Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 183 of 186
Found at i:60572182 original size:21 final size:21
Alignment explanation
Indices: 60572158--60572202 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
60572148 TAAAAATTAA
*
60572158 ACCCCAAA-CCTCAAATTTTAG
1 ACCCCAAACCCT-AAATCTTAG
*
60572179 ACCCTAAACCCTAAATCTTAG
1 ACCCCAAACCCTAAATCTTAG
60572200 ACC
1 ACC
60572203 ATAAACCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.36, G:0.04, T:0.22
Consensus pattern (21 bp):
ACCCCAAACCCTAAATCTTAG
Found at i:60572207 original size:21 final size:21
Alignment explanation
Indices: 60572170--60572209 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60572160 CCCAAACCTC
* *
60572170 AAATTTTAGACCCTAAACCCT
1 AAATCTTAGACCATAAACCCT
60572191 AAATCTTAGACCATAAACC
1 AAATCTTAGACCATAAACC
60572210 TACACCCTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.28, G:0.05, T:0.25
Consensus pattern (21 bp):
AAATCTTAGACCATAAACCCT
Found at i:60572667 original size:21 final size:21
Alignment explanation
Indices: 60572636--60572777 Score: 71
Period size: 21 Copynumber: 6.7 Consensus size: 21
60572626 TTACATAATT
60572636 TAAACTCATAATCCCTAAACCC
1 TAAAC-CATAATCCCTAAACCC
* *
60572658 TAAACCATAAAT-CCTAAAACA
1 TAAACCAT-AATCCCTAAACCC
* * *
60572679 TAAACCTTGAA-CCAT-GACCTC
1 TAAACCAT-AATCCCTAAACC-C
* * *
60572700 TAACCCTTAACCCCT-AACACC
1 TAAACCATAATCCCTAAAC-CC
* * *
60572721 TAAACCTTAAACCC-CAACCC
1 TAAACCATAATCCCTAAACCC
60572741 TTAAACCATAATCCCTAAACCC
1 -TAAACCATAATCCCTAAACCC
*
60572763 ATAATCCATAA-CCCT
1 -TAAACCATAATCCCT
60572778 TAAAATAGTA
Statistics
Matches: 94, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
20 6 0.06
21 65 0.69
22 23 0.24
ACGTcount: A:0.41, C:0.37, G:0.01, T:0.21
Consensus pattern (21 bp):
TAAACCATAATCCCTAAACCC
Found at i:60572673 original size:14 final size:14
Alignment explanation
Indices: 60572651--60572684 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
60572641 TCATAATCCC
*
60572651 TAAACCCTAAACCA
1 TAAACCCTAAAACA
*
60572665 TAAATCCTAAAACA
1 TAAACCCTAAAACA
60572679 TAAACC
1 TAAACC
60572685 TTGAACCATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (14 bp):
TAAACCCTAAAACA
Found at i:60573353 original size:155 final size:158
Alignment explanation
Indices: 60573072--60573500 Score: 571
Period size: 155 Copynumber: 2.6 Consensus size: 158
60573062 CAAAACGACG
*
60573072 GCGTTTTCTAAAAAGCGTCGCTAAAGGTGTACATATAGCGGCG-TTTTAAAAAAGCGCCGCTAAT
1 GCGTTTTCTAAAAAGCCT-GCTAAAGGTGTACATATAGCGGCGTTTTTAAAAAAGCGCCGCTAAT
* **
60573136 ACTCGATCTTTAGAGGCGTTTTTAAAAAGCGCTGCTAAAGCCACTAAAGGCTCAATACAAAACGA
65 ACTCGATCTTTAGTGGCGTTTTTAAAAAGCGCCACTAAAGCCACTAAAGGCTCAATACAAAACGA
* *
60573201 CGGTGTTGTGTTAATTTTTTT-T-GC-A-
130 CGGCGTTGTGTTAATTTTTTTGTAACAAC
*
60573226 GCGTTTTCTAAAAAGCACTGCTAAAGGTGTACATATAGTGGCGTTTTTAAAAAAGCGCCGCTAAT
1 GCGTTTTCTAAAAAGC-CTGCTAAAGGTGTACATATAGCGGCGTTTTTAAAAAAGCGCCGCTAAT
* *
60573291 ACTCGATCTTTAGTGGCGTTTTTAAAAGGCGCCATTAAAGCCACTAAAGGCTCAATACAAAACGA
65 ACTCGATCTTTAGTGGCGTTTTTAAAAAGCGCCACTAAAGCCACTAAAGGCTCAATACAAAACGA
60573356 CGGCGTTGTGTTAATTTTTTTGCGGCGATCAAACATTAAC
130 CGGCGTTGTGTTAATTTTTTT-----G-T--AAC---AAC
*
60573396 GGTGTTTTCTAAAAAGCGCTGCTAAAGGGTGTACATATAGCGGCGTTTTTAAAAAAGCGCCGCTA
1 -GCGTTTTCTAAAAAGC-CTGCTAAA-GGTGTACATATAGCGGCGTTTTTAAAAAAGCGCCGCTA
* *
60573461 ATACTCGATCTTTAGTGGCATTTTTAAAAACCGCCACTAA
63 ATACTCGATCTTTAGTGGCGTTTTTAAAAAGCGCCACTAA
60573501 TACTCGTTCT
Statistics
Matches: 240, Mismatches: 16, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
154 39 0.16
155 102 0.43
162 1 0.00
165 1 0.00
169 1 0.00
171 23 0.10
172 73 0.30
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (158 bp):
GCGTTTTCTAAAAAGCCTGCTAAAGGTGTACATATAGCGGCGTTTTTAAAAAAGCGCCGCTAATA
CTCGATCTTTAGTGGCGTTTTTAAAAAGCGCCACTAAAGCCACTAAAGGCTCAATACAAAACGAC
GGCGTTGTGTTAATTTTTTTGTAACAAC
Found at i:60573524 original size:39 final size:40
Alignment explanation
Indices: 60573433--60573524 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 40
60573423 GGTGTACATA
* *
60573433 TAGCGGCGTTTTTAAAAAAGCGCCGCTAATACTCGATCTT
1 TAGCGGCGTTTTTAAAAAACCGCCACTAATACTCGATCTT
* * *
60573473 TAGTGGCATTTTT-AAAAACCGCCACTAATACTCGTTCTT
1 TAGCGGCGTTTTTAAAAAACCGCCACTAATACTCGATCTT
*
60573512 TAGCAGCGTTTTT
1 TAGCGGCGTTTTT
60573525 CATTCAAACG
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 33 0.75
40 11 0.25
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (40 bp):
TAGCGGCGTTTTTAAAAAACCGCCACTAATACTCGATCTT
Found at i:60575534 original size:47 final size:46
Alignment explanation
Indices: 60575429--60575746 Score: 268
Period size: 47 Copynumber: 6.8 Consensus size: 46
60575419 ATTTGTGTGT
* * * * *
60575429 GAGCTGGTGTAAGA-CATGTCTGGGAAATGCATCAGCCAT-ATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCTTGA-GATGA
* * * * * *
60575475 GATCCAGGGTAAGACCATGTCTAGGACATGCATCGGCATTGAGACGG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGC-TTGAGATGA
* *
60575522 GAGCAAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCT-TGAGATGA
* * * * * *
60575568 TAGTTAGTGTAAGACCATGTCTTGGACATGGCATCGACATTAAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-TTGAGATGA
* * * *
60575616 AAGCTAGTGTAAGA-CATTTCTGGGACATGCATCAGCTACGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCT-TGAGATGA
* * *
60575662 TAGTTAGTGTAAGACCATGTCTGGGACATGGCATCGACTTGAGAT-A
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTGAGATGA
*
60575708 TGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGC
1 -GAGCTAGTGTAAGACCATGTCTGGGACATG-CATCGGC
60575747 ACCTTACCCA
Statistics
Matches: 215, Mismatches: 45, Indels: 23
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.01
46 74 0.34
47 106 0.49
48 32 0.15
49 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGATGA
Found at i:60575639 original size:94 final size:94
Alignment explanation
Indices: 60575483--60575746 Score: 381
Period size: 94 Copynumber: 2.8 Consensus size: 94
60575473 GAGATCCAGG
* *
60575483 GTAAGACCATGTCTAGGACAT-GCATCGGCATTGAGACGGGAGCAAGTGTAAGACATGTCTGGGA
1 GTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGAGCAAGTGTAAGACATGTCTGGGA
60575547 CATGCATCGGCTACGAGATGATAGTTAGT
66 CATGCATCGGCTACGAGATGATAGTTAGT
* * * * *
60575576 GTAAGACCATGTCTTGGACATGGCATCGACATTAAGACGAAAGCTAGTGTAAGACATTTCTGGGA
1 GTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGAGCAAGTGTAAGACATGTCTGGGA
*
60575641 CATGCATCAGCTACGAGATGATAGTTAGT
66 CATGCATCGGCTACGAGATGATAGTTAGT
* * *
60575670 GTAAGACCATGTCTGGGACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAGACCATGTCTGG
1 GTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGA-GAGCAAGTGTAAGA-CATGTCTGG
60575733 GACATGACATCGGC
64 GACATG-CATCGGC
60575747 ACCTTACCCA
Statistics
Matches: 152, Mismatches: 15, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 37 0.24
94 108 0.71
95 6 0.04
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (94 bp):
GTAAGACCATGTCTAGGACATGGCATCGACATTGAGACGAGAGCAAGTGTAAGACATGTCTGGGA
CATGCATCGGCTACGAGATGATAGTTAGT
Found at i:60576889 original size:21 final size:20
Alignment explanation
Indices: 60576856--60576894 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
60576846 TCGAGTTGGT
60576856 CACACGGACGTGTTGCCCTTC
1 CACACGGACGTG-TGCCCTTC
**
60576877 CACACGGGTGTGTGCCCT
1 CACACGGACGTGTGCCCT
60576895 ATTTTAATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.36, G:0.28, T:0.23
Consensus pattern (20 bp):
CACACGGACGTGTGCCCTTC
Found at i:60589383 original size:17 final size:17
Alignment explanation
Indices: 60589363--60589395 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60589353 CTTTTATTAA
60589363 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
60589380 GTTTTTAAGATTCATT
1 GTTTTTAAGATTCATT
60589396 TTTTCTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.12, T:0.55
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:60593369 original size:47 final size:47
Alignment explanation
Indices: 60593143--60593407 Score: 170
Period size: 47 Copynumber: 5.6 Consensus size: 47
60593133 TGTGTGAGCT
* * * * *
60593143 AGTGTAAAACCATGTATGGGACATGCATCGACAAC-ATTATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACTACGA-GAT-ACGAGTC
* * ** * *
60593190 AGTGTAAAACCATGTATGGGACATGGCATCGAC-ATTA-AGACGAGAGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTACGAGATACGAG-TC
* * * * ** *
60593237 TAGTGTAAGA-CATGTATGGGATATGCATCGTCCT-CGAGACATAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGCATCG-ACTACGAGATACGAGTC
* * *
60593284 AGCGTAAGA-CATGTCTGGTACATGCATCGACTACGAGATGA-TAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGAT-ACGAGTC
* * *
60593330 AGTGTAAGGCCATGTCTGGGACATGGCATTGACT-TGAGATACGAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACTACGAGATACGAGTC
60593377 AGTGTAAGACCATGTCTGGGACATAGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
