Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 34 of 433
Found at i:8707200 original size:18 final size:18
Alignment explanation
Indices: 8707174--8707221 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
8707164 CCTATAATGA
*
8707174 GATTGTTTAAAAAAAGTC
1 GATTCTTTAAAAAAAGTC
8707192 GATTCTTTATAAAAAAAAGTC
1 GATTC-TT-T-AAAAAAAGTC
8707213 GATTCTTTA
1 GATTCTTTA
8707222 TGAATTTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 3 0.12
20 3 0.12
21 15 0.58
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (18 bp):
GATTCTTTAAAAAAAGTC
Found at i:8707208 original size:21 final size:21
Alignment explanation
Indices: 8707182--8707222 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
8707172 GAGATTGTTT
8707182 AAAAAAAGTCGATTCTTTATA
1 AAAAAAAGTCGATTCTTTATA
8707203 AAAAAAAGTCGATTCTTTAT
1 AAAAAAAGTCGATTCTTTAT
8707223 GAATTTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (21 bp):
AAAAAAAGTCGATTCTTTATA
Found at i:8708031 original size:31 final size:31
Alignment explanation
Indices: 8707996--8708087 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
8707986 ATTTTTAGAG
8707996 TTAGGACTAAATTGATAGATTTTGTAAATAT
1 TTAGGACTAAATTGATAGATTTTGTAAATAT
* * * *
8708027 TTAGGGCCAAATTTATTGAATTTT-TAAA-A-
1 TTAGGACTAAATTGATAG-ATTTTGTAAATAT
* * * *
8708056 TTAGAACTAAAATGACAAATTTTGTAAATAT
1 TTAGGACTAAATTGATAGATTTTGTAAATAT
8708087 T
1 T
8708088 AATGGCTAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 8
0.69 0.18 0.12
Matches are distributed among these distances:
28 5 0.11
29 14 0.31
30 2 0.04
31 19 0.42
32 5 0.11
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.40
Consensus pattern (31 bp):
TTAGGACTAAATTGATAGATTTTGTAAATAT
Found at i:8708078 original size:60 final size:60
Alignment explanation
Indices: 8707985--8708111 Score: 164
Period size: 60 Copynumber: 2.1 Consensus size: 60
8707975 GTATATTTTT
* * * * * * *
8707985 AATTTTTAGAGTTAGGACTAAATTGATAGATTTTGTAAATATTTAGGGCCAAATTTATTG
1 AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCCAAATTTATTG
* * *
8708045 AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTAATGGCTAAATTTGTTG
1 AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCCAAATTTATTG
8708105 AATTTTT
1 AATTTTT
8708112 TATATTTAGG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.43
Consensus pattern (60 bp):
AATTTTTAAAATTAGAACTAAAATGACAAATTTTGTAAATATTAAGGGCCAAATTTATTG
Found at i:8714827 original size:20 final size:20
Alignment explanation
Indices: 8714785--8714824 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
8714775 ACCATGTCAG
8714785 AATTTTGAGAAAGAAATAGA
1 AATTTTGAGAAAGAAATAGA
8714805 AATTTTGA-AAA-AAATAGA
1 AATTTTGAGAAAGAAATAGA
8714823 AA
1 AA
8714825 AATAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 3 0.15
20 8 0.40
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (20 bp):
AATTTTGAGAAAGAAATAGA
Found at i:8723601 original size:19 final size:19
Alignment explanation
Indices: 8723560--8723612 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
8723550 GCATTACTTT
* *
8723560 CACACAAAGTGCATCTTGA
1 CACACAAGGTGCATCGTGA
*
8723579 CACACAAGGTGCATCGTGG
1 CACACAAGGTGCATCGTGA
**
8723598 CACATGAGGTGCATC
1 CACACAAGGTGCATC
8723613 CTGGTGGATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (19 bp):
CACACAAGGTGCATCGTGA
Found at i:8725283 original size:43 final size:42
Alignment explanation
Indices: 8725193--8725340 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
8725183 TACCGAGATG
* * * * *
8725193 TGATTACATGTAAGACTATGTCCGAGACATTGGCATTGTATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA-TA
8725236 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TATA
* * *
8725279 TGATT--TTGCATAAGACCCTGTCTGGGACAGTGGCA-CTGATATA
1 TGATTACATG--TAAGACCATGTCTGGGACATTGGCATC-G-TATA
*
8725322 TGATAACATGTAAGACCAT
1 TGATTACATGTAAGACCAT
8725341 ATTAGGGATA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 80 0.92
44 2 0.02
45 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (42 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:8732703 original size:47 final size:47
Alignment explanation
Indices: 8732594--8732704 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
8732584 CCGGGATAAG
*
8732594 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
8732641 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
8732688 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
8732705 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:8738505 original size:18 final size:20
Alignment explanation
Indices: 8738482--8738518 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
8738472 TTTAGGGATT
8738482 ATAAAA-AAATT-TAAAAAA
1 ATAAAAGAAATTATAAAAAA
8738500 ATAAAAGAAATTATAAAAA
1 ATAAAAGAAATTATAAAAA
8738519 GAGAAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (20 bp):
ATAAAAGAAATTATAAAAAA
Found at i:8738557 original size:19 final size:18
Alignment explanation
Indices: 8738533--8738582 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
8738523 AGTAATTTTA
8738533 AATTTTTATAACATT-TAAT
1 AATTTTTATAAC-TTAT-AT
8738552 AATTTTTAATAACTTATAT
1 AATTTTT-ATAACTTATAT
8738571 ATATTTTTATAA
1 A-ATTTTTATAA
8738583 TTTTCTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (18 bp):
AATTTTTATAACTTATAT
Found at i:8738583 original size:29 final size:27
Alignment explanation
Indices: 8738545--8738622 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 27
8738535 TTTTTATAAC
* *
8738545 ATTTAATAATTTTTAATAACTTATATAT
1 ATTTTATAATTTTTAATAAATTAT-TAT
*
8738573 ATTTTTATAATTTTCTAAAGAAATTATTAT
1 A-TTTTATAATTTT-T-AATAAATTATTAT
*
8738603 ATTTTATTAATTTCTAATAA
1 ATTTTA-TAATTTTTAATAA
8738623 TTTTTAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
28 5 0.12
29 17 0.41
30 11 0.27
31 8 0.20
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (27 bp):
ATTTTATAATTTTTAATAAATTATTAT
Found at i:8739080 original size:19 final size:18
Alignment explanation
Indices: 8739056--8739121 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
8739046 TCATAACATA
8739056 TTAATAAATTTTATAATAT
1 TTAATAAATTTTAT-ATAT
** *
8739075 TTAATAGTTTTTATATTT
1 TTAATAAATTTTATATAT
*
8739093 TTTA-AAATTTTATGATAT
1 TTAATAAATTTTAT-ATAT
8739111 TTAAT-AATTTT
1 TTAATAAATTTT
8739122 GATAGATTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
17 7 0.19
18 18 0.49
19 12 0.32
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAATAAATTTTATATAT
Found at i:8739102 original size:36 final size:38
Alignment explanation
Indices: 8739061--8739141 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 38
8739051 ACATATTAAT
* *
8739061 AAATTTTATAATATTTAATAGTTTT-TATA-TTTTTTA
1 AAATTTTATAATATTTAATAATTTTATAGATTTTTTTA
*
8739097 AAATTTTATGATATTTAATAATTTTGATAGATTTTTTTA
1 AAATTTTATAATATTTAATAATTTT-ATAGATTTTTTTA
8739136 AAATTT
1 AAATTT
8739142 CAAAATTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 23 0.59
38 3 0.08
39 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (38 bp):
AAATTTTATAATATTTAATAATTTTATAGATTTTTTTA
Found at i:8739201 original size:23 final size:24
Alignment explanation
Indices: 8739147--8739214 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
8739137 AATTTCAAAA
*
8739147 TTTTAAATATTTTAATGAATTTTAG
1 TTTTAATTATTTTAAT-AATTTTAG
* *
8739172 CTATAATTATTTTAAT-ATTTTAG
1 TTTTAATTATTTTAATAATTTTAG
*
8739195 TTTTAATT-TTAT-ATAATTTT
1 TTTTAATTATTTTAATAATTTT
8739215 CCATAATTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
21 2 0.06
22 8 0.22
23 13 0.36
25 13 0.36
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (24 bp):
TTTTAATTATTTTAATAATTTTAG
Found at i:8744775 original size:44 final size:44
Alignment explanation
Indices: 8744726--8744813 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
8744716 CGTCTGATGA
* *
8744726 GGATTCAAACTCTTCAGATGATTCATCTGATGATTCTGAACTTT
1 GGATTCAAACTCTTCAGATGATTCATATGATGATTCTAAACTTT
