Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 220 of 222
Found at i:69654562 original size:98 final size:98
Alignment explanation
Indices: 69654392--69654586 Score: 266
Period size: 98 Copynumber: 2.0 Consensus size: 98
69654382 ACCCTAAAGG
* * * **
69654392 TTTGTTCGATTAGCTGAAGTTTGGTTGCTCGGTTAATTCGAGAATATTGCTATATTCATTGTTTG
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
* *
69654457 TTGAAGATTATCATAGAATGTGTAGGAGCATGT
66 TTGAAGATGATCATACAATGTGTAGGAGCATGT
* *
69654490 TTTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCACTATATGT-ATTGTTT
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATAT-TCATTGTTT
* * *
69654554 GTTTAAGATGATGATACATTGTGTAGGAGCATG
65 GTTGAAGATGATCATACAATGTGTAGGAGCATG
69654587 CTTTCTTCAG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 83 0.99
99 1 0.01
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.42
Consensus pattern (98 bp):
TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGTTTG
TTGAAGATGATCATACAATGTGTAGGAGCATGT
Found at i:69654805 original size:186 final size:186
Alignment explanation
Indices: 69654491--69655152 Score: 977
Period size: 186 Copynumber: 3.6 Consensus size: 186
69654481 GGAGCATGTT
* * * * *
69654491 TTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCACTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
69654556 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* *
69654621 GAACTGTTTATATGCTGCTTCTGAGTCTGCTGAGGCTGCTCATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* * * ** *
69654677 TTGTTCGGTTAGCTGAAATTCGATTGCTCGTTTAATTTGAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
*
69654742 TTAAGACGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* *
69654807 GAACTGTTTATATGCTGCTTCAGAGTCTATTGAGGCTGCTAATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* * *
69654863 TTGTTCCATTAGCTGAAATTTGACTGCTCGGTTAATTCAAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* * * *
69654928 TTACGATGATGATACATAGTGTAGGAGCATGCTTTCTTCAGTATGAAGCTCATTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* * *
69654993 GAACT-TTCTATATGCTGCTGCTGAGTCTGTTGAGGCTGCTAATCAACCCTAAAGGT
131 GAACTGTT-TATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
* ** * **
69655049 TTGTTCAATTAGCTGAAATTTGATTGCTCAATTAATTCAAGAACATTGCTATATGTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
* * * *
69655114 TTAAGATGATAATACATT-TTTAGTAGCATGTTTTCTTCA
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCA
69655153 TTTAGCTGAA
Statistics
Matches: 430, Mismatches: 45, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
185 20 0.05
186 410 0.95
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (186 bp):
TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATGTATTGTTTGT
TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
GAACTGTTTATATGCTGCTTCTGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
Found at i:69655226 original size:97 final size:97
Alignment explanation
Indices: 69655052--69655228 Score: 241
Period size: 97 Copynumber: 1.8 Consensus size: 97
69655042 TAAAGGTTTG
* *
69655052 TTCAATTAGCTGAAATTTGATTGCTCAATTAATTCAAGAACATTGCTATATGTATTGTTTGTTTA
1 TTCAATTAGCTGAAATTAGATTGCTCAATTAATTCAAGAACATGGCTATATGTATTGTTTGTTTA
69655117 AGATGATAATACATTTTTAGTAGCATGTTTTC
66 AGATGATAATACATTTTTAGTAGCATGTTTTC
* ** * *
69655149 TTCATTTAGCTGAAATTAGATTGCTCGGTTAATTCGAGAATTC-TGGC-ATATTTATTGTTTGTT
1 TTCAATTAGCTGAAATTAGATTGCTCAATTAATTCAAGAA--CATGGCTATATGTATTGTTTGTT
* *
69655212 TAAGGTGATGATACATT
64 TAAGATGATAATACATT
69655229 GTGTAGGAGC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 65 0.94
98 3 0.04
99 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (97 bp):
TTCAATTAGCTGAAATTAGATTGCTCAATTAATTCAAGAACATGGCTATATGTATTGTTTGTTTA
AGATGATAATACATTTTTAGTAGCATGTTTTC
Found at i:69659482 original size:31 final size:31
Alignment explanation
Indices: 69659445--69659505 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
69659435 AAAAAACTTG
69659445 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
1 ACTTAAATAAAAACTTTCAAATAGTTCAGTA
* * *
69659476 ACTTAAATGACAACTTTCGAATAGTTCAGT
1 ACTTAAATAAAAACTTTCAAATAGTTCAGT
69659506 GACCATATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.33
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCAAATAGTTCAGTA
Found at i:69666796 original size:30 final size:30
Alignment explanation
Indices: 69666739--69666796 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
69666729 ACTAAAAAAA
69666739 AAAGGCAAATTAGTCATTATATGTTAAATC
1 AAAGGCAAATTAGTCATTATATGTTAAATC
*
69666769 AAAGAGCAAATT-GATCATT-TTTGTTAAA
1 AAAG-GCAAATTAG-TCATTATATGTTAAA
69666797 ATTTGACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (30 bp):
AAAGGCAAATTAGTCATTATATGTTAAATC
Found at i:69667375 original size:31 final size:31
Alignment explanation
Indices: 69667335--69667410 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
69667325 AAAAGCTCAG
69667335 TATTTAATTTGGTAT-TCGAGTTTAGCTTCAA
1 TATTTAATTTGGTATCT-GAGTTTAGCTTCAA
* *
69667366 TGTTTAATTTGGTATCTGAGTTTGGCTTCAA
1 TATTTAATTTGGTATCTGAGTTTAGCTTCAA
69667397 TATTTAATTTGGTA
1 TATTTAATTTGGTA
69667411 GTCAAACCAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 40 0.98
32 1 0.02
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (31 bp):
TATTTAATTTGGTATCTGAGTTTAGCTTCAA
Found at i:69667584 original size:31 final size:31
Alignment explanation
Indices: 69667517--69667625 Score: 96
Period size: 31 Copynumber: 3.5 Consensus size: 31
69667507 AAAGCGCAAT
* * *
69667517 ATATTCAATTTGGTATTTGAGCTTGGCTTTG
1 ATATTCAATTTGGTACTTGAACTTGACTTTG
* *
69667548 ATATTCAATTTGTTACTTGAATTTGACTTT-
1 ATATTCAATTTGGTACTTGAACTTGACTTTG
* * *
69667578 AGTATTCAATTTAGTACCT-AACGTTTACTTTG
1 A-TATTCAATTTGGTACTTGAAC-TTGACTTTG
* *
69667610 ATGTTCTATTTGGTAC
1 ATATTCAATTTGGTAC
69667626 CAAAACCAAA
Statistics
Matches: 62, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
30 3 0.05
31 58 0.94
32 1 0.02
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.49
Consensus pattern (31 bp):
ATATTCAATTTGGTACTTGAACTTGACTTTG
Found at i:69673639 original size:25 final size:25
Alignment explanation
Indices: 69673587--69673636 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
69673577 AAACCCATTA
* * *
69673587 TATTTTAAAAAATATATATTTATAT
1 TATTTAAAAAAATATAAAATTATAT
69673612 TATTTAAAAAAAT-TAAAATTATAT
1 TATTTAAAAAAATATAAAATTATAT
69673636 T
1 T
69673637 TATATTACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TATTTAAAAAAATATAAAATTATAT
Found at i:69681661 original size:23 final size:23
Alignment explanation
Indices: 69681635--69681732 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
69681625 ATAAGTGCCA
69681635 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
69681658 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
69681681 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
69681703 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
69681726 CACTGAT
1 CACTGAT
69681733 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:69681700 original size:45 final size:45
Alignment explanation
Indices: 69681642--69681730 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
69681632 CCACACTGAT
* *
69681642 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
69681687 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
69681731 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:69689390 original size:13 final size:13
Alignment explanation
Indices: 69689372--69689398 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69689362 TGTAAGATGC
69689372 ATTGTGTTGTTTA
1 ATTGTGTTGTTTA
69689385 ATTGTGTTGTTTA
1 ATTGTGTTGTTTA
69689398 A
1 A
69689399 GAAAGGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.59
Consensus pattern (13 bp):
ATTGTGTTGTTTA
Found at i:69693898 original size:20 final size:20
Alignment explanation
Indices: 69693856--69693898 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
69693846 GCAATCTGAA
*
69693856 TATTTTCTAATAAATTAATT
1 TATTTTCTAATAAATTAAAT
*
69693876 TATTTT-TATTAAATTATAAT
1 TATTTTCTAATAAATTA-AAT
69693896 TAT
1 TAT
69693899 AAAAATATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTTCTAATAAATTAAAT
Found at i:69700232 original size:42 final size:42
Alignment explanation
Indices: 69700186--69700267 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
69700176 ATTAGATCGG
* *
69700186 ACTAATAGGTTGAATCGAGAATTAGTGGTTCAATTAGTGGAA
1 ACTAATAGATTGAATCGAGAATTAGTGGTTCAATCAGTGGAA
*
69700228 ACTAATAGATTGAATCGAGAATTAGTGGTTGAATCAGTGG
1 ACTAATAGATTGAATCGAGAATTAGTGGTTCAATCAGTGG
69700268 TATAAAATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (42 bp):
ACTAATAGATTGAATCGAGAATTAGTGGTTCAATCAGTGGAA
Found at i:69700414 original size:12 final size:12
Alignment explanation
Indices: 69700397--69700422 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69700387 GTAACTAAAG
69700397 AAATGACGTTGT
1 AAATGACGTTGT
69700409 AAATGACGTTGT
1 AAATGACGTTGT
69700421 AA
1 AA
69700423 CGAGCTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (12 bp):
AAATGACGTTGT
Found at i:69700773 original size:57 final size:57
Alignment explanation
Indices: 69700685--69700797 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
69700675 GAAACTACCC
* *
69700685 CGACGACAGGTTCAACACCACAAGGATCAGGGTCGGAATCGGGGTTAACTTATTCGT
1 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCGT
69700742 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCG
1 CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCG
69700798 GGTAATGGCT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (57 bp):
CGACGACAAGTTCAACACCACAAGGATCAGGGTCGGAATCAGGGTTAACTTATTCGT
Found at i:69702814 original size:32 final size:31
Alignment explanation
Indices: 69702732--69702827 Score: 95
Period size: 32 Copynumber: 3.1 Consensus size: 31
69702722 AAACACAATC
* *
69702732 TTTG-AGGGCTTAATGAGAATTTTTCAAAAT