60593408 GCAACTTACC
Statistics
Matches: 176, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
45 3 0.02
46 51 0.29
47 93 0.53
48 29 0.16
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACTACGAGATACGAGTC
Found at i:60612263 original size:14 final size:13
Alignment explanation
Indices: 60612244--60612273 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
60612234 TTTAGTTTAA
60612244 TTAGTTAATTAAGT
1 TTAGTTAATT-AGT
60612258 TTAGTTAATTAGT
1 TTAGTTAATTAGT
60612271 TTA
1 TTA
60612274 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:60620288 original size:14 final size:13
Alignment explanation
Indices: 60620269--60620298 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
60620259 TTTAGTTTAA
60620269 TTAGTTAATTAAGT
1 TTAGTTAATT-AGT
60620283 TTAGTTAATTAGT
1 TTAGTTAATTAGT
60620296 TTA
1 TTA
60620299 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:60622064 original size:63 final size:63
Alignment explanation
Indices: 60621954--60622080 Score: 148
Period size: 63 Copynumber: 2.0 Consensus size: 63
60621944 GCTATGTGGT
* ** * *
60621954 AGGTTGTGTAACTCACTATTTTTGAATTGGAGGTACACAGGTTAGGGACACGGGTGTGTGTCC
1 AGGTTGTGTAACTCACTATTTTTGAATTGAAGGTACACAGGCCAGGGACACGAGTATGTGTCC
* * * * *
60622017 AGGTTGTGTCACTCACTGTTTTTG-ATTTAAGGTCACACGGGCCAGGGACATGAGTATGTGTCC
1 AGGTTGTGTAACTCACTATTTTTGAATTGAAGGT-ACACAGGCCAGGGACACGAGTATGTGTCC
60622080 A
1 A
60622081 AGCCATGTGA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 7 0.13
63 46 0.87
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (63 bp):
AGGTTGTGTAACTCACTATTTTTGAATTGAAGGTACACAGGCCAGGGACACGAGTATGTGTCC
Found at i:60622697 original size:5 final size:5
Alignment explanation
Indices: 60622687--60622723 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
60622677 TTGTATGTTC
60622687 TTTAT TTTAT TTT-T TATT-T TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTT
60622724 TCACACCTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:60625001 original size:27 final size:27
Alignment explanation
Indices: 60624950--60625003 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
60624940 AGGTACCCCA
*
60624950 TGTTTAACATCTCGTCAAACTATCCAT
1 TGTTTAACATCTCGTCAAACAATCCAT
**
60624977 TGTTTAACATCTCGTCGGACAATCCAT
1 TGTTTAACATCTCGTCAAACAATCCAT
60625004 GATGCTATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (27 bp):
TGTTTAACATCTCGTCAAACAATCCAT
Found at i:60627533 original size:42 final size:42
Alignment explanation
Indices: 60627375--60627533 Score: 131
Period size: 42 Copynumber: 3.6 Consensus size: 42
60627365 TAAGGGATTT
* * * *
60627375 CGTATAAGATCATTTCTGGGACATGGCATCGATATGAGGTCC
1 CGTATAAGACCATGTCTGGGACATGGCATCAATGTGAGGTCC
* * *
60627417 CGTATAAGACCATGTCTGGGACATGGCGTCGACACTGATTTGA-GACTT
1 CGTATAAGACCATGTCTGGGACATGGCATC-A-A-TG---TGAGGTC-C
* * * *
60627465 CGTATAAGACCATATCTGGAATATGGCATCAATGTGCGGTCC
1 CGTATAAGACCATGTCTGGGACATGGCATCAATGTGAGGTCC
* *
60627507 CATGTAAGACCATGTCTGGGACATGGC
1 CGTATAAGACCATGTCTGGGACATGGC
60627534 TTTGGCACCC
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
42 51 0.57
43 2 0.02
44 1 0.01
45 3 0.03
46 1 0.01
47 3 0.03
48 29 0.32
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (42 bp):
CGTATAAGACCATGTCTGGGACATGGCATCAATGTGAGGTCC
Found at i:60635624 original size:17 final size:17
Alignment explanation
Indices: 60635604--60635654 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
60635594 TTGTCACATG
60635604 CCTATCA-TCGCCGCAAA
1 CCTATCACT-GCCGCAAA
60635621 CCTATCACTGCCGCAAA
1 CCTATCACTGCCGCAAA
* *
60635638 CCGATCGCTGCCGCAAA
1 CCTATCACTGCCGCAAA
60635655 TTCATTGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 30 0.97
18 1 0.03
ACGTcount: A:0.27, C:0.41, G:0.16, T:0.16
Consensus pattern (17 bp):
CCTATCACTGCCGCAAA
Found at i:60639165 original size:207 final size:207
Alignment explanation
Indices: 60638808--60639226 Score: 759
Period size: 207 Copynumber: 2.0 Consensus size: 207
60638798 GCTGCTCAAA
*
60638808 AGCAAGCTTTGGGTATTTAATTGAAGGTCCTTGCAATTGAAAAATTATCAAAAATCAGCCCAAAA
1 AGCAAGCTTTGGGTATTCAATTGAAGGTCCTTGCAATTGAAAAATTATCAAAAATCAGCCCAAAA
* *
60638873 ACTTCTTTTTAAAGTCGTCCACCCTATGGCTATTAATAGCCTTTGTTTGAATTCAAAATGAAGGG
66 ACTTCTTTTTAAAGTCATCCACCCTATGGCTATTAATAGCCTTTGTTTGAATTCAAAATGAAGAG
*
60638938 ACTAAGTCATCCCCTTCTCGTTGCAATGTGGCTGGCCATGTGTGGTAGAAAAAGAAGGAATTTCA
131 ACTAAGTCATCCCCTTCTCGTTGCAATGTGGCTGCCCATGTGTGGTAGAAAAAGAAGGAATTTCA
60639003 AATGCTATTTTT
196 AATGCTATTTTT
*
60639015 AGCAAGCTTTGGGTATTCAATTGAAGGTCCTTGCAATTGAAAAA-TAGTCAGAAATCAGCCCAAA
1 AGCAAGCTTTGGGTATTCAATTGAAGGTCCTTGCAATTGAAAAATTA-TCAAAAATCAGCCCAAA
*
60639079 AACTTCTTTTTAAAGTCATCCACCCTATGGCTATTAATAGCCTTTGTTTGAGTTCAAAATGAAGA
65 AACTTCTTTTTAAAGTCATCCACCCTATGGCTATTAATAGCCTTTGTTTGAATTCAAAATGAAGA
*
60639144 GACTAAGTCATCCCGTTCTCGTTGCAATGTGGCTGCCCATGTGTGGTAGAAAAAGAAGGAATTTC
130 GACTAAGTCATCCCCTTCTCGTTGCAATGTGGCTGCCCATGTGTGGTAGAAAAAGAAGGAATTTC
60639209 AAATGCTATTTTT
195 AAATGCTATTTTT
60639222 AGCAA
1 AGCAA
60639227 AACCTACCTA
Statistics
Matches: 204, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
206 2 0.01
207 202 0.99
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (207 bp):
AGCAAGCTTTGGGTATTCAATTGAAGGTCCTTGCAATTGAAAAATTATCAAAAATCAGCCCAAAA
ACTTCTTTTTAAAGTCATCCACCCTATGGCTATTAATAGCCTTTGTTTGAATTCAAAATGAAGAG
ACTAAGTCATCCCCTTCTCGTTGCAATGTGGCTGCCCATGTGTGGTAGAAAAAGAAGGAATTTCA
AATGCTATTTTT
Found at i:60641959 original size:46 final size:47
Alignment explanation
Indices: 60641864--60642083 Score: 157
Period size: 50 Copynumber: 4.6 Consensus size: 47
60641854 CAGCCTCGAA
* * *
60641864 ATGTAAGCCAATGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAG
1 ATGT-AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCTAGGAG
*
60641910 ATGT-GTCAGTGTAAAACCATGTCTGGGACATGGCATCGGC-AGGGAG
1 ATGTAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCTA-GGAG
* * * *
60641956 ATGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCT-TGATT
1 ATGT---AGCCAGTGTAAAACCATGTCTGGGACATGGCATCGG-CTAGGA-G
* ** * * * *
60642007 TTGATAGTTAGTGTAATACCATATCTGGGACATGGCATCGACT-TGATGG
1 ATG-TAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCTAGGA--G
*
60642056 ATG-AGCCAGTGTAAGACCATGTCTGGGA
1 ATGTAGCCAGTGTAAAACCATGTCTGGGA
60642084 TGTTGCATCG
Statistics
Matches: 139, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
44 9 0.06
45 15 0.11
46 19 0.14
47 21 0.15
48 5 0.04
49 32 0.23
50 34 0.24
51 3 0.02
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
ATGTAGCCAGTGTAAAACCATGTCTGGGACATGGCATCGGCTAGGAG
Found at i:60642081 original size:96 final size:95
Alignment explanation
Indices: 60641869--60642083 Score: 244
Period size: 96 Copynumber: 2.3 Consensus size: 95
60641859 TCGAAATGTA
* *
60641869 AGCCAATGTAAGA-CATGTCTGGGACATGCATCGGCTATGAGATGTGTCAGTGTAAAACCATGTC
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGTGTCAGTGTAAAACCATATC
*
60641933 TGGGACATGGCATCGGCAGGGAGATGTGAG
66 TGGGACATGGCATCGGCAGCGAGATGTGAG
* ** * *
60641963 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGGCCT-TGATTTTGATAGTTAGTGTAATACC
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG-CTATGA-GATG-T-GTCAGTGTAAAACC
**
60642027 ATATCTGGGACATGGCATC-G-A-CTTGATG-GATG
61 ATATCTGGGACATGGCATCGGCAGCGAGATGTGA-G
60642059 AGCCAGTGTAAGACCATGTCTGGGA
1 AGCCAGTGTAAGACCATGTCTGGGA
60642084 TGTTGCATCG
Statistics
Matches: 104, Mismatches: 10, Indels: 12
0.83 0.08 0.10
Matches are distributed among these distances:
94 12 0.12
95 16 0.15
96 39 0.38
97 5 0.05
98 2 0.02
99 30 0.29
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (95 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGTGTCAGTGTAAAACCATATC
TGGGACATGGCATCGGCAGCGAGATGTGAG
Found at i:60642093 original size:47 final size:48
Alignment explanation
Indices: 60641733--60642083 Score: 194
Period size: 46 Copynumber: 7.4 Consensus size: 48
60641723 TTTGTGTACT
* *** *
60641733 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATT-GGATGAGCC
* * * * *** *
60641779 AGTGTAAGACCATGCCTAGGACATGGCATTGATATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTTGATTGGATGAGCC
* * * * *
60641827 AGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCTCGAAAT-G-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTG-ATTGGATGAGCC
* * * *
60641873 AATGTAAGA-CATGTCTGGGACAT-GCATCGGC-T-A-TGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTG-GATGAGCC
* * ** *
60641917 AGTGTAAAACCATGTCTGGGACATGGCATCGGCAGGGAGATGTGA-GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TTGA-TTG-GATGAGCC
* * * **
60641967 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTGATTTTGAT-AGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGA-TTGGATGAGCC
* *
60642016 AGTGTAATACCATATCTGGGACATGGCATCGACTTGA-TGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTGGATGAGCC
60642063 AGTGTAAGACCATGTCTGGGA