8744770 GGATTCAAACTCTTCAGATGATTCATATGATGATTCTAAACTTT
1 GGATTCAAACTCTTCAGATGATTCATATGATGATTCTAAACTTT
8744814 CTCCTGAATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (44 bp):
GGATTCAAACTCTTCAGATGATTCATATGATGATTCTAAACTTT
Found at i:8746910 original size:18 final size:18
Alignment explanation
Indices: 8746887--8746970 Score: 78
Period size: 18 Copynumber: 4.6 Consensus size: 18
8746877 GAACGATTAT
*
8746887 TTATTCAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
8746905 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
* *
8746923 TTATTCAATAATAATAAG
1 TTATTCAGTAATAATCAG
* * *
8746941 TTATTCAGTAACAATTAAA
1 TTATTCAGTAATAA-TCAG
8746960 TTATTCAGTAA
1 TTATTCAGTAA
8746971 CAGTCGATCT
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
18 39 0.74
19 14 0.26
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:8746935 original size:36 final size:37
Alignment explanation
Indices: 8746887--8746975 Score: 117
Period size: 36 Copynumber: 2.4 Consensus size: 37
8746877 GAACGATTAT
* *
8746887 TTATTCAGTAATAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAATAGTCAGTTATTCAGTAACAATTAAA
* * *
8746923 TTATTCAATAATAATAAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAATAGTCAGTTATTCAGTAACAATTAAA
*
8746960 TTATTCAGTAACAGTC
1 TTATTCAGTAATAGTC
8746976 GATCTTTCCA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 28 0.65
37 15 0.35
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (37 bp):
TTATTCAGTAATAGTCAGTTATTCAGTAACAATTAAA
Found at i:8746965 original size:19 final size:18
Alignment explanation
Indices: 8746905--8746972 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
8746895 TAATAGTCAG
* *
8746905 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATAAA
* * *
8746923 TTATTCAATAATAATAAG
1 TTATTCAGTAACAATAAA
8746941 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TAAA
8746960 TTATTCAGTAACA
1 TTATTCAGTAACA
8746973 GTCGATCTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
18 25 0.61
19 16 0.39
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAATAAA
Found at i:8747152 original size:47 final size:47
Alignment explanation
Indices: 8747098--8747212 Score: 185
Period size: 47 Copynumber: 2.4 Consensus size: 47
8747088 AACAGTAACA
* *
8747098 GGAACAGTAGCAATACGGTACACAGAGTACCTCATCGGAACAAATCC
1 GGAACAGTAACAATACGGTACACAGAGTACCTCATCGAAACAAATCC
*
8747145 GGAACAGTAACAGTACGGTACACAGAGTACCTCATCGAAACAAATCC
1 GGAACAGTAACAATACGGTACACAGAGTACCTCATCGAAACAAATCC
*
8747192 GAAACAGTAACAATAACGGTA
1 GGAACAGTAACAAT-ACGGTA
8747213 ACAATAACAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
47 56 0.90
48 6 0.10
ACGTcount: A:0.42, C:0.23, G:0.20, T:0.15
Consensus pattern (47 bp):
GGAACAGTAACAATACGGTACACAGAGTACCTCATCGAAACAAATCC
Found at i:8747264 original size:12 final size:12
Alignment explanation
Indices: 8747247--8747271 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8747237 AGTGCTGAAT
8747247 CGGTAACAGTAA
1 CGGTAACAGTAA
8747259 CGGTAACAGTAA
1 CGGTAACAGTAA
8747271 C
1 C
8747272 AGTAGTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:8748886 original size:23 final size:22
Alignment explanation
Indices: 8748860--8748903 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8748850 TTTCATTCTG
*
8748860 TTTCTTTTCTATTTTTTTTTACA
1 TTTCTTTT-TATTTTGTTTTACA
*
8748883 TTTCTTTTTCTTTTGTTTTAC
1 TTTCTTTTTATTTTGTTTTAC
8748904 TTTATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTCTTTTTATTTTGTTTTACA
Found at i:8749070 original size:31 final size:31
Alignment explanation
Indices: 8749014--8749103 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 31
8749004 CACACTTGTC
*
8749014 ATAATTTAATATATTTATTACATAAAAATC-TT
1 ATAATATAA-ATATTTATTA-ATAAAAATCTTT
*
8749046 ATAATATAAATATTTAATTAATAAATATCTTTT
1 ATAATATAAATATTT-ATTAATAAAAATC-TTT
*
8749079 ATAAATAATAAATATCTATTAATAA
1 AT-AAT-ATAAATATTTATTAATAA
8749104 TTAAATATAC
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
31 14 0.28
32 12 0.24
33 4 0.08
34 11 0.22
35 9 0.18
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAATATAAATATTTATTAATAAAAATCTTT
Found at i:8752617 original size:27 final size:27
Alignment explanation
Indices: 8752587--8752638 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
8752577 ATGGCAACTA
* * *
8752587 GGGTAGTTTTTCGGGATGGTAAACACG
1 GGGTAGTTTGTCAGGACGGTAAACACG
8752614 GGGTAGTTTGTCAGGACGGTAAACA
1 GGGTAGTTTGTCAGGACGGTAAACA
8752639 TAAGGATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.25, C:0.12, G:0.37, T:0.27
Consensus pattern (27 bp):
GGGTAGTTTGTCAGGACGGTAAACACG
Found at i:8758718 original size:44 final size:45
Alignment explanation
Indices: 8758656--8758740 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 45
8758646 CTATACGCCT
* *
8758656 AAAATGAGTAATACCATAACTGAAAGATATTATAGCATCATGATA
1 AAAAGGAGTAATACCATAACTGAAAGACATTATAGCATCATGATA
* *
8758701 AAAAGGAGTAA-ACCATAATTGAAAGACGTTATAGCATCAT
1 AAAAGGAGTAATACCATAACTGAAAGACATTATAGCATCAT
8758741 AAGTAAGCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 26 0.72
45 10 0.28
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (45 bp):
AAAAGGAGTAATACCATAACTGAAAGACATTATAGCATCATGATA
Found at i:8765585 original size:45 final size:45
Alignment explanation
Indices: 8765484--8765588 Score: 131
Period size: 45 Copynumber: 2.3 Consensus size: 45
8765474 AAGGGTAGCA
* * *
8765484 GTAACAATAACAGTAATAGTATTCAACACACAAAGTGCTAAATCT
1 GTAACAATAACGGTAACAGTATTCAACACACAAAGTGCTAAATCG
* * *
8765529 GTACCAATAACGGTAACAGTATTCGACACACAAAGTG-TCGAATCG
1 GTAACAATAACGGTAACAGTATTCAACACACAAAGTGCT-AAATCG
*
8765574 GTAACAGTAACGGTA
1 GTAACAATAACGGTA
8765589 GTCGGCACAT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 1 0.02
45 50 0.98
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (45 bp):
GTAACAATAACGGTAACAGTATTCAACACACAAAGTGCTAAATCG
Found at i:8765984 original size:24 final size:24
Alignment explanation
Indices: 8765952--8765999 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8765942 GATAAAGTTT
8765952 GAATTATAGTGATACAAACCAGAA
1 GAATTATAGTGATACAAACCAGAA
*
8765976 GAATTATAGTGATACAAACTAGAA
1 GAATTATAGTGATACAAACCAGAA
8766000 TTCTCTTCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.17, T:0.23
Consensus pattern (24 bp):
GAATTATAGTGATACAAACCAGAA
Found at i:8766631 original size:17 final size:16
Alignment explanation
Indices: 8766609--8766655 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
8766599 TTTAGCTTTG
*
8766609 TTTCTTTTGTTTTATA
1 TTTCTTTTATTTTATA
*
8766625 CTTTCTTTTCTTTT-TA
1 -TTTCTTTTATTTTATA
*
8766641 TTTCATTTATTTTAT
1 TTTCTTTTATTTTAT
8766656 TTTATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 11 0.42
16 3 0.12
17 12 0.46
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTCTTTTATTTTATA
Found at i:8775017 original size:21 final size:21
Alignment explanation
Indices: 8774983--8775022 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8774973 AAAAAAACCC
8774983 GTAAAATTCTTAAAAGTTTTGA
1 GTAAAATTCTTAAAA-TTTTGA
*
8775005 GTAAACTTC-TAAAATTTT
1 GTAAAATTCTTAAAATTTT
8775023 CTAAAAAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 5 0.29
22 8 0.47
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.42
Consensus pattern (21 bp):
GTAAAATTCTTAAAATTTTGA
Found at i:8786162 original size:2 final size:2
Alignment explanation
Indices: 8786155--8786186 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8786145 TTATAGTAGC
8786155 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8786187 TATTATACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:8786190 original size:8 final size:9
Alignment explanation
Indices: 8786155--8786193 Score: 55
Period size: 8 Copynumber: 4.4 Consensus size: 9
8786145 TTATAGTAGC
8786155 TATATATA-
1 TATATATAT
8786163 TATATATAT
1 TATATATAT
8786172 ATATATATAT
1 -TATATATAT
8786182 TATAT-TAT
1 TATATATAT
