Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 31 of 316
Found at i:8894575 original size:3 final size:3
Alignment explanation
Indices: 8894567--8894621 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
8894557 GATCATTGCC
8894567 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8894615 TAA TAA T
1 TAA TAA T
8894622 TATTGTGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:8895405 original size:3 final size:3
Alignment explanation
Indices: 8895397--8895444 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
8895387 CTCGAACTAA
8895397 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8895445 CTTGATGTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8896119 original size:9 final size:9
Alignment explanation
Indices: 8896105--8896138 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
8896095 AAAATTGGGT
8896105 AATTAACCG
1 AATTAACCG
*
8896114 AATTAACTG
1 AATTAACCG
8896123 AATTAACCG
1 AATTAACCG
8896132 AACTTAA
1 AA-TTAA
8896139 TAAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 18 0.82
10 4 0.18
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:8900511 original size:6 final size:6
Alignment explanation
Indices: 8900500--8900554 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
8900490 AAGAAGACGG
* * *
8900500 TGAAGA TGAAGA TGAAGA TGAAGA CGAATACGA AGAAGA CGAAGA TGAAGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TG-A-A-GA TGAAGA TGAAGA TGAAGA
8900551 TGAA
1 TGAA
8900555 AACGACGACG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
6 35 0.83
7 2 0.05
8 2 0.05
9 3 0.07
ACGTcount: A:0.51, C:0.05, G:0.31, T:0.13
Consensus pattern (6 bp):
TGAAGA
Found at i:8900537 original size:27 final size:27
Alignment explanation
Indices: 8900507--8900559 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8900497 CGGTGAAGAT
* *
8900507 GAAGATGAAGATGAAGACGAATACGAA
1 GAAGACGAAGATGAAGACGAAAACGAA
*
8900534 GAAGACGAAGATGAAGATGAAAACGA
1 GAAGACGAAGATGAAGACGAAAACGA
8900560 CGACGTCCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.53, C:0.08, G:0.30, T:0.09
Consensus pattern (27 bp):
GAAGACGAAGATGAAGACGAAAACGAA
Found at i:8900538 original size:45 final size:45
Alignment explanation
Indices: 8900453--8900554 Score: 107
Period size: 45 Copynumber: 2.3 Consensus size: 45
8900443 TGATCTCGAT
* * * * * * *
8900453 GGTGAAGATTACGATGACGATGAAGACGATGCTATTGAAGAAGAC
1 GGTGAAGATGAAGATGAAGATGAAGACGATACGATAGAAGAAGAA
*
8900498 GGTGAAGATGAAGATGAAGATGAAGACGAATACGA-AGAAGACGAA
1 GGTGAAGATGAAGATGAAGATGAAGACG-ATACGATAGAAGAAGAA
*
8900543 GATGAAGATGAA
1 GGTGAAGATGAA
8900555 AACGACGACG
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 43 0.91
46 4 0.09
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.16
Consensus pattern (45 bp):
GGTGAAGATGAAGATGAAGATGAAGACGATACGATAGAAGAAGAA
Found at i:8902963 original size:28 final size:28
Alignment explanation
Indices: 8902923--8902978 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
8902913 AGCATTAATG
*
8902923 GTGCAATTGACTGCTAGATGGAAGTTTA
1 GTGCAATTGACTGCCAGATGGAAGTTTA
8902951 GTGCAATTGACTGCCAGATGGAAGTTTA
1 GTGCAATTGACTGCCAGATGGAAGTTTA
8902979 CGTATTGTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (28 bp):
GTGCAATTGACTGCCAGATGGAAGTTTA
Found at i:8907417 original size:6 final size:6
Alignment explanation
Indices: 8907397--8907470 Score: 94
Period size: 6 Copynumber: 12.2 Consensus size: 6
8907387 CTAAATCTTC
* *
8907397 TCCCCTT TCCTCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TTCCCT
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
* * *
8907446 TTCCCT TTCCCT TTCCCT TCCCCT T
1 TCCCCT TCCCCT TCCCCT TCCCCT T
8907471 GGGTTGCAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
6 59 0.94
7 4 0.06
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (6 bp):
TCCCCT
Found at i:8908501 original size:84 final size:84
Alignment explanation
Indices: 8908360--8908531 Score: 272
Period size: 84 Copynumber: 2.0 Consensus size: 84
8908350 TTGTAGGCTA
*
8908360 TATTAATATAGATGTAATGTAATTTAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
1 TATTAATATAGATGTAATGTAATTCAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
*
8908425 TGCATATTCATTTTGATTT
66 TGCATATTCATTTTGATTC
* * * * *
8908444 TATTAATATAGATGTAATGTAATTCAGTTGATGCCAGAGAAGATGGTTCAAATTTGAACTGGTTT
1 TATTAATATAGATGTAATGTAATTCAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
*
8908509 TGCATCTTCATTTTGATTC
66 TGCATATTCATTTTGATTC
8908528 TATT
1 TATT
8908532 GGCAATAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.42
Consensus pattern (84 bp):
TATTAATATAGATGTAATGTAATTCAGCTAATGACAAAGAAGATGGTTCAAATTTGAACTAGTTT
TGCATATTCATTTTGATTC
Found at i:8909040 original size:17 final size:16
Alignment explanation
Indices: 8909018--8909051 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
8909008 TTTAAAATAG
8909018 TTTTTTTT-AAATAGTT
1 TTTTTTTTGAAATA-TT
8909034 TTTTTTTTGAAATATT
1 TTTTTTTTGAAATATT
8909050 TT
1 TT
8909052 CAAGAAAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTTTTTGAAATATT
Found at i:8909051 original size:14 final size:14
Alignment explanation
Indices: 8909012--8909039 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8909002 GTTTCATTTA
8909012 AAATAGTTTTTTTT
1 AAATAGTTTTTTTT
8909026 AAATAGTTTTTTTT
1 AAATAGTTTTTTTT
8909040 TTGAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (14 bp):
AAATAGTTTTTTTT
Found at i:8909137 original size:107 final size:107
Alignment explanation
Indices: 8908951--8909145 Score: 320
Period size: 107 Copynumber: 1.8 Consensus size: 107
8908941 CACTTTGTTT
8908951 AGTGAACTTAGCTAAACAATTAAATGAAAAGAAAAACTCAAATATATGTTTGTTTCATTTAAAAT
1 AGTGAACTTAGCTAAACAATTAAATGAAAAGAAAAACTCAAATATATGTTTGTTTCATTTAAAAT
*
8909016 AGTTTTTTTTAAATAGTTTTTTTTTTGAAATATTTTCAAGAA
66 AGTTTTTTTAAAATAGTTTTTTTTTTGAAATATTTTCAAGAA
* * * * *
8909058 AGTGAATTTAGCTAAACAATTAACA-GACAAGAAAAATTCAAATGTATGTTTGTTTCGTTTAAAA
1 AGTGAACTTAGCTAAACAATTAA-ATGAAAAGAAAAACTCAAATATATGTTTGTTTCATTTAAAA
8909122 TAGTTTTTTTAAAATAGTTTTTTT
65 TAGTTTTTTTAAAATAGTTTTTTT
8909146 GAAATATTTT
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
107 80 0.99
108 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.11, T:0.42
Consensus pattern (107 bp):
AGTGAACTTAGCTAAACAATTAAATGAAAAGAAAAACTCAAATATATGTTTGTTTCATTTAAAAT
AGTTTTTTTAAAATAGTTTTTTTTTTGAAATATTTTCAAGAA
Found at i:8909144 original size:13 final size:14
Alignment explanation
Indices: 8909115--8909156 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
8909105 GTTTGTTTCG
8909115 TTTAAAATAGTTTT
1 TTTAAAATAGTTTT
8909129 TTTAAAATAGTTTT
1 TTTAAAATAGTTTT
*
8909143 TTTGAAATA-TTTT
1 TTTAAAATAGTTTT
8909156 T
1 T
8909157 AGGAAATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTAAAATAGTTTT
Found at i:8909361 original size:24 final size:24
Alignment explanation
Indices: 8909329--8909377 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8909319 TCCAATACAT
8909329 TTTGGTTGACTGATGTCCCTGAGG
1 TTTGGTTGACTGATGTCCCTGAGG
8909353 TTTGGTTGACTGATGTCCCTGAGG
1 TTTGGTTGACTGATGTCCCTGAGG
8909377 T
1 T
8909378 CTATTTCATT
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:0.12, C:0.16, G:0.33, T:0.39
Consensus pattern (24 bp):
TTTGGTTGACTGATGTCCCTGAGG
Found at i:8910711 original size:15 final size:13
Alignment explanation
Indices: 8910656--8910698 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
8910646 CTAATATGTG
* *
8910656 AAAAATAAATTTA
1 AAAAATATATATA
8910669 AAATAATATATATA
1 AAA-AATATATATA
8910683 AAAAATATATATA
1 AAAAATATATATA
8910696 AAA
1 AAA
8910699 CAATTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AAAAATATATATA
Found at i:8910719 original size:24 final size:23
Alignment explanation
Indices: 8910691--8910789 Score: 67
Period size: 24 Copynumber: 4.1 Consensus size: 23
8910681 TAAAAAATAT
8910691 ATATAAAACAATTTAATATAAGTA
1 ATATAAAACAATTTAA-ATAAGTA
** *
8910715 ATATATGA-AATCTTAAAGTAAATA
1 ATATAAAACAAT-TTAAA-TAAGTA
* *
8910739 ATAATAGAACGATTTAAAATAAGTA
1 AT-ATAAAACAATTT-AAATAAGTA
* *
8910764 ATATAAAA-AACTTAGAATAAATA
1 ATATAAAACAATTTA-AATAAGTA
8910787 ATA
1 ATA
8910790 GTTACAAACA
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
22 1 0.02
23 17 0.29
24 22 0.38
25 13 0.22
26 5 0.09
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (23 bp):
ATATAAAACAATTTAAATAAGTA
Found at i:8913341 original size:18 final size:20
Alignment explanation
Indices: 8913299--8913335 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8913289 ACATTTTATG
*
8913299 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
8913318 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
8913336 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:8915547 original size:46 final size:46
Alignment explanation
Indices: 8915495--8915814 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
8915485 AGTGTGCTCT
8915495 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8915541 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
8915587 CTGATATGAAACGTGTAAAATCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
8915633 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *** *
8915679 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** *
8915725 GTGACATGAAATGAATAAGACCATGATTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
8915771 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
8915815 TCATGTCAAA
Statistics
Matches: 245, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.00
46 244 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:8926022 original size:21 final size:21
Alignment explanation
Indices: 8925958--8926022 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
8925948 AGTTAACTTG
*
8925958 TATGAGTTTCAGTTTAACCC-
1 TATGAGTTTCCGTTTAACCCT
* * * *
8925978 TATTGGGTTTCCGTTCAGCTCT