1 AGTGTAAGACCATGTCTGGGA
60642084 TGTTGCATCG
Statistics
Matches: 231, Mismatches: 55, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 1 0.00
44 10 0.04
45 16 0.07
46 57 0.25
47 46 0.20
48 26 0.11
49 33 0.14
50 34 0.15
51 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATTGGATGAGCC
Found at i:60648722 original size:15 final size:16
Alignment explanation
Indices: 60648702--60648734 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
60648692 TTCATATCCT
60648702 TTTGTTTTAT-TTTAA
1 TTTGTTTTATATTTAA
*
60648717 TTTGTTTTCTATTTAA
1 TTTGTTTTATATTTAA
60648733 TT
1 TT
60648735 AATTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (16 bp):
TTTGTTTTATATTTAA
Found at i:60648934 original size:33 final size:33
Alignment explanation
Indices: 60648882--60648944 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
60648872 AATAAATTTC
60648882 TTTTACTAATTAATAATAAATAATA-AAATATA
1 TTTTACTAATTAATAATAAATAATACAAATATA
60648914 TTTTCACTAATT-ATACATAAATAATACAAAT
1 TTTT-ACTAATTAATA-ATAAATAATACAAAT
60648945 GTACTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 7 0.25
33 17 0.61
34 4 0.14
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTTACTAATTAATAATAAATAATACAAATATA
Found at i:60649038 original size:32 final size:32
Alignment explanation
Indices: 60649002--60649063 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
60648992 TGTCTTTTCT
**
60649002 TAATTTATTTCATAAT-ATAATAATAATTAATA
1 TAATTTATAGCATAATAATAATAAT-ATTAATA
*
60649034 TAATTTATAGCTTAATAATAATAATATTAA
1 TAATTTATAGCATAATAATAATAATATTAA
60649064 CTAATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (32 bp):
TAATTTATAGCATAATAATAATAATATTAATA
Found at i:60657066 original size:25 final size:25
Alignment explanation
Indices: 60657038--60657088 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
60657028 AGTCATACAA
60657038 ACTCTCTTTCATACTCAGAACTAAC
1 ACTCTCTTTCATACTCAGAACTAAC
60657063 ACTCTCTTTCATACTCAGAACTAAC
1 ACTCTCTTTCATACTCAGAACTAAC
60657088 A
1 A
60657089 TGCAGCCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.31, G:0.04, T:0.31
Consensus pattern (25 bp):
ACTCTCTTTCATACTCAGAACTAAC
Found at i:60659612 original size:45 final size:45
Alignment explanation
Indices: 60659560--60659647 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
60659550 CCAAAACATG
* *
60659560 TGCCATATACATCATGAACTGAGACCATAACTTAATGAGTTCAGA
1 TGCCATATACATCATGAACTGAGACCACAACTCAATGAGTTCAGA
* * *
60659605 TGCCATATATATCATGGACTTAGACCACAACTCAATGAGTTCA
1 TGCCATATACATCATGAACTGAGACCACAACTCAATGAGTTCA
60659648 AATCACATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (45 bp):
TGCCATATACATCATGAACTGAGACCACAACTCAATGAGTTCAGA
Found at i:60662823 original size:17 final size:16
Alignment explanation
Indices: 60662783--60662823 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
60662773 CCTATGTTTT
60662783 AATTC-AATATAAATC
1 AATTCAAATATAAATC
60662798 AA-TCAAAATCATAAATC
1 AATTC-AAAT-ATAAATC
60662815 AATTCAAAT
1 AATTCAAAT
60662824 TTATCCTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 2 0.09
15 2 0.09
16 3 0.14
17 13 0.59
18 2 0.09
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTCAAATATAAATC
Found at i:60669955 original size:55 final size:55
Alignment explanation
Indices: 60669871--60670131 Score: 146
Period size: 55 Copynumber: 4.7 Consensus size: 55
60669861 CAAAGTTGTG
* * *
60669871 CACGGGTAGGCCA-CACGGGCGTGTGCCATGGCCGTGTTAAAATGACAGTGTCGTC
1 CACGGGCAGG-CAGCACGGGCATGTTCCATGGCCGTGTTAAAATGACAGTGTCGTC
* * * * *
60669926 CATGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGTTGATAA-GTCAGTGTTGCC
1 CACGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGTT-AAAATGACAGTGTCGTC
* * * * * ** * *
60669981 CACGATTGAAGG--GCATGGGCTAT-TTCCCCT-GCAC---TTAAAATTTTAGCTCAAAGTTGTG
1 CACG--GGCAGGCAGCACGGGC-ATGTT-CCATGGC-CGTGTTAAAA---T-G-ACAGTGTCGTC
* * *
60670039 CACGGGTAGGCCA-CACGGGCGTGTGCCATGGCCGTGTTAAAATGACAGTGTCGTC
1 CACGGGCAGG-CAGCACGGGCATGTTCCATGGCCGTGTTAAAATGACAGTGTCGTC
*
60670094 CATGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGTT
1 CACGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGTT
60670132 GATAAGTCAG
Statistics
Matches: 151, Mismatches: 33, Indels: 44
0.66 0.14 0.19
Matches are distributed among these distances:
52 3 0.02
53 2 0.01
54 4 0.03
55 91 0.60
56 14 0.09
57 11 0.07
58 20 0.13
60 6 0.04
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.23
Consensus pattern (55 bp):
CACGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGTTAAAATGACAGTGTCGTC
Found at i:60670111 original size:168 final size:168
Alignment explanation
Indices: 60669833--60670168 Score: 672
Period size: 168 Copynumber: 2.0 Consensus size: 168
60669823 GCTATGGCCG
60669833 TATTTCCCCTGCACTTAAAATTTTAGCTCAAAGTTGTGCACGGGTAGGCCACACGGGCGTGTGCC
1 TATTTCCCCTGCACTTAAAATTTTAGCTCAAAGTTGTGCACGGGTAGGCCACACGGGCGTGTGCC
60669898 ATGGCCGTGTTAAAATGACAGTGTCGTCCATGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGT
66 ATGGCCGTGTTAAAATGACAGTGTCGTCCATGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGT
60669963 TGATAAGTCAGTGTTGCCCACGATTGAAGGGCATGGGC
131 TGATAAGTCAGTGTTGCCCACGATTGAAGGGCATGGGC
60670001 TATTTCCCCTGCACTTAAAATTTTAGCTCAAAGTTGTGCACGGGTAGGCCACACGGGCGTGTGCC
1 TATTTCCCCTGCACTTAAAATTTTAGCTCAAAGTTGTGCACGGGTAGGCCACACGGGCGTGTGCC
60670066 ATGGCCGTGTTAAAATGACAGTGTCGTCCATGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGT
66 ATGGCCGTGTTAAAATGACAGTGTCGTCCATGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGT
60670131 TGATAAGTCAGTGTTGCCCACGATTGAAGGGCATGGGC
131 TGATAAGTCAGTGTTGCCCACGATTGAAGGGCATGGGC
60670169 GTGCCCCAAG
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 168 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.25
Consensus pattern (168 bp):
TATTTCCCCTGCACTTAAAATTTTAGCTCAAAGTTGTGCACGGGTAGGCCACACGGGCGTGTGCC
ATGGCCGTGTTAAAATGACAGTGTCGTCCATGGGCAGGCAGCACGGGCATGTTCCATGGCCGTGT
TGATAAGTCAGTGTTGCCCACGATTGAAGGGCATGGGC
Found at i:60670730 original size:14 final size:13
Alignment explanation
Indices: 60670707--60670738 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
60670697 GGGATATCAA
60670707 AACAATAATTAAG
1 AACAATAATTAAG
60670720 AACACATAATTAAG
1 AACA-ATAATTAAG
60670734 AACAA
1 AACAA
60670739 GTTAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:60673212 original size:24 final size:24
Alignment explanation
Indices: 60673153--60673212 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
60673143 TAATCTACCC
* * *
60673153 TAATCAGAGTTCGACTGGGACAAA
1 TAATCAGAGTTTGAATGAGACAAA
*
60673177 TAATTAGAGTTTGAATGAGACAAA
1 TAATCAGAGTTTGAATGAGACAAA
60673201 TAATCAGAGTTT
1 TAATCAGAGTTT
60673213 AACTAGAAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (24 bp):
TAATCAGAGTTTGAATGAGACAAA
Found at i:60674062 original size:20 final size:21
Alignment explanation
Indices: 60674026--60674065 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
60674016 AAATAATTTT
60674026 AAAAATTCAAAATATTTATAA
1 AAAAATTCAAAATATTTATAA
60674047 AAAAATT-ATAAA-ATTTATA
1 AAAAATTCA-AAATATTTATA
60674066 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
AAAAATTCAAAATATTTATAA
Found at i:60674091 original size:26 final size:26
Alignment explanation
Indices: 60674037--60674091 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
60674027 AAAATTCAAA
*
60674037 ATATTTATAAAAAAATTATAAAATTT
1 ATATTTATAAAAAAATTATAAAATAT
60674063 ATATTT-TAAAAAAATCTA-AAGAATAT
1 ATATTTATAAAAAAAT-TATAA-AATAT
60674089 ATA
1 ATA
60674092 AAGAAAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
ATATTTATAAAAAAATTATAAAATAT
Found at i:60675200 original size:26 final size:26
Alignment explanation
Indices: 60675171--60675227 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
60675161 ATAATATCCC
60675171 TTTCTAAT-TTTTTCTCAAATTATTTA
1 TTTCTAATCTTTTT-TCAAATTATTTA
** *
60675197 TTTCTTCTCTTTTTTTAAATTATTTA
1 TTTCTAATCTTTTTTCAAATTATTTA
60675223 TTTCT
1 TTTCT
60675228 TCCCTTTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 22 0.81
27 5 0.19
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTCTAATCTTTTTTCAAATTATTTA
Found at i:60675210 original size:85 final size:86
Alignment explanation
Indices: 60675112--60675272 Score: 288
Period size: 85 Copynumber: 1.9 Consensus size: 86
60675102 TCTTGTAATA
*
60675112 TCTTCTCTTTTTTTTAAAATTATTTATTTCTTTCCTTTTATTTTGCTTAATAATATCCCTTTCTA
1 TCTTCTC-TTTTTTTAAAATTATTTATTTCTTCCCTTTTATTTTGCTTAATAATATCCCTTTCTA
60675177 ATTTTTTCTCAAATTATTTATT
65 ATTTTTTCTCAAATTATTTATT
*
60675199 TCTTCTCTTTTTTT-AAATTATTTATTTCTTCCCTTTTGTTTTGCTTAATAATATCCCTTTCTAA
1 TCTTCTCTTTTTTTAAAATTATTTATTTCTTCCCTTTTATTTTGCTTAATAATATCCCTTTCTAA
60675263 TTTTTTCTCA
66 TTTTTTCTCA
60675273 GTCCCACTAA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
85 58 0.81
86 7 0.10
87 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.02, T:0.61