8786190 TATA
1 TATA
8786194 CAAATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 15 0.52
9 5 0.17
10 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TATATATAT
Found at i:8789976 original size:53 final size:52
Alignment explanation
Indices: 8789851--8789992 Score: 178
Period size: 53 Copynumber: 2.7 Consensus size: 52
8789841 ATATGTGCGC
* ** ** *
8789851 CCGTTTAAGACCATAGT-TGGGCTATGGCATCGGTGCAATGTGATATGTGTTT
1 CCGTATAAGACCATA-TCTGGGCTATGGCATCGGTGTGACATGATATGTGATT
* *
8789903 TCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGACATGATAATGTGATT
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGACATGAT-ATGTGATT
*
8789956 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTG
1 CCGTATAAGACCATATCTGGGCTATGGCATCGGTGTG
8789993 TGATGTGATC
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 36 0.47
53 41 0.53
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (52 bp):
CCGTATAAGACCATATCTGGGCTATGGCATCGGTGTGACATGATATGTGATT
Found at i:8790028 original size:46 final size:47
Alignment explanation
Indices: 8789851--8790042 Score: 170
Period size: 53 Copynumber: 3.9 Consensus size: 47
8789841 ATATGTGCGC
* * *
8789851 CCGTTTAAGACCATAGTTGGGCTATGGCATCGGTGCAATGTGATATGTGTTT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTG---TGTG--ATGTGATT
*
8789903 TCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGACATGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG---TG---ATGTGATT
* *
8789956 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGTGATGTGA-T
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTGATGTGATT
* * ** * *
8790002 CTGTGTAAGACCATAGCACGGCTATGGCTTCGGCGTGTGAT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTGAT
8790043 ATGTGAAAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
46 34 0.29
47 6 0.05
49 2 0.02
50 2 0.02
52 34 0.29
53 41 0.34
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.31
Consensus pattern (47 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTGATGTGATT
Found at i:8796356 original size:9 final size:9
Alignment explanation
Indices: 8796342--8796371 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
8796332 TTGCTGATTT
8796342 GTTAAATTA
1 GTTAAATTA
8796351 GTTAAATTA
1 GTTAAATTA
8796360 GTTAAATTA
1 GTTAAATTA
8796369 GTT
1 GTT
8796372 TTAACAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (9 bp):
GTTAAATTA
Found at i:8796658 original size:17 final size:18
Alignment explanation
Indices: 8796626--8796660 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8796616 ATAATTTTTA
8796626 AATGTGTCTAAATTAATT
1 AATGTGTCTAAATTAATT
*
8796644 AATGTG-CTGAATTAATT
1 AATGTGTCTAAATTAATT
8796661 TGTGTGTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (18 bp):
AATGTGTCTAAATTAATT
Found at i:8796756 original size:24 final size:24
Alignment explanation
Indices: 8796727--8796788 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
8796717 ACAGCATGCC
8796727 TGGACAGATTTAATGAGCTGCTGG
1 TGGACAGATTTAATGAGCTGCTGG
* *
8796751 TTGACAAATTTAATGAGCTGCTGG
1 TGGACAGATTTAATGAGCTGCTGG
8796775 TGGAC-GAATTTAAT
1 TGGACAG-ATTTAAT
8796789 ATGTCCTAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.32
Consensus pattern (24 bp):
TGGACAGATTTAATGAGCTGCTGG
Found at i:8800175 original size:53 final size:52
Alignment explanation
Indices: 8800055--8800217 Score: 185
Period size: 53 Copynumber: 3.2 Consensus size: 52
8800045 AGCGTCCATT
* ** ** * *
8800055 TAAGACCATAGCTGGGCTATGGCATCAGTGCAATGTGATATGTGTTTTCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTGTGACATGATATGTGATTCCGTA
8800107 TAAGACCATAGCTGGGCTATGGCATCGGTGTGACATGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTGTGACATGAT-ATGTGATTCCGTA
* * *
8800160 TAAGACCATATCTGGGATATGGCATCGGTGTG---TG--ATGTGA-TCCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGGTGTGACATGATATGTGATTCCGTA
8800206 TAAGACCATAGC
1 TAAGACCATAGC
8800218 ACAGCTATGA
Statistics
Matches: 99, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
46 16 0.16
47 6 0.06
50 2 0.02
52 34 0.34
53 41 0.41
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (52 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTGTGACATGATATGTGATTCCGTA
Found at i:8801092 original size:16 final size:16
Alignment explanation
Indices: 8801071--8801102 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8801061 CATGTAAGTT
8801071 TAATTCTTGCTTTCTC
1 TAATTCTTGCTTTCTC
8801087 TAATTCTTGCTTTCTC
1 TAATTCTTGCTTTCTC
8801103 CTTGACATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.25, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATTCTTGCTTTCTC
Found at i:8802560 original size:50 final size:51
Alignment explanation
Indices: 8802483--8802611 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
8802473 GACCATGGCA
8802483 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
8802534 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
8802584 ACAAGTGAAAAGTGGTAGCTTCTGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
8802612 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:8802625 original size:31 final size:31
Alignment explanation
Indices: 8802587--8802735 Score: 221
Period size: 31 Copynumber: 4.8 Consensus size: 31
8802577 ACAAATGACA
*
8802587 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
8802618 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
8802649 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
8802680 AGTGAAAAATGGTAGC-TCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
8802711 AGTGAATAGTGGTAGCTCCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
8802736 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
30 3 0.03
31 102 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:8802660 original size:62 final size:62
Alignment explanation
Indices: 8802587--8802735 Score: 244
Period size: 62 Copynumber: 2.4 Consensus size: 62
8802577 ACAAATGACA
* * * *
8802587 AGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGTGAAAAGTGGTAGTTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
*
8802649 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
*
8802711 AGTGAATAGTGGTAGCTCCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
8802736 AAGTGACAAG
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 81 1.00
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCCGGCTACCTGATC
Found at i:8802878 original size:46 final size:47
Alignment explanation
Indices: 8802761--8802883 Score: 158
Period size: 47 Copynumber: 2.6 Consensus size: 47
8802751 AGTGATTTCC
* * *
8802761 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
8802808 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATGTGTGATTC-
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
8802854 GTGTAAGACCATAGCTGGGCTATGGCATCA
1 GTATAAGACCATATCTGGGATATGGCATCA
8802884 TTATGTGAAG
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
46 27 0.40
47 40 0.60
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
Found at i:8813480 original size:20 final size:20
Alignment explanation
Indices: 8813455--8813495 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
8813445 AGATGATGAC
8813455 ATTCATGTTTTACTAATTTA
1 ATTCATGTTTTACTAATTTA
8813475 ATTCATGTTTTACTAATTTA
1 ATTCATGTTTTACTAATTTA
8813495 A
1 A
8813496 CATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTCATGTTTTACTAATTTA
Found at i:8816737 original size:21 final size:21
Alignment explanation
Indices: 8816708--8816749 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
8816698 TATAGGTGTA
*
8816708 TTAAAATTTGGTTAGGTAATT
1 TTAAAATTTAGTTAGGTAATT
* *
8816729 TTAACATTTAGTTAGTTAATT
1 TTAAAATTTAGTTAGGTAATT
8816750 AAAGAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.50
Consensus pattern (21 bp):
TTAAAATTTAGTTAGGTAATT
Found at i:8826138 original size:31 final size:30
Alignment explanation
