAT-AAGAAA
1 AATAA-TTAAAAACACATGTAAATGAAGAAA
*
89029331 AATAATTAAAAACACTTGTAAATGAAGAAA
1 AATAATTAAAAACACATGTAAATGAAGAAA
89029361 AA
1 AA
89029363 ATTGTCTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 7 0.25
28 8 0.29
29 5 0.18
30 8 0.29
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (30 bp):
AATAATTAAAAACACATGTAAATGAAGAAA
Found at i:89035679 original size:18 final size:18
Alignment explanation
Indices: 89035656--89035748 Score: 123
Period size: 18 Copynumber: 5.2 Consensus size: 18
89035646 CCCAACTACT
*
89035656 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
**
89035674 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACC
* *
89035692 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTACC
* *
89035710 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
89035728 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
89035746 GTA
1 GTA
89035749 AACGGTCGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:89035708 original size:36 final size:36
Alignment explanation
Indices: 89035656--89035748 Score: 141
Period size: 36 Copynumber: 2.6 Consensus size: 36
89035646 CCCAACTACT
* * *
89035656 GTATACGTGAACAGTACCGTATACGTGAATAGTGTC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
* *
89035692 GTATACGTAAATAGTACTGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
89035728 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
89035749 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:89043401 original size:5 final size:6
Alignment explanation
Indices: 89043385--89043410 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
89043375 ATTCAAGTGT
89043385 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
89043411 TTTCTCTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:89061135 original size:30 final size:29
Alignment explanation
Indices: 89061075--89061141 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 29
89061065 AAATATGTTG
89061075 ATTGATTTTAATTATTTTATATGAAATTA
1 ATTGATTTTAATTATTTTATATGAAATTA
* * *
89061104 ATTGATGTTTAATTATTTTATGTGGATTTA
1 ATTGAT-TTTAATTATTTTATATGAAATTA
89061134 ATTG-TTTT
1 ATTGATTTT
89061142 CTAAAAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.09
29 7 0.21
30 24 0.71
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.58
Consensus pattern (29 bp):
ATTGATTTTAATTATTTTATATGAAATTA
Found at i:89062009 original size:3 final size:3
Alignment explanation
Indices: 89062001--89062034 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
89061991 ATATATGTTA
*
89062001 AAT AAT AAT TAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
89062035 TGTATTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:89062693 original size:6 final size:6
Alignment explanation
Indices: 89062682--89062709 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
89062672 ACCAAAAATT
89062682 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAA
89062710 TAAAAGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (6 bp):
TAAAAA
Found at i:89070274 original size:100 final size:100
Alignment explanation
Indices: 89070096--89070284 Score: 270
Period size: 100 Copynumber: 1.9 Consensus size: 100
89070086 CGCCAACCTA
* * * * *
89070096 CTCTCTTGCTGCCTTAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCAATACATGGAG
1 CTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGCTAAAATCTACTCCATTGCCAATACATGGAA
89070161 ATAAGATTCGCCATCTTCGATCTGCTTCACCGCTG
66 ATAAGATTCGCCATCTTCGATCTGCTTCACCGCTG
* * * * *
89070196 CTCTCTTGCTATCTCAGATAGATAAGACTGGTGGTTTAAATCTACTCCATTGCCAATACATGGAA
1 CTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGCTAAAATCTACTCCATTGCCAATACATGGAA
* *
89070261 ATAAGATTTGCCATCTTTGATCTG