1 TTTGAAGGGCTTAATGAAAATATTTCAAAAT
* ** * * *
69702762 TCTGAAAAGTTTAATAAAAATCTTTCAAAAT
1 TTTGAAGGGCTTAATGAAAATATTTCAAAAT
*
69702793 ATTTGAAGGGCTTAATGAAAATATTTAAAAAT
1 -TTTGAAGGGCTTAATGAAAATATTTCAAAAT
69702825 TTT
1 TTT
69702828 CAGTAATTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
30 3 0.06
31 23 0.46
32 24 0.48
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTGAAGGGCTTAATGAAAATATTTCAAAAT
Found at i:69708297 original size:17 final size:19
Alignment explanation
Indices: 69708260--69708302 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
69708250 TAATCCCAAA
69708260 TTTGGTA-ATTATATCTAT
1 TTTGGTATATTATATCTAT
69708278 TTTGGTATA-TATAT-TAT
1 TTTGGTATATTATATCTAT
*
69708295 TTTAGTAT
1 TTTGGTAT
69708303 CTAAACCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 12 0.52
19 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (19 bp):
TTTGGTATATTATATCTAT
Found at i:69708535 original size:60 final size:59
Alignment explanation
Indices: 69708461--69708578 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 59
69708451 AGTAGTCACC
* * *
69708461 TAACTATTAGTAAA-TTTCATTCTTGGTTACTTAACTATAAAAAATTACAAAATGGTTACT
1 TAACTATCAGTAAATTTTCATT-TTGGTCAC-CAACTATAAAAAATTACAAAATGGTTACT
* * * *
69708521 TAACTATCAGTAAATTTTTATTTTGGTCACCAACTATGAAAAGTTATAAAATGGTTAC
1 TAACTATCAGTAAATTTTCATTTTGGTCACCAACTATAAAAAATTACAAAATGGTTAC
69708579 CCAACTAATC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 24 0.48
60 20 0.40
61 6 0.12
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (59 bp):
TAACTATCAGTAAATTTTCATTTTGGTCACCAACTATAAAAAATTACAAAATGGTTACT
Found at i:69710322 original size:101 final size:99
Alignment explanation
Indices: 69710173--69711102 Score: 851
Period size: 101 Copynumber: 9.3 Consensus size: 99
69710163 AGGAATACAC
* * * * *
69710173 GTGAACTATACATGATCTATACCTGA-TCTTTACATGCTACACACTTGTCTCATGAGATTTGAGG
1 GTGAACTATACATGATCTACACGTGACT-TTTACATCCCACACACTTGTCTCATGAGATTTGA-T
*
69710237 GGCATATAAGCCTCCCATCATAATTGGGGGGAGACAA
64 GGCATATAAGCCTCCCATCATAATT-GAGGGAGACAA
* * * * * *
69710274 GTGAACTATACATGATTTATATGTGACTTTTAAATCCCACTCACTTGTC-CTATGAAATTTGATG
1 GTGAACTATACATGATCTACACGTGACTTTTACATCCCACACACTTGTCTC-ATGAGATTTGATG
* *
69710338 AC-TATAAGCCTTCCATCATAACTTGAGGGAGACAA
65 GCATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
* * * * * * ** *
69710373 ATGAATTCTACATGA-CTTACACGTGACATTTACATGCTC-CACACTTGTCTTACAAGACTTGAT
1 GTGAACTATACATGATC-TACACGTGACTTTTACAT-CCCACACACTTGTCTCATGAGATTTGAT
* *
69710436 GGCTATATAAGCCTCCCATCATAACTTAAGGGAGAAAA
64 GGC-ATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
* * * * * *
69710474 GTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCATGAGATTTGAGGG
1 GTGAACTATACATGATCTACACGTGACTTTTACATCCCACACACTTGTCTCATGAGATTTGA-TG
* *
69710539 GCATATAAGCCTCCCATCATAATTAGGGGGAGACAT
65 GCATATAAGCCTCCCATCATAATT-GAGGGAGACAA
* * * * * * *
69710575 GTGGACTATACACGATCTGCACGTGACTTTTACATACTACACACTTGTAC-CATGCGATTTGAGG
1 GTGAACTATACATGATCTACACGTGACTTTTACATCCCACACACTTGT-CTCATGAGATTTGA-T
69710639 GGCATATAAGCCTCCCATCATAATT-AGGAGGAGACAA
64 GGCATATAAGCCTCCCATCATAATTGA-G-GGAGACAA
* * *
69710676 GTGGACTATACATGATCTACACGTGACTTTTAAATCCCACACACTTGTCTTATGAGATTTGATGG
1 GTGAACTATACATGATCTACACGTGACTTTTACATCCCACACACTTGTCTCATGAGATTTGATGG
*
69710741 C-TATAAGCCTCCCATCATAGTTTGAGGGAGACAA
66 CATATAAGCCTCCCATCATA-ATTGAGGGAGACAA
* * * * * * * * *
69710775 ATGAACTATACACGA-CTTACATGTGGCTTTTTCATGCTC-CACACTTGTCTGATAAGACTTGAT
1 GTGAACTATACATGATC-TACACGTGACTTTTACAT-CCCACACACTTGTCTCATGAGATTTGAT
*
69710838 GGCTATATCAGCCTCCCATCATAACTTGAGGGAGACAA
64 GGC-ATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
** * * * * * * *
69710876 GTGAACTATACACAATCTACATGTGACCTTTACATGCTC-CACACTTGTCCCACGGGATTTGAAG
1 GTGAACTATACATGATCTACACGTGACTTTTACAT-CCCACACACTTGTCTCATGAGATTTGATG
* ** * *
69710940 AGCATATAAGGCTCTTATTATAATCAGAGGGAGACAA
65 -GCATATAAGCCTCCCATCATAAT-TGAGGGAGACAA
* * * * *
69710977 GTGGACAATACATGATCTGCATGTGACTTTTACA-CGCCACACACTTGTC-CTACGAGATTTGAT
1 GTGAACTATACATGATCTACACGTGACTTTTACATC-CCACACACTTGTCTC-ATGAGATTTGAT
*
69711040 GGCTATATAAACCTCCCATCATAATTTGAGGGAGACAA
64 GGC-ATATAAGCCTCCCATCATAA-TTGAGGGAGACAA
*
69711078 GTGAACTATACATAATCTACACGTG
1 GTGAACTATACATGATCTACACGTG
69711103 GCCTTTTCAT
Statistics
Matches: 682, Mismatches: 116, Indels: 62
0.79 0.13 0.07
Matches are distributed among these distances:
98 1 0.00
99 150 0.22
100 24 0.04
101 498 0.73
102 9 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (99 bp):
GTGAACTATACATGATCTACACGTGACTTTTACATCCCACACACTTGTCTCATGAGATTTGATGG
CATATAAGCCTCCCATCATAATTGAGGGAGACAA
Found at i:69710748 original size:301 final size:299
Alignment explanation
Indices: 69710173--69711115 Score: 1042
Period size: 301 Copynumber: 3.1 Consensus size: 299
69710163 AGGAATACAC
* * * *
69710173 GTGAACTATACATGATCTATACCTGATCTTTACATGCTACACACTTGTCTCATGAGATTTGAGGG
1 GTGAACTATACACGATCTACACGTGACCTTTACATGCTACACACTTGTCTCATGAGATTTGAGGG
* * *
69710238 GCATATAAGCCTCCCATCATAATTGGGGGGAGACAAGTGAACTATACATGATTTATATGTGACTT
66 GCATATAAGCCTCCCATCATAATT-GGGGGAGACAAGTGAACTATACACGATCTACATGTGACTT
* * * * * * * *
69710303 TTAAATCCCACTCACTTGTCCTATGAAATTTGATGAC-TATAAGCCTTCCATCATAACTT-GAGG
130 TTACATACTACACACTTGTCC-ATGAGATTTGAGGGCATATAAGCCTCCCATCATAA-TTAGAGG
* * * * * * *
69710366 GAGACAAATGAATTCTACATGA-CTTACACGTGACATTTACATGCTC-CACACTTGTCTTACAAG
193 GAGACAAGTGGACTATACATGATC-TACACGTGACTTTTACAT-CCCACACACTTGTCTTACGAG
* * *
69710429 ACTTGATGGCTATATAAGCCTCCCATCATAACTTAAGGGAGAAAA
256 ATTTGATGGC-ATATAAGCCTCCCATCATAATTTGAGGGAGAAAA
* *
69710474 GTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCATGAGATTTGAGGG
1 GTGAACTATACACGATCTACACGTGACCTTTACATGCTACACACTTGTCTCATGAGATTTGAGGG
* * * *
69710539 GCATATAAGCCTCCCATCATAATTAGGGGGAGACATGTGGACTATACACGATCTGCACGTGACTT
66 GCATATAAGCCTCCCATCATAATT-GGGGGAGACAAGTGAACTATACACGATCTACATGTGACTT
*
69710604 TTACATACTACACACTTGTACCATGCGATTTGAGGGGCATATAAGCCTCCCATCATAATTAG-GA
130 TTACATACTACACACTTGT-CCATGAGATTTGA-GGGCATATAAGCCTCCCATCATAATTAGAG-
* *
69710668 GGAGACAAGTGGACTATACATGATCTACACGTGACTTTTAAATCCCACACACTTGTCTTATGAGA
192 GGAGACAAGTGGACTATACATGATCTACACGTGACTTTTACATCCCACACACTTGTCTTACGAGA
*
69710733 TTTGATGGC-TATAAGCCTCCCATCATAGTTTGAGGGAGACAAA
257 TTTGATGGCATATAAGCCTCCCATCATAATTTGAGGGAGA-AAA
* * * * * * * * *
69710776 -TGAACTATACACGA-CTTACATGTGGCTTTTTCATGCTCCACACTTGTCTGATAAGACTTGA-T
1 GTGAACTATACACGATC-TACACGTGACCTTTACATGCTACACACTTGTCTCATGAGATTTGAGG
* * *
69710838 GGCTATATCAGCCTCCCATCATAACTTGAGGGAGACAAGTGAACTATACACAATCTACATGTGAC
65 GGC-ATATAAGCCTCCCATCATAA-TTGGGGGAGACAAGTGAACTATACACGATCTACATGTGAC
* * * * * * * ** * *
69710903 CTTTACATGCTCCACACTTGTCCCACGGGATTTGAAGAGCATATAAGGCTCTTATTATAATCAGA
128 TTTTACATACTACACACTTGT-CCATGAGATTTG-AGGGCATATAAGCCTCCCATCATAATTAGA
* * * *
69710968 GGGAGACAAGTGGACAATACATGATCTGCATGTGACTTTTACA-CGCCACACACTTGTCCTACGA
191 GGGAGACAAGTGGACTATACATGATCTACACGTGACTTTTACATC-CCACACACTTGTCTTACGA
* *
69711032 GATTTGATGGCTATATAAACCTCCCATCATAATTTGAGGGAGACAA
255 GATTTGATGGC-ATATAAGCCTCCCATCATAATTTGAGGGAGAAAA
** * *
69711078 GTGAACTATACATAATCTACACGTGGCCTTTTCATGCT
1 GTGAACTATACACGATCTACACGTGACCTTTACATGCT
69711116 CCGCACTTAT
Statistics
Matches: 545, Mismatches: 79, Indels: 34
0.83 0.12 0.05
Matches are distributed among these distances:
300 5 0.01
301 383 0.70
302 18 0.03
303 137 0.25
304 2 0.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (299 bp):
GTGAACTATACACGATCTACACGTGACCTTTACATGCTACACACTTGTCTCATGAGATTTGAGGG
GCATATAAGCCTCCCATCATAATTGGGGGAGACAAGTGAACTATACACGATCTACATGTGACTTT
TACATACTACACACTTGTCCATGAGATTTGAGGGCATATAAGCCTCCCATCATAATTAGAGGGAG
ACAAGTGGACTATACATGATCTACACGTGACTTTTACATCCCACACACTTGTCTTACGAGATTTG
ATGGCATATAAGCCTCCCATCATAATTTGAGGGAGAAAA
Found at i:69710896 original size:402 final size:400
Alignment explanation
Indices: 69710201--69711102 Score: 1257
Period size: 402 Copynumber: 2.2 Consensus size: 400
69710191 ATACCTGATC
*
69710201 TTTACATGCTACACACTTGTCTCATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATTGGGG
1 TTTACATGCTACACACTTGTC-CATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATT-GGA
* * * *
69710266 GGAGACAAGTGAACTATACATGATTTATATGTGACTTTTAAATCCCACTCACTTGTCCTATGAAA
64 GGAGACAAGTGAACTATACATGATCTACACGTGACTTTTAAATCCCACACACTTGTCCTATGAAA
* * * *
69710331 TTTGATGACTATAAGCCTTCCATCATAACTTGAGGGAGACAAATGAATTCTACATGACTTACACG
129 TTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACAAATGAACTATACACGACTTACACG
*
69710396 TGACATTTACATGCTCCACACTTGTCTTACAAGACTTGATGGCTATATAAGCCTCCCATCATAAC
194 TGACATTTACATGCTCCACACTTGTCTGACAAGACTTGATGGCTATATAAGCCTCCCATCATAAC
* *
69710461 TTAAGGGAGAAAAGTGAACTATACACGATCTACACGTGACCTTTACATACTACACACTTGTATCA
259 TTAAGGGAGAAAAGTGAACTATACACAATCTACACGTGACCTTTACATACTACACACTTGTACCA
* * * * * * *
69710526 TGAGATTTGAGGGGCATATAAGCCTCCCATCATAATTAGGGGGAGACATGTGGACTATACACGAT
324 CGAGATTTGAAGAGCATATAAGCCTCCCATCATAATCAGAGGGAGACAAGTGGACAATACACGAT
69710591 CTGCACGTGACT
389 CTGCACGTGACT
* *
69710603 TTTACATACTACACACTTGTACCATGCGATTTGAGGGGCATATAAGCCTCCCATCATAATTAGGA
1 TTTACATGCTACACACTTGT-CCATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATT-GGA
* * *
69710668 GGAGACAAGTGGACTATACATGATCTACACGTGACTTTTAAATCCCACACACTTGTCTTATGAGA
64 GGAGACAAGTGAACTATACATGATCTACACGTGACTTTTAAATCCCACACACTTGTCCTATGAAA
* ** *
69710733 TTTGATGGCTATAAGCCTCCCATCATAGTTTGAGGGAGACAAATGAACTATACACGACTTACATG
129 TTTGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACAAATGAACTATACACGACTTACACG
* * * * *
69710798 TGGCTTTTTCATGCTCCACACTTGTCTGATAAGACTTGATGGCTATATCAGCCTCCCATCATAAC
194 TGACATTTACATGCTCCACACTTGTCTGACAAGACTTGATGGCTATATAAGCCTCCCATCATAAC
* * * * * *
69710863 TTGAGGGAGACAAGTGAACTATACACAATCTACATGTGACCTTTACATGCTCCACACTTGTCCCA
259 TTAAGGGAGAAAAGTGAACTATACACAATCTACACGTGACCTTTACATACTACACACTTGTACCA
* * ** * *
69710928 CGGGATTTGAAGAGCATATAAGGCTCTTATTATAATCAGAGGGAGACAAGTGGACAATACATGAT