Indices: 8826078--8826140 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
8826068 CGTTATACAC
* *
8826078 ATGAAACTTAATTATAATTCAATCGTATAT
1 ATGAAACTTAATTATAATTAAATCATATAT
* *
8826108 ATGAAACTTAAATTTTAATTAAATTATATAT
1 ATGAAACTT-AATTATAATTAAATCATATAT
8826139 AT
1 AT
8826141 TTAAAGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.32
31 19 0.68
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (30 bp):
ATGAAACTTAATTATAATTAAATCATATAT
Found at i:8837790 original size:13 final size:13
Alignment explanation
Indices: 8837772--8837796 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8837762 GTAGCTTTCT
8837772 TTGAAAAGAAAAC
1 TTGAAAAGAAAAC
8837785 TTGAAAAGAAAA
1 TTGAAAAGAAAA
8837797 AAACTAAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
TTGAAAAGAAAAC
Found at i:8842671 original size:20 final size:19
Alignment explanation
Indices: 8842638--8842680 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
8842628 AATGGAGGTC
*
8842638 AAAACAATAAATAAGGTATT
1 AAAACAATAAATAA-ATATT
* *
8842658 AAAACACTATATAAATATT
1 AAAACAATAAATAAATATT
8842677 AAAA
1 AAAA
8842681 ATTAGCCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.26
Consensus pattern (19 bp):
AAAACAATAAATAAATATT
Found at i:8843089 original size:33 final size:30
Alignment explanation
Indices: 8843027--8843090 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 30
8843017 ATAAGTTTGA
8843027 TTATTATTTATAAAATAATTTAAATATATT
1 TTATTATTTATAAAATAATTTAAATATATT
8843057 TTATTATTTATTATGAATATAATTTAAA-ATATT
1 TTATTATTTA-TA--AA-ATAATTTAAATATATT
8843090 T
1 T
8843091 AAATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 10 0.33
31 2 0.07
33 8 0.27
34 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (30 bp):
TTATTATTTATAAAATAATTTAAATATATT
Found at i:8843407 original size:39 final size:39
Alignment explanation
Indices: 8843353--8843432 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
8843343 CTACTGTGTG
8843353 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
1 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
8843392 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
1 ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
8843431 AT
1 AT
8843433 GTATCTATGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (39 bp):
ATAGATTGATAAAACTATTAATTTGCTTGTAGTAATGTA
Found at i:8857450 original size:32 final size:32
Alignment explanation
Indices: 8857409--8857472 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
8857399 ATAAAGCCAA
8857409 ACATAAATCTTTTGCCCAAAGACCTCCCGATT
1 ACATAAATCTTTTGCCCAAAGACCTCCCGATT
8857441 ACATAAATCTTTTGCCCAAAGACCTCCCGATT
1 ACATAAATCTTTTGCCCAAAGACCTCCCGATT
8857473 CGATTGGATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.28
Consensus pattern (32 bp):
ACATAAATCTTTTGCCCAAAGACCTCCCGATT
Found at i:8867276 original size:2 final size:2
Alignment explanation
Indices: 8867269--8867306 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8867259 GATTACTCTC
8867269 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8867307 TGTGAATCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8872083 original size:14 final size:15
Alignment explanation
Indices: 8872064--8872095 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
8872054 CAAACCTTAT
8872064 CCAGCACAACCC-AA
1 CCAGCACAACCCGAA
8872078 CCAGCACAACCCGAA
1 CCAGCACAACCCGAA
8872093 CCA
1 CCA
8872096 TCAACTGCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.41, C:0.50, G:0.09, T:0.00
Consensus pattern (15 bp):
CCAGCACAACCCGAA
Found at i:8872520 original size:17 final size:17
Alignment explanation
Indices: 8872498--8872531 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8872488 TAGGAGAATG
8872498 TTAATAAGATTTTATGC
1 TTAATAAGATTTTATGC
8872515 TTAATAAGATTTTATGC
1 TTAATAAGATTTTATGC
8872532 ATAAATTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (17 bp):
TTAATAAGATTTTATGC
Found at i:8873691 original size:23 final size:24
Alignment explanation
Indices: 8873665--8873715 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
8873655 TACATGTTTA
8873665 TTTTTTG-TTTTCAGTTTG-TTTTG
1 TTTTTTGCTTTT-AGTTTGTTTTTG
*
8873688 TTTTTTGCTTTTATTTTGTTTTTG
1 TTTTTTGCTTTTAGTTTGTTTTTG
8873712 TTTT
1 TTTT
8873716 GCTTGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.04, C:0.04, G:0.14, T:0.78
Consensus pattern (24 bp):
TTTTTTGCTTTTAGTTTGTTTTTG
Found at i:8876432 original size:2 final size:2
Alignment explanation
Indices: 8876427--8876459 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8876417 TTAAAAGTAC
8876427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8876460 AAAGTAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8885502 original size:42 final size:42
Alignment explanation
Indices: 8885442--8885552 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 42
8885432 ATGGTTATGT
* * *
8885442 GTGATTTCGAGTAAGACCATATCTGGGATATGCCATCGATAT
1 GTGATTTCGTGTAAGACCATATCTGGGACATGCCATCGATAC
* * *
8885484 TTGATTTCGTGTAAGACCATATATGGGACATGGCATCGATAC
1 GTGATTTCGTGTAAGACCATATCTGGGACATGCCATCGATAC
* * * *
8885526 GAGATATCGTGTAAGACTATAGCTGGG
1 GTGATTTCGTGTAAGACCATATCTGGG
8885553 CTATTGGCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
GTGATTTCGTGTAAGACCATATCTGGGACATGCCATCGATAC
Found at i:8894190 original size:13 final size:13
Alignment explanation
Indices: 8894170--8894220 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
8894160 TGTTTGGCAA
8894170 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
8894183 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
8894196 TGCTCTTGAGAAG
1 TGCTTTTGAAAAG
8894209 TGCTTTTGAAAA
1 TGCTTTTGAAAA
8894221 TTTGAGTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:8896442 original size:145 final size:144
Alignment explanation
Indices: 8896280--8896558 Score: 393
Period size: 145 Copynumber: 1.9 Consensus size: 144
8896270 ATAATTTAGT
* * * **
8896280 ATAAATAAGTAGAACATAAATTTAATATCCAAAAATCAAACATAATCAATTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
* * * *
8896345 -TCCTA-AGCATAAATAAGTAGACCATAAATTCAATATCCAAAGACCAAATATAAACAGCTATTA
66 AT--TACA-CATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTA
8896408 ACAAAACAAGATTTCAC
128 ACAAAACAAGATTTCAC
8896425 ATAAATAAGTCA-AACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTA
1 ATAAATAAGT-AGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTA
* * *
8896489 GATTACACATAAATAAGTAGAACATAAATTTAATATCCAAAAACCAAACATAAATAACTATTGAC
65 GATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAAC
8896554 AAAAC
130 AAAAC
8896559 TAGTTTAGCA
Statistics
Matches: 119, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
144 58 0.49
145 59 0.50
146 2 0.02
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.23
Consensus pattern (144 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTAG
ATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAACA
AAACAAGATTTCAC
Found at i:8896559 original size:72 final size:72
Alignment explanation
Indices: 8896280--8896561 Score: 363
Period size: 72 Copynumber: 3.9 Consensus size: 72
8896270 ATAATTTAGT
* * * * *
8896280 ATAAATAAGTAGAACATAAATTTAATATCCAAAAATCAAACATAATCAATTATTGATAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGACAAAACTAG
8896345 -TCCTA-AGC
66 AT--TACA-C
* * * * * *
8896353 ATAAATAAGTAGACCATAAATTCAATATCCAAAGACCAAATATAAACAGCTATTAACAAAACAAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGACAAAACTAG
*
8896418 ATTTCAC
66 ATTACAC
* *
8896425 ATAAATAAGTCA-AACATAAATTCAATATCCAAAAACCAAACATAAACAACCATTGATAAAACTA
1 ATAAATAAGT-AGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGACAAAACTA
8896489 GATTACAC
65 GATTACAC
* *
8896497 ATAAATAAGTAGAACATAAATTTAATATCCAAAAACCAAACATAAATAACTATTGACAAAACTAG
1 ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGACAAAACTAG
8896562 TTTAGCATTG
Statistics
Matches: 180, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