1 TA-TGAGTTTCCGTTTAACCCT
*
8926000 TATGAGCTTCCGTTTAACCCT
1 TATGAGTTTCCGTTTAACCCT
8926021 TA
1 TA
8926023 CGGGTTTCTA
Statistics
Matches: 33, Mismatches: 10, Indels: 3
0.72 0.22 0.07
Matches are distributed among these distances:
20 2 0.06
21 29 0.88
22 2 0.06
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (21 bp):
TATGAGTTTCCGTTTAACCCT
Found at i:8926044 original size:42 final size:42
Alignment explanation
Indices: 8925958--8926045 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
8925948 AGTTAACTTG
* * * *
8925958 TATGAGTTTCAGTTTAACCCTATTGGGTTTCCGTTCAGCTCT
1 TATGAGCTTCAGTTTAACCCTATCGGGTTTCCATTCAGCACT
* * *
8926000 TATGAGCTTCCGTTTAACCCT-TACGGGTTTCTATTTAGCACT
1 TATGAGCTTCAGTTTAACCCTAT-CGGGTTTCCATTCAGCACT
8926042 TATG
1 TATG
8926046 TCTTTAGTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTATCGGGTTTCCATTCAGCACT
Found at i:8932054 original size:16 final size:16
Alignment explanation
Indices: 8932021--8932067 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8932011 GTTCAATATA
*
8932021 TATATATTTCA-AAATT
1 TATATATTT-AGAATTT
8932037 TATATATTTAGAATTT
1 TATATATTTAGAATTT
*
8932053 TATAATTTTTAGAAT
1 TAT-ATATTTAGAAT
8932068 ACCATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 1 0.04
16 16 0.59
17 10 0.37
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (16 bp):
TATATATTTAGAATTT
Found at i:8933247 original size:3 final size:3
Alignment explanation
Indices: 8933239--8933367 Score: 102
Period size: 3 Copynumber: 42.3 Consensus size: 3
8933229 ATATACTATA
* * * *
8933239 AAT AAT AAT AAT AGAA AAT AAT AAT AGT ACT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
8933285 GAT GAT AAT AAT ATAT AAT ATAT AAA AAA AAT AA- AA- AAT AAT GAT
1 AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
*
8933330 ATT AAT ACAT AA- ATAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT A
8933368 GTAGTAAAAG
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
2 5 0.05
3 87 0.84
4 12 0.12
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8933546 original size:15 final size:15
Alignment explanation
Indices: 8933516--8933578 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
8933506 TAAATAGAAA
8933516 TAGAAATATAATAATAG
1 TAGAAATA-AA-AATAG
8933533 TAGAAATAAAAATAG
1 TAGAAATAAAAATAG
*
8933548 -ATAAATAAAAATTAG
1 TAGAAATAAAAA-TAG
* *
8933563 -ATAAATAATAATAG
1 TAGAAATAAAAATAG
8933577 TA
1 TA
8933579 TTAGAATAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
14 13 0.31
15 19 0.45
16 2 0.05
17 8 0.19
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (15 bp):
TAGAAATAAAAATAG
Found at i:8933568 original size:29 final size:29
Alignment explanation
Indices: 8933504--8933576 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
8933494 AATATTAGTA
* *
8933504 TATAAATAGAAATAGAAATATAATAATAG
1 TATAAATAAAAATAGAAATATAAAAATAG
*
8933533 TAGAAATAAAAATAGATAA-ATAAAAATTAG
1 TATAAATAAAAATAGA-AATATAAAAA-TAG
*
8933563 -ATAAATAATAATAG
1 TATAAATAAAAATAG
8933577 TATTAGAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 32 0.86
30 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (29 bp):
TATAAATAAAAATAGAAATATAAAAATAG
Found at i:8937900 original size:27 final size:26
Alignment explanation
Indices: 8937866--8937951 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 26
8937856 TGTTATATGA
8937866 CATTAGCAAGTGGACCTTATGAAATC
1 CATTAGCAAGTGGACCTTATGAAATC
* * * * *
8937892 CATTCAGC-ATTAGA-ATGT-T-ATATGA
1 CATT-AGCAAGTGGACCT-TATGAAAT-C
8937917 CATTAGCAAGTGGACCTTATGAAATC
1 CATTAGCAAGTGGACCTTATGAAATC
8937943 CATTCAGCA
1 CATT-AGCA
8937952 TGATTGGTGG
Statistics
Matches: 42, Mismatches: 10, Indels: 15
0.63 0.15 0.22
Matches are distributed among these distances:
24 6 0.14
25 11 0.26
26 15 0.36
27 10 0.24
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (26 bp):
CATTAGCAAGTGGACCTTATGAAATC
Found at i:8937926 original size:51 final size:51
Alignment explanation
Indices: 8937850--8937952 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
8937840 TGTGATAAAC
8937850 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
1 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
8937901 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
1 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
8937952 T
1 T
8937953 GATTGGTGGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (51 bp):
TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
Found at i:8943561 original size:3 final size:3
Alignment explanation
Indices: 8943553--8943590 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
8943543 GTAAAAGTAC
* *
8943553 TCT TCT TCT TCT TCT TTT TCT TCC TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
8943591 GACTACTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:8943982 original size:7 final size:7
Alignment explanation
Indices: 8943972--8944003 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
8943962 GGGGCTCTAT
*
8943972 TGAAATG
1 TGAAAGG
8943979 TGAAAGG
1 TGAAAGG
8943986 TGAAAGG
1 TGAAAGG
8943993 TGAAAGG
1 TGAAAGG
8944000 TGAA
1 TGAA
8944004 TGGATCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.38, T:0.19
Consensus pattern (7 bp):
TGAAAGG
Found at i:8949035 original size:29 final size:27
Alignment explanation
Indices: 8949003--8949071 Score: 68
Period size: 30 Copynumber: 2.4 Consensus size: 27
8948993 AATTAGATCT
*
8949003 TAATTTTAAAATCTAAAAAGTA-AAAACAC
1 TAATTTTAAAA-ATAAAAA-TACAAAA-AC
8949032 TAATTTTCTAAAAATAAAAATACAAAAAC
1 TAA-TTT-TAAAAATAAAAATACAAAAAC
8949061 TAAATTTTAAA
1 T-AATTTTAAA
8949072 TTTATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
28 4 0.11
29 11 0.31
30 15 0.43
31 5 0.14
ACGTcount: A:0.59, C:0.09, G:0.01, T:0.30
Consensus pattern (27 bp):
TAATTTTAAAAATAAAAATACAAAAAC
Found at i:8949424 original size:27 final size:28
Alignment explanation
Indices: 8949373--8949431 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
8949363 AAAGTTTTTT
*
8949373 TAAATATATCATTAAAATTTAAAAAAAA
1 TAAATATATCATTAAAATATAAAAAAAA
*
8949401 TAAATATAT-ATTAAAA-ATAGAAAAAA
1 TAAATATATCATTAAAATATAAAAAAAA
*
8949427 CAAAT
1 TAAAT
8949432 TTAATCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 12 0.43
27 7 0.25
28 9 0.32
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (28 bp):
TAAATATATCATTAAAATATAAAAAAAA
Found at i:8949424 original size:28 final size:28
Alignment explanation
Indices: 8949373--8949426 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8949363 AAAGTTTTTT
**
8949373 TAAATATATCATTAAAATTTAAAAAAAA
1 TAAATATATCATTAAAATAGAAAAAAAA
8949401 TAAATATAT-ATTAAAAATAGAAAAAA
1 TAAATATATCATT-AAAATAGAAAAAA
8949427 CAAATTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
TAAATATATCATTAAAATAGAAAAAAAA
Found at i:8958198 original size:25 final size:25
Alignment explanation
Indices: 8958147--8958198 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
8958137 TTTGGCTTGA
* **
8958147 CATTTACTATGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
8958172 CATTTATTAAGCAATATCAAATGTT
1 CATTTACTAAGCAATATCAAATATT
8958197 CA
1 CA
8958199 AATTATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:8961801 original size:31 final size:32
Alignment explanation
Indices: 8961753--8961824 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
8961743 GATATTTTGA
*
8961753 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATAAGATATAATAT
**
8961783 TATTTTATTAA-TATTTTAATAAGATATTTTAT
1 TATTTTATTAATTA-TTTAATAAGATATAATAT
8961815 TATTTTATTA
1 TATTTTATTA
8961825 GTATATAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 9 0.25
31 14 0.39
32 13 0.36
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATAAGATATAATAT
Found at i:8963683 original size:46 final size:46
Alignment explanation
Indices: 8963631--8963843 Score: 293
Period size: 46 Copynumber: 4.6 Consensus size: 46
8963621 GCTCTCTGAA
* *
8963631 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
8963677 ATGAAATGTGTAAGACCATGGTTGTAAGATAACATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
8963723 ATGAAAAGAATAAGACCATGGTTGAGAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
8963769 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
8963815 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
8963844 CATTATGGCA
Statistics
Matches: 148, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.01
46 147 0.99
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:8965760 original size:23 final size:24
Alignment explanation
Indices: 8965727--8965775 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
8965717 AAATTTCGGA
8965727 ATTTATAATTTTTATA-ACTTATAT
1 ATTTATAATTTTTATAGA-TTATAT
*
8965751 ATTTA-AATTTTTTTAGATTATAT
1 ATTTATAATTTTTATAGATTATAT
8965774 AT
1 AT
8965776 ATATTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
ATTTATAATTTTTATAGATTATAT
Found at i:8970542 original size:30 final size:30
Alignment explanation
Indices: 8970506--8970568 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
8970496 ATTTATTTTA
8970506 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
8970536 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
8970566 TTG
1 TTG
8970569 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:8970671 original size:18 final size:18
Alignment explanation
Indices: 8970650--8970689 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
8970640 GAAATATTTA
*
8970650 TTTTGATGT-TTTTAGTAT
1 TTTTGATGTATTATA-TAT
8970668 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
8970686 TTTT
1 TTTT
8970690 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.12, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:8976428 original size:17 final size:18
Alignment explanation
Indices: 8976406--8976440 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8976396 CCCAATAATA