324 CGAGATTTGAAGAGCATATAAGCCTCCCATCATAATCAGAGGGAGACAAGTGGACAATACACGAT
*
69710993 CTGCATGTGACT
389 CTGCACGTGACT
* * * * * *
69711005 TTTACACGCCACACACTTGTCCTACGAGATTTGA-TGGCTATATAAACCTCCCATCATAATTTGA
1 TTTACATGCTACACACTTGTCC-ATGAGATTTGAGGGGC-ATATAAGCCTCCCATCATAATTGGA
*
69711069 GGGAGACAAGTGAACTATACATAATCTACACGTG
64 -GGAGACAAGTGAACTATACATGATCTACACGTG
69711103 GCCTTTTCAT
Statistics
Matches: 439, Mismatches: 57, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
401 7 0.02
402 431 0.98
403 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (400 bp):
TTTACATGCTACACACTTGTCCATGAGATTTGAGGGGCATATAAGCCTCCCATCATAATTGGAGG
AGACAAGTGAACTATACATGATCTACACGTGACTTTTAAATCCCACACACTTGTCCTATGAAATT
TGATGACTATAAGCCTCCCATCATAACTTGAGGGAGACAAATGAACTATACACGACTTACACGTG
ACATTTACATGCTCCACACTTGTCTGACAAGACTTGATGGCTATATAAGCCTCCCATCATAACTT
AAGGGAGAAAAGTGAACTATACACAATCTACACGTGACCTTTACATACTACACACTTGTACCACG
AGATTTGAAGAGCATATAAGCCTCCCATCATAATCAGAGGGAGACAAGTGGACAATACACGATCT
GCACGTGACT
Found at i:69715323 original size:16 final size:16
Alignment explanation
Indices: 69715290--69715323 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69715280 AGATTTTGTT
* *
69715290 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
69715306 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
69715322 AA
1 AA
69715324 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:69718149 original size:21 final size:21
Alignment explanation
Indices: 69718123--69718163 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
69718113 AGACGAGCAA
* *
69718123 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
69718144 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
69718164 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:69720101 original size:16 final size:16
Alignment explanation
Indices: 69720068--69720101 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69720058 GGAGATTGTT
* *
69720068 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
69720084 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
69720100 AA
1 AA
69720102 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:69733701 original size:16 final size:16
Alignment explanation
Indices: 69733682--69733725 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
69733672 TTTTATCGAG
* *
69733682 TCATTTTAGGTTTGAA
1 TCATTTTGGGTTTCAA
*
69733698 TCATTTCGGGTTTCAA
1 TCATTTTGGGTTTCAA
69733714 TCATTTTGGGTT
1 TCATTTTGGGTT
69733726 ATTTGTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.50
Consensus pattern (16 bp):
TCATTTTGGGTTTCAA
Found at i:69735951 original size:21 final size:24
Alignment explanation
Indices: 69735926--69735972 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
69735916 AAAATAAAAG
*
69735926 TATTTT-T-AAAATAA-TATTTTT
1 TATTTTATAAAAATAATTAATTTT
69735947 TATTTTATAAAAATAATTAATTTT
1 TATTTTATAAAAATAATTAATTTT
69735971 TA
1 TA
69735973 GTAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 1 0.05
23 7 0.32
24 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTTATAAAAATAATTAATTTT
Found at i:69736972 original size:16 final size:16
Alignment explanation
Indices: 69736942--69736975 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
69736932 ACAAAAAAAA
*
69736942 ATCTAAATTTAAAATG
1 ATCTAAATTCAAAATG
69736958 ATCTAAATTCAAAATG
1 ATCTAAATTCAAAATG
69736974 AT
1 AT
69736976 TCGAATAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (16 bp):
ATCTAAATTCAAAATG
Found at i:69738949 original size:19 final size:19
Alignment explanation
Indices: 69738904--69738951 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
69738894 CAAGATTTAT
*
69738904 ATTTTTAAAAAATATAAAA
1 ATTTTAAAAAAATATAAAA
* *
69738923 ATTCTTAAAAAAATTTTAAA
1 ATT-TTAAAAAAATATAAAA
69738943 ATTTTAAAA
1 ATTTTAAAA
69738952 TTTTTCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
ATTTTAAAAAAATATAAAA
Found at i:69744936 original size:27 final size:26
Alignment explanation
Indices: 69744885--69744937 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
69744875 ACTCTCTCTT
*
69744885 TTTCTCTTTATTTTCCATTATCTTCTG
1 TTTCTCTTTATTTTCCA-TACCTTCTG
69744912 TTTCTCTTTCTATTTTCC-TACCTTCT
1 TTTCTC-TT-TATTTTCCATACCTTCT
69744938 CCATATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 13 0.57
28 2 0.09
29 8 0.35
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTCTCTTTATTTTCCATACCTTCTG
Found at i:69751363 original size:31 final size:30
Alignment explanation
Indices: 69751305--69751363 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
69751295 TTAATTTATT
* *
69751305 ATTTGGTATCTGATTTGAATTCGATGTTCA
1 ATTTGGTACCTGATTTGAATTCAATGTTCA
**
69751335 ATTTGGTACCTAGATTTGGTTTCAATGTT
1 ATTTGGTACCT-GATTTGAATTCAATGTT
69751364 GGTACCGAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.47
Consensus pattern (30 bp):
ATTTGGTACCTGATTTGAATTCAATGTTCA
Found at i:69751380 original size:21 final size:21
Alignment explanation
Indices: 69751331--69751398 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
69751321 GAATTCGATG
* *
69751331 TTCAATTTGGTACCTAGATTTGGT
1 TTCAATTTGGTA-CTCGAGTT--T
69751355 TTCAATGTTGGTAC-CGAGTTT
1 TTCAAT-TTGGTACTCGAGTTT
*
69751376 TTCAATTTGGTACTTGAGTTT
1 TTCAATTTGGTACTCGAGTTT
69751397 TT
1 TT
69751399 TTTTTCCCTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.18
21 15 0.38
23 4 0.10
24 7 0.18
25 6 0.15
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.49
Consensus pattern (21 bp):
TTCAATTTGGTACTCGAGTTT
Found at i:69753202 original size:24 final size:23
Alignment explanation
Indices: 69753171--69753216 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
69753161 ACATCCCTAG
69753171 AATAAACAGAG-TTAGACTAGGAA
1 AATAAACAGAGTTTA-ACTAGGAA
69753194 AATATAACAGAGTTTAACTAGGA
1 AATA-AACAGAGTTTAACTAGGA
69753217 GAAGAAACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.19
24 14 0.67
25 3 0.14
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.22
Consensus pattern (23 bp):
AATAAACAGAGTTTAACTAGGAA
Found at i:69764890 original size:20 final size:19
Alignment explanation
Indices: 69764865--69764902 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
69764855 TTAACATTTT
69764865 TTAATTTTTTATATATAAAG
1 TTAATTTTTTATAT-TAAAG
69764885 TTAATTTTTTATATTAAA
1 TTAATTTTTTATATTAAA
69764903 ATAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTAATTTTTTATATTAAAG
Found at i:69767515 original size:197 final size:194
Alignment explanation
Indices: 69766988--69767650 Score: 934
Period size: 194 Copynumber: 3.4 Consensus size: 194
69766978 ATTCTTTATA
* * *
69766988 TAATTCTGGTCACTAACATA-ATCAATTATTAGTTTTTTAGAATGATCAATAGAGGCATGAAGTT
1 TAATTCTGGTCAATAACA-ACATCAATTATTAG-TGTTTAGAATGATCAATAGAGGAATGAAGTT
* *
69767052 TTTTGCTTGGTTTGTGCTTTGTTGTACCTTCTCAGGGCTGCTATAAGTAGTTTTGTTCTTGTGTG
64 TTTTGCTTGGTTTGTGCTTTGTT-TACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
*
69767117 TTTATGTTGAAGTTATTTGTTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGT
128 TTTATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGT
69767182 GG
193 GG
* * * *
69767184 TAGTTCTGGTCCATAGCAACATCAATTATTAGTGATTA-AATGATCAATAGAGGAATGAAGTTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
* * *
69767248 TTGCTTGGTTTGTGCTTTTTTTTACCTTGTCAGGGCTGCCATAAGGAGTTCTGTTCTTGTGTGTT
66 TTGCTTGGTTTGTGC-TTTGTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTT
* *
69767313 TATGTTGAAGTTATATGCTGTAATTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
130 TATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
* ** *
69767378 TAATCCCAGTCAATAACAACATCAATTATTAGAGTTTAGAATATGATCAATAGAGGAATGAAGTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAG-A-ATGATCAATAGAGGAATGAAGTT
* *
69767443 TTTTGCTCGGTTTGTGCTTCGTTTCACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
64 TTTTGCTTGGTTTGTGCTTTGTTT-ACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTG
* * * * * * *
69767508 TTTATGTTGAAGTTATTTGCTGTAACTATACAGTTCGTTTGTCGGTCTAAGCATATCAACCATAT
128 TTTATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGT
69767573 GG
193 GG
** * * * *
69767575 TAATTCTGGTCAATAATGACATCAATTATTACTGTTTCGAATGACCAGTAGAGGAATGAAGTTTT
1 TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
*
69767640 TTTCTTGGTTT
66 TTGCTTGGTTT
69767651 ATGTATGTTT
Statistics
Matches: 412, Mismatches: 49, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
194 171 0.42
195 42 0.10
196 33 0.08
197 166 0.40
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (194 bp):
TAATTCTGGTCAATAACAACATCAATTATTAGTGTTTAGAATGATCAATAGAGGAATGAAGTTTT
TTGCTTGGTTTGTGCTTTGTTTACCTTGTCAGGGCTGCTATAAGGAGTTTTGTTCTTGTGTGTTT
ATGTTGAAGTTATTTGCTGTAACTATATAGTTCATTTATTGTTTTAAGCATATCAACCATGTGG
Found at i:69786309 original size:32 final size:32
Alignment explanation
Indices: 69786259--69786319 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
69786249 GTCTAATCCG
*
69786259 AATTTAAAATGATATGAACCTT-AAATGACTCA
1 AATTCAAAATGATATGAA-CTTGAAATGACTCA
69786291 AATTCAAAATGACT-TGAACTTGAAATGAC
1 AATTCAAAATGA-TATGAACTTGAAATGAC
69786320 CCTTGTATCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 3 0.12
32 22 0.85
33 1 0.04
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (32 bp):
AATTCAAAATGATATGAACTTGAAATGACTCA
Found at i:69786499 original size:16 final size:16
Alignment explanation
Indices: 69786463--69786493 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69786453 AAACTCTGAT
69786463 AATTTGAATCCAAAAC
1 AATTTGAATCCAAAAC
*
69786479 AATTTGAATCTAAAA
1 AATTTGAATCCAAAA
69786494 TGATTTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (16 bp):
AATTTGAATCCAAAAC
Found at i:69786541 original size:16 final size:16
Alignment explanation
Indices: 69786520--69786555 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
69786510 TCAAAATTCA
69786520 AAATTAACCTCAATCT
1 AAATTAACCTCAATCT
* *
69786536 AAATTAACTTTAATCT
1 AAATTAACCTCAATCT
69786552 AAAT