71 1 0.01
72 122 0.68
73 56 0.31
74 1 0.01
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.23
Consensus pattern (72 bp):
ATAAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTGACAAAACTAG
ATTACAC
Found at i:8897012 original size:18 final size:18
Alignment explanation
Indices: 8896989--8897036 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
8896979 TCCATCAATT
* *
8896989 TGAACACCATTTGAAATG
1 TGAACATCATTTAAAATG
8897007 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
8897025 TGAACATCATTT
1 TGAACATCATTT
8897037 CTCACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:8899567 original size:5 final size:5
Alignment explanation
Indices: 8899559--8899596 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
8899549 ATTAAATGAA
8899559 AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGA
1 AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGAAT AGA
8899597 CTTATTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (5 bp):
AGAAT
Found at i:8899841 original size:12 final size:12
Alignment explanation
Indices: 8899826--8899866 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
8899816 TTCAAAAAAT
8899826 AAAATATTTATA
1 AAAATATTTATA
*
8899838 AAAATATTT-TCC
1 AAAATATTTAT-A
8899850 AAAAT-TTTATA
1 AAAATATTTATA
8899861 AAAATA
1 AAAATA
8899867 AATATAAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (12 bp):
AAAATATTTATA
Found at i:8900105 original size:52 final size:52
Alignment explanation
Indices: 8900005--8900106 Score: 150
Period size: 52 Copynumber: 2.0 Consensus size: 52
8899995 ATCATACTAA
* * *
8900005 TTTTGTTTTATTTTATTCTAAAAGAATTTTCAAATAGAGATGGCATTTATTT
1 TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTATTT
* * *
8900057 TTTTCTTTTATTTTATTCTAAAAGAATTTTTAAATACATATGATATTTAT
1 TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTAT
8900107 ATTCAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.54
Consensus pattern (52 bp):
TTTTCTTTTATTTTATTCTAAAAGAATTTTCAAATACAGATGACATTTATTT
Found at i:8900713 original size:2 final size:2
Alignment explanation
Indices: 8900706--8900752 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
8900696 TTCTTCTTCT
8900706 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
8900748 TC TC T
1 TC TC T
8900753 TTTTGCTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:8908114 original size:46 final size:46
Alignment explanation
Indices: 8908047--8908262 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
8908037 GGCAACCTGA
8908047 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
8908093 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
8908139 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
8908185 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
8908231 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
8908263 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:8908242 original size:138 final size:130
Alignment explanation
Indices: 8907997--8908262 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
8907987 AGTGTGCTCT
*
8907997 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
8908062 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
8908127 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
8908192 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
8908257 ATGGCA
123 ATGGCA
8908263 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:8908979 original size:59 final size:59
Alignment explanation
Indices: 8908885--8908997 Score: 217
Period size: 59 Copynumber: 1.9 Consensus size: 59
8908875 GTGTCTCCAT
8908885 AGATTAGGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATACAAGTA
1 AGATTAGGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATACAAGTA
*
8908944 AGATTAGGTCGAGATGAGTTAAGCCTATATTAATGGGCTTTTCATATAGAATAC
1 AGATTAGGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATAC
8908998 GTAAGAAAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (59 bp):
AGATTAGGTCGAGATGAGTTAAGCCTATATCAATGGGCTTTTCATATAGAATACAAGTA
Found at i:8917361 original size:6 final size:6
Alignment explanation
Indices: 8917350--8917375 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
8917340 AGAGGTAGAA
8917350 GATGAG GATGAG GATGAG GATGAG GA
1 GATGAG GATGAG GATGAG GATGAG GA
8917376 GGGAAAGAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
GATGAG
Found at i:8920382 original size:26 final size:26
Alignment explanation
Indices: 8920346--8920507 Score: 279
Period size: 26 Copynumber: 6.2 Consensus size: 26
8920336 TGATACAAAT
8920346 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
8920372 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
8920398 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
8920424 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
8920450 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
8920476 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
8920502 TGATAA
1 TGATAA
8920508 GAATTTCATG
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 133 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:8935065 original size:3 final size:3
Alignment explanation
Indices: 8935059--8935100 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
8935049 TATCATCATC
8935059 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8935101 GGTGAGTAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:8935980 original size:18 final size:18
Alignment explanation
Indices: 8935954--8935996 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
8935944 AAAAGCTGTT
*
8935954 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
8935972 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
8935990 TTTATAT
1 TTTATAT
8935997 TTTAAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:8937301 original size:32 final size:32
Alignment explanation
Indices: 8937255--8937334 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
8937245 TGTCAATCAT
*
8937255 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
8937287 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
8937319 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
8937335 CTAAAATTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:8938848 original size:15 final size:15
Alignment explanation
Indices: 8938828--8938866 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
8938818 GACTCAAGCA
8938828 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
8938843 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
8938858 ATGACTAAA
1 ATGACTAAA
8938867 AGGAATGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.26
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:8948546 original size:57 final size:58
Alignment explanation
Indices: 8948474--8948594 Score: 176
Period size: 57 Copynumber: 2.1 Consensus size: 58
8948464 TTTCAGGTCT
* * *
8948474 TTTTCATTTTTATTTTGGAGAAAACCA-CATCCATTTCCAAATGATTT-C-ATTTCTCTA
1 TTTTCATTTTCATTTTGGAGAAAACCATAAT-CATTTCCAAATG-TTTCCTATTTCTCCA
8948531 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCCA
8948589 TTTTCA
1 TTTTCA
8948595 CTATTTCTAT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
56 3 0.05
57 39 0.67
58 16 0.28
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (58 bp):
TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTTCTCCA
Found at i:8954686 original size:17 final size:17
Alignment explanation
Indices: 8954664--8954697 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
8954654 CCTTAGACTA
8954664 CTATTTATATACTATTT
1 CTATTTATATACTATTT
8954681 CTATTTATATACTATTT
1 CTATTTATATACTATTT
8954698 AATGATGGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (17 bp):
CTATTTATATACTATTT
Found at i:8955410 original size:5 final size:5
Alignment explanation
Indices: 8955400--8955427 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8955390 TTGTGTGTTC