8976406 TCTTCTGCTTTTT-TTTT
1 TCTTCTGCTTTTTGTTTT
*
8976423 TCTTCTTCTTTTTGTTTT
1 TCTTCTGCTTTTTGTTTT
8976441 GCTCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.77
Consensus pattern (18 bp):
TCTTCTGCTTTTTGTTTT
Found at i:8984599 original size:69 final size:69
Alignment explanation
Indices: 8984507--8984644 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
8984497 AATAACCTTT
*
8984507 TAAGTAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
1 TAAGCAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
8984572 CATA
66 CATA
* * * * *
8984576 TAAGCAATATTGCAAGAGATTATCAACAAAATTTAACTTATAATCATTTGTATTAGTTTTTGTTA
1 TAAGCAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
8984641 CATA
66 CATA
8984645 ATATAGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.39
Consensus pattern (69 bp):
TAAGCAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
CATA
Found at i:9000077 original size:41 final size:42
Alignment explanation
Indices: 8999963--9000119 Score: 124
Period size: 44 Copynumber: 3.7 Consensus size: 42
8999953 ATAGGACTCC
* *
8999963 GATATATG-TTGTCGTGTAAGACCACGTTTGGGAC-GTTGGCATT
1 GATATATGATT-T-GTGTAAGACCATGTCTGGGACAG-TGGCATT
* * *
9000006 GATTTGA-GATTTACATGTAAGACCATGTCTGGGACATTGGCATT
1 GATAT-ATGATTT--GTGTAAGACCATGTCTGGGACAGTGGCATT
* *
9000050 G-TATATGATTTGTGTAAGACCCTGTCTGGGATAGTGGCATT
1 GATATATGATTTGTGTAAGACCATGTCTGGGACAGTGGCATT
* ** *
9000091 GATATTTGATTACATGTAAGACCACGTCT
1 GATATATGATT-TGTGTAAGACCATGTCT
9000120 AGGATGTTGG
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
41 27 0.29
42 9 0.10
43 26 0.28
44 30 0.33
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (42 bp):
GATATATGATTTGTGTAAGACCATGTCTGGGACAGTGGCATT
Found at i:9004622 original size:44 final size:44
Alignment explanation
Indices: 9004559--9004646 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
9004549 CATCAAGACT
9004559 GAAGATCTCCCTTCAAATTCCCTCAAG-AGTTTTGGGTTTTCTTA
1 GAAGATCTCCCTTCAAATTCCCT-AAGAAGTTTTGGGTTTTCTTA
*
9004603 GAAGATCTCCCTTCAAATTCCCTTAGAAGTTTTGGGTTTTCTTA
1 GAAGATCTCCCTTCAAATTCCCTAAGAAGTTTTGGGTTTTCTTA
9004647 TGTTTTGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 2 0.05
44 40 0.95
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (44 bp):
GAAGATCTCCCTTCAAATTCCCTAAGAAGTTTTGGGTTTTCTTA
Found at i:9005861 original size:20 final size:20
Alignment explanation
Indices: 9005836--9005875 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9005826 CTCGTAGCTG
9005836 ATGCATGTCCCAGACATGTC
1 ATGCATGTCCCAGACATGTC
*
9005856 ATGCATGTCCCAGACCTGTC
1 ATGCATGTCCCAGACATGTC
9005876 TTACACTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.25
Consensus pattern (20 bp):
ATGCATGTCCCAGACATGTC
Found at i:9008382 original size:23 final size:22
Alignment explanation
Indices: 9008338--9008379 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9008328 TATTTTAAAA
9008338 AAAAAGGAAAATTATATATATT
1 AAAAAGGAAAATTATATATATT
*
9008360 AAAAA-GAAAAGTATATATAT
1 AAAAAGGAAAATTATATATAT
9008380 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.29
Consensus pattern (22 bp):
AAAAAGGAAAATTATATATATT
Found at i:9010054 original size:104 final size:105
Alignment explanation
Indices: 9009856--9010117 Score: 305
Period size: 104 Copynumber: 2.4 Consensus size: 105
9009846 TTTTTAACTT
* * *
9009856 TAAATCCAATCAAAATTAAATATGACAAATTTAAAAGAAAAGCAGTTGTAAATGCACCTTTCAAT
1 TAAATCCAATCGAAATTAAATATG----ATTTAAAAGAAAAGCAATTGTAAATGCACCTTTCAAC
* * **
9009921 AACTACCATGAAGTTTCTTTTAAATTGTTAAGGGTACTTCACTC
62 AACTACCATGAAGTTTATTTGAAATTGTTAAAAGTACTTCACTC
* * * *
9009965 TAAATCCAATCGAAATTAAATATGA-TTAAAGGAAAATCAATTGTAAATGTACCTTTCAACAGCT
1 TAAATCCAATCGAAATTAAATATGATTTAAAAGAAAAGCAATTGTAAATGCACCTTTCAACAACT
*
9010029 ACCATGAAGTTTATTTGAAGA-TGTTAAAAGTACTTCATTC
66 ACCATGAAGTTTATTTGAA-ATTGTTAAAAGTACTTCACTC
*
9010069 TAAAT-CAATCGAAATTAAATATGACGTATTTAAAAGAAAATCAATTGTA
1 TAAATCCAATCGAAATTAAATAT---G-ATTTAAAAGAAAAGCAATTGTA
9010118 TAGTAAATGT
Statistics
Matches: 134, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
103 17 0.13
104 71 0.53
105 2 0.01
106 1 0.01
107 1 0.01
108 19 0.14
109 23 0.17
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (105 bp):
TAAATCCAATCGAAATTAAATATGATTTAAAAGAAAAGCAATTGTAAATGCACCTTTCAACAACT
ACCATGAAGTTTATTTGAAATTGTTAAAAGTACTTCACTC
Found at i:9010453 original size:29 final size:29
Alignment explanation
Indices: 9010430--9010486 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
9010420 TATTATTGTT
*
9010430 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAATT-AATTG
*
9010459 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATTAATT
9010487 AAGAAAAGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATTAATTG
Found at i:9010587 original size:33 final size:32
Alignment explanation
Indices: 9010545--9010616 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
9010535 AAATGAGTAC
9010545 ATTTGTATTATTTA-TATATAATTAGTAAAGAGAT
1 ATTT-TATTATTTATTAT-TAATTAGTAAA-AGAT
9010579 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
9010611 -TTTTAT
1 ATTTTAT
9010617 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 4 0.11
33 20 0.54
34 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Found at i:9010626 original size:144 final size:142
Alignment explanation
Indices: 9010468--9010739 Score: 307
Period size: 144 Copynumber: 1.9 Consensus size: 142
9010458 GATTATATTA
* * * *
9010468 TTATATTATGAAATAAATTAAGAAA-A-GACAAGTGTAAGGTAAAAATAAAATACAAGTGTATTA
1 TTATATGATGAAATAAATT--GAAATATGACAAGTGGAAGGTAAAAATAAAATACAAATGTA-AA
* * * *
9010531 ATTTAAATGAGTACATTTGTATTATTTATATATAATTAGTAAAGAGATATTTTATTATTTATTAT
63 ATATAAATGAGTACATTTGTAATATTTATAT-TAATTAGTAAAGAAATATTTAATTA-TTATTAT
9010596 TAATTAGTAAAAGATTT
126 TAATTAGTAAAAGATTT
* * * *
9010613 TTATATGAT-AAATAAATTGAAATTATGATAAGTGGATGGTGATAATAAAATACAAATGTAAAAT
1 TTATATGATGAAATAAATTGAAA-TATGACAAGTGGAAGGTAAAAATAAAATACAAATGTAAAAT
* * ** * *
9010677 ATATATGTGTACATTTGTAATATTTATATTTGTTATTAAATAAATATTTAATTATTATTATTA
65 ATAAATGAGTACATTTGTAATATTTATATTAATTAGTAAAGAAATATTTAATTATTATTATTA
9010740 TTTATTTGAT
Statistics
Matches: 106, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
142 13 0.12
143 19 0.18
144 38 0.36
145 36 0.34
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (142 bp):
TTATATGATGAAATAAATTGAAATATGACAAGTGGAAGGTAAAAATAAAATACAAATGTAAAATA
TAAATGAGTACATTTGTAATATTTATATTAATTAGTAAAGAAATATTTAATTATTATTATTAATT
AGTAAAAGATTT
Found at i:9011831 original size:44 final size:44
Alignment explanation
Indices: 9011763--9011852 Score: 121
Period size: 44 Copynumber: 2.0 Consensus size: 44
9011753 TGTTCAGAGA
* *
9011763 TACTTCGACCTCGAGTCGATGAGGCA-CTATAG-GTGTCGTACTGT
1 TACTTCGACCTCAAGTCGACGAGGCACCT-T-GTGTGTCGTACTGT
*
9011807 TACTTCGACTTCAAGTCGACGAGGCACCTTGTGTGTCGTACTGT
1 TACTTCGACCTCAAGTCGACGAGGCACCTTGTGTGTCGTACTGT
9011851 TA
1 TA
9011853 TTATTACTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 38 0.93
45 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (44 bp):
TACTTCGACCTCAAGTCGACGAGGCACCTTGTGTGTCGTACTGT
Found at i:9012104 original size:18 final size:18
Alignment explanation
Indices: 9012010--9012106 Score: 67
Period size: 18 Copynumber: 5.4 Consensus size: 18
9012000 ACTACTGTAC
* *
9012010 TGAATAATTGATAGTTAT
1 TGAATAACTGATTGTTAT
* * *
9012028 TGAATAACTAAATTACTGTAC
1 TGAATAACT-GATT-GT-TAT
9012049 TGAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
* * *
9012067 TG-AT---TGTTTGATAC
1 TGAATAACTGATTGTTAT
9012081 TGAATAACTGATTGTTAT
1 TGAATAACTGATTGTTAT
9012099 TGAATAAC
1 TGAATAAC
9012107 AATAAGCAAA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
14 9 0.16
15 2 0.03
17 2 0.03
18 27 0.47
19 3 0.05
20 4 0.07
21 11 0.19
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.41
Consensus pattern (18 bp):
TGAATAACTGATTGTTAT
Found at i:9013432 original size:30 final size:30
Alignment explanation
Indices: 9013398--9013460 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
9013388 ACTTAACAAG
9013398 CAAATGCCTCTAAAATAATAAC-AAAATTAA
1 CAAATGCCTCTAAAATAAT-ACTAAAATTAA
*
9013428 CAAATGCCTTTAAAATAATACTAAAATTAA
1 CAAATGCCTCTAAAATAATACTAAAATTAA
9013458 CAA
1 CAA
9013461 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATACTAAAATTAA
Found at i:9018379 original size:31 final size:31
Alignment explanation
Indices: 9018344--9018418 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
9018334 TTTAACGACC
* **
9018344 TAGTGACTTAAATAAAAACTTTTGAGTGGTT
1 TAGTGACTTAAATAAAAACTTTTGAATAATT
**
9018375 TAGTGACTTAAATAAAATTTTTTGAATAATT
1 TAGTGACTTAAATAAAAACTTTTGAATAATT
*
9018406 TAATGACTTAAAT
1 TAGTGACTTAAAT
9018419 GAAACATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.41
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTTGAATAATT
Found at i:9021146 original size:3 final size:3
Alignment explanation
Indices: 9021138--9021174 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
9021128 TAGTTTACTC
9021138 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9021175 AAGCTTGATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9021527 original size:3 final size:3
Alignment explanation
Indices: 9021519--9021558 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
9021509 CGTATCCTTC
9021519 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9021559 GTCATATTAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9021866 original size:29 final size:29
Alignment explanation
Indices: 9021771--9021867 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 29
9021761 CACATGCCCA
*
9021771 TGTTTTCATAGTTATATGTATCTCAT-CT
1 TGTTTTCATAGTTATATTTATCTCATGCT
* * * * * * *
9021799 TGGTTACATTAGCTTTTATTAATTTAAATGACCA
1 TGTTTTCA-TAG-TTATATTTATCT-CATG--CT
9021833 TGTTTTCATAGTTATATTTATCTCATGCT
1 TGTTTTCATAGTTATATTTATCTCATGCT
9021862 TGTTTT