Consensus pattern (86 bp):
TCTTCTCTTTTTTTAAAATTATTTATTTCTTCCCTTTTATTTTGCTTAATAATATCCCTTTCTAA
TTTTTTCTCAAATTATTTATT
Found at i:60675228 original size:26 final size:28
Alignment explanation
Indices: 60675178--60675235 Score: 93
Period size: 26 Copynumber: 2.1 Consensus size: 28
60675168 CCCTTTCTAA
*
60675178 TTTTTTCTCAAATTATTTATTTCTTCTC
1 TTTTTTCTCAAATTATTTATTTCTTCCC
60675206 TTTTTT-T-AAATTATTTATTTCTTCCC
1 TTTTTTCTCAAATTATTTATTTCTTCCC
60675232 TTTT
1 TTTT
60675236 GTTTTGCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 22 0.76
27 1 0.03
28 6 0.21
ACGTcount: A:0.17, C:0.16, G:0.00, T:0.67
Consensus pattern (28 bp):
TTTTTTCTCAAATTATTTATTTCTTCCC
Found at i:60675295 original size:85 final size:84
Alignment explanation
Indices: 60675114--60675297 Score: 255
Period size: 85 Copynumber: 2.2 Consensus size: 84
60675104 TTGTAATATC
*
60675114 TTCTCTTTTTTTTAAAATTATTTATTTCTTTCCTTTTATTTTGCTTAATAATATCCCTTTCTAAT
1 TTCTCTTTTTTTTAAAATTATTTATTTCTTCCCTTTTATTTTGCTTAATAATATCCCTTTCTAAT
* * *
60675179 TTTTTCTCAAATTATTTAT
66 TTTTTCTCAAATCACTAAT
*
60675198 TTCTTCTCTTTTTTT-AAATTATTTATTTCTTCCCTTTTGTTTTGCTTAATAATATCCCTTTCTA
1 TTC-TCT-TTTTTTTAAAATTATTTATTTCTTCCCTTTTATTTTGCTTAATAATATCCCTTTCTA
*
60675262 ATTTTTTCTC-AGTCCCACTAAT
64 ATTTTTTCTCAAAT--CACTAAT
60675284 TCTCTCTTTTTTTT
1 T-TCTCTTTTTTTT
60675298 CCTCTTTCAC
Statistics
Matches: 89, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
84 5 0.06
85 67 0.75
86 15 0.17
87 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.02, T:0.61
Consensus pattern (84 bp):
TTCTCTTTTTTTTAAAATTATTTATTTCTTCCCTTTTATTTTGCTTAATAATATCCCTTTCTAAT
TTTTTCTCAAATCACTAAT
Found at i:60675716 original size:24 final size:24
Alignment explanation
Indices: 60675689--60675740 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60675679 TTAGTAAGTC
*
60675689 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
60675713 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
60675737 AAAT
1 AAAT
60675741 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:60677686 original size:24 final size:24
Alignment explanation
Indices: 60677659--60677710 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
60677649 TTAGTAAGTC
*
60677659 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
60677683 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
60677707 AAAT
1 AAAT
60677711 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:60683833 original size:6 final size:6
Alignment explanation
Indices: 60683822--60683860 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
60683812 TTAAATTAAG
*
60683822 TAAAAC TAAAAC TAAAAC GAAAAC TAAAAC TAAAAC TAA
1 TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC TAAAAC TAA
60683861 TATAATAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (6 bp):
TAAAAC
Found at i:60685052 original size:43 final size:43
Alignment explanation
Indices: 60684999--60685090 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
60684989 GTAATGAGTT
* * *
60684999 GTGGAGTTCATGGTAATCAATTGTTGT-ACTTAATAGGGTATCA
1 GTGGAATTCATGGTAATCAACTGTT-TCACGTAATAGGGTATCA
* *
60685042 GTGGAATTCATGGTATTCAACTGTTTCCCGTAATAGGGTATCA
1 GTGGAATTCATGGTAATCAACTGTTTCACGTAATAGGGTATCA
60685085 GTGGAA
1 GTGGAA
60685091 ACCATATTAC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 1 0.02
43 42 0.98
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (43 bp):
GTGGAATTCATGGTAATCAACTGTTTCACGTAATAGGGTATCA
Found at i:60694045 original size:16 final size:18
Alignment explanation
Indices: 60694006--60694039 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60693996 TAAGTTTTTA
60694006 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
60694023 ATATTTATATATTATGT
1 ATATTTATATATTATGT
60694040 AATTTAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:60696961 original size:13 final size:13
Alignment explanation
Indices: 60696943--60697003 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
60696933 TTGGCAATAC
60696943 TTTTGAAAAGTGA
1 TTTTGAAAAGTGA
*
60696956 TTTTGAAAAGTGC
1 TTTTGAAAAGTGA
* * *
60696969 TGTGGAAAAATGA
1 TTTTGAAAAGTGA
* * *
60696982 GTTTGAGAAGTGC
1 TTTTGAAAAGTGA
60696995 TTTTGAAAA
1 TTTTGAAAA
60697004 AATTGATTTA
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.36, C:0.03, G:0.26, T:0.34
Consensus pattern (13 bp):
TTTTGAAAAGTGA
Found at i:60697002 original size:26 final size:26
Alignment explanation
Indices: 60696942--60697004 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
60696932 TTTGGCAATA
* *
60696942 CTTTTGAAAAGTGATTTTGAAAAGTG
1 CTTTTGAAAAATGAGTTTGAAAAGTG
* * *
60696968 CTGTGGAAAAATGAGTTTGAGAAGTG
1 CTTTTGAAAAATGAGTTTGAAAAGTG
60696994 CTTTTGAAAAA
1 CTTTTGAAAAA
60697005 ATTGATTTAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (26 bp):
CTTTTGAAAAATGAGTTTGAAAAGTG
Found at i:60697299 original size:33 final size:30
Alignment explanation
Indices: 60697223--60697303 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
60697213 ATTTTTAAGC
60697223 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
60697251 ATTAGAATATATAAATTATATTTTAAAATTTTA
1 AATATAATAT-TAAATTAT-TTATAAAA-TTTA
60697284 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
60697304 GTAATTAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 10 0.23
33 13 0.30
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:60697313 original size:13 final size:12
Alignment explanation
Indices: 60697297--60697367 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
60697287 ATAACTATTA
60697297 AATATTTGTAATT
1 AATATTT-TAATT
**
60697310 AATATTTTAAAA
1 AATATTTTAATT
60697322 AATATTTT--TT
1 AATATTTTAATT
60697332 -AT-TTTTAATT
1 AATATTTTAATT
60697342 AATAATTTTAA-T
1 AAT-ATTTTAATT
60697354 AA-ATTTGTAATT
1 AATATTT-TAATT
60697366 AA
1 AA
60697368 GCATCAAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
8 4 0.09
9 2 0.04
10 6 0.13
11 5 0.11
12 17 0.36
13 13 0.28
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (12 bp):
AATATTTTAATT
Found at i:60699433 original size:20 final size:20
Alignment explanation
Indices: 60699395--60699434 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
60699385 TAAATTTTGT
60699395 ATATTTATATGTTTGAATTGA
1 ATATTTATATG-TTGAATTGA
60699416 ATATTGTATATG-TGAATTG
1 ATATT-TATATGTTGAATTG
60699435 TGTAAATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (20 bp):
ATATTTATATGTTGAATTGA
Found at i:60699716 original size:25 final size:26
Alignment explanation
Indices: 60699680--60699751 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
60699670 ACATACTGCA
*
60699680 GCTCTT-ATGAGCGTCCCGATATATG
1 GCTCTTCATGAGCTTCCCGATATATG
* *
60699705 GCTCTTCA-GAGCTTCCTGATAAAAT-
1 GCTCTTCATGAGCTTCCCGAT-ATATG
60699730 GCTCTTTCATGAGCTTCCCGAT
1 GCTC-TTCATGAGCTTCCCGAT
60699752 TATTGACTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 20 0.51
26 8 0.21
27 11 0.28
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (26 bp):
GCTCTTCATGAGCTTCCCGATATATG
Found at i:60707111 original size:5 final size:5
Alignment explanation
Indices: 60707101--60707133 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
60707091 TTGTGTGTTC
60707101 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
60707134 CACAAAGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:60721719 original size:21 final size:21
Alignment explanation
Indices: 60721693--60721736 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
60721683 TGGTGAGAGC
60721693 TTGTATAGGTTTTGTACTAAG
1 TTGTATAGGTTTTGTACTAAG
60721714 TTGTATAGGTTTTGTACTAAG
1 TTGTATAGGTTTTGTACTAAG
60721735 TT
1 TT
60721737 AAAAGCACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.50
Consensus pattern (21 bp):
TTGTATAGGTTTTGTACTAAG
Found at i:60725861 original size:187 final size:187
Alignment explanation
Indices: 60725546--60725894 Score: 653
Period size: 187 Copynumber: 1.9 Consensus size: 187
60725536 TCCATTTGGT
* * *
60725546 CCGTTTTGTCCCTTTTTAGCTCGTTTTTGGCTCTTTTCGACTCTTGGTGCTCTCCTGAGTGCAAA
1 CCGTTTTGTCCCTTTTTAGCTCGTTTTTGGCTCCTTTCGACTCTTGGTGCTCTCCTAAGTACAAA
60725611 ACATGAAATAACTGGATTAAGAGCACCAAAATCCACAAATCTAGTGATAAACATCCATAAATATG
66 ACATGAAATAACTGGATTAAGAGCACCAAAATCCACAAATCTAGTGATAAACATCCATAAATATG
* *
60725676 TTAAGTATTTGGGGTATAGATATGTATAATTTAGGGTATAAACATCCATAAAAAGGA
131 CTAAGTATTTGAGGTATAGATATGTATAATTTAGGGTATAAACATCCATAAAAAGGA
60725733 CCGTTTTGTCCCTTTTTAGCTCGTTTTTGGCTCCTTTCGACTCTTGGTGCTCTCCTAAGTACAAA
1 CCGTTTTGTCCCTTTTTAGCTCGTTTTTGGCTCCTTTCGACTCTTGGTGCTCTCCTAAGTACAAA
60725798 ACATGAAATAACTGGATTAAGAGCACCAAAATCCACAAATCTAGTGATAAACATCCATAAATATG
66 ACATGAAATAACTGGATTAAGAGCACCAAAATCCACAAATCTAGTGATAAACATCCATAAATATG
60725863 CTAAGTATTTGAGGTATAGATATGTATAATTT
131 CTAAGTATTTGAGGTATAGATATGTATAATTT
60725895 GGTGTTTATC
Statistics
Matches: 157, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