8955400 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
8955428 CACAAAGTGA
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:8957214 original size:194 final size:194
Alignment explanation
Indices: 8956880--8957474 Score: 1145
Period size: 194 Copynumber: 3.1 Consensus size: 194
8956870 AATTTCTGTG
* *
8956880 AGCACTGTGTTTTTGGAAAGCAAAAGAGAATTTGATTCACCAGAGGAATACATAACACGAAAGGA
1 AGCAATGTGTTTTTGGAAAGCAAAAGAGAATTTGATTCACCAGAGGAATACATAACACGAAGGGA
*
8956945 ACGTTAGAGTATAGTCATTCTGATCTGTGGGGGCCATCTAGAGTGCCTTCGAGAGGTGGAGCTAA
66 ACGTTGGAGTATAGTCATTCTGATCTGTGGGGGCCATCTAGAGTGCCTTCGAGAGGTGGAGCTAA
8957010 TTATATACTAACCTTTATTGATGATTTTTCCAGAAAAGTTTCGGTGTTTTTCTTGAAGCAGAAA
131 TTATATACTAACCTTTATTGATGATTTTTCCAGAAAAGTTTCGGTGTTTTTCTTGAAGCAGAAA
8957074 AGCAATGTGTTTTTGGAAAGCAAAAGAGAATTTGATTCACCAGAGGAATACATAACACGAAGGGA
1 AGCAATGTGTTTTTGGAAAGCAAAAGAGAATTTGATTCACCAGAGGAATACATAACACGAAGGGA
*
8957139 ACGTTGGAGTATAGTCATTCTGACCTGTGGGGGCCATCTAGAGTGCCTTCGAGAGGTGGAGCTAA
66 ACGTTGGAGTATAGTCATTCTGATCTGTGGGGGCCATCTAGAGTGCCTTCGAGAGGTGGAGCTAA
*
8957204 TTATATACTAACCTTTATTGATGATTTTTCCAGAAAAGTTTGGGTGTTTTTCTTGAAGCAGAAA
131 TTATATACTAACCTTTATTGATGATTTTTCCAGAAAAGTTTCGGTGTTTTTCTTGAAGCAGAAA
8957268 AGCAATGTGTTTTTGGAAAGCAAAAGAGAATTTGATTCACCAGAGGAATACATAACACGAAGGGA
1 AGCAATGTGTTTTTGGAAAGCAAAAGAGAATTTGATTCACCAGAGGAATACATAACACGAAGGGA
8957333 ACGTTGGAGTATAGTCATTCTGATCTGTGGGGGCCATCTAGAGTGCCTTCGAGAGGTGGAGCTAA
66 ACGTTGGAGTATAGTCATTCTGATCTGTGGGGGCCATCTAGAGTGCCTTCGAGAGGTGGAGCTAA
8957398 TTATATACTAACCTTTATTGATGATTTTTCCAGAAAAGTTTCGGTGTTTTTCTTGAAGCAGAAA
131 TTATATACTAACCTTTATTGATGATTTTTCCAGAAAAGTTTCGGTGTTTTTCTTGAAGCAGAAA
8957462 AGCAATGTGTTTT
1 AGCAATGTGTTTT
8957475 CCACATTTAA
Statistics
Matches: 394, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
194 394 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (194 bp):
AGCAATGTGTTTTTGGAAAGCAAAAGAGAATTTGATTCACCAGAGGAATACATAACACGAAGGGA
ACGTTGGAGTATAGTCATTCTGATCTGTGGGGGCCATCTAGAGTGCCTTCGAGAGGTGGAGCTAA
TTATATACTAACCTTTATTGATGATTTTTCCAGAAAAGTTTCGGTGTTTTTCTTGAAGCAGAAA
Found at i:8964109 original size:2 final size:2
Alignment explanation
Indices: 8964102--8964139 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8964092 ATATAATTCT
8964102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8964140 ATTCATCCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8965820 original size:19 final size:20
Alignment explanation
Indices: 8965791--8965828 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8965781 AAAAAATAAA
8965791 AAAACTAAAAATATCAAATT
1 AAAACTAAAAATATCAAATT
*
8965811 AAAA-TAAAAATATTAAAT
1 AAAACTAAAAATATCAAAT
8965829 CTAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAACTAAAAATATCAAATT
Found at i:8967314 original size:5 final size:5
Alignment explanation
Indices: 8967304--8967328 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8967294 GGTTTTTAAA
8967304 AGATT AGATT AGATT AGATT AGATT
1 AGATT AGATT AGATT AGATT AGATT
8967329 TTATTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
AGATT
Found at i:8969653 original size:32 final size:32
Alignment explanation
Indices: 8969612--8969679 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
8969602 GGTGTTACAC
8969612 ATAGTGTGACATACATTAATCCTGAGTGGATG
1 ATAGTGTGACATACATTAATCCTGAGTGGATG
*
8969644 ATAGTGTGACATACATTAATCTTGAGTGGATG
1 ATAGTGTGACATACATTAATCCTGAGTGGATG
8969676 ATAG
1 ATAG
8969680 ACTATATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.32
Consensus pattern (32 bp):
ATAGTGTGACATACATTAATCCTGAGTGGATG
Found at i:8974812 original size:6 final size:6
Alignment explanation
Indices: 8974794--8974843 Score: 73
Period size: 6 Copynumber: 8.3 Consensus size: 6
8974784 ATATGAAGAC
* * *
8974794 AAAATA AACATA AAAATA AAAATA AAAATA AAAATA AACATA AAGATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
8974842 AA
1 AA
8974844 TGGACTCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:8976627 original size:15 final size:15
Alignment explanation
Indices: 8976597--8976638 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
8976587 TGTAAGAATC
8976597 AAAATAAAAT-AATT
1 AAAATAAAATAAATT
*
8976611 AAACTAAAATAAATT
1 AAAATAAAATAAATT
*
8976626 AAAAGAAAATAAA
1 AAAATAAAATAAA
8976639 AAGAATAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAAAATAAATT
Found at i:8976647 original size:9 final size:9
Alignment explanation
Indices: 8976627--8976662 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
8976617 AAATAAATTA
8976627 AAAGAAAAT
1 AAAGAAAAT
8976636 AAA-AAGAAT
1 AAAGAA-AAT
8976645 AAAGAAAAT
1 AAAGAAAAT
8976654 AAAGAAAAT
1 AAAGAAAAT
8976663 GGAGAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 2 0.08
9 21 0.84
10 2 0.08
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (9 bp):
AAAGAAAAT
Found at i:8977311 original size:71 final size:71
Alignment explanation
Indices: 8977223--8977373 Score: 257
Period size: 71 Copynumber: 2.1 Consensus size: 71
8977213 CGTATCGCAC
* *
8977223 GGCCGTGTGTAATGTTGTTCGCTTTTCCTTCGCTCGTGTGGCTTCCCACACGCCCGTGTGTCTGA
1 GGCCGTGTGTAATGTTGTTCGCTTCTCCTCCGCTCGTGTGGCTTCCCACACGCCCGTGTGTCTGA
8977288 ACACAT
66 ACACAT
* *
8977294 GGCCGTGTGTAATGTTGTTCGCTTCTCCTCCGCTCGTGTGGCTTCCCACACGGCCGTGTGTTTGA
1 GGCCGTGTGTAATGTTGTTCGCTTCTCCTCCGCTCGTGTGGCTTCCCACACGCCCGTGTGTCTGA
*
8977359 GCACAT
66 ACACAT
8977365 GGCCGTGTG
1 GGCCGTGTG
8977374 CCTCGCCTGT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 75 1.00
ACGTcount: A:0.10, C:0.29, G:0.28, T:0.32
Consensus pattern (71 bp):
GGCCGTGTGTAATGTTGTTCGCTTCTCCTCCGCTCGTGTGGCTTCCCACACGCCCGTGTGTCTGA
ACACAT
Found at i:8978096 original size:27 final size:27
Alignment explanation
Indices: 8977982--8978096 Score: 88
Period size: 27 Copynumber: 4.3 Consensus size: 27
8977972 GTCCTATTAG
* * **
8977982 ACTATCTCGTGTTTAATGTCTTGTCAA
1 ACTATCTCATGTTTAACGTCCCGTCAA
* **
8978009 ACTAGT-TCATGTTTAACATCCCGTCGG
1 ACTA-TCTCATGTTTAACGTCCCGTCAA
* * * * * *
8978036 GCTATCCCGTGTTTAACTTTCCGTCAG
1 ACTATCTCATGTTTAACGTCCCGTCAA
*
8978063 ACTATCTCATGTTTAACGTCCCATCAA
1 ACTATCTCATGTTTAACGTCCCGTCAA
8978090 ACTATCT
1 ACTATCT
8978097 ATGATGTTGT
Statistics
Matches: 66, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
26 1 0.02
27 64 0.97
28 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (27 bp):
ACTATCTCATGTTTAACGTCCCGTCAA
Found at i:8981155 original size:45 final size:44
Alignment explanation
Indices: 8981106--8981234 Score: 129
Period size: 45 Copynumber: 2.9 Consensus size: 44
8981096 ACTATCAAAG
*
8981106 GATGCCATAATTCCTTTCAGCCATAGTTTTACTCATTTTCA-TCAT
1 GATGCCATAATTCCTTTCAGCTAT-GTTTTACTCATTTTCATTC-T
* * *
8981151 GATGCCATAGCA-T-CTTTTAGCTATGGTCTTACTCATTTCCATTCT
1 GATGCCATA--ATTCCTTTCAGCTAT-GTTTTACTCATTTTCATTCT
* *
8981196 GATGCCATAGTGCCTTTCAGCTATGATTTTACTCATTTT
1 GATGCCATAATTCCTTTCAGCTATG-TTTTACTCATTTT
8981235 AGGCATATAG
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
44 1 0.01
45 63 0.93
46 3 0.04
47 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.12, T:0.43
Consensus pattern (44 bp):
GATGCCATAATTCCTTTCAGCTATGTTTTACTCATTTTCATTCT
Found at i:8989709 original size:27 final size:25
Alignment explanation
Indices: 8989670--8989720 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
8989660 AAACTCAGAT
*
8989670 TCAAACTTTAAAAATGATATCAACAAC
1 TCAAACTTGAAAAA-GATA-CAACAAC
8989697 TCAAACTTGAAAAAGATACAACAA
1 TCAAACTTGAAAAAGATACAACAA
8989721 TATCTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 6 0.26
26 4 0.17
27 13 0.57
ACGTcount: A:0.55, C:0.18, G:0.06, T:0.22
Consensus pattern (25 bp):
TCAAACTTGAAAAAGATACAACAAC
Found at i:8993675 original size:26 final size:25
Alignment explanation
Indices: 8993646--8993717 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
8993636 CTTGATATAT
* *
8993646 GGCTCTTCGCGAGTTTCCCGATTAAA
1 GGCTCTTTG-GAGCTTCCCGATTAAA