1 AAAT
69786556 AAATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTAACCTCAATCT
Found at i:69788498 original size:169 final size:169
Alignment explanation
Indices: 69788167--69788508 Score: 560
Period size: 169 Copynumber: 2.0 Consensus size: 169
69788157 ATAGTCACTT
* *
69788167 AATTATTAATAATTATTTTATTTAAACTTATTTATGAAAAATTATAAAAAAATTATCTAACTATT
1 AATTATTAATAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAAAAATCATCTAACTATT
* * *
69788232 AATAAATTTCTTTTTTATATCACCAAATTATGAAAAATTACAAGATGTTCACCTAATATTCAATT
66 AATAAATTTCTTTTTTATATCACCAAACTATGAAAAATTACAAAATGGTCACCTAATATTCAATT
*
69788297 CTAACTTTTTTTATCAACAACTTGCTAACGTGCTTTTTAA
131 CTAACTTTTTTTATCAACAACTTACTAACGTGC-TTTTAA
* **
69788337 AATTATTAGTAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAATGATCATCTAACTATT
1 AATTATTAATAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAAAAATCATCTAACTATT
* *
69788402 AGTAAATTTC-TTTTTATATCACCAAACTATGAAAAGTTACAAAATGGTCACCTAATATTCAATT
66 AATAAATTTCTTTTTTATATCACCAAACTATGAAAAATTACAAAATGGTCACCTAATATTCAATT
*
69788466 CTATCTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
131 CTAACTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
69788505 AATT
1 AATT
69788509 GGCATTGTAG
Statistics
Matches: 160, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
168 10 0.06
169 81 0.51
170 69 0.43
ACGTcount: A:0.40, C:0.13, G:0.05, T:0.43
Consensus pattern (169 bp):
AATTATTAATAATTATTTTATTCAAACTTATTTATGAAAAATTATAAAAAAATCATCTAACTATT
AATAAATTTCTTTTTTATATCACCAAACTATGAAAAATTACAAAATGGTCACCTAATATTCAATT
CTAACTTTTTTTATCAACAACTTACTAACGTGCTTTTAA
Found at i:69793168 original size:8 final size:9
Alignment explanation
Indices: 69793141--69793165 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
69793131 TTTTTATTTC
69793141 AAATTTTTA
1 AAATTTTTA
69793150 AAATTTTTA
1 AAATTTTTA
69793159 AAATTTT
1 AAATTTT
69793166 AAATTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AAATTTTTA
Found at i:69795534 original size:46 final size:46
Alignment explanation
Indices: 69795481--69795611 Score: 246
Period size: 46 Copynumber: 2.9 Consensus size: 46
69795471 TACCCGTTAC
69795481 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
69795527 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
*
69795573 AAGCCCAATCTGAACCAACCCAAACCCAAGA-CCAAAACA
1 AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACA
69795612 CACCTAACCC
Statistics
Matches: 84, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
45 8 0.10
46 76 0.90
ACGTcount: A:0.45, C:0.40, G:0.10, T:0.05
Consensus pattern (46 bp):
AAGCCCAATCTGAACCAGCCCAAACCCAAGACCCAAAACAGACCCA
Found at i:69802286 original size:15 final size:15
Alignment explanation
Indices: 69802266--69802295 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
69802256 TGACAGAATA
69802266 ATTAAATAGAGACAC
1 ATTAAATAGAGACAC
69802281 ATTAAATAGAGACAC
1 ATTAAATAGAGACAC
69802296 CTGGAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
ATTAAATAGAGACAC
Found at i:69802383 original size:66 final size:66
Alignment explanation
Indices: 69802306--69802492 Score: 286
Period size: 66 Copynumber: 2.8 Consensus size: 66
69802296 CTGGAATGTA
*
69802306 ATGTATTAATTTTGATCTAATGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCATGGT
1 ATGTATTAATTTTGATCTAATGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCACGGT
69802371 G
66 G
* * *
69802372 ATGTATTAATTTTGATCTAACGTATAAGAATTAATTTGTCAGTTTTTTAACAGGTAACTCACGGT
1 ATGTATTAATTTTGATCTAATGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCACGGT
69802437 G
66 G
* * *
69802438 ATGTATTATTTTTTATCTAACT-TATAAGAATTAATTTGTCAATTTTTTAGATAGA
1 ATGTATTAATTTTGATCTAA-TGTATAAGAATTAATTTGTCAGTTTTTTA-ATAGA
69802493 GAAAATAAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
66 106 0.97
67 3 0.03
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (66 bp):
ATGTATTAATTTTGATCTAATGTATAAGAATTAATTTGTCAGTTTTTTAATAGATAACTCACGGT
G
Found at i:69805363 original size:350 final size:351
Alignment explanation
Indices: 69804703--69805405 Score: 1051
Period size: 350 Copynumber: 2.0 Consensus size: 351
69804693 TTTGCCTAAG
* * *
69804703 CTTTAGCCACTACTAAAGACGGATTACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGTTAT
1 CTTTAGCCACTACCAAAGACGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTAT
* *
69804768 ACTCTATAGTTTTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATT
66 ACTATATAGTTCTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATT
* * * *
69804833 TCTATATCTAATGTTTGCTGGTTGATCATGAGACTTCGATTGGGACTTAAGGGGTTAGTTTTGCT
131 TCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGATTAGGACTTAAGGAGTTAGCTTTGCT
* * *
69804898 TATATAGAAACTCGGGGAAATTTTGATGGTTGTTTCTGCTGAAATCATACCTATTTCAGCCATTT
196 TATAAAGAAACTCGGGGAAATTTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTT
* * *
69804963 TATTTATTGATTTCCTAGCTTGTGATTTTTTTGCTCCGTTGTAGATTTTCCTATGCAGAATTCTG
261 TATTTATTGATTTCCTAGCTTGTGATTATTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATG
* * *
69805028 CTAGGTGGTTGAGTTTCCTCGTAGAA
326 CTAGGTGGTCGAGATTCATCGTAGAA
*
69805054 CTTTAGCCACTACCAATA-ATGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTA
1 CTTTAGCCACTACCAA-AGACGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTA
* * *
69805118 TACTATATAG-TCTTGGATGATGACAATCTATGGAAGTAATTGTGAGTAAATTCTCATGATGTAT
65 TACTATATAGTTCTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATAT
69805182 TTCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGA-TAGGACTT-AGGAGTTAGACTTT-
130 TTCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGATTAGGACTTAAGGAGTTAG-CTTTG
69805244 CTTATAAAGAAACTCTGGGGAAA-TTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCA
194 CTTATAAAGAAACTC-GGGGAAATTTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCA
* * * *
69805308 TTTTATTTGTTGATTTCGTAGCTTGTGA-TATTTTGCTCTGTTGTCGATTATTTTCCTACGCAGA
258 TTTTATTTATTGATTTCCTAGCTTGTGATTATTTTGCTCCGTTGT--A-GATTTTCCTACGCAGA
* *
69805372 ATTATGTTAGGTGGTCGAGATTCATTGTAGAA
320 ATTATGCTAGGTGGTCGAGATTCATCGTAGAA
69805404 CT
1 CT
69805406 ATAGGGTTGA
Statistics
Matches: 318, Mismatches: 28, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
347 14 0.04
348 87 0.27
349 18 0.06
350 131 0.41
351 67 0.21
352 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (351 bp):
CTTTAGCCACTACCAAAGACGGATCACTAAGCTTTAGCCCTTACCTCGAAGTAATTTAAGGCTAT
ACTATATAGTTCTTGGATGATGACAAGCTATGGAAGTAATTGCGAGTAAATTCTCATGATATATT
TCTATATATAATGTTTGCTGGTTGATCATGAGACTTCGATTAGGACTTAAGGAGTTAGCTTTGCT
TATAAAGAAACTCGGGGAAATTTTGATGGTTGTTTCTGCTGAAATCAAACATATTTCAGCCATTT
TATTTATTGATTTCCTAGCTTGTGATTATTTTGCTCCGTTGTAGATTTTCCTACGCAGAATTATG
CTAGGTGGTCGAGATTCATCGTAGAA
Found at i:69810696 original size:18 final size:19
Alignment explanation
Indices: 69810673--69810718 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
69810663 GGTTTTGGGA
*
69810673 TTTTTTAA-TGTAACTTTT
1 TTTTTTAAGTGTAAATTTT
69810691 TTTTTTAAGTTGTAAATTTT
1 TTTTTTAAG-TGTAAATTTT
69810711 TATTTTTA
1 T-TTTTTA
69810719 TATGGATGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 8 0.33
20 10 0.42
21 6 0.25
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTTTAAGTGTAAATTTT
Found at i:69817569 original size:18 final size:18
Alignment explanation
Indices: 69817546--69817602 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
69817536 CTTCAGATTC
69817546 AAGGTTTATATCGAATTT
1 AAGGTTTATATCGAATTT
* **
69817564 AAGGTTTGAGTTTAAAATTT
1 AAGGTTT-A-TATCGAATTT
**
69817584 AAGACTTATATCGAATTT
1 AAGGTTTATATCGAATTT
69817602 A
1 A
69817603 TATCAAATTT
Statistics
Matches: 29, Mismatches: 8, Indels: 4
0.71 0.20 0.10
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 12 0.41
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (18 bp):
AAGGTTTATATCGAATTT
Found at i:69818976 original size:75 final size:75
Alignment explanation
Indices: 69818844--69819145 Score: 462
Period size: 75 Copynumber: 4.0 Consensus size: 75
69818834 AGCATTCATG
* * * * ** * * * *
69818844 TTTTGGGGTGGTTGCCGTCGTTGATATGGGAACTGGGGTGCTGACCTAACTGTCTCTCTCGTATT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
69818909 CTGGCCCATA
66 CTGGCCCATA
*
69818919 TTTTGTGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
69818984 CTGGCCCATA
66 CTGGCCCATA
69818994 TTTTGAGGTGGTTGCCGTGGTGGAT-TATGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTAT
1 TTTTGAGGTGGTTGCCGTGGTGGATAT-TGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTAT
*
69819058 CCTGGCCCATA
65 TCTGGCCCATA
* *
69819069 TTTTGAGGTGGTTGCCGTGGTGGATTTTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTACT
1 TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
69819134 CTGGCCCATA
66 CTGGCCCATA
69819144 TT
1 TT
69819146 AGGTTGTTCC
Statistics
Matches: 211, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
74 1 0.00
75 209 0.99
76 1 0.00
ACGTcount: A:0.15, C:0.21, G:0.29, T:0.35
Consensus pattern (75 bp):
TTTTGAGGTGGTTGCCGTGGTGGATATTGGAACCAGGGTTCTGACCTGACTGACTCTCTTGTATT
CTGGCCCATA
Found at i:69841075 original size:6 final size:6
Alignment explanation
Indices: 69841064--69841088 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
69841054 CTTGATTTCT
69841064 TATATG TATATG TATATG TATATG T
1 TATATG TATATG TATATG TATATG T
69841089 GCCTTCAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:69847357 original size:67 final size:67
Alignment explanation
Indices: 69847245--69847380 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
69847235 TGTTCAAGTG
*
69847245 CTTTAGATGTTGATGACTGAAAGCTTTTAGGTGTCACTTTCGTAATCATTAAGGTTCTCAAAACA
1 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTTCGTAATCATTAAGGTTCTCAAAACA
69847310 TA
66 TA
69847312 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTAT-GTAATCATTAAGGTTCTCAAAAC
1 CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTT-TCGTAATCATTAAGGTTCTCAAAAC
69847376 ATA
65 ATA
69847379 CT
1 CT