66 ATAAGATTCGCCATCTTCGATCTG
89070285 GTCCGCTACT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (100 bp):
CTCTCTTGCTACCTCAGAGAGATAAGACTAGTGGCTAAAATCTACTCCATTGCCAATACATGGAA
ATAAGATTCGCCATCTTCGATCTGCTTCACCGCTG
Found at i:89070487 original size:176 final size:177
Alignment explanation
Indices: 89070193--89070974 Score: 984
Period size: 176 Copynumber: 4.4 Consensus size: 177
89070183 TGCTTCACCG
* * * * * * * *
89070193 CTGCTCTCTTGCTATCTCAGATAGATAAGACTGGTGGTTTAAATCTACTCCATTGCCAATACATG
1 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
* * * * * *
89070258 GAAATAAGATTTGCCATCTTTGATCTGGTCCGCTACTGCTGAGGGAGATAAGATCCTT-AATCTT
66 GAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTTCAATCTT
* *
89070322 CAGTCTACTTCTTTTCTACCTCAGGAAGATAAGACT-CAATCTTCAAC
130 CAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAAC
* * * *
89070369 CTGCTCTCTTGTTACATCAGCGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGAAACATG
1 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
* *
89070434 GAGATAAGATTCGCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTTCAATCTTT
66 GAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTC
* *
89070499 AGTCTGCTT-TCTTGCTACCTTAGGAAGATAAGACTACCAT-TTCCAAC
131 AGTCTGCTTCT-TTGCTACCTCAGGAAGATAAGACTACAATCTT-CAAC
*
89070546 CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
1 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
* * *
89070611 GAGATAAGATTTGCC-TCTTTCGATCTACTCCATTACTGCTTAGGGAGATAAGATCTTCAATCTT
66 GAGATAAGATTCGCCATC-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTT
* * * * * *
89070675 CAGGCTGCTTCCTCGCTACCTTAGGAAGATAAGACTGCAATCGTCAAC
130 CAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAAC
*
89070723 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGG-TAAAATCTGCTCCATTGCCGATACATG
1 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
* * * *
89070787 GAGATAAGATTCACCATCTTCGATCTGTTCCACAACTGCTTAGGGAGATAAGATCTTAAATCTTC
66 GAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTC
*** * * *
89070852 AGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTTGTATATTGAGC
131 AGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAAC
* * * * * * ** *
89070899 CTGCTC-CACTGCAACTTTAGTGAGATAAGGCTGGCAGCTTAAATCTGCTCCATTGCCGATACAT
1 CTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACAT
89070963 GGAGATAAGATT
65 GGAGATAAGATT
89070975 TGTTGTCTTT
Statistics
Matches: 526, Mismatches: 70, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
175 5 0.01
176 284 0.54
177 236 0.45
178 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (177 bp):
CTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
GAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATCTTC
AGTCTGCTTCTTTGCTACCTCAGGAAGATAAGACTACAATCTTCAAC
Found at i:89070839 original size:353 final size:353
Alignment explanation
Indices: 89070193--89070999 Score: 1068
Period size: 353 Copynumber: 2.3 Consensus size: 353
89070183 TGCTTCACCG
* * * * * * *
89070193 CTGCTCTCTTGCTATCTCAGATAGATAAGACTGGTGGTTTAAATCTACTCCATTGCCAATACATG
1 CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATG
* ** *
89070258 GAAATAAGATTTGCCATCTTTGATCTGGTCCGCTACTGCTGAGGGAGATAAGATCCTTAATCTTC
66 GAGATAAGATTTGCCATCTTTGATCTACTCCACTACTGCTGAGGGAGATAAGATCCTTAATCTTC
* * ** * *
89070323 AGTCTACTTCTTTTCTACCTCAGGAAGATAAGACTCAATCTTCAACCTGCTCTCTTGTTACATCA
131 AGGCTACTTCCTCGCTACCTCAGGAAGATAAGACTCAATCGTCAACCTGCTCTCTTGCTACATCA
* * *
89070388 GCGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGAAACATGGAGATAAGATTCGCCATCT
196 GAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCGAAACATGGAGATAAGATTCACCATCT
* * * *
89070453 TCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTTCAATCTTTAGTCTGCTT-TCTTGCTAC
261 TCGATCTGCTCCACAACTGCTTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCT-TTGCTAC
*
89070517 CTTAGGAAGATAAGACTACCAT-TTCCAAC
325 CTCAGGAAGATAAGACTACCATATT-CAAC
* *
89070546 CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATACATG
1 CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATG
* *
89070611 GAGATAAGATTTGCC-TCTTTCGATCTACTCCATTACTGCTTAGGGAGATAAGAT-CTTCAATCT
66 GAGATAAGATTTGCCATCTTT-GATCTACTCCACTACTGCTGAGGGAGATAAGATCCTT-AATCT
* * *
89070674 TCAGGCTGCTTCCTCGCTACCTTAGGAAGATAAGACTGCAATCGTCAACCTGCTCTCTTGCTACC
129 TCAGGCTACTTCCTCGCTACCTCAGGAAGATAAGACT-CAATCGTCAACCTGCTCTCTTGCTACA
*
89070739 TCAGAGAGATAAGGCCAGTGG-TAAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCACCA
193 TCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCGAAACATGGAGATAAGATTCACCA
*
89070803 TCTTCGATCTGTTCCACAACTGCTTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCTTTGCT
258 TCTTCGATCTGCTCCACAACTGCTTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCTTTGCT
*** * *
89070868 ACCTCAGGAAGATAAGACTTGTATATTGAGC
323 ACCTCAGGAAGATAAGACTACCATATTCAAC
* * * * **
89070899 CTGCTC-CACTGCAACTTTAGTGAGATAAGGCTGGCAGCTTAAATCTGCTCCATTGCCGATACAT
1 CTGCTCTC-TTGCTACCTTAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACAT
*** * *
89070963 GGAGATAAGATTTGTTGTCTTTGGTCTGCTCCACTAC
65 GGAGATAAGATTTGCCATCTTTGATCTACTCCACTAC
89071000 AACCTCAAGG
Statistics
Matches: 395, Mismatches: 52, Indels: 14
0.86 0.11 0.03
Matches are distributed among these distances:
352 9 0.02
353 335 0.85
354 51 0.13
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (353 bp):
CTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTTAAATCTGCTCCATTGCCGATACATG
GAGATAAGATTTGCCATCTTTGATCTACTCCACTACTGCTGAGGGAGATAAGATCCTTAATCTTC
AGGCTACTTCCTCGCTACCTCAGGAAGATAAGACTCAATCGTCAACCTGCTCTCTTGCTACATCA
GAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATTGCCGAAACATGGAGATAAGATTCACCATCT
TCGATCTGCTCCACAACTGCTTAGGGAGATAAGATCTTAAATCTTCAGTCTGCTTCTTTGCTACC
TCAGGAAGATAAGACTACCATATTCAAC
Found at i:89071401 original size:63 final size:64
Alignment explanation
Indices: 89071172--89071425 Score: 341
Period size: 64 Copynumber: 4.0 Consensus size: 64
89071162 TTCATGTATC
* * * * * ** * *
89071172 ATGCTTATGCCAAATAACTAGGATGCTACGATCAAAATGAATCAACTATTCCTAATTAGATTTG
1 ATGCTTATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
89071236 ATGCTTATGTCAAATAATTAGGATGCCATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
89071300 ATGCTTATGTCAAATAATTAGGACGCTATGATAAAAATGAATTAAATGCTCCTAACTAGATGTA
1 ATGCTTATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
89071364 ATG-TGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCT-CTAACTAGATGTG
1 ATGCTTATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
89071426 TTATGAATGA
Statistics
Matches: 169, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
62 12 0.07
63 42 0.25
64 115 0.68
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCTTATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:89071483 original size:15 final size:14
Alignment explanation
Indices: 89071456--89071482 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
89071446 CAAAAATGAG
89071456 AATGATCTTTTTTA
1 AATGATCTTTTTTA
89071470 AATGATCTTTTTT
1 AATGATCTTTTTT
89071483 TCTTTTTTAA
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:0.26, C:0.07, G:0.07, T:0.59
Consensus pattern (14 bp):
AATGATCTTTTTTA
Found at i:89072572 original size:15 final size:14
Alignment explanation
Indices: 89072521--89072572 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
89072511 TGGCCTCTCC
*
89072521 TTTTCTTTCTTCTTT
1 TTTTTTTTCTT-TTT
*
89072536 TTTTTATTCTTTTT
1 TTTTTTTTCTTTTT
**
89072550 TTAATTTTCTTTTT