1 TGTTTT
9021868 TAAAAAAGGA
Statistics
Matches: 48, Mismatches: 15, Indels: 11
0.65 0.20 0.15
Matches are distributed among these distances:
28 6 0.12
29 10 0.21
30 8 0.17
31 5 0.10
32 9 0.19
33 3 0.06
34 7 0.15
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.53
Consensus pattern (29 bp):
TGTTTTCATAGTTATATTTATCTCATGCT
Found at i:9027558 original size:18 final size:18
Alignment explanation
Indices: 9027537--9027598 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
9027527 ATATATAGAT
9027537 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
9027555 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
9027574 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
9027589 ATA-ATAATAA
1 ATATATAATAA
9027599 TAATAAGACA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:9027589 original size:35 final size:33
Alignment explanation
Indices: 9027534--9027598 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
9027524 GAGATATATA
9027534 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
9027569 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
9027599 TAATAAGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:9029349 original size:44 final size:43
Alignment explanation
Indices: 9029277--9029844 Score: 181
Period size: 44 Copynumber: 12.8 Consensus size: 43
9029267 ACCTGATGCG
* * *
9029277 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* * * * *
9029321 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCA
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTA-TTTTA
* **
9029365 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTGAAATTCTTCA
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTATT-TT-A
* * * * ** ***
9029411 GTCTGTTCCACTGTAATCTTAGGGAAATAAGA-CC--TGGTGCG
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCTTTATTTTA
* * **
9029452 ATCTGCTCTACTGTAACTTCAGAGAGATAAGATCCTTGGTTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* * * *
9029496 ATCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCA
1 ATC---T--G--CT-C-C-ACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* * ** * * *
9029550 ATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGT-CTTTG
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* *** *
9029593 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTATTTTA
** *
9029637 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTGAAATTCTTCG
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCT-TTATT-TT-A
* * * * ***
9029683 GTCTACTCCACTGTAACCTCAAGGAGATAAGA-CC-TGA-TGCG
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATCCTTTATTTTA
* ** *
9029724 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
** * * ** * *
9029768 ATCCACTCCACTGTAACTTTAGGGAGATAGGATAGTGT-CTTTA
1 ATCTGCTCCACTGTAAC-TCAGGGAGATAAGATCCTTTATTTTA
* *
9029811 ATCTGCTCCGCTGCAATCTCAGGGAGATAAGATC
1 ATCTGCTCCACTGTAA-CTCAGGGAGATAAGATC
9029845 TCTGGCTTCA
Statistics
Matches: 388, Mismatches: 104, Indels: 65
0.70 0.19 0.12
Matches are distributed among these distances:
40 2 0.01
41 50 0.13
42 6 0.02
43 65 0.17
44 158 0.41
45 6 0.02
46 60 0.15
47 3 0.01
49 2 0.01
51 2 0.01
52 1 0.00
54 33 0.09
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (43 bp):
ATCTGCTCCACTGTAACTCAGGGAGATAAGATCCTTTATTTTA
Found at i:9029428 original size:46 final size:44
Alignment explanation
Indices: 9029320--9029442 Score: 131
Period size: 46 Copynumber: 2.8 Consensus size: 44
9029310 CCTTTATTTT
* * *
9029320 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATAGCTTC
* *
9029364 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAA-ATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-AATA-GCTTC
* * * *
9029410 AGTCTGTTCCACTGTAATCTTAGGGAAATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
9029443 CCTGGTGCGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
44 31 0.47
45 2 0.03
46 33 0.50
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAATAGCTTC
Found at i:9029651 original size:87 final size:87
Alignment explanation
Indices: 9029505--9029665 Score: 225
Period size: 87 Copynumber: 1.9 Consensus size: 87
9029495 AATCTGATGC
* * * * *
9029505 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCTTTTATTTCAATCCGCTCCACTGTAACTTC
1 GATCTACTCCGCTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTC
9029570 AGGGAGATAGGATAGTGTCTTT
66 AGGGAGATAGGATAGTGTCTTT
* * * *
9029592 GATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 GATCTACTCCGCTGTAACT-TCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCT
9029656 CAGGGAGATA
65 CAGGGAGATA
9029666 AGATCTGAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 1 0.02
87 63 0.98
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (87 bp):
GATCTACTCCGCTGTAACTTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTC
AGGGAGATAGGATAGTGTCTTT
Found at i:9029753 original size:218 final size:213
Alignment explanation
Indices: 9029239--9029872 Score: 754
Period size: 218 Copynumber: 2.9 Consensus size: 213
9029229 GGCTTCTATG
* * * * *
9029239 TACTCCACTGTAACCACAGGGAGGTAAAACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGA
1 TACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
* *
9029304 TAAGATCCTTTATTTTAATCCGCTCCACTGTAA-TCTCAGGGAGATAGGATTACTAG-CTTCAAT
66 TAAGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATAGGA-TAGT-GTCTTTAAT
* * * * * *
9029367 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAAT-TCTTCAGTCTGTTCCACTGTAATCTT
128 CTGCTCCGCTGTAATCTCAGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACCTC
*
9029431 AGGGAAATAAGACCTGGTGCGATC
190 AGGGAAATAAGACCTGCTGCGATC
* * *
9029455 TGCTCTACTGTAACTTC-AGAGAGATAAGATCCTTGGTTTTAATCTGATGCGATCTACTCTGCTG
1 TACTCCACTGTAACCTCAAG-GAGATAAGA--C-----------CTGATGCGATCTACTCTGCTG
* *
9029519 TAACTTCAGAGAGATAAGATCTTTTATTTCAATCCGCTCCACTGTAACTTCAGGGAGATAGGATA
52 TAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATA
*
9029584 GTGTCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
117 GTGTCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACT
* * * *
9029649 GTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTC
182 GTAACCTCAGGGAAATAAGACCTG-----CTGCGATC
9029686 TACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
1 TACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
* *
9029751 TAAGATCCTTTATTTTAATCCACTCCACTGTAACTTTAGGGAGATAGGATAGTGTCTTTAATCTG
66 TAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTTAATCTG
* * *
9029816 CTCCGCTGCAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTACTCCACTGCAACC
131 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACC
9029873 GATGGAGGCA
Statistics
Matches: 360, Mismatches: 35, Indels: 44
0.82 0.08 0.10
Matches are distributed among these distances:
215 1 0.00
216 20 0.06
218 150 0.42
225 1 0.00
226 35 0.10
227 1 0.00
228 41 0.11
229 80 0.22
230 1 0.00
231 28 0.08
232 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (213 bp):
TACTCCACTGTAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTGCTGTAACTTCAGAGAGA
TAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTTAATCTG
CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAA
ATAAGACCTGCTGCGATC
Found at i:9029950 original size:86 final size:86
Alignment explanation
Indices: 9029860--9030622 Score: 1223
Period size: 86 Copynumber: 8.9 Consensus size: 86
9029850 CTTCAATCTA
* * *
9029860 CTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTT-GTTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* *
9029924 AAGATCTGCTATCTTCAACTAG
66 AAGATCTGCT-TCTTTAACCAG
* * * * *
9029946 CTCCATTGCAGCCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGAAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* *
9030011 AAGATATGCTATCTTTGACCAG
66 AAGATCTGCT-TCTTTAACCAG
* *
9030033 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
9030098 AAGATCTGCTTCTTTAACCAG
66 AAGATCTGCTTCTTTAACCAG
* *
9030119 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGTAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
*
9030184 AAGATCTGATTCTTTAACCAG
66 AAGATCTGCTTCTTTAACCAG
* * *
9030205 CTCCACTGTAACCAATAAAGGCAAGGC--T-TTTTCAATCTGCTTCGCTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
*
9030267 AAGATCTGCTTCTTTAACTAG
66 AAGATCTGCTTCTTTAACCAG
* *
9030288 CTCCACTGTAACCAATGAAGGCAAGACTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
9030353 AAGATCTGCTTCTTTAACCAG
66 AAGATCTGCTTCTTTAACCAG
* *
9030374 CTCCACTGCAACCAATGAAGGCATGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
9030439 AAGATCTGCTTCTTTAACCAG
66 AAGATCTGCTTCTTTAACCAG
*
9030460 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
9030525 AAGATCT--TTCTTTAACCAG
66 AAGATCTGCTTCTTTAACCAG
*
9030544 CTCTACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
9030609 AAGATCTGCTTCTT
66 AAGATCTGCTTCTT
9030623 CACTGATCTG
Statistics
Matches: 633, Mismatches: 38, Indels: 12
0.93 0.06 0.02
Matches are distributed among these distances:
83 75 0.12
84 83 0.13
85 1 0.00
86 368 0.58
87 106 0.17
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (86 bp):
CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
AAGATCTGCTTCTTTAACCAG
Found at i:9030362 original size:255 final size:257
Alignment explanation
Indices: 9029860--9030622 Score: 1221
Period size: 255 Copynumber: 3.0 Consensus size: 257
9029850 CTTCAATCTA
* * *
9029860 CTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTT-GTTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* * * *
9029924 AAGATCTGCTATCTTCAACTAGCTCCATTGCAGCCAATGAAGGCAAGGCTTTGTTTTCGATCTGC
66 AAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGC-TTGTTTTCGATCTGC
* * * *
9029989 TTCGTTGTTAATGCAGAAAGGCAAGATATGCTATCTTTGACCAGCTCCACTGCAACCAATGAAGG
129 TTCGCTGTTAATGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCAATGAAGG
* *
9030054 CAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
193 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
* *
9030119 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGTAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* * * *
9030184 AAGATCTGATTCTTTAACCAGCTCCACTGTAACCAATAAAGGCAAGGC-T-TTTTCAATCTGCTT
66 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
* * *
9030247 CGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACTAGCTCCACTGTAACCAATGAAGGCAA
131 CGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAA
*
9030312 GACTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
196 GGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
* *
9030374 CTCCACTGCAACCAATGAAGGCATGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
9030439 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCT
66 AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGC-TTGTTTTCGATCTGCT
*
9030504 TCGCTGTTAATGCAGGAAGGCAAGATCT--TTCTTTAACCAGCTCTACTGCAACCAATGAAGGCA
130 TCGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCA
9030567 AGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTT
195 AGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTT
9030623 CACTGATCTG
Statistics
Matches: 464, Mismatches: 36, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
255 197 0.42
256 126 0.27
257 2 0.00
258 39 0.08
259 75 0.16
260 25 0.05
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (257 bp):
CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
AAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTT
CGCTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCAATGAAGGCAA
GGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
Found at i:9030442 original size:341 final size:342
Alignment explanation
Indices: 9029860--9030624 Score: 1250
Period size: 341 Copynumber: 2.2 Consensus size: 342
9029850 CTTCAATCTA
* ** *
9029860 CTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTT-GTTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATAAAGGCAAGGC-TTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
* * *
9029924 AAGATCTGCTATCTTCAACTAGCTCCATTGCAGCCAATGAAGGCAAGGCTTTGTTTTCGATCTGC
65 AAGATCTGCT-TCTTCAACTAGCTCCACTGCAACCAATGAAGGCAAGACTTTGTTTTCGATCTGC
* * *
9029989 TTCGTTGTTAATGCAGAAAGGCAAGATATGCTATCTTTGACCAGCTCCACTGCAACCAATGAAGG
129 TTCGCTGTTAACGCAGAAAGGCAAGATATGCTATCTTTAACCAGCTCCACTGCAACCAATGAAGG
* *
9030054 CAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAATGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
194 CAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAG
*
9030119 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGTAAGGC
259 CTCCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGC
9030184 AAGATCTGATTCTTTAACCAG
324 AAGATCT--TTCTTTAACCAG
* *
9030205 CTCCACTGTAACCAATAAAGGCAAGGC-T-TTTTCAATCTGCTTCGCTGTTAACGCAGGAAGGCA
1 CTCCACTGCAACCAATAAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCA
* *
9030268 AGATCTGCTTCTTTAACTAGCTCCACTGTAACCAATGAAGGCAAGACTTTGTTTTCGATCTGCTT
66 AGATCTGCTTCTTCAACTAGCTCCACTGCAACCAATGAAGGCAAGACTTTGTTTTCGATCTGCTT
* *
9030333 CGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCAATGAAGGCA
131 CGCTGTTAACGCAGAAAGGCAAGATATGCTATCTTTAACCAGCTCCACTGCAACCAATGAAGGCA
* *
9030397 TGGCTTTGTTTTTGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCT
196 AGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCT
9030462 CCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAA
261 CCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAA
9030527 GATCTTTCTTTAACCAG
326 GATCTTTCTTTAACCAG
* *
9030544 CTCTACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
1 CTCCACTGCAACCAATAAAGGCAAGGC-TTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGC
9030609 AAGATCTGCTTCTTCA
65 AAGATCTGCTTCTTCA
9030625 CTGATCTGTT
Statistics
Matches: 390, Mismatches: 26, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
339 36 0.09
341 164 0.42
342 138 0.35
343 29 0.07
345 23 0.06
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (342 bp):
CTCCACTGCAACCAATAAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCA
AGATCTGCTTCTTCAACTAGCTCCACTGCAACCAATGAAGGCAAGACTTTGTTTTCGATCTGCTT
CGCTGTTAACGCAGAAAGGCAAGATATGCTATCTTTAACCAGCTCCACTGCAACCAATGAAGGCA
AGGCTTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCT
CCACTGCAACCAATGAAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAA
GATCTTTCTTTAACCAG
Found at i:9032759 original size:8 final size:8
Alignment explanation
Indices: 9032746--9032780 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
9032736 TTTGTTTTTC
9032746 TTTTGATA
1 TTTTGATA
9032754 TTTTGATA
1 TTTTGATA
9032762 TTTTGATA
1 TTTTGATA
9032770 TTTTGAT-
1 TTTTGATA
9032777 TTTT
1 TTTT
9032781 TTTTGAGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.15
8 23 0.85
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (8 bp):
TTTTGATA
Found at i:9039173 original size:18 final size:18
Alignment explanation
Indices: 9039152--9039213 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
9039142 ATATATAGAT
9039152 ATATATAATAAGATATAA
1 ATATATAATAAGATATAA
*
9039170 ATATATAATAAGATGATAT
1 ATATATAATAAGAT-ATAA
*
9039189 ATATA-AAT-AGTTAT-A
1 ATATATAATAAGATATAA
9039204 ATA-ATAATAA
1 ATATATAATAA
9039214 TAATAATAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.03
15 6 0.16
16 3 0.08
17 3 0.08
18 17 0.45
19 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (18 bp):
ATATATAATAAGATATAA
Found at i:9039204 original size:35 final size:33
Alignment explanation
Indices: 9039149--9039213 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
9039139 GAGATATATA
9039149 GATATATATAATAAGATATAAATATATAATAAGAT
1 GATATATATAATAAGATAT-AATA-ATAATAAGAT
*
9039184 GATATATATAA-ATAGTTATAATAATAATAA
1 GATATATATAATA-AGATATAATAATAATAA
9039214 TAATAATAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 7 0.25
34 5 0.18
35 16 0.57
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (33 bp):
GATATATATAATAAGATATAATAATAATAAGAT
Found at i:9041422 original size:41 final size:40
Alignment explanation
Indices: 9041377--9041488 Score: 118
Period size: 41 Copynumber: 2.8 Consensus size: 40
9041367 AGGTAAAACG
9041377 GTAGCGACGTTTATGAGAAAAATGCCGCAAAAGGTCAAGCA
1 GTAGCGACGTTTATGAGAAAAATGCCGCAAAAGGT-AAGCA
** * *
9041418 GTAGCGGTGTTTATGAGAAAAATGCTGTAAAAGGTAAGCA
1 GTAGCGACGTTTATGAGAAAAATGCCGCAAAAGGTAAGCA
* * * * *
9041458 ATAGC-AGCATTTTTGATAAAAACGCCGCAAA
1 GTAGCGA-CGTTTATGAGAAAAATGCCGCAAA
9041489 GTATCATTTT
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
40 26 0.46
41 31 0.54
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (40 bp):
GTAGCGACGTTTATGAGAAAAATGCCGCAAAAGGTAAGCA
Found at i:9041479 original size:40 final size:41
Alignment explanation
Indices: 9041386--9041488 Score: 118
Period size: 40 Copynumber: 2.5 Consensus size: 41
9041376 GGTAGCGACG
* * **
9041386 TTTATGAGAAAAATGCCGCAAAAGGTCAAGCAGTAGCGGTG
1 TTTATGAGAAAAATGCCGCAAAAGGTCAAGCAATAGCAGCA
* *
9041427 TTTATGAGAAAAATGCTGTAAAAGGT-AAGCAATAGCAGCA
1 TTTATGAGAAAAATGCCGCAAAAGGTCAAGCAATAGCAGCA
* * *
9041467 TTTTTGATAAAAACGCCGCAAA
1 TTTATGAGAAAAATGCCGCAAA
9041489 GTATCATTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 27 0.53
41 24 0.47
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (41 bp):
TTTATGAGAAAAATGCCGCAAAAGGTCAAGCAATAGCAGCA
Found at i:9042688 original size:25 final size:25
Alignment explanation
Indices: 9042659--9042706 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9042649 TATTAGCTCA
9042659 ATTTTTATTATTTCATTTAACAATT
1 ATTTTTATTATTTCATTTAACAATT
*
9042684 ATTTTTATTATTTCATTTTACAA
1 ATTTTTATTATTTCATTTAACAA
9042707 AATCCTGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTATTATTTCATTTAACAATT
Found at i:9048392 original size:36 final size:36
Alignment explanation
Indices: 9048351--9048427 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
9048341 AACTTTAGAT
*
9048351 CATAACTTATATAAATATATATCATATCATAACTTA
1 CATAACTTACATAAATATATATCATATCATAACTTA
9048387 CATAACTTACATAAATATATATCATATCATAACTTA
1 CATAACTTACATAAATATATATCATATCATAACTTA
9048423 CATAA
1 CATAA
9048428 AACTTTGGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (36 bp):
CATAACTTACATAAATATATATCATATCATAACTTA
Found at i:9057929 original size:50 final size:51
Alignment explanation
Indices: 9057852--9057980 Score: 208
Period size: 50 Copynumber: 2.5 Consensus size: 51
9057842 GACCATGGCA
*
9057852 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAG-ACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATC-AAGCACAAATG
9057903 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGCACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGCACAAATG
* *
9057953 ACAAGTGAAAAGTGGTAGCTTCGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
9057981 CTGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
49 3 0.04
50 45 0.62
51 25 0.34
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGCACAAATG
Found at i:9057994 original size:31 final size:31
Alignment explanation
Indices: 9057956--9058197 Score: 362
Period size: 31 Copynumber: 7.8 Consensus size: 31
9057946 ACAAATGACA
9057956 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9057987 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
9058018 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
9058049 AGTGAAAAGTGGTAGCTTCTGCTACTTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9058080 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9058111 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* * *
9058142 AGTGAAAAATGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9058173 AGT-AAATAGTGGTAGCTTCGACTAC
1 AGTGAAA-AGTGGTAGCTTCGGCTAC
9058198 AAGTGACAAG
Statistics
Matches: 191, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