69847381 ATGGGAGATT
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 66 0.99
68 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (67 bp):
CTTTAGATGTGGATGACTGAAAGCTTTTAGGTGTCACTTTCGTAATCATTAAGGTTCTCAAAACA
TA
Found at i:69851324 original size:2 final size:2
Alignment explanation
Indices: 69851317--69851348 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
69851307 TCAGTGTTAA
69851317 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
69851349 TAAACATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:69855951 original size:31 final size:30
Alignment explanation
Indices: 69855916--69856006 Score: 80
Period size: 31 Copynumber: 3.0 Consensus size: 30
69855906 TTAGTACTTG
69855916 AATTTTGTTTCAATATTCAATTTGGTACCTA
1 AATTTTGTTT-AATATTCAATTTGGTACCTA
* *
69855947 AATTTTGTTT--TGTCTCAATTTGGTATCTA
1 AATTTTGTTTAATAT-TCAATTTGGTACCTA
* * *
69855976 AGTTTGGCTTAAATATTCACA-TTGGTACCTA
1 AATTTTG-TTTAATATTCA-ATTTGGTACCTA
69856007 GATCAAACAA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
28 2 0.04
29 19 0.40
30 2 0.04
31 22 0.46
32 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.47
Consensus pattern (30 bp):
AATTTTGTTTAATATTCAATTTGGTACCTA
Found at i:69860320 original size:50 final size:50
Alignment explanation
Indices: 69860261--69860358 Score: 196
Period size: 50 Copynumber: 2.0 Consensus size: 50
69860251 AGGTAAAACC
69860261 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATGTA
1 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATGTA
69860311 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATG
1 TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATG
69860359 CCCATATTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.21
Consensus pattern (50 bp):
TCCAGCTTAAACACAGCCAGCAGAATAGATTTCTTGCAGACAAAAATGTA
Found at i:69860413 original size:15 final size:15
Alignment explanation
Indices: 69860393--69860424 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
69860383 CAATTTTATC
69860393 CAGTTTTCTTGCAGA
1 CAGTTTTCTTGCAGA
69860408 CAGTTTTCTTGCAGA
1 CAGTTTTCTTGCAGA
69860423 CA
1 CA
69860425 AAAACACAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (15 bp):
CAGTTTTCTTGCAGA
Found at i:69861385 original size:21 final size:21
Alignment explanation
Indices: 69861359--69861411 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
69861349 CGCTGTTTCT
* *
69861359 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACA
*
69861380 AATCTCACTGCTACAGTAACA
1 AATCTCACCGCTACAGTAACA
69861401 AATCTCACCGC
1 AATCTCACCGC
69861412 CACCGCTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.32, C:0.36, G:0.09, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACA
Found at i:69864103 original size:54 final size:57
Alignment explanation
Indices: 69863965--69864107 Score: 184
Period size: 54 Copynumber: 2.5 Consensus size: 57
69863955 CTATTTCCAT
* * *
69863965 ATTGGAGCTTAAACTTTTTTTAGTCCAAGTTAGGCCTTGAACTTGGCGATTATTCCCGC
1 ATTGGAGCTTGAA-TTTTTTT-GTCCAAGTTAGGCCTTGAACTTGACAATTATTCCCGC
* * *
69864024 ATTGGACCTTGAATTTTTTTCTCCAAGTTAGGCC-T-AACTTGACAATTCTTCCC-C
1 ATTGGAGCTTGAATTTTTTTGTCCAAGTTAGGCCTTGAACTTGACAATTATTCCCGC
*
69864078 ATTGGGGCTTGAATTTTTTTGTCCAAGTTA
1 ATTGGAGCTTGAATTTTTTTGTCCAAGTTA
69864108 ATCCTTGATA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
54 28 0.37
55 15 0.20
56 1 0.01
57 13 0.17
58 7 0.09
59 11 0.15
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (57 bp):
ATTGGAGCTTGAATTTTTTTGTCCAAGTTAGGCCTTGAACTTGACAATTATTCCCGC
Found at i:69865883 original size:15 final size:16
Alignment explanation
Indices: 69865858--69865891 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
69865848 AAAATGTAAT
69865858 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
69865874 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
69865889 TTT
1 TTT
69865892 TTAAATGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:69869414 original size:23 final size:23
Alignment explanation
Indices: 69869384--69869431 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
69869374 TTTAGTAGAA
69869384 TAAGTAAAATACAATTTGAGTTT
1 TAAGTAAAATACAATTTGAGTTT
69869407 TAAGTAAAATACAATTTGAGTTT
1 TAAGTAAAATACAATTTGAGTTT
69869430 TA
1 TA
69869432 GTATAAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.40
Consensus pattern (23 bp):
TAAGTAAAATACAATTTGAGTTT
Found at i:69871820 original size:45 final size:45
Alignment explanation
Indices: 69871764--69871853 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
69871754 GTTCAAATTG
69871764 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
1 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
69871809 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
1 AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
69871854 TGAACTACAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (45 bp):
AAATTGAGTTAACATATACTGTAAATGAAATCATCTGCTTGTAAC
Found at i:69876868 original size:18 final size:18
Alignment explanation
Indices: 69876847--69876889 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
69876837 CGTCATTGCT
*
69876847 ATCATCGCCATCATTGTC
1 ATCATCGCCATCATTATC
* *
69876865 ATCATCACCGTCATTATC
1 ATCATCGCCATCATTATC
69876883 ATCATCG
1 ATCATCG
69876890 GACCAGGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.33, G:0.09, T:0.33
Consensus pattern (18 bp):
ATCATCGCCATCATTATC
Found at i:69886246 original size:20 final size:21
Alignment explanation
Indices: 69886221--69886261 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
69886211 GACGAAGCGG
*
69886221 TTTATAA-TTATTTAGTAATT
1 TTTATAATTTATTTACTAATT
69886241 TTTATAATTTATTTACTAATT
1 TTTATAATTTATTTACTAATT
69886262 ATTGAGCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTATAATTTATTTACTAATT
Found at i:69892761 original size:10 final size:10
Alignment explanation
Indices: 69892748--69892781 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
69892738 CAATTTTTTT
69892748 ATTTTTAATA
1 ATTTTTAATA
69892758 ATTTTTAATA
1 ATTTTTAATA
69892768 ATTTTTAATA
1 ATTTTTAATA
69892778 ATTT
1 ATTT
69892782 ATTTAATCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:69895575 original size:49 final size:49
Alignment explanation
Indices: 69895515--69895614 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
69895505 TTTCTGCTTC
69895515 TCCAGCCAAAAAGCAGACATTTTGTGTCACATAATTGAGAAAAATACTT
1 TCCAGCCAAAAAGCAGACATTTTGTGTCACATAATTGAGAAAAATACTT
69895564 TCCAGCCAAAAAGCAGACATTTTGTGTCACATAATTGAGAAAAATACTT
1 TCCAGCCAAAAAGCAGACATTTTGTGTCACATAATTGAGAAAAATACTT
69895613 TC
1 TC
69895615 TCATATATAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (49 bp):
TCCAGCCAAAAAGCAGACATTTTGTGTCACATAATTGAGAAAAATACTT
Found at i:69899545 original size:11 final size:11
Alignment explanation
Indices: 69899529--69899579 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
69899519 AAATCCTCTA
69899529 TAATTTTGAGT
1 TAATTTTGAGT
69899540 TAATTTT-A-T
1 TAATTTTGAGT
* *
69899549 TGATTTATTAGT
1 TAATTT-TGAGT
69899561 ATAATTTTGAGT
1 -TAATTTTGAGT
69899573 TAATTTT
1 TAATTTT
69899580 ATTGATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
9 6 0.18
10 2 0.06
11 15 0.45
12 5 0.15
13 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (11 bp):
TAATTTTGAGT
Found at i:69899564 original size:33 final size:33
Alignment explanation
Indices: 69899527--69899597 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
69899517 TTAAATCCTC
69899527 TATAATTTTGAGTTAATTTTATTGATTTATTAG
1 TATAATTTTGAGTTAATTTTATTGATTTATTAG
69899560 TATAATTTTGAGTTAATTTTATTGATTTATTAG
1 TATAATTTTGAGTTAATTTTATTGATTTATTAG
69899593 TATAA
1 TATAA
69899598 AATCAAATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.56
Consensus pattern (33 bp):
TATAATTTTGAGTTAATTTTATTGATTTATTAG
Found at i:69901569 original size:21 final size:20
Alignment explanation
Indices: 69901545--69901587 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
69901535 TATATACGAG
69901545 TTTTGTTCAAATTATTTTTGA
1 TTTTG-TCAAATTATTTTTGA
*
69901566 TTTTGTCCAATTATTTTTGA
1 TTTTGTCAAATTATTTTTGA
69901586 TT
1 TT
69901588 CTTTATATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.21, C:0.07, G:0.09, T:0.63
Consensus pattern (20 bp):
TTTTGTCAAATTATTTTTGA
Found at i:69921537 original size:26 final size:26
Alignment explanation
Indices: 69921508--69921560 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
69921498 TATACAAAAT
69921508 ATTAAAGAAGAAGAGCACACCAGATA
1 ATTAAAGAAGAAGAGCACACCAGATA
69921534 ATTAAAGAAGAAGAGCACACCAGATA
1 ATTAAAGAAGAAGAGCACACCAGATA
69921560 A
1 A
69921561 CATATAGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.15, G:0.19, T:0.11
Consensus pattern (26 bp):
ATTAAAGAAGAAGAGCACACCAGATA
Found at i:69929128 original size:4 final size:4
Alignment explanation
Indices: 69929119--69929153 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
69929109 AACTTTGGTA
69929119 TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
69929154 AATTCGTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:69930300 original size:46 final size:46
Alignment explanation
Indices: 69930233--69930323 Score: 173
Period size: 46 Copynumber: 2.0 Consensus size: 46
69930223 CTAAAAAAAG
*
69930233 TTATAACTTGATTATTGAATTACTAAAAGTTTTGATTGCACCGATT
1 TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGATT
69930279 TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGAT
1 TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGAT
69930324 CAAAAATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (46 bp):
TTATAACTTGATTATTGAATTACCAAAAGTTTTGATTGCACCGATT
Found at i:69935996 original size:35 final size:35
Alignment explanation
Indices: 69935955--69936024 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
69935945 CAATGAAACT
69935955 TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
1 TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
*