1 TTTTTTTTCTTTTT
89072564 TTTTGTTTT
1 TTTT-TTTT
89072573 GATTTTGATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.06, C:0.10, G:0.02, T:0.83
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Found at i:89086509 original size:22 final size:23
Alignment explanation
Indices: 89086481--89086523 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
89086471 AAAAGCAAAT
* *
89086481 AATAAAATCTTAAA-TAAAAACG
1 AATAAAAACATAAACTAAAAACG
89086503 AATAAAAACATAAACTAAAAA
1 AATAAAAACATAAACTAAAAA
89086524 AACTCGATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (23 bp):
AATAAAAACATAAACTAAAAACG
Found at i:89087742 original size:19 final size:20
Alignment explanation
Indices: 89087706--89087743 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
89087696 TTGAATTTTA
* *
89087706 TTTTGTTATTTTGTTTTTGC
1 TTTTGTTATTCTGGTTTTGC
89087726 TTTT-TTATTCTGGTTTTG
1 TTTTGTTATTCTGGTTTTG
89087744 GTATGGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.74
Consensus pattern (20 bp):
TTTTGTTATTCTGGTTTTGC
Found at i:89095774 original size:19 final size:19
Alignment explanation
Indices: 89095752--89095793 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
89095742 AAAACATATT
*
89095752 AAAAACTTAAAAACT-TAAA
1 AAAAACATAAAAA-TATAAA
*
89095771 AAAATCATAAAAATATAAA
1 AAAAACATAAAAATATAAA
89095790 AAAA
1 AAAA
89095794 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAACATAAAAATATAAA
Found at i:89095781 original size:27 final size:28
Alignment explanation
Indices: 89095711--89095791 Score: 69
Period size: 27 Copynumber: 2.8 Consensus size: 28
89095701 TATCATTAAT
* *
89095711 AAAACATACTTAAGATATTTAAAAATTTATA
1 AAAACATA-TTAA-A-AATTAAAAACTTATA
89095742 AAAACATATTAAAAACTTAAAAACTTA-A
1 AAAACATATTAAAAA-TTAAAAACTTATA
89095770 AAAA-ATCA-TAAAAATATAAAAA
1 AAAACAT-ATTAAAAAT-TAAAAA
89095792 AATTATTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
26 1 0.02
27 14 0.31
28 7 0.16
29 11 0.24
30 4 0.09
31 8 0.18
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.27
Consensus pattern (28 bp):
AAAACATATTAAAAATTAAAAACTTATA
Found at i:89095782 original size:48 final size:50
Alignment explanation
Indices: 89095730--89095834 Score: 123
Period size: 48 Copynumber: 2.2 Consensus size: 50
89095720 TTAAGATATT
*
89095730 TAAAAATTTATAAAAACA-TATTAAAAACTT-A-A-AAACTTAAAAAAATCA
1 TAAAAATTTATAAAAAAATTATT-AAAA-TTGATATAAACTTAAAAAAATCA
* *
89095778 TAAAAA--TATAAAAAAATTATTAAAATTGATATAAACTTATAAAAATTA
1 TAAAAATTTATAAAAAAATTATTAAAATTGATATAAACTTAAAAAAATCA
89095826 TAAAAATTT
1 TAAAAATTT
89095835 GAACCAAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
45 2 0.04
46 14 0.29
47 5 0.10
48 26 0.54
50 1 0.02
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (50 bp):
TAAAAATTTATAAAAAAATTATTAAAATTGATATAAACTTAAAAAAATCA
Found at i:89095802 original size:9 final size:9
Alignment explanation
Indices: 89095730--89095833 Score: 75
Period size: 9 Copynumber: 10.9 Consensus size: 9
89095720 TTAAGATATT
89095730 TAAAAATTTA
1 TAAAAA-TTA
*
89095740 TAAAAACATA
1 TAAAAA-TTA
89095750 TTAAAAACTTA
1 -TAAAAA-TTA
*
89095761 -AAAACTTA
1 TAAAAATTA
* *
89095769 AAAAAATCA
1 TAAAAATTA
89095778 TAAAAATATA
1 TAAAAAT-TA
*
89095788 AAAAAATTA
1 TAAAAATTA
*
89095797 TTAAAATTGA
1 TAAAAATT-A
*
89095807 TATAAACTTA
1 TA-AAAATTA
89095817 TAAAAATTA
1 TAAAAATTA
89095826 TAAAAATT
1 TAAAAATT
89095834 TGAACCAAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
8 3 0.04
9 38 0.51
10 20 0.27
11 14 0.19
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:89095802 original size:29 final size:28
Alignment explanation
Indices: 89095731--89095832 Score: 75
Period size: 29 Copynumber: 3.6 Consensus size: 28
89095721 TAAGATATTT
*