187 157 1.00
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (187 bp):
CCGTTTTGTCCCTTTTTAGCTCGTTTTTGGCTCCTTTCGACTCTTGGTGCTCTCCTAAGTACAAA
ACATGAAATAACTGGATTAAGAGCACCAAAATCCACAAATCTAGTGATAAACATCCATAAATATG
CTAAGTATTTGAGGTATAGATATGTATAATTTAGGGTATAAACATCCATAAAAAGGA
Found at i:60726597 original size:15 final size:15
Alignment explanation
Indices: 60726577--60726628 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
60726567 ACTACAAAAC
60726577 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
60726592 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
60726611 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
60726626 ATT
1 ATT
60726629 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:60726692 original size:16 final size:16
Alignment explanation
Indices: 60726661--60726697 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
60726651 ACGTGAATAA
60726661 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
60726677 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
60726693 TATTA
1 TATTA
60726698 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:60726749 original size:22 final size:22
Alignment explanation
Indices: 60726709--60726764 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
60726699 AATAAAATTG
*
60726709 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
60726729 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
60726751 TATTAATAATTTAT
1 AAATAATAAATTAT
60726765 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:60732806 original size:44 final size:44
Alignment explanation
Indices: 60732743--60732827 Score: 170
Period size: 44 Copynumber: 1.9 Consensus size: 44
60732733 GTCAAGAAGC
60732743 ATCGTTCCGATAATTCACAATTTACTTAATCATGGAGTTAGAGT
1 ATCGTTCCGATAATTCACAATTTACTTAATCATGGAGTTAGAGT
60732787 ATCGTTCCGATAATTCACAATTTACTTAATCATGGAGTTAG
1 ATCGTTCCGATAATTCACAATTTACTTAATCATGGAGTTAG
60732828 TCCACAAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (44 bp):
ATCGTTCCGATAATTCACAATTTACTTAATCATGGAGTTAGAGT
Found at i:60740338 original size:35 final size:36
Alignment explanation
Indices: 60740285--60740355 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
60740275 GGAAGTAAGT
60740285 GTTGGGAAAAAAAGGGAAGTTATGTTTGAATAAGGA
1 GTTGGGAAAAAAAGGGAAGTTATGTTTGAATAAGGA
60740321 GTTGGG-AAAAAAGGGAAGTTATGTTTGAATAAGGA
1 GTTGGGAAAAAAAGGGAAGTTATGTTTGAATAAGGA
60740356 CGATAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.83
36 6 0.17
ACGTcount: A:0.41, C:0.00, G:0.34, T:0.25
Consensus pattern (36 bp):
GTTGGGAAAAAAAGGGAAGTTATGTTTGAATAAGGA
Found at i:60745132 original size:48 final size:49
Alignment explanation
Indices: 60745069--60745172 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 49
60745059 ATTTTCATTT
60745069 AAAAATAT-TTGGGAT-AGTT-TGTGTTTAAAAAATAATA-TATATTGATTA
1 AAAAAT-TGTTGGGATAAGTTCTGTGTTTAAAAAATAA-AGTATATTGA-TA
* * *
60745117 AATAATTGTTGGGATAATTTCTGTTTTTAAAAAATAAAGTATATTGATA
1 AAAAATTGTTGGGATAAGTTCTGTGTTTAAAAAATAAAGTATATTGATA
60745166 AAAAATT
1 AAAAATT
60745173 ATTGTTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.02
48 12 0.25
49 12 0.25
50 23 0.48
ACGTcount: A:0.44, C:0.01, G:0.13, T:0.41
Consensus pattern (49 bp):
AAAAATTGTTGGGATAAGTTCTGTGTTTAAAAAATAAAGTATATTGATA
Found at i:60749530 original size:54 final size:54
Alignment explanation
Indices: 60749445--60749553 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
60749435 CGCCATGTGT
*
60749445 AGCTGTCTGGTTATTCTGTTAGTCATGCCAATTTTTAACAGTAAAAATAGATGA
1 AGCTGTCTGGTTATTCTGTTAGTCATACCAATTTTTAACAGTAAAAATAGATGA
*
60749499 AGCTGTCTGGTTATTTTGTTAGTCATACCAATTTTTAACAGTAAAAATAGATGA
1 AGCTGTCTGGTTATTCTGTTAGTCATACCAATTTTTAACAGTAAAAATAGATGA
60749553 A
1 A
60749554 ATTTTTAACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (54 bp):
AGCTGTCTGGTTATTCTGTTAGTCATACCAATTTTTAACAGTAAAAATAGATGA
Found at i:60755857 original size:22 final size:22
Alignment explanation
Indices: 60755817--60755859 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
60755807 GGGTAGGAAA
*
60755817 TTGCATCTGATTCTGATTTGTT
1 TTGCATCTGATTCTAATTTGTT
60755839 TTGCATCTG-TATCTAATTTGT
1 TTGCATCTGAT-TCTAATTTGT
60755860 GCTTCTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.53
Consensus pattern (22 bp):
TTGCATCTGATTCTAATTTGTT
Found at i:60758716 original size:30 final size:31
Alignment explanation
Indices: 60758682--60758748 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
60758672 AGCTATCCCA
* * *
60758682 TTTCATA-ATTTAATGGTTGTCACCAACCTT
1 TTTCATATATTCAATGGTCGTCACCAACCCT
* *
60758712 TTTCA-ATATTCGATGGTCGTCACCATCCCT
1 TTTCATATATTCAATGGTCGTCACCAACCCT
60758742 TTTCATA
1 TTTCATA
60758749 GATCAATAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.03
30 28 0.93
31 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (31 bp):
TTTCATATATTCAATGGTCGTCACCAACCCT
Found at i:60758768 original size:30 final size:29
Alignment explanation
Indices: 60758734--60758808 Score: 107
Period size: 30 Copynumber: 2.5 Consensus size: 29
60758724 ATGGTCGTCA
60758734 CCATCCCTTTTCATAGATCA-ATAGCCGAAG
1 CCATCCCTTTTCATAG-T-AGATAGCCGAAG
*
60758764 CCATCCTTTTTCATAGTAGGATAGCCGAAG
1 CCATCCCTTTTCATAGTA-GATAGCCGAAG
60758794 CCATCCCTTTTCATA
1 CCATCCCTTTTCATA
60758809 ATTTGATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 1 0.02
29 1 0.02
30 39 0.95
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (29 bp):
CCATCCCTTTTCATAGTAGATAGCCGAAG
Found at i:60768307 original size:28 final size:28
Alignment explanation
Indices: 60768275--60768358 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
60768265 AACACACCAG
* *
60768275 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
* *
60768303 TATAATCCTCCCAAATACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
60768331 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
60768359 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.20
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:60769091 original size:48 final size:48
Alignment explanation
Indices: 60769035--60769128 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
60769025 CAATAATTTC
60769035 ACTATTTACTTATGTATATTCAAAACTGTCCATTTGCATCATAGTCTT
1 ACTATTTACTTATGTATATTCAAAACTGTCCATTTGCATCATAGTCTT
* *
60769083 ACTATTTACTTATGTATATTCAAAACTGTCTATTTGCATTATAGTC
1 ACTATTTACTTATGTATATTCAAAACTGTCCATTTGCATCATAGTC
60769129 ACTAAATTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (48 bp):
ACTATTTACTTATGTATATTCAAAACTGTCCATTTGCATCATAGTCTT
Found at i:60771385 original size:15 final size:17
Alignment explanation
Indices: 60771355--60771386 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
60771345 TTGATACTTG
60771355 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
60771372 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
60771387 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:60775335 original size:30 final size:30
Alignment explanation
Indices: 60775301--60775466 Score: 206
Period size: 30 Copynumber: 5.5 Consensus size: 30
60775291 AGTCGAAGCT
* *
60775301 ATCCCATTTCATAATTTGATGGTCGCCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** *
60775331 ATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* * * ***
60775361 ATCCCTTTTCATAATGTGATAGCCAAAACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
60775391 ATCCCTTTTCATAATTTGATGGTCGTCACT
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
60775421 ATCCCTTTTCATAATTTGATGGTCGTCACT
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
*
60775451 ATCTCTTTTCATAATT
1 ATCCCTTTTCATAATT
60775467 AATAACCAAA
Statistics
Matches: 114, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 114 1.00
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:60775395 original size:90 final size:89
Alignment explanation
Indices: 60775301--60775491 Score: 265
Period size: 90 Copynumber: 2.1 Consensus size: 89
60775291 AGTCGAAGCT
* **
60775301 ATCCCATTTCATAATTTGATGGTCGCCACCATCCCTTTTCATTGTTCGATGGTCGTCACCATCCC
1 ATCCCTTTTCATAATTTGATGGTCGCCACCATCCCTTTTCATAATTCGATGGTCGTCACCATCCC
* *
60775366 TTTTCATAATGTGATAGCCAAAACC
66 TTTTCATAAT-TAATAACCAAAACC
* * * * *
60775391 ATCCCTTTTCATAATTTGATGGTCGTCACTATCCCTTTTCATAATTTGATGGTCGTCACTATCTC
1 ATCCCTTTTCATAATTTGATGGTCGCCACCATCCCTTTTCATAATTCGATGGTCGTCACCATCCC
**
60775456 TTTTCATAATTAATAACCAAAGTC
66 TTTTCATAATTAATAACCAAAACC
60775480 ATCCCTTTTCAT
1 ATCCCTTTTCAT
60775492 TCATCGATGA
Statistics
Matches: 89, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
89 22 0.25
90 67 0.75
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (89 bp):
ATCCCTTTTCATAATTTGATGGTCGCCACCATCCCTTTTCATAATTCGATGGTCGTCACCATCCC
TTTTCATAATTAATAACCAAAACC
Found at i:60787766 original size:20 final size:18
Alignment explanation
Indices: 60787719--60787767 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