69935990 TTCTACTAGAGATAACCTATCTTAGATGCCATGAA
1 TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
69936025 AGTTTTCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (35 bp):
TTCTACTAGAGATAACCTAGCTTAGATGCCATGAA
Found at i:69936177 original size:41 final size:41
Alignment explanation
Indices: 69936116--69936205 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
69936106 ACCTAATTGT
* * *
69936116 AAAAATAATTCTCTTATTCTAATAAACTACTAAAAGATAAG
1 AAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAA
*
69936157 AAAAATAATTCCCTTCTTCTAATAAACTACTAAAACATAAA
1 AAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAA
69936198 ATAAAATA
1 A-AAAATA
69936206 TTTCTAGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 38 0.86
42 6 0.14
ACGTcount: A:0.53, C:0.14, G:0.02, T:0.30
Consensus pattern (41 bp):
AAAAATAATTCCCTTATTCTAATAAACTACTAAAACATAAA
Found at i:69955175 original size:15 final size:15
Alignment explanation
Indices: 69955152--69955184 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
69955142 GCCAAACCCA
*
69955152 AAAATGATAAGGAGG
1 AAAAGGATAAGGAGG
69955167 AAAAGGATAAGGAGG
1 AAAAGGATAAGGAGG
69955182 AAA
1 AAA
69955185 TTCTTGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.09
Consensus pattern (15 bp):
AAAAGGATAAGGAGG
Found at i:69956741 original size:19 final size:18
Alignment explanation
Indices: 69956706--69956743 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
69956696 TAAGTTGTTG
69956706 ATGTATAATATAAATTAT
1 ATGTATAATATAAATTAT
*
69956724 ATGTATATATATATATTAT
1 ATGTATA-ATATAAATTAT
69956743 A
1 A
69956744 AAATGGGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (18 bp):
ATGTATAATATAAATTAT
Found at i:69959418 original size:34 final size:34
Alignment explanation
Indices: 69959375--69959442 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
69959365 AGGAAGGAGA
*
69959375 AAACTTTTTTAAAGAATGAAACTTTTCTTCCCTT
1 AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
* *
69959409 AAACTTTTTTAAGGGATGAAACTTTCCTTCCCTT
1 AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
69959443 CCCTTTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (34 bp):
AAACTTTTTTAAAGAATGAAACTTTCCTTCCCTT
Found at i:69961674 original size:24 final size:24
Alignment explanation
Indices: 69961643--69961693 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
69961633 AATACACGTG
69961643 ATAATAAGTTTGTCGCATATGAAA
1 ATAATAAGTTTGTCGCATATGAAA
69961667 ATAATAAGTTTGTCGCATATGAAA
1 ATAATAAGTTTGTCGCATATGAAA
69961691 ATA
1 ATA
69961694 TCATAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (24 bp):
ATAATAAGTTTGTCGCATATGAAA
Found at i:69964091 original size:25 final size:25
Alignment explanation
Indices: 69964032--69964093 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
69964022 GGTTCTTCGA
* *
69964032 AGCTTTCCGTTACATGGCTCACATG
1 AGCTTTTCGTTACATGGCTCACAAG
* * *
69964057 AACTTCTCGTTATATGGCTCGA-AAG
1 AGCTTTTCGTTACATGGCTC-ACAAG
69964082 AGCTTTTCGTTA
1 AGCTTTTCGTTA
69964094 AGTGCTCGTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTTTTCGTTACATGGCTCACAAG
Found at i:69967296 original size:19 final size:19
Alignment explanation
Indices: 69967274--69967313 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
69967264 ATGCGCATTT
69967274 TGGCACACAAAGTGCATCC
1 TGGCACACAAAGTGCATCC
* *
69967293 TGGCACACGAGGTGCATCC
1 TGGCACACAAAGTGCATCC
69967312 TG
1 TG
69967314 ACGCATAAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (19 bp):
TGGCACACAAAGTGCATCC
Found at i:69968422 original size:18 final size:15
Alignment explanation
Indices: 69968384--69968414 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
69968374 GTTTAATTAT
69968384 AATTAAATCTTAATC
1 AATTAAATCTTAATC
69968399 AATTAAATCTTAATC
1 AATTAAATCTTAATC
69968414 A
1 A
69968415 TCAATTAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTAAATCTTAATC
Found at i:69985048 original size:15 final size:16
Alignment explanation
Indices: 69985028--69985057 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69985018 TAACAAGAAG
69985028 TATATA-ATTTTTTTA
1 TATATACATTTTTTTA
69985043 TATATACATTTTTTT
1 TATATACATTTTTTT
69985058 TGTTGATCAT
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:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TATATACATTTTTTTA
Found at i:69988612 original size:5 final size:5
Alignment explanation
Indices: 69988602--69988632 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
69988592 AAAATTCAAA
69988602 TTATT TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT TTATT T
69988633 CTGACACTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:69994912 original size:21 final size:22
Alignment explanation
Indices: 69994883--69994929 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
69994873 CAGAAGGAGT
*
69994883 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
69994905 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
69994926 GAGT
1 GAGT
69994930 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:69999878 original size:12 final size:13
Alignment explanation
Indices: 69999855--69999883 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
69999845 TCAAAATTTG
69999855 AAAATAATAATAA
1 AAAATAATAATAA
69999868 AAAATAA-AATAA
1 AAAATAATAATAA
69999880 AAAA
1 AAAA
69999884 AGTAAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAATAATAA
Found at i:70000205 original size:12 final size:12
Alignment explanation
Indices: 70000190--70000274 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
70000180 AGGTATAAAT
*
70000190 ATAATGATAGTA
1 ATAATAATAGTA
70000202 ATAATAATAGTA
1 ATAATAATAGTA
* *
70000214 GTAATAATACTA
1 ATAATAATAGTA
*
70000226 ACAATAATAGTAAA
1 ATAATAATAGT--A
70000240 GATAATAATAGTAA
1 -ATAATAATAGT-A
*
70000254 ATAATAATAATA
1 ATAATAATAGTA
70000266 ATAATAATA
1 ATAATAATA
70000275 AAATAAACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 10 0.16
14 3 0.05
15 10 0.16
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:70000292 original size:3 final size:3
Alignment explanation
Indices: 70000190--70000280 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
70000180 AGGTATAAAT
* * * * * * *
70000190 ATA ATG ATA GTA ATA ATA ATA GTA GTA ATA ATA CTA ACA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
70000238 A-A GATA ATA ATA GTAA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA -ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
70000281 ACAAAATAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.04
3 64 0.91
4 3 0.04
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:70001097 original size:12 final size:12
Alignment explanation
Indices: 70001080--70001111 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
70001070 TAATATACAA
70001080 AATAAAGAAAAT
1 AATAAAGAAAAT
70001092 AATAAA-AAAAT
1 AATAAAGAAAAT
70001103 AA-AAAGAAA
1 AATAAAGAAA
70001112 TGCAAATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 10 0.53
12 6 0.32
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (12 bp):
AATAAAGAAAAT
Found at i:70001953 original size:9 final size:9
Alignment explanation
Indices: 70001939--70002004 Score: 89
Period size: 9 Copynumber: 7.2 Consensus size: 9
70001929 TTTGGTTAAA
70001939 AATTACCCG
1 AATTACCCG
70001948 AATTACCCG
1 AATTACCCG
*
70001957 -ATTAACCG
1 AATTACCCG
*
70001965 AATTAACCG
1 AATTACCCG
70001974 AATTACCCG
1 AATTACCCG
70001983 AAAATTACCCG
1 --AATTACCCG
70001994 AATTACCCG
1 AATTACCCG
70002003 AA
1 AA
70002005 AATTACCCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 7 0.13
9 36 0.69
11 9 0.17
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:70002012 original size:20 final size:18
Alignment explanation
Indices: 70001939--70002004 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 18
70001929 TTTGGTTAAA
70001939 AATTACCCGAATTACCCG
1 AATTACCCGAATTACCCG
* *
70001957 -ATTAACCGAATTAACCG
1 AATTACCCGAATTACCCG
70001974 AATTACCCGAAAATTACCCG
1 AATTACCCG--AATTACCCG
70001994 AATTACCCGAA
1 AATTACCCGAA
70002005 AATTACCCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 15 0.37
18 9 0.22
20 17 0.41
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (18 bp):
AATTACCCGAATTACCCG
Found at i:70002017 original size:11 final size:11
Alignment explanation
Indices: 70001974--70002016 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
70001964 GAATTAACCG
70001974 AATTACCCGAA
1 AATTACCCGAA
70001985 AATTACCCG--
1 AATTACCCGAA
70001994 AATTACCCGAA
1 AATTACCCGAA
70002005 AATTACCC-AA
1 AATTACCCGAA
70002015 AA
1 AA
70002017 AGTTCGGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.30
10 4 0.13
11 17 0.57
ACGTcount: A:0.47, C:0.28, G:0.07, T:0.19
Consensus pattern (11 bp):
AATTACCCGAA
Found at i:70012788 original size:27 final size:25
Alignment explanation
Indices: 70012760--70012814 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
70012750 TTTTTCTAAT
*
70012760 TTTTTCAAAAAATATTTTTTTTTGAA
1 TTTTT-AAAAAATATTTATTTTTGAA
*
70012786 TTTTTGAAAAATATTTATTTTT--A
1 TTTTTAAAAAATATTTATTTTTGAA
70012809 TTTTTA
1 TTTTTA
70012815 TTTTTGTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 6 0.23
25 15 0.58
26 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTTAAAAAATATTTATTTTTGAA
Found at i:70017201 original size:61 final size:61
Alignment explanation
Indices: 70017123--70017249 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 61
70017113 ATCCTAAATA
* * *
70017123 TAAAAAATTCAACAAATTTAGTCCTTAA-AGTTTACAAAATTTGT-CATTTTAGTTCGAATTC
1 TAAAAAATTCAACAAATTTAGCCCTCAACA-TTTACAAAATTT-TACAATTTAGTTCGAATTC
* * *
70017184 TAAAAAATTCAATAAATTTAGCCCTCAACATTTATAAAATTTTACAATTTAGTTCTAATTC
1 TAAAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATTTTACAATTTAGTTCGAATTC
70017245 TAAAA
1 TAAAA
70017250 TTTTAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
60 1 0.02
61 56 0.97
62 1 0.02