30 4 0.02
31 186 0.97
32 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:9058373 original size:49 final size:47
Alignment explanation
Indices: 9058266--9058437 Score: 205
Period size: 49 Copynumber: 3.7 Consensus size: 47
9058256 TGCTACTGTA
* * * *
9058266 TAAGACCATATCTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
*
9058312 CAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
9058361 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
9058403 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
9058438 AGATGTGTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
41 1 0.01
42 35 0.31
44 1 0.01
45 1 0.01
46 24 0.21
47 1 0.01
48 14 0.12
49 37 0.32
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:9058404 original size:42 final size:43
Alignment explanation
Indices: 9058313--9058472 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 43
9058303 TGATTCGTGC
*
9058313 AAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATTACGTGT
1 AAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T--GTGT
*
9058362 AAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGTGT
1 AAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTGT
*
9058404 AAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGATGTGT
1 AAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTGT
* **
9058446 AAGACCATAGTTGAACTATGGCATCGA
1 AAGACCATAGCTGGGCTATGGCATCGA
9058473 GAAAATAAAG
Statistics
Matches: 101, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
41 1 0.01
42 64 0.63
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 26 0.26
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
AAGACCATAGCTGGGCTATGGCATCGATTATATGAAGATGTGT
Found at i:9062416 original size:18 final size:18
Alignment explanation
Indices: 9062365--9062417 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
9062355 CAGTTACTCT
*
9062365 ATAACAGTCAATTATACA
1 ATAACAGTCAATTATTCA
*
9062383 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
* *
9062401 GTAACAGTCACTTATTC
1 ATAACAGTCAATTATTC
9062418 TGCAGCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:9063741 original size:32 final size:31
Alignment explanation
Indices: 9063694--9063757 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 31
9063684 TCTACATTTT
* *
9063694 TCATAATTAATTTATTTACTTATATAATTATC
1 TCATAATTAATTTATTTAATTA-ATAAATATC
9063726 TCATAATATAA-TTATTTAATTAATAAATATC
1 TCATAAT-TAATTTATTTAATTAATAAATATC
9063757 T
1 T
9063758 AGTAATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 9 0.31
32 17 0.59
33 3 0.10
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (31 bp):
TCATAATTAATTTATTTAATTAATAAATATC
Found at i:9073981 original size:19 final size:19
Alignment explanation
Indices: 9073959--9073995 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
9073949 AGACTTATGA
9073959 CATGTTTTAACTTTTATTG
1 CATGTTTTAACTTTTATTG
9073978 CATGTTTTAACTTTTATT
1 CATGTTTTAACTTTTATT
9073996 TTCTTTTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.59
Consensus pattern (19 bp):
CATGTTTTAACTTTTATTG
Found at i:9075982 original size:30 final size:30
Alignment explanation
Indices: 9075936--9075995 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
9075926 TTCCCGAGCC
*
9075936 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
9075966 TAGGGGTAAAAATGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
9075996 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:9081209 original size:31 final size:31
Alignment explanation
Indices: 9081151--9081232 Score: 78
Period size: 31 Copynumber: 2.7 Consensus size: 31
9081141 TAGTTGATGA
* * **
9081151 AAAAAAATTGAA-TATCAATTTGGGATAAA-
1 AAAAAAATTCAAGTAACAATTTAAGATAAAT
* *
9081180 AAAAAAACTTTAAGTACCAATTTAAGATAAAT
1 AAAAAAA-TTCAAGTAACAATTTAAGATAAAT
*
9081212 AAACAAATTCAAGTAACAATT
1 AAAAAAATTCAAGTAACAATT
9081233 ATATATTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
29 7 0.16
30 4 0.09
31 26 0.60
32 6 0.14
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.27
Consensus pattern (31 bp):
AAAAAAATTCAAGTAACAATTTAAGATAAAT
Found at i:9082704 original size:25 final size:25
Alignment explanation
Indices: 9082676--9082794 Score: 95
Period size: 25 Copynumber: 4.7 Consensus size: 25
9082666 ATCGGATTAT
*
9082676 TTTTATATATATTTATTTTAACTTG
1 TTTTATATATATTTATTTTAAATTG
* **
9082701 TTTTATGTACT-TTTATTCGAAATTG
1 TTTTATATA-TATTTATTTTAAATTG
9082726 TTTTAT-TATA--TATTTTAAATTG
1 TTTTATATATATTTATTTTAAATTG
* *
9082748 CCTTATATATATTTATTTATTTCTAAATTA
1 --TT-T-TATATATATTTATTT-TAAATTG
9082778 TTTTATATATA-TTATTT
1 TTTTATATATATTTATTT
9082795 ATTTTAGATT
Statistics
Matches: 75, Mismatches: 9, Indels: 20
0.72 0.09 0.19
Matches are distributed among these distances:
22 10 0.13
23 1 0.01
24 4 0.05
25 32 0.43
26 11 0.15
27 4 0.05
28 2 0.03
29 5 0.07
30 6 0.08
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (25 bp):
TTTTATATATATTTATTTTAAATTG
Found at i:9082768 original size:29 final size:28
Alignment explanation
Indices: 9082729--9082800 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
9082719 GAAATTGTTT
* *
9082729 TATTATATATTTTAAATTGCCTTATATA
1 TATTATTTATTTTAAATTACCTTATATA
**
9082757 TATTTATTTATTTCTAAATTATTTTATATA
1 TA-TTATTTATTT-TAAATTACCTTATATA
9082787 TATTATTTATTTTA
1 TATTATTTATTTTA
9082801 GATTCTTTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.11
29 19 0.50
30 15 0.39
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TATTATTTATTTTAAATTACCTTATATA
Found at i:9082963 original size:24 final size:25
Alignment explanation
Indices: 9082932--9082989 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
9082922 TAGTATATAA
*
9082932 ATTTTAAACTAACTT-ATATTACTT
1 ATTTTAAACTAACTTCATATGACTT
* * *
9082956 ATTTTAAA-TTATTTCATATGCCTT
1 ATTTTAAACTAACTTCATATGACTT
9082980 ATTTTAAACT
1 ATTTTAAACT
9082990 CTTTTCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 23 0.82
25 1 0.04
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTTAAACTAACTTCATATGACTT
Found at i:9083054 original size:24 final size:25
Alignment explanation
Indices: 9082996--9083054 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
9082986 AACTCTTTTC
* *
9082996 ATTTATTTTAAATTTTATTATTATT
1 ATTTATTTTAAATTCTATTATTAAT
*
9083021 ATTTACTTTAATATTCT-TTA-TAAT
1 ATTTATTTTAA-ATTCTATTATTAAT
9083045 ATTTATTTTA
1 ATTTATTTTA
9083055 CACTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 12 0.41
25 13 0.45
26 4 0.14
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (25 bp):
ATTTATTTTAAATTCTATTATTAAT
Found at i:9083084 original size:30 final size:31
Alignment explanation
Indices: 9083025--9083084 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
9083015 ATTATTATTT
* *
9083025 ACTTTAATATTCTTTATAATATTTATTTTAC
1 ACTTTAATATTCTATATAATATCTATTTTAC
* *
9083056 ACTTTTATATT-TATATATTATCTATTTTA
1 ACTTTAATATTCTATATAATATCTATTTTA
9083085 AAATTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (31 bp):
ACTTTAATATTCTATATAATATCTATTTTAC
Found at i:9083091 original size:28 final size:26
Alignment explanation
Indices: 9083060--9083121 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 26
9083050 TTTTACACTT
9083060 TTATATTTATATATTATCTATTTTAAAA
1 TTATATTTATATA--ATCTATTTTAAAA
*
9083088 TTATA--TATATAATCTATTTTTAAA
1 TTATATTTATATAATCTATTTTAAAA
*
9083112 TCAT-TTTATA
1 TTATATTTATA
9083122 CATAGTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 15 0.50
25 4 0.13
26 6 0.20
28 5 0.17
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (26 bp):
TTATATTTATATAATCTATTTTAAAA
Found at i:9083102 original size:24 final size:24
Alignment explanation
Indices: 9083067--9083112 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9083057 CTTTTATATT
*
9083067 TATATATTATCTATTTTAAAATTA
1 TATATATAATCTATTTTAAAATTA
*
9083091 TATATATAATCTATTTTTAAAT
1 TATATATAATCTATTTTAAAAT
9083113 CATTTTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATATAATCTATTTTAAAATTA
Found at i:9086469 original size:6 final size:6
Alignment explanation
Indices: 9086458--9086487 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
9086448 TGCAAGTTAT
*
9086458 TTGTAA TTGTAA TTGTAA TTGTAA TAGTAA
1 TTGTAA TTGTAA TTGTAA TTGTAA TTGTAA
9086488 AAAGGAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (6 bp):
TTGTAA
Found at i:9086904 original size:17 final size:18
Alignment explanation
Indices: 9086864--9086904 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9086854 CTTTTAATTT
*
9086864 TTTAAC-AAAAATTATGA
1 TTTAACAAAAAAATATGA
9086881 TTT-ACAAAAAAATAT-A
1 TTTAACAAAAAAATATGA
9086897 TTTAACAA
1 TTTAACAA
9086905 TAGAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (18 bp):
TTTAACAAAAAAATATGA
Found at i:9090728 original size:37 final size:38
Alignment explanation
Indices: 9090677--9090761 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 38
9090667 GAATTCGAAT
9090677 TATTTAAATCATCGTTGTACT-AAAATATATAAACATA
1 TATTTAAATCATCGTTGTACTAAAAATATATAAACATA
*
9090714 TATTTAAATTATCGTTGTACTAAAAAATATATAAACATA
1 TATTTAAATCATCGTTGTACT-AAAAATATATAAACATA
9090753 TATTTAAAT
1 TATTTAAAT
9090762 ATTAAAATGC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 20 0.44
39 25 0.56
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (38 bp):
TATTTAAATCATCGTTGTACTAAAAATATATAAACATA
Found at i:9097439 original size:17 final size:16
Alignment explanation
Indices: 9097417--9097449 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
9097407 TGTACTTGGT
9097417 AGAAAATAAAAGTGAGA
1 AGAAAATAAAA-TGAGA
9097434 AGAAAATAAAATGAGA
1 AGAAAATAAAATGAGA
9097450 GATCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (16 bp):
AGAAAATAAAATGAGA
Found at i:9102650 original size:13 final size:15
Alignment explanation
Indices: 9102619--9102654 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
9102609 GTATTTAGTC