89095731 AAAAATTTATAAAAA-CATATTAAAAACTT-
1 AAAAAATTATAAAAATCATA-T-AAAA-TTA
* *
89095760 AAAAACTTAAAAAAATCATA-AAAATATA
1 AAAAAATTATAAAAATCATATAAAAT-TA
* * *
89095788 AAAAAATTATTAAAATTGATATAAACTTA
1 AAAAAATTA-TAAAAATCATATAAAATTA
*
89095817 TAAAAATTATAAAAAT
1 AAAAAATTATAAAAAT
89095833 TTGAACCAAA
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
26 1 0.02
27 5 0.08
28 14 0.24
29 31 0.53
30 8 0.14
ACGTcount: A:0.65, C:0.05, G:0.01, T:0.29
Consensus pattern (28 bp):
AAAAAATTATAAAAATCATATAAAATTA
Found at i:89111735 original size:14 final size:14
Alignment explanation
Indices: 89111716--89111754 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
89111706 TTGTTTCACT
89111716 GAAAATGATTTTTA
1 GAAAATGATTTTTA
*
89111730 GAAAATAATTTTTA
1 GAAAATGATTTTTA
89111744 GAAAATGATTT
1 GAAAATGATTT
89111755 ATTTTTCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (14 bp):
GAAAATGATTTTTA
Found at i:89112240 original size:15 final size:15
Alignment explanation
Indices: 89112220--89112271 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
89112210 ACTACAAAGC
89112220 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
89112235 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
89112254 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
89112269 ATT
1 ATT
89112272 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:89112368 original size:20 final size:22
Alignment explanation
Indices: 89112339--89112380 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
89112329 AATAAAATTG
*
89112339 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
89112359 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
89112381 TATGACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:89114353 original size:7 final size:9
Alignment explanation
Indices: 89114302--89114472 Score: 65
Period size: 9 Copynumber: 18.9 Consensus size: 9
89114292 AAATATCAAA
89114302 TATAAAAAT
1 TATAAAAAT
* *
89114311 TTTTAAAAT
1 TATAAAAAT
89114320 TATTAAAAAAT
1 TA-T-AAAAAT
89114331 T-TAAAAAT
1 TATAAAAAT
89114339 TCA-AAAAAT
1 T-ATAAAAAT
89114348 T-TAAAAAT
1 TATAAAAAT
89114356 TATAAAATAAT
1 TAT-AAA-AAT
*
89114367 TA-AAATAT
1 TATAAAAAT
*
89114375 TATTAAAAT
1 TATAAAAAT
*
89114384 T-CAAAAA-
1 TATAAAAAT
89114391 -ATAAAAAT
1 TATAAAAAT
*
89114399 T-TAAATAT
1 TATAAAAAT
*
89114407 TATTAAAA-
1 TATAAAAAT
* *
89114415 TACAAATAT
1 TATAAAAAT
**
89114424 TACTTAATTAT
1 TA--TAAAAAT
89114435 TATAAAAAT
1 TATAAAAAT
89114444 T-TCAAAATAT
1 TAT-AAAA-AT
*
89114454 TAATAAAAACA
1 T-ATAAAAA-T
89114465 TATAAAAA
1 TATAAAAA
89114473 AATTAAAATT
Statistics
Matches: 120, Mismatches: 21, Indels: 41
0.66 0.12 0.23
Matches are distributed among these distances:
7 5 0.04
8 35 0.29
9 41 0.34
10 15 0.12
11 23 0.19
12 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (9 bp):
TATAAAAAT
Found at i:89114362 original size:17 final size:17
Alignment explanation
Indices: 89114302--89114415 Score: 99
Period size: 17 Copynumber: 6.5 Consensus size: 17
89114292 AAATATCAAA
*
89114302 TATAAAAATTTTTAAAAT
1 TATAAAAA-TTTAAAAAT
89114320 TATTAAAAAATTTAAAAAT
1 TA-T-AAAAATTTAAAAAT
89114339 TCA-AAAAATTTAAAAAT
1 T-ATAAAAATTTAAAAAT
*
89114356 TATAAAATAATTAAAATAT
1 TATAAAA-ATTTAAAA-AT
* *
89114375 TATTAAAATTCAAAAA-
1 TATAAAAATTTAAAAAT
*
89114391 -ATAAAAATTTAAATAT
1 TATAAAAATTTAAAAAT
*
89114407 TATTAAAAT
1 TATAAAAAT
89114416 ACAAATATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
15 12 0.15
16 1 0.01
17 27 0.34
18 15 0.19
19 18 0.23
20 6 0.08
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
TATAAAAATTTAAAAAT
Found at i:89114412 original size:43 final size:41
Alignment explanation
Indices: 89114280--89114416 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 41