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.39
Consensus pattern (61 bp):
TAAAAAATTCAACAAATTTAGCCCTCAACATTTACAAAATTTTACAATTTAGTTCGAATTC
Found at i:70024802 original size:31 final size:31
Alignment explanation
Indices: 70024736--70024802 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
70024726 TTAGTCATTG
* * * * *
70024736 AACTTGACTATTGTTTCTATATTGAGGTCTG
1 AACTTGACAATTGTTTCTACATTCAGGCCTA
70024767 AACTTGACAATTGTTTCTACATTCAGGCCTA
1 AACTTGACAATTGTTTCTACATTCAGGCCTA
70024798 AACTT
1 AACTT
70024803 TACAGGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (31 bp):
AACTTGACAATTGTTTCTACATTCAGGCCTA
Found at i:70026875 original size:30 final size:27
Alignment explanation
Indices: 70026819--70026876 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 27
70026809 TAGAACTACA
*
70026819 TAATTTAAAATAAAACAAATACTTTTT
1 TAATTTAAAATAAAAAAAATACTTTTT
*
70026846 TAATTTAAAAATTAAAAAAAAATATTTTTT
1 TAATTT-AAAA-T-AAAAAAAATACTTTTT
70026876 T
1 T
70026877 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 6 0.23
28 4 0.15
29 1 0.04
30 15 0.58
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (27 bp):
TAATTTAAAATAAAAAAAATACTTTTT
Found at i:70036978 original size:12 final size:12
Alignment explanation
Indices: 70036961--70036991 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
70036951 CTTCGAATAC
70036961 CCGCCACCGCTG
1 CCGCCACCGCTG
70036973 CCGCCACCGCTG
1 CCGCCACCGCTG
70036985 CCGCCAC
1 CCGCCAC
70036992 TGCCACCGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.61, G:0.23, T:0.06
Consensus pattern (12 bp):
CCGCCACCGCTG
Found at i:70039720 original size:21 final size:22
Alignment explanation
Indices: 70039679--70039725 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
70039669 AGCAGAGGCG
70039679 TTTTATTCATTTTACTCAAAAA
1 TTTTATTCATTTTACTCAAAAA
*
70039701 TTTTATT-ATTTT-CATTAAAAA
1 TTTTATTCATTTTAC-TCAAAAA
70039722 TTTT
1 TTTT
70039726 GTGCTTTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 1 0.04
21 15 0.65
22 7 0.30
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTATTCATTTTACTCAAAAA
Found at i:70043760 original size:22 final size:21
Alignment explanation
Indices: 70043711--70043760 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
70043701 AATTTTAAAG
70043711 AATTA-AATTAAAATTTTATT
1 AATTATAATTAAAATTTTATT
70043731 -ATTAATAATTTAAAATTTT-TT
1 AATT-ATAA-TTAAAATTTTATT
70043752 AAATTATAA
1 -AATTATAA
70043761 AAAGACTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 3 0.12
20 1 0.04
21 4 0.16
22 14 0.56
23 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTATAATTAAAATTTTATT
Found at i:70052054 original size:264 final size:263
Alignment explanation
Indices: 70051573--70052075 Score: 792
Period size: 264 Copynumber: 1.9 Consensus size: 263
70051563 GGGAAGAAAT
* * *
70051573 TGTCATATTTCAAATTTTGTGCTTGTTTCAAGCCCAAATAGACCATTATAGTTACTTTTAACATA
1 TGTCAGATTTCAAATATTGTGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
* * *
70051638 TGAAAAAATAGATCAATGATCATCCTTCAACATATGACATTAATACTATATGTCCAGAAAGGCCA
66 TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATATCCACAAA-GCCA
*
70051703 CCGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCGTCTC
130 CCGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCGCCTC
* *
70051768 CACAATTGCAACTTACTGATATGTTCTGTTTTTCTGCCAAAACATATATAATACATAAGTGGAAC
195 CACAATTGCAACTTACTGATATGTTCTATTTTTCTACCAAAACATATATAATACATAAGTGGAAC
70051833 TTAG
260 TTAG
*
70051837 TGTCAGATTTCAAATATTGTGCTTGTTTCAAGTCCAAATAGACCATCATAGTTACTTTTAACATA
1 TGTCAGATTTCAAATATTGTGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
* *
70051902 TGAAAAGATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATATCTACAAA-CCAC
66 TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATATCCACAAAGCCAC
* * * ***
70051966 TGAAGCCTTTTAAACCAATGTCTGGTCTTTATGGATTACTGGTTTTCTAACATTAATGTTTGCCT
131 CGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGA-TACTGGTTTTCTAACATT-ATGCCCGCCT
* *
70052031 CCATAATTGCAACTTAGTGATATGTTCTATTTTTCTACCAAAACA
194 CCACAATTGCAACTTACTGATATGTTCTATTTTTCTACCAAAACA
70052076 GGAAATTTAG
Statistics
Matches: 217, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
262 36 0.17
263 18 0.08
264 163 0.75
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (263 bp):
TGTCAGATTTCAAATATTGTGCTTGTTTCAAGCCCAAATAGACCATCATAGTTACTTTTAACATA
TGAAAAAATAGATCAAAGATCATCCTTCAACATATGACATTAATACTATATATCCACAAAGCCAC
CGAAGCCTTGTAAACCAATGCCTGGTCTTTATGGATACTGGTTTTCTAACATTATGCCCGCCTCC
ACAATTGCAACTTACTGATATGTTCTATTTTTCTACCAAAACATATATAATACATAAGTGGAACT
TAG
Found at i:70059075 original size:4 final size:4
Alignment explanation
Indices: 70059066--70059090 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
70059056 ACTCATAAAC
70059066 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
70059091 ATTTTGTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:70059938 original size:32 final size:29
Alignment explanation
Indices: 70059899--70059963 Score: 85
Period size: 32 Copynumber: 2.1 Consensus size: 29
70059889 GACCTCCAAA
*
70059899 AAATTTAAGTACCAACTTAAGAAAAAAATGTC
1 AAATTTAAGTACCAAATT---AAAAAAATGTC
*
70059931 AAATTTAAGTACTAAATTAAAAAAATGTC
1 AAATTTAAGTACCAAATTAAAAAAATGTC
70059960 AAAT
1 AAAT
70059964 ATTATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 15 0.48
32 16 0.52
ACGTcount: A:0.55, C:0.09, G:0.08, T:0.28
Consensus pattern (29 bp):
AAATTTAAGTACCAAATTAAAAAAATGTC
Found at i:70064893 original size:188 final size:190
Alignment explanation
Indices: 70064547--70064920 Score: 585
Period size: 188 Copynumber: 2.0 Consensus size: 190
70064537 TCCCGAACCG
* * **
70064547 TGGAACTGGAATGTGTATTTGTTTCCTCTTTGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
* *
70064612 ATTCCCTGTGAGGTTAGCTATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCGTGATGGT
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
70064677 TAATGTTTGAATGAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGTATTA
131 TAATGTTTGAATGAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGTATTA
*
70064737 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTG-T-T-GTGTGGTAATCCGTTACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
* * * *
70064799 ATTCTCTGTGAGGTTAGCCATTGAACTTTTTC-ATAAGTAACATTGCATTGTTTGATGCATGTTG
66 ATTCCCTGTGAGGTTAGCCATTGAAC-TTCTCGA-AAGTAACATTGAATTGTTTGATGCATGATG
* *
70064863 GTTCATGTTTGAATGAAAGTTTACTTTATGTTTGTTTTCGAGGTTAGTTAGGTAGTGT
129 GTTAATGTTTGAATGAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGT
70064921 CTCATAGTTG
Statistics
Matches: 169, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
187 49 0.29
188 88 0.52
189 1 0.01
190 31 0.18
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (190 bp):
TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGTTGTGGTGTGGTAATCCGATACTTGATTTT
ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
TAATGTTTGAATGAAAGTTTACTTTATGTTCGTTTTCGAGGTTAGTTAGGTAGTGTATTA
Found at i:70071873 original size:31 final size:31
Alignment explanation
Indices: 70071823--70071898 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
70071813 GATTTAGTCT
*
70071823 TTGTAC-TTT-AATTTGGTCAATTTTAATCC
1 TTGTACTTTTCAAATTGGTCAATTTTAATCC
* *
70071852 TTGTACTTTTCGAATTGGTCAATTTTAGTCC
1 TTGTACTTTTCAAATTGGTCAATTTTAATCC
70071883 TTGTACTTTTCAAATT
1 TTGTACTTTTCAAATT
70071899 CTTTTAGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 6 0.15
30 3 0.07
31 32 0.78
ACGTcount: A:0.22, C:0.14, G:0.12, T:0.51
Consensus pattern (31 bp):
TTGTACTTTTCAAATTGGTCAATTTTAATCC
Found at i:70079997 original size:5 final size:5
Alignment explanation
Indices: 70079987--70080022 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
70079977 AGTTTATAAC
70079987 ATATT ATATT ATATT ATA-T ATATT -T-TT ATATT ATAT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATAT
70080023 AATTTATAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
3 2 0.07
4 6 0.21
5 20 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATATT
Found at i:70080015 original size:17 final size:16
Alignment explanation
Indices: 70079995--70080027 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
70079985 ACATATTATA
70079995 TTATATTATATATATTT
1 TTATATTATATA-ATTT
70080012 TTATATTATATAATTT
1 TTATATTATATAATTT
70080028 ATAACACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATATTATATAATTT
Found at i:70080612 original size:36 final size:36
Alignment explanation
Indices: 70080571--70080642 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
70080561 CTTTAGACAA
70080571 AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
1 AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
*
70080607 AACTCTTTTAATGTTATTTTTTCGATTCACAAAATT
1 AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
70080643 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.04, T:0.50
Consensus pattern (36 bp):
AACTCTTTTAATGTTATTTTTTCCATTCACAAAATT
Found at i:70084955 original size:8 final size:8
Alignment explanation
Indices: 70084936--70084971 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
70084926 TCATGCTATT
70084936 TTTTTGAA
1 TTTTTGAA
70084944 -TTTTGAA
1 TTTTTGAA
70084951 TTTTTGAA
1 TTTTTGAA
70084959 TTTTTGAA
1 TTTTTGAA
70084967 TTTTT
1 TTTTT
70084972 ATCATTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (8 bp):
TTTTTGAA
Found at i:70087762 original size:16 final size:16
Alignment explanation
Indices: 70087743--70087777 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
70087733 TGTATCTTTG
*
70087743 ATTGATATAATCTTCA
1 ATTGAAATAATCTTCA
70087759 ATTGAAATAATCTTCA
1 ATTGAAATAATCTTCA
70087775 ATT
1 ATT
70087778 CTGACTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (16 bp):
ATTGAAATAATCTTCA
Found at i:70094224 original size:27 final size:27
Alignment explanation
Indices: 70094194--70094254 Score: 81
Period size: 27 Copynumber: 2.2 Consensus size: 27
70094184 TTCATTTTTT