* *
8993672 GGCTCTTTGTAAGCTTCCC-ATTAAT
1 GGCTCTTTG-GAGCTTCCCGATTAAA
8993697 GGCTCTTTGGAGCTTCCCGAT
1 GGCTCTTTGGAGCTTCCCGAT
8993718 ATTAGCTCGC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 8 0.21
25 16 0.41
26 15 0.38
ACGTcount: A:0.17, C:0.26, G:0.22, T:0.35
Consensus pattern (25 bp):
GGCTCTTTGGAGCTTCCCGATTAAA
Found at i:8993808 original size:25 final size:25
Alignment explanation
Indices: 8993780--8993840 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
8993770 GGCTCTCACA
* * *
8993780 AGCTTCCCGTTACATGGTTCACATG
1 AGCTTCCCGTTACATGGCTCAAAAG
* *
8993805 AGCTTCCCATTATATGGCTCAAAAG
1 AGCTTCCCGTTACATGGCTCAAAAG
8993830 AGCTTCCCGTT
1 AGCTTCCCGTT
8993841 TATGTGCTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (25 bp):
AGCTTCCCGTTACATGGCTCAAAAG
Found at i:9000122 original size:30 final size:30
Alignment explanation
Indices: 9000087--9000144 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9000077 CAGGCACTTC
* *
9000087 CACACGGGTAAACCACTCGCCCGTGTGTGA
1 CACACGGGCAAACCACACGCCCGTGTGTGA
*
9000117 CACACGGGCAAGCCACACGCCCGTGTGT
1 CACACGGGCAAACCACACGCCCGTGTGT
9000145 CATGGCCCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.22, C:0.36, G:0.28, T:0.14
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGTGA
Found at i:9005010 original size:3 final size:3
Alignment explanation
Indices: 9005002--9005080 Score: 117
Period size: 3 Copynumber: 26.7 Consensus size: 3
9004992 ACCCCTCCCA
9005002 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
9005050 ATT GTT ATT ATT GA-A ATT ATT ATT -TT ATT AT
1 ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT AT
9005081 GCATTTTATT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
2 3 0.04
3 65 0.94
4 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:9017227 original size:49 final size:49
Alignment explanation
Indices: 9017161--9017258 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
9017151 TATAGTTATG
9017161 GGGAAACCAGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
1 GGGAAACCAGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
* *
9017210 GGGAGACCGGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
1 GGGAAACCAGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
9017259 CTATCTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (49 bp):
GGGAAACCAGAAATGTCGTATCCACGAGGACTAAAAGTACTAGTAATTA
Found at i:9024356 original size:25 final size:26
Alignment explanation
Indices: 9024314--9024362 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
9024304 AGTTGTAAAT
9024314 CAGAAAAATATCTCTAGA-AATTTTC
1 CAGAAAAATATCTCTAGAGAATTTTC
* * *
9024339 CAGAATAATCTCTTTAGAGAATTT
1 CAGAAAAATATCTCTAGAGAATTT
9024363 CTTTTTACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (26 bp):
CAGAAAAATATCTCTAGAGAATTTTC
Found at i:9025054 original size:19 final size:19
Alignment explanation
Indices: 9025021--9025060 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
9025011 AAAATATCAT
*
9025021 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTACTTG
9025040 ATTAA-TTTAATTTTACTTG
1 ATTAATTTTAA-TTTACTTG
9025059 AT
1 AT
9025061 CAAAATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTACTTG
Found at i:9034699 original size:17 final size:16
Alignment explanation
Indices: 9034654--9034703 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 16
9034644 GCATATATAA
9034654 TTTTTTAT-ATTACTTC
1 TTTTTTATAATTA-TTC
9034670 TTTTTAATATAATTATTC
1 TTTTT--TATAATTATTC
9034688 TTATTTTATAATTATT
1 TT-TTTTATAATTATT
9034704 TGTAAATTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.17
17 10 0.33
18 8 0.27
19 7 0.23
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTTATAATTATTC
Found at i:9041295 original size:14 final size:14
Alignment explanation
Indices: 9041278--9041342 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
9041268 GTCCGCAGGC
9041278 ATGAATCTGTATCT
1 ATGAATCTGTATCT
** *
9041292 ATGAATCCATATAT
1 ATGAATCTGTATCT
* *
9041306 AAGAATATGTA-CTT
1 ATGAATCTGTATC-T
* *
9041320 ATGTATTTGTATCT
1 ATGAATCTGTATCT
9041334 ATGAATCTG
1 ATGAATCTG
9041343 CATATATGAT
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
14 35 0.97
15 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.42
Consensus pattern (14 bp):
ATGAATCTGTATCT
Found at i:9041443 original size:56 final size:56
Alignment explanation
Indices: 9041324--9041443 Score: 134
Period size: 56 Copynumber: 2.2 Consensus size: 56
9041314 GTACTTATGT
* * * * *
9041324 ATTT-GTATCTATGAATCTGCATATATGATTCCGTACTTACGAATCCATATATACA
1 ATTTCGTATCTAAGAATCCGCATATATGAATCAGTACTTACGAATCCACATATACA
* * * * * *
9041379 AATCCGTATCTAAGAGTCCGCATATATGAATCAGTACTTATGAATCGACATATATA
1 ATTTCGTATCTAAGAATCCGCATATATGAATCAGTACTTACGAATCCACATATACA
9041435 ATTTCGTAT
1 ATTTCGTAT
9041444 TTATGATTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
55 2 0.04
56 49 0.96
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (56 bp):
ATTTCGTATCTAAGAATCCGCATATATGAATCAGTACTTACGAATCCACATATACA
Found at i:9042677 original size:17 final size:17
Alignment explanation
Indices: 9042651--9042691 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
9042641 ATATACATAA
9042651 TTTATCATTT-TAAATAT
1 TTTATCATTTATAAA-AT
*
9042668 TTTATTATTTATAAAA-
1 TTTATCATTTATAAAAT
9042684 TTTATCAT
1 TTTATCAT
9042692 AAAAACTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 7 0.33
17 10 0.48
18 4 0.19
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTATCATTTATAAAAT
Found at i:9042982 original size:17 final size:18
Alignment explanation
Indices: 9042960--9043005 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
9042950 TTTTTAATTA
9042960 TTTATATAATAAAT-AAT
1 TTTATATAATAAATAAAT
* *
9042977 TTTATATTATATATAAAT
1 TTTATATAATAAATAAAT
9042995 TTTATA-AATAA
1 TTTATATAATAA
9043006 TGCACTACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTATATAATAAATAAAT
Found at i:9043531 original size:6 final size:6
Alignment explanation
Indices: 9043520--9043568 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
9043510 ATAACATCAT
9043520 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
9043568 T
1 T
9043569 ATTACATACA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTATA
Found at i:9047893 original size:18 final size:17
Alignment explanation
Indices: 9047853--9047896 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9047843 ATTTAAAATT
*
9047853 TATTTTTATCATACTAA
1 TATTTTTATAATACTAA
*
9047870 TAATTTTTATAATAATTAA
1 T-ATTTTTATAAT-ACTAA
9047889 TATTTTTA
1 TATTTTTA
9047897 AAACTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.74
19 5 0.22
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTTTATAATACTAA
Found at i:9049342 original size:15 final size:14
Alignment explanation
Indices: 9049321--9049367 Score: 67
Period size: 15 Copynumber: 3.2 Consensus size: 14
9049311 TACATTTCAC
9049321 AAAATAAAAAAATA
1 AAAATAAAAAAATA
*
9049335 ATAAATAAATAAATA
1 A-AAATAAAAAAATA
9049350 AAAATAAAAAACATA
1 AAAATAAAAAA-ATA
9049365 AAA
1 AAA
9049368 TGCAGGAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.34
15 19 0.66
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:9049930 original size:1 final size:1
Alignment explanation
Indices: 9049924--9049961 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
9049914 ACAAATTCTC
9049924 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9049962 CCTCCCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:9055730 original size:18 final size:17
Alignment explanation
Indices: 9055707--9055742 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
9055697 AGTCGTGATT
*
9055707 TGGTATCAATATTTAATA
1 TGGTATCAA-ATTAAATA
9055725 TGGTATCAAATTAAATA
1 TGGTATCAAATTAAATA
9055742 T
1 T
9055743 TAATACCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (17 bp):
TGGTATCAAATTAAATA
Found at i:9056262 original size:30 final size:30