60787709 TAAGATCAAA
60787719 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
60787736 ATTACAA-TAATCACTTTAAT
1 ATTA-AATTAAT-A-TTTAAT
60787756 ATTAAATTAATA
1 ATTAAATTAATA
60787768 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.26
18 2 0.07
19 4 0.15
20 14 0.52
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:60789278 original size:16 final size:16
Alignment explanation
Indices: 60789257--60789287 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60789247 CTATGCATGT
*
60789257 AAAATATAGAAGACAG
1 AAAATATAAAAGACAG
60789273 AAAATATAAAAGACA
1 AAAATATAAAAGACA
60789288 TAATTGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.13, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAGACAG
Found at i:60789652 original size:10 final size:10
Alignment explanation
Indices: 60789637--60789698 Score: 74
Period size: 10 Copynumber: 6.1 Consensus size: 10
60789627 AAATTTTAGG
60789637 ATTTAT-TTT
1 ATTTATCTTT
60789646 CATTTATCTTT
1 -ATTTATCTTT
60789657 ATTTATCTTT
1 ATTTATCTTT
*
60789667 AATTATCTTT
1 ATTTATCTTT
60789677 ATTTAT-TTGT
1 ATTTATCTT-T
60789687 ATTTATCGTTT
1 ATTTATC-TTT
60789698 A
1 A
60789699 GAATTTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
9 2 0.04
10 37 0.80
11 5 0.11
12 2 0.04
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:60790604 original size:12 final size:12
Alignment explanation
Indices: 60790587--60790618 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60790577 TACTTCCCCT
60790587 TTACTATTATTC
1 TTACTATTATTC
*
60790599 TTACTATTATTT
1 TTACTATTATTC
60790611 TTACTATT
1 TTACTATT
60790619 TTACAGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (12 bp):
TTACTATTATTC
Found at i:60799723 original size:24 final size:23
Alignment explanation
Indices: 60799669--60799737 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
60799659 TTAAAATCTA
*
60799669 AAATATTTTTAGATTTTAATTATGT
1 AAATATTATTA-A-TTTAATTATGT
60799694 AAATA-TATATAATTTAATTAT-T
1 AAATATTAT-TAATTTAATTATGT
*
60799716 AAATATATTATTAAATTAATTA
1 -AA-ATATTATTAATTTAATTA
60799738 ATTATAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 11 0.29
24 16 0.42
25 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
AAATATTATTAATTTAATTATGT
Found at i:60799897 original size:3 final size:3
Alignment explanation
Indices: 60799879--60799966 Score: 58
Period size: 3 Copynumber: 30.0 Consensus size: 3
60799869 AAATAGATTT
* * * * *
60799879 TTA TTA TTTA TCA TTA TTA TTA TT- CTA TCA -AA TTA TAA TTTA T-A
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
60799923 TTA TTA -AA TTA TGA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60799967 AAAATAAATT
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
2 5 0.08
3 54 0.84
4 5 0.08
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:60800260 original size:13 final size:14
Alignment explanation
Indices: 60800242--60800288 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
60800232 TTATTAAGTT
60800242 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
60800255 AATAAAAGAAATGA
1 AATAAAATAAAAGA
60800269 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
*
60800282 AACAAAA
1 AATAAAA
60800289 CAATGTAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.13
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:60801722 original size:24 final size:23
Alignment explanation
Indices: 60801668--60801736 Score: 61
Period size: 24 Copynumber: 2.9 Consensus size: 23
60801658 TTAAAATCTA
*
60801668 AAATATTTTTAGATTTTAATTATGT
1 AAATATTATTA-A-TTTAATTATGT
60801693 AAATA-TATATAATTTAATTAT-T
1 AAATATTAT-TAATTTAATTATGT
*
60801715 AAATATATTATTAAATTAATTA
1 -AA-ATATTATTAATTTAATTA
60801737 ATTATAAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
22 1 0.03
23 11 0.29
24 16 0.42
25 10 0.26
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
AAATATTATTAATTTAATTATGT
Found at i:60801896 original size:3 final size:3
Alignment explanation
Indices: 60801878--60801965 Score: 58
Period size: 3 Copynumber: 30.0 Consensus size: 3
60801868 AAATAGATTT
* * * * *
60801878 TTA TTA TTTA TCA TTA TTA TTA TT- CTA TCA -AA TTA TAA TTTA T-A
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * *
60801922 TTA TTA -AA TTA TGA TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60801966 AAAATAAATT
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
2 5 0.08
3 54 0.84
4 5 0.08
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:60802259 original size:13 final size:14
Alignment explanation
Indices: 60802241--60802287 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
60802231 TTATTAAGTT
60802241 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
60802254 AATAAAAGAAATGA
1 AATAAAATAAAAGA
60802268 AATAAAAT-AAAGA
1 AATAAAATAAAAGA
*
60802281 AACAAAA
1 AATAAAA
60802288 CAATGTAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.13
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:60803376 original size:12 final size:12
Alignment explanation
Indices: 60803359--60803383 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60803349 GCCGACTACT
60803359 GTTACTGTTACC
1 GTTACTGTTACC
60803371 GTTACTGTTACC
1 GTTACTGTTACC
60803383 G
1 G
60803384 ATTCGACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:60803412 original size:45 final size:45
Alignment explanation
Indices: 60803361--60803473 Score: 174
Period size: 45 Copynumber: 2.5 Consensus size: 45
60803351 CGACTACTGT
*
60803361 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTTGAA
60803406 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
* * *
60803451 TACTGTTACTGTTATTGCTACAG
1 TACTGTTACCGTTACTGTTACAG
60803474 TTACTGATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
45 62 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
Found at i:60803477 original size:51 final size:48
Alignment explanation
Indices: 60803355--60803482 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 48
60803345 ATATGCCGAC
* *
60803355 TACTGTTACTGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTTGAA
1 TACTGTTACTGTTA--GCTAC-GTTACAGATTCGACACTTTGTGTGTTGAA
*
60803406 TACTGTTACCGTTA-CT--GTTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTAGCTACGTTACAGATTCGA-CACTTTGTGTGTTGAA
*
60803451 TACTGTTACTGTTATTGCTACAGTTACTGATT
1 TACTGTTACTGTTA--GCTAC-GTTACAGATT
60803483 ACTGTTTAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
44 1 0.02
45 39 0.60
48 3 0.05
51 22 0.34
ACGTcount: A:0.21, C:0.18, G:0.19, T:0.42
Consensus pattern (48 bp):
TACTGTTACTGTTAGCTACGTTACAGATTCGACACTTTGTGTGTTGAA
Found at i:60811671 original size:20 final size:21
Alignment explanation
Indices: 60811646--60811691 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
60811636 TTATGTAAAT
*
60811646 ATATATAATTTAATT-ATTAA
1 ATATATAATTAAATTAATTAA
*
60811666 ATATATTATTAAATTAATTAA
1 ATATATAATTAAATTAATTAA
*
60811687 TTATA
1 ATATA
60811692 AATATCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATATATAATTAAATTAATTAA
Found at i:60811682 original size:24 final size:23
Alignment explanation
Indices: 60811633--60811685 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
60811623 TTTTAGATTA
*
60811633 TAATTATGTAAATATATATAATT
1 TAATTATGTAAATATATATAAAT
60811656 TAATTAT-TAAATATATTATTAAAT
1 TAATTATGTAAATATA-TA-TAAAT
60811680 TAATTA
1 TAATTA
60811686 ATTATAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 8 0.30
23 9 0.33
24 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TAATTATGTAAATATATATAAAT
Found at i:60811709 original size:25 final size:25
Alignment explanation
Indices: 60811644--60811718 Score: 68
Period size: 27 Copynumber: 3.0 Consensus size: 25
60811634 AATTATGTAA
*
60811644 ATATA-TATAATTTAATTATTAAAT
1 ATATATTATAAATTAATTATTAAAT
*
60811668 ATATTATTAAATTAATTAATTA-TAAAT
1 ATA-TATT--ATAAATTAATTATTAAAT
60811695 ATCATATTATAAATTAA--ATTAAAT
1 AT-ATATTATAAATTAATTATTAAAT
60811719 TAAAGCCAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
23 1 0.02
24 8 0.19
25 10 0.24
26 1 0.02
27 11 0.26
28 11 0.26
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATATTATAAATTAATTATTAAAT
Found at i:60811879 original size:20 final size:20
Alignment explanation
Indices: 60811842--60811898 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
60811832 ATTTATCATT
*
60811842 ATTATTATTCTATCAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
60811864 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
60811884 ATTATTATTATTAAA
1 ATTATTATTATTAAA
60811899 AATAAATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 23 0.74
21 3 0.10
22 5 0.16
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:60812654 original size:22 final size:22
Alignment explanation
Indices: 60812626--60812668 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
60812616 TTTGGCAAGA
* *
60812626 AATTGAGTACCAAAAATATATG