89114270 GCCATGTTGA
* * *
89114280 TAAAAAATTCAAAAATATC-AAATATAAAAATTTTTAAAATTAT
1 TAAAATATTTAAAAAT-TCAAAAAATAAAAA--TTTAAAATTAT
* *
89114323 TAAAAAATTTAAAAATTCAAAAAATTTAAAAATTATAAAATAAT
1 TAAAATATTTAAAAATTCAAAAAA--TAAAAATT-TAAAATTAT
*
89114367 TAAAATATTATTAAAATTCAAAAAATAAAAATTTAAATATTAT
1 TAAAATATT-TAAAAATTCAAAAAATAAAAATTTAAA-ATTAT
89114410 TAAAATA
1 TAAAATA
89114417 CAAATATTAC
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
42 6 0.07
43 40 0.49
44 16 0.20
45 20 0.24
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (41 bp):
TAAAATATTTAAAAATTCAAAAAATAAAAATTTAAAATTAT
Found at i:89114421 original size:17 final size:17
Alignment explanation
Indices: 89114364--89114430 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
89114354 ATTATAAAAT
*
89114364 AATTAAAATATTATTAA
1 AATTCAAATATTATTAA
* *
89114381 AATTCAAA-A-AATAAA
1 AATTCAAATATTATTAA
*
89114396 AATTTAAATATTATTAA
1 AATTCAAATATTATTAA
*
89114413 AATACAAATATTACTTAA
1 AATTCAAATATTA-TTAA
89114431 TTATTATAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
15 11 0.28
16 2 0.05
17 22 0.56
18 4 0.10
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
AATTCAAATATTATTAA
Found at i:89123394 original size:14 final size:14
Alignment explanation
Indices: 89123375--89123403 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89123365 GAATTAGGTG
89123375 CTGAATTTTTGCCT
1 CTGAATTTTTGCCT
89123389 CTGAATTTTTGCCT
1 CTGAATTTTTGCCT
89123403 C
1 C
89123404 AAGAAACATT
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:0.14, C:0.24, G:0.14, T:0.48
Consensus pattern (14 bp):
CTGAATTTTTGCCT
Found at i:89126761 original size:21 final size:21
Alignment explanation
Indices: 89126735--89126778 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
89126725 AGTTAAGTAT
89126735 TATTTATTTATCATCAAAAAG
1 TATTTATTTATCATCAAAAAG
*
89126756 TATTTATTTATCATTAAAAAG
1 TATTTATTTATCATCAAAAAG
89126777 TA
1 TA
89126779 ACTTTTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (21 bp):
TATTTATTTATCATCAAAAAG
Found at i:89134924 original size:26 final size:24
Alignment explanation
Indices: 89134895--89134973 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
89134885 TAAACTATTC
89134895 TATATGCTATTCATTTTAAA-TTTT
1 TATAT-CTATTCATTTTAAATTTTT
* *
89134919 TATATAATATTCATATTAAATTATTT
1 TATAT-CTATTCATTTTAAATT-TTT
*
89134945 TA-ATACATATT-ATTTTGAATTTTT
1 TATAT-C-TATTCATTTTAAATTTTT
89134969 TATAT
1 TATAT
89134974 TAATTATTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
24 22 0.49
25 14 0.31
26 9 0.20
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (24 bp):
TATATCTATTCATTTTAAATTTTT
Found at i:89134929 original size:24 final size:24
Alignment explanation
Indices: 89134902--89134982 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 24
89134892 TTCTATATGC
89134902 TATTCATTTTAAATTTTTATATAA
1 TATTCATTTTAAATTTTTATATAA
*
89134926 TATTCATATTAAATTATTT-TAATACA
1 TATTCATTTTAAATT-TTTAT-ATA-A
*
89134952 TATT-ATTTTGAATTTTTTATATTAA
1 TATTCATTTT-AAATTTTTATA-TAA
89134977 TTATTC
1 -TATTC
89134983 TACATTGCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
24 15 0.33
25 15 0.33
26 16 0.35
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (24 bp):
TATTCATTTTAAATTTTTATATAA
Found at i:89135303 original size:25 final size:24
Alignment explanation
Indices: 89135258--89135312 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
89135248 TATTAATGAT
* * *
89135258 TTTAAATTTTTTTATATTATTTAC
1 TTTAAATTCTTTTATAGTATTAAC
*
89135282 TTTAAATTGCTTTTATAGTATTAAT
1 TTTAAATT-CTTTTATAGTATTAAC
89135307 TTTAAA
1 TTTAAA
89135313 CCTTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTAAATTCTTTTATAGTATTAAC
Done.