9102619 TTATTTTTATATATT
1 TTATTTTTATATATT
9102634 TTATTTTTAT-T-TT
1 TTATTTTTATATATT
9102647 TTATTTTT
1 TTATTTTT
9102655 GGGAATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 1 0.05
15 10 0.48
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTATTTTTATATATT
Found at i:9108484 original size:13 final size:13
Alignment explanation
Indices: 9108466--9108491 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9108456 CTATAAATGT
9108466 TTTTGCAATGTTG
1 TTTTGCAATGTTG
9108479 TTTTGCAATGTTG
1 TTTTGCAATGTTG
9108492 GGTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.23, T:0.54
Consensus pattern (13 bp):
TTTTGCAATGTTG
Found at i:9109176 original size:30 final size:31
Alignment explanation
Indices: 9109142--9109243 Score: 131
Period size: 30 Copynumber: 3.4 Consensus size: 31
9109132 TAAAAAATAA
*
9109142 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
9109172 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
*
9109202 AAATTTCATTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
9109232 AAATTTCATTTT
1 AAATTTCATTTT
9109244 AATCATAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
29 4 0.06
30 59 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:9109625 original size:3 final size:3
Alignment explanation
Indices: 9109619--9109689 Score: 97
Period size: 3 Copynumber: 22.0 Consensus size: 3
9109609 GCTCGGTTTT
9109619 GAA GAA GAA GAA GAA GGAA GAA GAA GAA GAA GAA GAA GAA GAA GAAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA
9109666 GAAA GAGA GAA GAA GAAA GAA GAA
1 G-AA GA-A GAA GAA G-AA GAA GAA
9109690 AAAAAAAGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
3 48 0.75
4 16 0.25
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:9109659 original size:28 final size:30
Alignment explanation
Indices: 9109620--9109700 Score: 112
Period size: 28 Copynumber: 2.7 Consensus size: 30
9109610 CTCGGTTTTG
*
9109620 AAGAAGAAGAAGAAGGAAG-AAGA-AGAAG
1 AAGAAGAAGAAGAAGAAAGAAAGAGAGAAG
9109648 AAGAAGAAGAAGAAGAAAGAAAGAGAGAAG
1 AAGAAGAAGAAGAAGAAAGAAAGAGAGAAG
* *
9109678 AAGAAAGAAGAAAAAAAAAGAAA
1 AAG-AAGAAGAAGAAGAAAGAAA
9109701 AAAAATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
28 18 0.38
29 4 0.09
30 8 0.17
31 17 0.36
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (30 bp):
AAGAAGAAGAAGAAGAAAGAAAGAGAGAAG
Found at i:9109688 original size:25 final size:22
Alignment explanation
Indices: 9109620--9109699 Score: 99
Period size: 22 Copynumber: 3.5 Consensus size: 22
9109610 CTCGGTTTTG
9109620 AAGAAGAAGAAGAAGGAAGAAG-
1 AAGAAGAAGAAGAA-GAAGAAGA
9109642 AAGAAGAAGAAGAAGAAGAAGA
1 AAGAAGAAGAAGAAGAAGAAGA
9109664 AAGAAAGAGAGAAGAAGAAAGAAGA
1 AAG-AAGA-AGAAGAAG-AAGAAGA
* *
9109689 AAAAAAAAGAA
1 AAGAAGAAGAA
9109700 AAAAAATTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
21 7 0.13
22 17 0.33
23 8 0.15
24 11 0.21
25 9 0.17
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (22 bp):
AAGAAGAAGAAGAAGAAGAAGA
Found at i:9109779 original size:18 final size:18
Alignment explanation
Indices: 9109742--9109784 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9109732 AACCGGGTAT
* * *
9109742 AACCCGACCCGATCCGGC
1 AACCCAACCCGACCCAGC
9109760 AACCCAACCCGACCCAGC
1 AACCCAACCCGACCCAGC
9109778 AAGCCCA
1 AA-CCCA
9109785 TTAGCCAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.51, G:0.16, T:0.02
Consensus pattern (18 bp):
AACCCAACCCGACCCAGC
Found at i:9109989 original size:24 final size:24
Alignment explanation
Indices: 9109962--9110007 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
9109952 GCAGCCCAGC
*
9109962 AGAAAAAAA-AAAGGAAGAAAAAGG
1 AGAAAAAAAGAAA-AAAGAAAAAGG
9109986 AGAAAAAAAGAAAAAAGAAAAA
1 AGAAAAAAAGAAAAAAGAAAAA
9110008 ACAAGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 17 0.85
25 3 0.15
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (24 bp):
AGAAAAAAAGAAAAAAGAAAAAGG
Found at i:9109998 original size:17 final size:17
Alignment explanation
Indices: 9109976--9110018 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
9109966 AAAAAAAAGG
*
9109976 AAGAAAAAGGAGAAAAA-
1 AAGAAAAAAGA-AAAAAC
9109993 AAGAAAAAAGAAAAAAC
1 AAGAAAAAAGAAAAAAC
9110010 AAGAAAAAA
1 AAGAAAAAA
9110019 AGGGGTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAGAAAAAAC
Found at i:9110007 original size:25 final size:25
Alignment explanation
Indices: 9109962--9110020 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
9109952 GCAGCCCAGC
* **
9109962 AGAAAAAAA-AAAGGAAGAAAAAGG
1 AGAAAAAAAGAAAGAAAGAAAAACA
9109986 AGAAAAAAAGAAA-AAAGAAAAAACA
1 AGAAAAAAAGAAAGAAAG-AAAAACA
9110011 AGAAAAAAAG
1 AGAAAAAAAG
9110021 GGGTTCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.40
25 18 0.60
ACGTcount: A:0.80, C:0.02, G:0.19, T:0.00
Consensus pattern (25 bp):
AGAAAAAAAGAAAGAAAGAAAAACA
Found at i:9110181 original size:5 final size:5
Alignment explanation
Indices: 9110171--9110198 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9110161 CATTTATATT
9110171 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTT
9110199 TTATTTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAA
Found at i:9110225 original size:27 final size:27
Alignment explanation
Indices: 9110162--9110226 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
9110152 ATATTTTGGC
9110162 ATTTATATTTTTAATTTAATTTAATTTA
1 ATTT-TATTTTTAATTTAATTTAATTTA
* * ** * *
9110190 ATTTAATTTTTATTTTCTTTTTATTTT
1 ATTTTATTTTTAATTTAATTTAATTTA
9110217 ATTTTATTTT
1 ATTTTATTTT
9110227 AAATACTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (27 bp):
ATTTTATTTTTAATTTAATTTAATTTA
Found at i:9110598 original size:35 final size:35
Alignment explanation
Indices: 9110556--9110674 Score: 136
Period size: 35 Copynumber: 3.4 Consensus size: 35
9110546 ATTTTTCGTG
*
9110556 TTTTCAAATATTCTCGTGTTTTCAAAAAATTT-TAT
1 TTTTCAAA-ATTTTCGTGTTTTCAAAAAATTTCTAT
* *
9110591 TTTTCAAAATTTTTCGTGTTTTCTAAAAATTTCCAT
1 TTTTCAAAA-TTTTCGTGTTTTCAAAAAATTTCTAT
* *
9110627 ATTTCTAAAATTTTCGTG-TTTAAAAAAATTTCGTAT
1 TTTTC-AAAATTTTCGTGTTTTCAAAAAATTTC-TAT
9110663 TTTT-AAAATTTT
1 TTTTCAAAATTTT
9110675 TTATTTTTTT
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
34 9 0.12
35 40 0.56
36 19 0.26
37 4 0.06
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (35 bp):
TTTTCAAAATTTTCGTGTTTTCAAAAAATTTCTAT
Found at i:9110623 original size:18 final size:18
Alignment explanation
Indices: 9110549--9110670 Score: 76
Period size: 18 Copynumber: 6.9 Consensus size: 18
9110539 TCAGAAAATT
*
9110549 TTTCGTGTTTTC-AAATA
1 TTTCGTGTTTTCTAAAAA
*
9110566 TTCTCGTGTTTTCAAAAAA
1 TT-TCGTGTTTTCTAAAAA
** *
9110585 TTTTAT-TTTTC-AAAATT
1 TTTCGTGTTTTCTAAAA-A
9110602 TTTCGTGTTTTCTAAAAA
1 TTTCGTGTTTTCTAAAAA
* * *
9110620 TTTCCAT-ATTTCTAAAAT
1 TTT-CGTGTTTTCTAAAAA
**
9110638 TTTCGTG-TTTAAAAAAA
1 TTTCGTGTTTTCTAAAAA
*
9110655 TTTCGTATTTT-TAAAA
1 TTTCGTGTTTTCTAAAA
9110671 TTTTTTATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
16 4 0.05
17 30 0.37
18 35 0.43
19 12 0.15
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (18 bp):
TTTCGTGTTTTCTAAAAA
Found at i:9110783 original size:19 final size:19
Alignment explanation
Indices: 9110755--9110801 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
9110745 AAATTTCTCG
*
9110755 TGTTTCAAAAAAATTGTCA
1 TGTTTTAAAAAAATTGTCA
*
9110774 TGTTTT--AAAAATTTTCA
1 TGTTTTAAAAAAATTGTCA
9110791 TGTTTCTAAAA
1 TGTTT-TAAAA
9110802 TGTTTGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 15 0.65
18 1 0.04
19 5 0.22
20 2 0.09
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.45
Consensus pattern (19 bp):
TGTTTTAAAAAAATTGTCA
Found at i:9110800 original size:18 final size:17
Alignment explanation
Indices: 9110763--9110960 Score: 116
Period size: 17 Copynumber: 11.3 Consensus size: 17
9110753 CGTGTTTCAA
*
9110763 AAAAATTGTCATGTTTT
1 AAAAATTTTCATGTTTT
9110780 AAAAATTTTCATGTTTCT
1 AAAAATTTTCATGTTT-T
*
9110798 -AAAATGTT--TGTATTT
1 AAAAATTTTCATGT-TTT
** *
9110813 CAAAAAATCCTCGTGTTTT
1 --AAAAATTTTCATGTTTT
* *
9110832 CAAAAATTCTCATGTTTA
1 -AAAAATTTTCATGTTTT
* *
9110850 AAAAATCTTCGTGTTTT
1 AAAAATTTTCATGTTTT
* *
9110867 CAAAATTCT-AGTGTTTT
1 AAAAATTTTCA-TGTTTT
9110884 AAAAATTTTCATGTTTT
1 AAAAATTTTCATGTTTT
* *
9110901 CAAAAATTTCCCCTGTTTT
1 -AAAAATTT-TCATGTTTT
* * *
9110920 AAAAAATTCTCGTATTTT
1 -AAAAATTTTCATGTTTT
* *
9110938 GAAAATTTTCTTGTTTT
1 AAAAATTTTCATGTTTT
9110955 CAAAAA
1 -AAAAA
9110961 AAAAAACTTT
Statistics
Matches: 139, Mismatches: 30, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
15 4 0.03
16 2 0.01
17 73 0.53
18 40 0.29
19 17 0.12
20 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (17 bp):
AAAAATTTTCATGTTTT
Found at i:9111016 original size:18 final size:19
Alignment explanation
Indices: 9110993--9111040 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
9110983 ATCTCCATGT
9110993 TTTCAAAAAATTCTCGT-C
1 TTTCAAAAAATTCTCGTGC
* *
9111011 TTTC-AAAAATTTTCGTGT
1 TTTCAAAAAATTCTCGTGC
9111029 TTTCAAAAAATT
1 TTTCAAAAAATT
9111041 GACCTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 11 0.42
18 8 0.31
19 7 0.27
ACGTcount: A:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (19 bp):
TTTCAAAAAATTCTCGTGC
Found at i:9111020 original size:17 final size:18
Alignment explanation
Indices: 9110993--9111037 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
9110983 ATCTCCATGT
9110993 TTTCAAAAAATTCTCGT-C
1 TTTC-AAAAATTCTCGTGC
* *
9111011 TTTCAAAAATTTTCGTGT
1 TTTCAAAAATTCTCGTGC
9111029 TTTCAAAAA
1 TTTCAAAAA
9111038 ATTGACCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (18 bp):
TTTCAAAAATTCTCGTGC
Found at i:9111052 original size:37 final size:36
Alignment explanation
Indices: 9110810--9111074 Score: 111
Period size: 36 Copynumber: 7.3 Consensus size: 36
9110800 AATGTTTGTA
* * * *