1 AATTGAGAAACAAAAATATATG
*
60812648 AATTGAGAAAGAAAAATATAT
1 AATTGAGAAACAAAAATATAT
60812669 AGGTTTAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.14, T:0.26
Consensus pattern (22 bp):
AATTGAGAAACAAAAATATATG
Found at i:60812954 original size:42 final size:42
Alignment explanation
Indices: 60812906--60812991 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
60812896 ATTTACTAAT
60812906 TATGTATGGTAAGTATTTTAAGGTAAGTGTTTAGTAAAATGA
1 TATGTATGGTAAGTATTTTAAGGTAAGTGTTTAGTAAAATGA
60812948 TATGTATGGTAAGTATTTTAAGGTAAGTGTTTAGTAAAATGA
1 TATGTATGGTAAGTATTTTAAGGTAAGTGTTTAGTAAAATGA
60812990 TA
1 TA
60812992 AATTTATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (42 bp):
TATGTATGGTAAGTATTTTAAGGTAAGTGTTTAGTAAAATGA
Found at i:60813089 original size:21 final size:21
Alignment explanation
Indices: 60813063--60813130 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
60813053 TTGTTTGGAA
60813063 TACTGAATTGAATTGTGAAGT
1 TACTGAATTGAATTGTGAAGT
* *
60813084 TACTGAA-T--ATTGTTATGT
1 TACTGAATTGAATTGTGAAGT
* * *
60813102 GTACTGCATTGAACTGTGAAAT
1 -TACTGAATTGAATTGTGAAGT
60813124 TACTGAA
1 TACTGAA
60813131 GTAATGAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 2 0.06
21 13 0.37
22 6 0.17
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
TACTGAATTGAATTGTGAAGT
Found at i:60813107 original size:40 final size:39
Alignment explanation
Indices: 60813047--60813130 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 39
60813037 TATGGAATAT
* *
60813047 TGAATATTGTTTGGAATACTGAATTGAATTGTGAAGTTAC
1 TGAATATTGTTTGG-ATACTGAATTGAACTGTGAAATTAC
*
60813087 TGAATATTGTTATGTG-TACTGCATTGAACTGTGAAATTAC
1 TGAATATTGTT-TG-GATACTGAATTGAACTGTGAAATTAC
60813127 TGAA
1 TGAA
60813131 GTAATGAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
40 36 0.92
41 2 0.05
42 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.39
Consensus pattern (39 bp):
TGAATATTGTTTGGATACTGAATTGAACTGTGAAATTAC
Found at i:60815155 original size:10 final size:10
Alignment explanation
Indices: 60815118--60815161 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
60815108 TTTTTAAAAG
60815118 AAAATTTAT-
1 AAAATTTATA
60815127 -AAATTTATA
1 AAAATTTATA
*
60815136 AAAATATTATT
1 AAAAT-TTATA
60815147 AAAATTTATA
1 AAAATTTATA
60815157 AAAAT
1 AAAAT
60815162 AGTAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
8 8 0.27
10 13 0.43
11 9 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTTATA
Found at i:60815172 original size:21 final size:20
Alignment explanation
Indices: 60815125--60815184 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 20
60815115 AAGAAAATTT
*
60815125 ATAAATTTATAAAAATATTA
1 ATAAATTTATAAAAATATAA
*
60815145 TTAAAATTTATAAAAATAGTAA
1 AT-AAATTTATAAAAATA-TAA
*
60815167 ATAAATTTCAAAAAAATA
1 ATAAATTT-ATAAAAATA
60815185 AAAAATAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 21 0.64
22 11 0.33
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
ATAAATTTATAAAAATATAA
Found at i:60815190 original size:22 final size:21
Alignment explanation
Indices: 60815148--60815192 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
60815138 AATATTATTA
* **
60815148 AAATTTATAAAAATAGTAAAT
1 AAATTTAAAAAAATAAAAAAT
60815169 AAATTTCAAAAAAATAAAAAAT
1 AAATTT-AAAAAAATAAAAAAT
60815191 AA
1 AA
60815193 TAAAAACCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTTAAAAAAATAAAAAAT
Found at i:60815798 original size:18 final size:17
Alignment explanation
Indices: 60815748--60815798 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
60815738 AAATACATTT
60815748 TTATTTTTTATATATTTA
1 TTATTTTTTATAT-TTTA
*
60815766 TTATTTTTT-TAATTTTC
1 TTATTTTTTAT-ATTTTA
60815783 TTATATTTTTATATTT
1 TTAT-TTTTTATATTT
60815799 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 8 0.28
18 20 0.69
19 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTATTTTTTATATTTTA
Found at i:60835279 original size:5 final size:5
Alignment explanation
Indices: 60835266--60835295 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
60835256 CATTGATGTT
*
60835266 GAAAT GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA GAAAA
60835296 TTGGGATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (5 bp):
GAAAA
Found at i:60835381 original size:16 final size:17
Alignment explanation
Indices: 60835360--60835392 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60835350 AGAGACTTGA
60835360 AACTGA-AGGTGATGAG
1 AACTGAGAGGTGATGAG
*
60835376 AACTGAGTGGTGATGAG
1 AACTGAGAGGTGATGAG
60835393 CTTTATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.21
Consensus pattern (17 bp):
AACTGAGAGGTGATGAG
Found at i:60835715 original size:2 final size:2
Alignment explanation
Indices: 60835704--60835734 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
60835694 TTATAATAAA
60835704 AT AT -T 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
60835735 CCACCGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:60835989 original size:30 final size:32
Alignment explanation
Indices: 60835936--60836000 Score: 98
Period size: 30 Copynumber: 2.1 Consensus size: 32
60835926 TTAAAATAGA
* *
60835936 AAAAATTTTATTTAAACTCTTTTAAAATTTAT
1 AAAAATTTGATTTAAACTCTTTTAAAAATTAT
60835968 AAAAATTTGATTT-AA-TCTTTTAAAAATTAT
1 AAAAATTTGATTTAAACTCTTTTAAAAATTAT
60835998 AAA
1 AAA
60836001 GATATAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 17 0.55
31 2 0.06
32 12 0.39
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (32 bp):
AAAAATTTGATTTAAACTCTTTTAAAAATTAT
Found at i:60838403 original size:16 final size:16
Alignment explanation
Indices: 60838382--60838423 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60838372 TTATTAAATT
*
60838382 ATATATTTTAATTATA
1 ATATATTTTAATAATA
60838398 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
60838413 AT-TATGTTTAA
1 ATATAT-TTTAA
60838424 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:60838408 original size:15 final size:15
Alignment explanation
Indices: 60838373--60838414 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60838363 TTAAGAATTT
*
60838373 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60838387 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60838401 TATTTAATAATAAT
1 TATTTAATTATAAT
60838415 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60838649 original size:45 final size:44
Alignment explanation
Indices: 60838568--60838658 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
60838558 ACCTCTATTC
* *
60838568 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
*** *
60838612 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCAATA
1 CATTCAACCAAACACAAGA-TTACTATTACACCTCTATTCCAATA
60838657 CA
1 CA
60838659 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.29, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACCTCTATTCCAATA
Found at i:60838660 original size:16 final size:16
Alignment explanation
Indices: 60838639--60838706 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
60838629 GATTTGCTAT
*
60838639 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
60838655 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
60838671 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60838687 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60838703 TACA
1 TACA
60838707 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60839306 original size:20 final size:19
Alignment explanation
Indices: 60839260--60839306 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
60839250 ATTAATTTTC
*
60839260 AATATTTTCTAATTTTTAT
1 AATATTTTCTAATTTTAAT
60839279 AATATTTTCATAATTTCTAAT
1 AATATTTTC-TAATTT-TAAT
60839300 AAT-TTTT
1 AATATTTT
60839307 TGAAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 9 0.36
20 10 0.40
21 6 0.24
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
AATATTTTCTAATTTTAAT
Found at i:60839925 original size:23 final size:23
Alignment explanation
Indices: 60839899--60839945 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
60839889 TTACACTTTC
60839899 AGTATACTAACTCGGGTCACAAA
1 AGTATACTAACTCGGGTCACAAA
60839922 AGTATACTAACTCGGGTCACAAA
1 AGTATACTAACTCGGGTCACAAA
60839945 A
1 A
60839946 TTTCATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.21
Consensus pattern (23 bp):
AGTATACTAACTCGGGTCACAAA
Found at i:60860350 original size:42 final size:42
Alignment explanation
Indices: 60860247--60860362 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
60860237 GGAATTAAGA
* * * *
60860247 AATCCGAGCTCGTTGAGCGGTCCGAGCTCGTGATATATGTCAG
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATG-CAG
*
60860290 AATCCGAACTTGTTGAGTGGTCCAAGTTCGTGATATATG-AGG
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATGCA-G
* * *
60860332 CATCCGATCTTGTTGAGTGGTCTGAGTTCGT
1 AATCCGAACTTGTTGAGTGGTCCGAGTTCGT
60860363 AATGGATGCG