Alignment explanation
Indices: 9056205--9056262 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
9056195 AAAATTTTCA
* *
9056205 AAAATTTTAAGAGGTTTAATGATAATTTAT
1 AAAATTTTAAGAGGCTTAATGAAAATTTAT
*
9056235 AAAATTTTAA-AGGGCTTAATTAAAATTT
1 AAAATTTTAAGA-GGCTTAATGAAAATTT
9056263 TTTTATAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.41
Consensus pattern (30 bp):
AAAATTTTAAGAGGCTTAATGAAAATTTAT
Found at i:9056749 original size:31 final size:31
Alignment explanation
Indices: 9056674--9056735 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
9056664 AAAAAAAGTA
9056674 AGAGTTTGCTTTTTGATGTAACGTACAAGGC
1 AGAGTTTGCTTTTTGATGTAACGTACAAGGC
*
9056705 AGAGTTTACTTTTTGATGTAACGTACAAGGC
1 AGAGTTTGCTTTTTGATGTAACGTACAAGGC
9056736 TATTTTGTCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.35
Consensus pattern (31 bp):
AGAGTTTGCTTTTTGATGTAACGTACAAGGC
Found at i:9067341 original size:71 final size:71
Alignment explanation
Indices: 9067266--9067428 Score: 177
Period size: 71 Copynumber: 2.3 Consensus size: 71
9067256 TTTTCAACAA
* * * * * *
9067266 CTTGAGTGAGCAACATCGAATTATATTTTAGT-ATTTGCTGAGATCTT-GCATAAGTTGCGTATT
1 CTTGAGTGAGTAACATCGAATTATACTTTAGTGA-TGGCTGAGAT-TTAGCACAAGTTACGGATT
* *
9067329 CTCGATAG
64 CACAATAG
* * * *
9067337 CTTGAGTAAGTAGCATCGAATTATACTTTATTGATGGCTGAGATTTAGCACATGTTACGGATTCA
1 CTTGAGTGAGTAACATCGAATTATACTTTAGTGATGGCTGAGATTTAGCACAAGTTACGGATTCA
9067402 CAATAG
66 CAATAG
*
9067408 CTTGAGTGAGTAACATTGAAT
1 CTTGAGTGAGTAACATCGAAT
9067429 AAAACTTATT
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
70 2 0.03
71 72 0.96
72 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (71 bp):
CTTGAGTGAGTAACATCGAATTATACTTTAGTGATGGCTGAGATTTAGCACAAGTTACGGATTCA
CAATAG
Found at i:9074263 original size:30 final size:30
Alignment explanation
Indices: 9074227--9074287 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
9074217 CATGGGCTGG
* * * *
9074227 CACATGGGCGTGTGGCCTGCCCGTGTGGAT
1 CACATGGGCATGTGCCCAGCCCATGTGGAT
9074257 CACATGGGCATGTGCCCAGCCCATGTGGAT
1 CACATGGGCATGTGCCCAGCCCATGTGGAT
9074287 C
1 C
9074288 CTGAAAACTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.15, C:0.30, G:0.34, T:0.21
Consensus pattern (30 bp):
CACATGGGCATGTGCCCAGCCCATGTGGAT
Found at i:9076280 original size:16 final size:16
Alignment explanation
Indices: 9076261--9076299 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
9076251 ATAATAATAG
*
9076261 TATATAAAAATTAAAA
1 TATAAAAAAATTAAAA
9076277 TATAAAAAAATTAAAA
1 TATAAAAAAATTAAAA
9076293 T-TAAAAA
1 TATAAAAA
9076300 TATAAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
TATAAAAAAATTAAAA
Found at i:9076329 original size:4 final size:4
Alignment explanation
Indices: 9076320--9076345 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9076310 AGTATAATAA
9076320 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
9076346 GTAAAATAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:9076365 original size:22 final size:20
Alignment explanation
Indices: 9076347--9076398 Score: 77
Period size: 22 Copynumber: 2.5 Consensus size: 20
9076337 AATTAATTAG
9076347 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAATA
*
9076367 TAACAATTAAAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAATA
9076389 TAAAATAAAA
1 TAAAATAAAA
9076399 TTAGGGTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.28
21 4 0.14
22 17 0.59
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATA
Found at i:9079165 original size:31 final size:31
Alignment explanation
Indices: 9079127--9079188 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
9079117 CTTATTTCTC
9079127 AACGAGAAGGGGAATAATACAAATGAGTATT
1 AACGAGAAGGGGAATAATACAAATGAGTATT
*
9079158 AACGAGAAGGGGAATAATCCAAATGAGTATT
1 AACGAGAAGGGGAATAATACAAATGAGTATT
9079189 TGGGTCTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.08, G:0.26, T:0.19
Consensus pattern (31 bp):
AACGAGAAGGGGAATAATACAAATGAGTATT
Found at i:9080092 original size:30 final size:30
Alignment explanation
Indices: 9080056--9080116 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
9080046 CACGGGCTAG
*
9080056 CACATGGACGTGTGGCCTGCCCGTGTAGAT
1 CACATGGACGTGTGGCCAGCCCGTGTAGAT
* *
9080086 CACATGGGCGTGTGTCCAGCCCGTGTAGAT
1 CACATGGACGTGTGGCCAGCCCGTGTAGAT
9080116 C
1 C
9080117 CTGAAAGCTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.23
Consensus pattern (30 bp):
CACATGGACGTGTGGCCAGCCCGTGTAGAT
Found at i:9080466 original size:26 final size:30
Alignment explanation
Indices: 9080407--9080466 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
9080397 CCATATTATA
9080407 AATTGATTGGTTAATGATTTTCAATGGATG
1 AATTGATTGGTTAATGATTTTCAATGGATG
*
9080437 AATTGTTTGG-TAA-GATTTT-AATGGAT-
1 AATTGATTGGTTAATGATTTTCAATGGATG
9080463 AATT
1 AATT
9080467 TGAATGGTGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 4 0.14
27 7 0.24
28 6 0.21
29 3 0.10
30 9 0.31
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.45
Consensus pattern (30 bp):
AATTGATTGGTTAATGATTTTCAATGGATG
Found at i:9083754 original size:25 final size:25
Alignment explanation
Indices: 9083726--9083778 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
9083716 CATGAAATGC
9083726 TTAGTAAGTTCGTATAACATGGTAA
1 TTAGTAAGTTCGTATAACATGGTAA
9083751 TTAGTAAGTTCGTATAACATGGTAA
1 TTAGTAAGTTCGTATAACATGGTAA
9083776 TTA
1 TTA
9083779 ACTTACCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (25 bp):
TTAGTAAGTTCGTATAACATGGTAA
Found at i:9084430 original size:26 final size:26
Alignment explanation
Indices: 9084399--9084455 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
9084389 TCAAGCTCTC
9084399 GAGCCA-TATAACGGGAAGCTCACAAA
1 GAGCCACTA-AACGGGAAGCTCACAAA
*
9084425 GAGCCACTAATCGGGAAGCTCACAAA
1 GAGCCACTAAACGGGAAGCTCACAAA
9084451 GAGCC
1 GAGCC
9084456 TATCAGGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.39, C:0.26, G:0.25, T:0.11
Consensus pattern (26 bp):
GAGCCACTAAACGGGAAGCTCACAAA
Found at i:9085701 original size:31 final size:30
Alignment explanation
Indices: 9085657--9085718 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
9085647 TTATTTAATT
* *
9085657 AATTATCATCTTTTATTTTTTTTTACTTTCC
1 AATTATCATCTTTT-CTTTATTTTACTTTCC
*
9085688 AATT-TCATCCTTTTCTTTATTTTATTTTCC
1 AATTATCAT-CTTTTCTTTATTTTACTTTCC
9085718 A
1 A
9085719 TGGATGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.19, C:0.18, G:0.00, T:0.63
Consensus pattern (30 bp):
AATTATCATCTTTTCTTTATTTTACTTTCC
Found at i:9089088 original size:18 final size:17
Alignment explanation
Indices: 9089058--9089091 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9089048 CAATACTTGT
*
9089058 ATAACAATCGCAGTCAC
1 ATAACAATAGCAGTCAC
9089075 ATAATCAATAGCAGTCA
1 ATAA-CAATAGCAGTCA
9089092 GTCTTTGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (17 bp):
ATAACAATAGCAGTCAC
Found at i:9090943 original size:27 final size:26
Alignment explanation
Indices: 9090879--9090944 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 26
9090869 CAGTAAAACA
*
9090879 TATCA-TAGGGGTATATCAGTCATTT
1 TATCATTAGGGGTATAACAGTCATTT
9090904 TACCTC-TTAGGGGTATAACAGTCATTT
1 TA--TCATTAGGGGTATAACAGTCATTT
9090931 TATCATTATGGGGT
1 TATCATTA-GGGGT
9090945 CCAAATATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 4 0.11
26 3 0.09
27 28 0.80
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (26 bp):
TATCATTAGGGGTATAACAGTCATTT
Found at i:9091079 original size:17 final size:19
Alignment explanation
Indices: 9091043--9091079 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
9091033 AAGGCCCACA
9091043 ACACGACCCATGTGGGCCC
1 ACACGACCCATGTGGGCCC
9091062 ACACG-CCCATGT-GGCCC
1 ACACGACCCATGTGGGCCC
9091079 A
1 A
9091080 ATAAGCCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 7 0.39
19 5 0.28
ACGTcount: A:0.22, C:0.43, G:0.24, T:0.11
Consensus pattern (19 bp):
ACACGACCCATGTGGGCCC
Done.