9110810 TTTCAAAAAATCCTCGTGTTTTCAAAAATTCTCATG-
1 TTTCAAAAAATTCTCGT-CTTTCAAAAATTTTCGTGT
* * *
9110846 TTT-AAAAAA-TCTTCGTGTTTTC-AAAATTCTAGTGT
1 TTTCAAAAAATTC-TCGT-CTTTCAAAAATTTTCGTGT
* * *
9110881 TTT--AAAAATTTTCATGT-TTTCAAAAATTTCCCCTGT
1 TTTCAAAAAATTCTC--GTCTTTCAAAAATTT-TCGTGT
* ** *
9110917 TTT-AAAAAATTCTCGTATTTTGAAAATTTTCTTGT
1 TTTCAAAAAATTCTCGTCTTTCAAAAATTTTCGTGT
* * * * * *
9110952 TTTCAAAAAAAAAAACTT-TCGTGTTTTATAAATCTCCATGT
1 TTTC-----AAAAAA-TTCTCGTCTTTCAAAAATTTTCGTGT
9110993 TTTCAAAAAATTCTCGTCTTTCAAAAATTTTCGTGT
1 TTTCAAAAAATTCTCGTCTTTCAAAAATTTTCGTGT
* * * *
9111029 TTTCAAAAAATTGAC-CTTGTTTCATAAATTTTCGCG-
1 TTTCAAAAAATT--CTCGTCTTTCAAAAATTTTCGTGT
9111065 TTTCAAAAAA
1 TTTCAAAAAA
9111075 AAATCCTCGT
Statistics
Matches: 181, Mismatches: 29, Indels: 38
0.73 0.12 0.15
Matches are distributed among these distances:
34 22 0.12
35 37 0.20
36 66 0.36
37 26 0.14
38 1 0.01
41 27 0.15
42 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (36 bp):
TTTCAAAAAATTCTCGTCTTTCAAAAATTTTCGTGT
Found at i:9111088 original size:38 final size:39
Alignment explanation
Indices: 9110997--9111093 Score: 103
Period size: 37 Copynumber: 2.6 Consensus size: 39
9110987 CCATGTTTTC
* * * *
9110997 AAAAAATTCTCGTCTTTCAAAAATTTTCGTGTTTTCAAA
1 AAAAAATCCTCGTGTTTCATAAATTTTCGCGTTTTCAAA
**
9111036 AAATTGA-CCT--TGTTTCATAAATTTTCGCG-TTTCAAA
1 AAA-AAATCCTCGTGTTTCATAAATTTTCGCGTTTTCAAA
9111072 AAAAAATCCTCGTGTTTCATAA
1 AAAAAATCCTCGTGTTTCATAA
9111094 TTTATCAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
35 1 0.02
36 13 0.28
37 16 0.35
38 10 0.22
39 5 0.11
40 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.39
Consensus pattern (39 bp):
AAAAAATCCTCGTGTTTCATAAATTTTCGCGTTTTCAAA
Found at i:9111142 original size:22 final size:22
Alignment explanation
Indices: 9111100--9111141 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
9111090 ATAATTTATC
*
9111100 AAAATTTTTGTGTTTTCAAAAT
1 AAAATTTTTGTGTTTTAAAAAT
9111122 AAAA-TTTTGTGTTTTAAAAA
1 AAAATTTTTGTGTTTTAAAAA
9111142 AATTCTCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (22 bp):
AAAATTTTTGTGTTTTAAAAAT
Found at i:9111159 original size:17 final size:18
Alignment explanation
Indices: 9111139--9111181 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9111129 TGTGTTTTAA
9111139 AAAAATTCTCATG-TTTC
1 AAAAATTCTCATGTTTTC
* * *
9111156 AAAAACTGTCGTGTTTTC
1 AAAAATTCTCATGTTTTC
9111174 AAAAATTC
1 AAAAATTC
9111182 CCGTGTTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (18 bp):
AAAAATTCTCATGTTTTC
Found at i:9111250 original size:18 final size:17
Alignment explanation
Indices: 9111203--9111257 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
9111193 AATTTTGTGT
9111203 TTTCGTGTTTTCAAAAAAA
1 TTTCGTGTTTTC--AAAAA
*
9111222 TTTTGTG-TTTCAAAAA
1 TTTCGTGTTTTCAAAAA
9111238 TCTTCGTGTTTTCAAAAA
1 T-TTCGTGTTTTCAAAAA
9111256 TT
1 TT
9111258 ATTATTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 6 0.19
17 6 0.19
18 14 0.44
19 6 0.19
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (17 bp):
TTTCGTGTTTTCAAAAA
Found at i:9122978 original size:122 final size:122
Alignment explanation
Indices: 9122759--9122985 Score: 285
Period size: 122 Copynumber: 1.9 Consensus size: 122
9122749 TTTTTTTAAA
* ** * *
9122759 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
***** ** **
9122824 GTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
66 AAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTC
**
9122881 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTA
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTT-AATTTA
*
9122946 -AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
65 TAAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCT
9122986 CGGGGCACGC
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
122 82 0.94
123 5 0.06
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (122 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
AAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:9123014 original size:191 final size:192
Alignment explanation
Indices: 9122688--9123108 Score: 772
Period size: 191 Copynumber: 2.2 Consensus size: 192
9122678 CTTTCTAAGG
9122688 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
** *
9122753 TTTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
65 TAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTA
9122818 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
130 GTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
9122881 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAA-TTT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
9122945 AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
66 AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
9123010 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* **
9123072 AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC
9123109 GGCTCACATG
Statistics
Matches: 222, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
191 161 0.73
193 61 0.27
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (192 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAAATTTT
AAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAG
TTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:9123271 original size:85 final size:87
Alignment explanation
Indices: 9123067--9123315 Score: 292
Period size: 91 Copynumber: 2.8 Consensus size: 87
9123057 TAATTTTTGT
9123067 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CAC--GCTGAGGTATTTT
* * **
9123131 CAATTTATGTTTTTTTCAATCTATGC
63 CAATTTCTGCTTTACTCAATCTA-GC
* * *
9123157 TTCTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG-CACGCTGAGGTATTTTC
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACGCTGAGGTATTTTC
9123221 AATTTCTGCTTTACT-AATTCTA-C
64 AATTTCTGCTTTACTCAA-TCTAGC
* *
9123244 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-C-CACGCTGAGGTATTTTC
*
9123308 AAATTCTG
64 AATTTCTG
9123316 TTTTTAATTT
Statistics
Matches: 139, Mismatches: 13, Indels: 17
0.82 0.08 0.10
Matches are distributed among these distances:
84 3 0.02
85 33 0.24
87 28 0.20
88 2 0.01
89 29 0.21
90 4 0.03
91 38 0.27
93 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (87 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACGCTGAGGTATTTTCAA
TTTCTGCTTTACTCAATCTAGC
Found at i:9123324 original size:85 final size:88
Alignment explanation
Indices: 9123067--9123324 Score: 307
Period size: 85 Copynumber: 2.9 Consensus size: 88
9123057 TAATTTTTGT
*
9123067 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTT
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGC-CACACGCTGAGGTATTTT
*
9123131 CAATTTATGTTTTTTTCAA-TCTATGC
65 CAATTTCTG-TTTTTT-AATTCTA-GC
* * *
9123157 TTCTCAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAAGG---CACGCTGAGGTATTT
1 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGCCACACGCTGAGGTATTT
**
9123219 TCAATTTCTGCTTTACTAATTCTA-C
64 TCAATTTCTG-TTTTTTAATTCTAGC
* *
9123244 TTTTC-AAATCAACTCATATTGCAAGAGGTGAGTTGAGTCTCAGGCCACACGCTGAGGTCTTTTC
1 TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
*
9123308 AAATTCTG-TTTTTAATT
66 AATTTCTGTTTTTTAATT
9123325 TCTGTTTTTT
Statistics
Matches: 145, Mismatches: 16, Indels: 19
0.81 0.09 0.11
Matches are distributed among these distances:
84 3 0.02
85 40 0.28
87 28 0.19
88 2 0.01
89 31 0.21
90 4 0.03
91 35 0.24
93 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (88 bp):
TTTTCAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCCACACGCTGAGGTATTTTC
AATTTCTGTTTTTTAATTCTAGC
Found at i:9123512 original size:54 final size:55
Alignment explanation
Indices: 9123428--9123645 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 55
9123418 TCAATTTCTA
*
9123428 CTTTTCAAATTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAAATTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
9123483 CTTTT-AATTTCTATTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAAATTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
9123537 C-TTT----TTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 CTTTTCAAATTCTATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* * *
9123588 CTTTTGCAAATTCT-GTTTTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGC
1 CTTTT-CAAATTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
9123643 CTT
1 CTT
9123646 GGCTCACGTG
Statistics
Matches: 149, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
50 11 0.07
51 35 0.23
52 3 0.02
53 3 0.02
54 47 0.32
55 41 0.28
56 5 0.03
57 4 0.03
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (55 bp):
CTTTTCAAATTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
Found at i:9123948 original size:30 final size:31
Alignment explanation
Indices: 9123914--9124015 Score: 131
Period size: 30 Copynumber: 3.4 Consensus size: 31
9123904 TAAAAAATAA
*
9123914 AAATTGCATTTTGACCCCTAAACTTTTC-CT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
* *
9123944 AAATTTCATTTTGACCCTTAAAC-TTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTTCTCT
*
9123974 AAATTTCATTTAGACCCCTAAAC-TTTCAT-T
1 AAATTTCATTTTGACCCCTAAACTTTTC-TCT
9124004 AAATTTCATTTT
1 AAATTTCATTTT
9124016 AATCATAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
29 4 0.06
30 59 0.92
31 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (31 bp):
AAATTTCATTTTGACCCCTAAACTTTTCTCT
Found at i:9124266 original size:18 final size:18
Alignment explanation
Indices: 9124243--9124285 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
9124233 GAATCTCCAA
* *
9124243 AAAAAAAGTTTCAAAGAG
1 AAAAAAAGCTTCAAAAAG
*
9124261 AAAAAAAGCTTCAAAAAT
1 AAAAAAAGCTTCAAAAAG
9124279 AAAAAAA
1 AAAAAAA
9124286 AATGGAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.70, C:0.07, G:0.09, T:0.14
Consensus pattern (18 bp):
AAAAAAAGCTTCAAAAAG
Done.