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 28 0.44
43 34 0.54
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (42 bp):
AATCCGAACTTGTTGAGTGGTCCGAGTTCGTGATATATGCAG
Found at i:60860419 original size:51 final size:51
Alignment explanation
Indices: 60860332--60860431 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
60860322 ATATATGAGG
* * * * *
60860332 CATCCGATCTTGTTGAGTGGTCTGAGTTCGTAATGGATGCGATACATGTAA
1 CATCCGAACTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
* * * *
60860383 CATCCGAACTCGTTGGGAGGTCCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAACTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGT
60860432 GATAAGGTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (51 bp):
CATCCGAACTCGTTGAGAGGTCCGAGTTCATAATGGATGCGATACATGTAA
Found at i:60862914 original size:25 final size:25
Alignment explanation
Indices: 60862886--60862933 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
60862876 ATTTAGCCAT
*
60862886 TTTTTATTTCTA-TTTTATTTTTATA
1 TTTTTATTT-TAGTTTAATTTTTATA
*
60862911 TTTTTGTTTTAGTTTAATTTTTA
1 TTTTTATTTTAGTTTAATTTTTA
60862934 CATTCTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (25 bp):
TTTTTATTTTAGTTTAATTTTTATA
Found at i:60866448 original size:6 final size:6
Alignment explanation
Indices: 60866437--60866474 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
60866427 ATTTTATTTC
60866437 TTTTAT TTTTAT TTTTAT TTTTAT TTTTGA- TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT-AT TTTTAT TT
60866475 CTTTGGTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.03
6 28 0.93
7 1 0.03
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:60867973 original size:14 final size:14
Alignment explanation
Indices: 60867950--60867983 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
60867940 CAACCGTGGG
*
60867950 CAACATTGACTTAT
1 CAACACTGACTTAT
60867964 CAACACTGACTTAT
1 CAACACTGACTTAT
60867978 CAACAC
1 CAACAC
60867984 GGCCATGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.26
Consensus pattern (14 bp):
CAACACTGACTTAT
Found at i:60876720 original size:30 final size:32
Alignment explanation
Indices: 60876684--60876756 Score: 96
Period size: 33 Copynumber: 2.3 Consensus size: 32
60876674 CACGATGCGA
60876684 ACACGGTCGTTTAAT-G-ACACAATCTAAGGG
1 ACACGGTCGTTTAATGGCACACAATCTAAGGG
* * *
60876714 GCACGGTCATTTAATGGGCACACAGTCTAAGGG
1 ACACGGTCGTTTAAT-GGCACACAATCTAAGGG
60876747 ACACGGTCGT
1 ACACGGTCGT
60876757 GTAGATTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
30 13 0.37
32 1 0.03
33 21 0.60
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (32 bp):
ACACGGTCGTTTAATGGCACACAATCTAAGGG
Found at i:60884335 original size:15 final size:15
Alignment explanation
Indices: 60884303--60884332 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
60884293 GTTAAAATTG
60884303 AAAAAAAAATTAACC
1 AAAAAAAAATTAACC
60884318 AAAATAAAAATTAAC
1 AAAA-AAAAATTAAC
60884333 AAAGTCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAAAAATTAACC
Found at i:60885086 original size:87 final size:87
Alignment explanation
Indices: 60884940--60885279 Score: 671
Period size: 87 Copynumber: 3.9 Consensus size: 87
60884930 TTACGTGAGG
60884940 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
1 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
60885005 GTATCGTTAGATACAATGTATT
66 GTATCGTTAGATACAATGTATT
60885027 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
1 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
60885092 GTATCGTTAGATACAATGTATT
66 GTATCGTTAGATACAATGTATT
60885114 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
1 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
60885179 GTATCGTTAGATACAATGTATT
66 GTATCGTTAGATACAATGTATT
*
60885201 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGCCTAAT
1 TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
60885266 GTATCGTTAGATAC
66 GTATCGTTAGATAC
60885280 CGTTGCTAAT
Statistics
Matches: 252, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 252 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (87 bp):
TAACAATGTATTTCTACCTTGAAACAGTTTAATCACAATAATCTTGCAAGTTATGCAAGTCTAAT
GTATCGTTAGATACAATGTATT
Found at i:60889646 original size:11 final size:11
Alignment explanation
Indices: 60889630--60889656 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60889620 AGGAGCCAAG
60889630 CAAGAGATTTC
1 CAAGAGATTTC
60889641 CAAGAGATTTC
1 CAAGAGATTTC
60889652 CAAGA
1 CAAGA
60889657 ACTTTAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (11 bp):
CAAGAGATTTC
Found at i:60892877 original size:13 final size:12
Alignment explanation
Indices: 60892853--60892877 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60892843 CACATTAATT
60892853 ATAGCTAAAAAA
1 ATAGCTAAAAAA
60892865 ATAGCTAAAAAA
1 ATAGCTAAAAAA
60892877 A
1 A
60892878 GGTAAACAAA
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:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
ATAGCTAAAAAA
Found at i:60895422 original size:21 final size:21
Alignment explanation
Indices: 60895396--60895436 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60895386 ATCTGCTCAA
* *
60895396 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
60895417 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
60895437 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:60903793 original size:31 final size:29
Alignment explanation
Indices: 60903765--60903827 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
60903755 GGCAAAGCAT
* *
60903765 GCTAACATGGACGCGCTTTAGTAAAAAGC
1 GCTAACATAGACGCACTTTAGTAAAAAGC
* * *
60903794 GCTGACGTAGACGCACTTTAGTAAAAAGT
1 GCTAACATAGACGCACTTTAGTAAAAAGC
60903823 GCTAA
1 GCTAA
60903828 GGGGGACGCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (29 bp):
GCTAACATAGACGCACTTTAGTAAAAAGC
Found at i:60903835 original size:29 final size:29
Alignment explanation
Indices: 60903773--60903841 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
60903763 ATGCTAACAT
* *
60903773 GGACGCGCTTTAGTAAAAAGCGCTGACGT
1 GGACGCGCTTTAGTAAAAAGCGCTAACGG
* * * *
60903802 AGACGCACTTTAGTAAAAAGTGCTAAGGG
1 GGACGCGCTTTAGTAAAAAGCGCTAACGG
60903831 GGACGCGCTTT
1 GGACGCGCTTT
60903842 TCCCTGTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (29 bp):
GGACGCGCTTTAGTAAAAAGCGCTAACGG
Found at i:60906164 original size:39 final size:40
Alignment explanation
Indices: 60906110--60906188 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
60906100 TATCTTTAAC
60906110 CATTTCCCTTATCTGTAATTTTTATGTAAGCAT-AATTTT
1 CATTTCCCTTATCTGTAATTTTTATGTAAGCATGAATTTT
*
60906149 CATTTCCCTTATCTGTAATTTTTGTGTAAGCATGAATTTT
1 CATTTCCCTTATCTGTAATTTTTATGTAAGCATGAATTTT
60906189 ATCTAAACTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 32 0.84
40 6 0.16
ACGTcount: A:0.24, C:0.15, G:0.10, T:0.51
Consensus pattern (40 bp):
CATTTCCCTTATCTGTAATTTTTATGTAAGCATGAATTTT
Found at i:60910288 original size:17 final size:18
Alignment explanation
Indices: 60910258--60910303 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
60910248 ATTTAAATTG
60910258 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
60910276 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
60910292 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
60910304 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:60923120 original size:25 final size:26
Alignment explanation
Indices: 60923068--60923120 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
60923058 TTTAAAATAT
* * * *
60923068 TTTTAAAATAATTTTTTTATTTTTTA
1 TTTTAAAATAATATTTTTAGTGTCTA
60923094 TTTTAAAATAA-ATTTTTAGTGTCTA
1 TTTTAAAATAATATTTTTAGTGTCTA
60923119 TT
1 TT
60923121 AAAAAATGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTAAAATAATATTTTTAGTGTCTA
Found at i:60927939 original size:58 final size:58
Alignment explanation
Indices: 60927869--60927987 Score: 202
Period size: 58 Copynumber: 2.1 Consensus size: 58
60927859 AATGAAAAGT
* * *
60927869 GAAATCAGCAAATAAATCTTGACCCACTATCTAACGAGATAAGAGCCAAAGGTATAGC
1 GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGC
*
60927927 GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAGGAACCAAAGGTATAGC
1 GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGC
60927985 GAA
1 GAA
60927988 CGCCACACTT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.18
Consensus pattern (58 bp):
GAAATCAACAAATAAACCTTGACCCACTATCTAACGAGATAAGAACCAAAGGTATAGC
Found at i:60933665 original size:21 final size:20
Alignment explanation
Indices: 60933639--60933682 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
60933629 TTACAAAAAG
60933639 AAAATATTGTAAAAAATATGA
1 AAAATATTGTAAAAAATA-GA
* *
60933660 AAAATATTTTAAAATATAGA
1 AAAATATTGTAAAAAATAGA
60933680 AAA
1 AAA
60933683 TAATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (20 bp):
AAAATATTGTAAAAAATAGA
Done.