70094194 TATTTTA-AAATAATAAA-TTATATAAAA
1 TATTTTATAAAT--TAAATTTATATAAAA
70094221 TATTTTATAAATTAAATTTATATAAAA
1 TATTTTATAAATTAAATTTATATAAAA
70094248 TAATTTT
1 T-ATTTT
70094255 TTATTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.13
27 18 0.58
28 9 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
TATTTTATAAATTAAATTTATATAAAA
Found at i:70095360 original size:188 final size:188
Alignment explanation
Indices: 70095033--70095383 Score: 508
Period size: 188 Copynumber: 1.9 Consensus size: 188
70095023 GAAGACATGC
* *** * *
70095033 ATATTTGTAAAGCTTAATTAAATTAAATTAAATAATTGTAATGGATTATTCATCGTCATCTCCAA
1 ATATTTGTAAAACTTAATTAAATTAAATTAAATAATCCAAACGGATTATTCAGCGTCATCTCCAA
* * * * * * *
70095098 CTCTATCCCACATCATATATGAACCCTTAATATTCATGGGGATTCTTTTATATATTATCATTAAA
66 CTCAATCCCACATCACATATGAAACCGTAATATGCATGCGGATTCTTTTATATATAATCATTAAA
70095163 ATTAAAAAAAAAATTAAAACCCCCCTCTTATATAATAAAAATATATATTTGATATATT
131 ATTAAAAAAAAAATTAAAACCCCCCTCTTATATAATAAAAATATATATTTGATATATT
* *
70095221 ATATTTGTAAAACTTAATTAAATTAAATTAAATAATCCAAACGGGTTATTCAGCTTCATCTCCAA
1 ATATTTGTAAAACTTAATTAAATTAAATTAAATAATCCAAACGGATTATTCAGCGTCATCTCCAA
* *
70095286 CTCAATCCCACATCACATATGAAATCGTAATATGCATGCGGATT-TTTT-TATATAATCATTAAC
66 CTCAATCCCACATCACATATGAAACCGTAATATGCATGCGGATTCTTTTATATATAATCATTAAA
* **
70095349 ATTAAAAAAAAATTTAAAACTTCCCTCTTATATAA
131 ATTAAAAAAAAAATTAAAACCCCCCTCTTATATAA
70095384 GCAGATGAAA
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
186 45 0.31
187 4 0.03
188 94 0.66
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.37
Consensus pattern (188 bp):
ATATTTGTAAAACTTAATTAAATTAAATTAAATAATCCAAACGGATTATTCAGCGTCATCTCCAA
CTCAATCCCACATCACATATGAAACCGTAATATGCATGCGGATTCTTTTATATATAATCATTAAA
ATTAAAAAAAAAATTAAAACCCCCCTCTTATATAATAAAAATATATATTTGATATATT
Found at i:70104518 original size:31 final size:31
Alignment explanation
Indices: 70104483--70104551 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
70104473 TTTAACAATC
70104483 TAGTGATTTAAATAAAAAAATCTAAATAGTT
1 TAGTGATTTAAATAAAAAAATCTAAATAGTT
** * ** * *
70104514 TAGTGGCTTAAATGAAAACTTTTGAATAGTT
1 TAGTGATTTAAATAAAAAAATCTAAATAGTT
70104545 TAGTGAT
1 TAGTGAT
70104552 AGTTTTATAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (31 bp):
TAGTGATTTAAATAAAAAAATCTAAATAGTT
Found at i:70108899 original size:75 final size:75
Alignment explanation
Indices: 70108776--70108926 Score: 293
Period size: 75 Copynumber: 2.0 Consensus size: 75
70108766 AAATTAAAAG
70108776 AATGTAAATCATTAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAA
1 AATGTAAATCATTAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAA
70108841 AAGAATGTAA
66 AAGAATGTAA
*
70108851 AATGTAAATCATTAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATTAA
1 AATGTAAATCATTAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAA
70108916 AAGAATGTAA
66 AAGAATGTAA
70108926 A
1 A
70108927 TCACATCATG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 75 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.34
Consensus pattern (75 bp):
AATGTAAATCATTAAATCCTAAAATGAGAATCTTTTTACTTTGTAGGATTAAATATCAAAATCAA
AAGAATGTAA
Found at i:70116575 original size:30 final size:31
Alignment explanation
Indices: 70116541--70116601 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
70116531 AAAAAAGATA
* *
70116541 AATAT-CAAATTTATACATGAACCTTGATTT
1 AATATACAAATTGAGACATGAACCTTGATTT
*
70116571 AATATACAAATTGAGACATGAACCTTTATTT
1 AATATACAAATTGAGACATGAACCTTGATTT
70116602 GGTGTAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (31 bp):
AATATACAAATTGAGACATGAACCTTGATTT
Found at i:70127591 original size:19 final size:19
Alignment explanation
Indices: 70127540--70127584 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
70127530 GCAAATAATT
*
70127540 TAAAAATAATAAATA-TTCA
1 TAAAAAT-ATAAAAAGTTCA
70127559 TAAAAATATAAAAAGTTCA
1 TAAAAATATAAAAAGTTCA
70127578 TAAAAAT
1 TAAAAAT
70127585 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
TAAAAATATAAAAAGTTCA
Found at i:70130857 original size:4 final size:4
Alignment explanation
Indices: 70130850--70130897 Score: 78
Period size: 4 Copynumber: 12.0 Consensus size: 4
70130840 TATTCATATA
* *
70130850 TATG TATG TATG TATG TATG TATG TATG TATG CATG TATG TTTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
70130898 CATACACTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:70133648 original size:24 final size:24
Alignment explanation
Indices: 70133616--70133664 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
70133606 TACGCGTATC
70133616 TCATTTTAACGTATAGATATTAGT
1 TCATTTTAACGTATAGATATTAGT
70133640 TCATTTTAACGTATAGATATTAGT
1 TCATTTTAACGTATAGATATTAGT
70133664 T
1 T
70133665 TTTACTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (24 bp):
TCATTTTAACGTATAGATATTAGT
Found at i:70134764 original size:44 final size:45
Alignment explanation
Indices: 70134678--70134766 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 45
70134668 TTCATGTGAA
70134678 TGTTATTTTGCTAACAAATAAAGAACATCTCCCAACAGTTATCAC
1 TGTTATTTTGCTAACAAATAAAGAACATCTCCCAACAGTTATCAC
*
70134723 TGTTATTTTGCTAACAAAT-AAGAACATCTCCCAACATTTATCAC
1 TGTTATTTTGCTAACAAATAAAGAACATCTCCCAACAGTTATCAC
70134767 CACATCAATG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 24 0.56
45 19 0.44
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (45 bp):
TGTTATTTTGCTAACAAATAAAGAACATCTCCCAACAGTTATCAC
Found at i:70136847 original size:59 final size:60
Alignment explanation
Indices: 70136710--70136855 Score: 199
Period size: 60 Copynumber: 2.5 Consensus size: 60
70136700 AGCCGTCTGC
* * * *
70136710 TGACCAAAAAAGACAGAATTA--AATAGTTGAGTGATTATTTTATAATTTTTCATAGTTTGA
1 TGACCAAAAAAGA-A-ATTTACTAATAGTTGAATGATCATTTTATAATTTTTCATAGTTGGA
* *
70136770 TGACCAAAAAAGAAATTTACTAATAGTTGAATGATCATTTTGTATTTTTTCATAGTTGGA
1 TGACCAAAAAAGAAATTTACTAATAGTTGAATGATCATTTTATAATTTTTCATAGTTGGA
70136830 TGACC-AAAAAGAAATTTACTAATAGT
1 TGACCAAAAAAGAAATTTACTAATAGT
70136856 AGGATTACTA
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
58 4 0.05
59 22 0.28
60 52 0.67
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.37
Consensus pattern (60 bp):
TGACCAAAAAAGAAATTTACTAATAGTTGAATGATCATTTTATAATTTTTCATAGTTGGA
Found at i:70141223 original size:23 final size:23
Alignment explanation
Indices: 70141187--70141232 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
70141177 ATTTTAAATT
* *
70141187 ATTTTAAATTAAATTTAATAAAA
1 ATTTTAAATAAAATTCAATAAAA
*
70141210 ATTTTAAGTAAAATTCAATAAAA
1 ATTTTAAATAAAATTCAATAAAA
70141233 TAAAATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTTAAATAAAATTCAATAAAA
Found at i:70148213 original size:47 final size:48
Alignment explanation
Indices: 70148114--70148219 Score: 196
Period size: 47 Copynumber: 2.2 Consensus size: 48
70148104 CAGAGTGGAA
70148114 CTGTTCTTCAGTTCTCAGGATTTTTTCACGGACATTGGACATTGTTTAT
1 CTGTTCTTCAGTTCTCAGGATTTTTTCAC-GACATTGGACATTGTTTAT
70148163 CTGTTCTTCAGTTCTCAGGATTTTTTCA-GACATTGGACATTGTTTAT
1 CTGTTCTTCAGTTCTCAGGATTTTTTCACGACATTGGACATTGTTTAT
70148210 CTGTTCTTCA
1 CTGTTCTTCA
70148220 AAGGCATAGG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
47 29 0.51
49 28 0.49
ACGTcount: A:0.18, C:0.19, G:0.17, T:0.46
Consensus pattern (48 bp):
CTGTTCTTCAGTTCTCAGGATTTTTTCACGACATTGGACATTGTTTAT
Found at i:70154144 original size:29 final size:29
Alignment explanation
Indices: 70154097--70154162 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
70154087 ACAATCGGAC
*
70154097 TTAAATTTTGAAATCTAAA-AAATAAAATA
1 TTAAATTTTAAAATCTAAACAAATAAAA-A
*
70154126 TTAAATTCTTAAAAT-TAAACATATAAAAA
1 TTAAATT-TTAAAATCTAAACAAATAAAAA
70154155 TTAAATTT
1 TTAAATTT
70154163 CAAATTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 19 0.58
30 13 0.39
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (29 bp):
TTAAATTTTAAAATCTAAACAAATAAAAA
Found at i:70155709 original size:4 final size:4
Alignment explanation
Indices: 70155702--70155727 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
70155692 CTTCCTTCCT
70155702 TCCC TCCC TCCC TCCC TCCC TCCC TC
1 TCCC TCCC TCCC TCCC TCCC TCCC TC
70155728 ACTCACTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (4 bp):
TCCC
Found at i:70169186 original size:70 final size:69
Alignment explanation
Indices: 70169064--70169202 Score: 188
Period size: 70 Copynumber: 2.0 Consensus size: 69
70169054 TGTCACTTTT
* * * *
70169064 AAAAACGAAATCTCCGATTATAGATCAACGACACAGTTTCTTTACGGAGACGGAAACCTAAACTT
1 AAAAACGAAATCTCCAATTATAAATCAACAACACAGTTTCTTCACGGAGACGGAAACCTAAACTT
70169129 ACAA
66 ACAA
* * ** *
70169133 AAAAACCGAAATTTCCAATTATAAATCAACAACATAGTTTCTTCGTGGGGACGGAAACCTAAACT
1 AAAAA-CGAAATCTCCAATTATAAATCAACAACACAGTTTCTTCACGGAGACGGAAACCTAAACT
70169198 TACAA
65 TACAA
70169203 TGCTGCAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
69 5 0.08
70 55 0.92
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (69 bp):
AAAAACGAAATCTCCAATTATAAATCAACAACACAGTTTCTTCACGGAGACGGAAACCTAAACTT
ACAA
Found at i:70173877 original size:15 final size:15
Alignment explanation
Indices: 70173826--70173879 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
70173816 TCGAATATAA
*
70173826 TAAATATATATTTTT
1 TAAATATATATATTT
* * *
70173841 TAATTTTTTA-ATTT
1 TAAATATATATATTT
70173855 TAAAATATATATATTT
1 T-AAATATATATATTT
70173871 TAAATATAT
1 TAAATATAT
70173880 TTTTATTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 4 0.13
15 21 0.70
16 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAAATATATATATTT
Found at i:70173886 original size:17 final size:16
Alignment explanation
Indices: 70173845--70173888 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
70173835 ATTTTTTAAT
70173845 TTTTTAATTTTAAAATA
1 TTTTT-ATTTTAAAATA
* *
70173862 TATATATTTTAAATATA
1 TTTTTATTTTAAA-ATA
70173879 TTTTTATTTT
1 TTTTTATTTT
70173889 TTTAAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTATTTTAAAATA
Done.