Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 179 of 344
Found at i:59878955 original size:82 final size:81
Alignment explanation
Indices: 59878815--59878970 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
59878805 AAATTGTACA
* *
59878815 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
59878880 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *** *
59878896 GCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
59878960 GTGCGAGTTGA
64 GTGCGAATTGA
59878971 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:59878982 original size:82 final size:81
Alignment explanation
Indices: 59878811--59878991 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
59878801 GATTAAATTG
* *
59878811 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
59878876 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *** *
59878892 TGCGGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
59878956 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
59878974 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
59878992 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:59880617 original size:46 final size:47
Alignment explanation
Indices: 59880466--59880724 Score: 194
Period size: 46 Copynumber: 5.5 Consensus size: 47
59880456 AGGCCGACAC
* * * * *
59880466 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCATGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-T-ACATCTCAAGGCTGATG
* * *
59880515 CCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGTC-GATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTACATCTC-AAGGCTGATG
*
59880561 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAGGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCTGATG
** * * **
59880607 CATGTCCCAGACAT-GTCTTACACTAACTCT-CCTCTCAATGCCAATG
1 CATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAAGGCTGATG
* * ** * *
59880653 CCATGTCCCAGACATGGTCTTACAGTGGCTCT-CATAAT-GTGGCTAATC
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCAAGGCTGATG
59880701 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
59880725 AGCACACAAA
Statistics
Matches: 173, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
44 12 0.07
45 17 0.10
46 67 0.39
47 31 0.18
48 20 0.12
49 1 0.01
50 25 0.14
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGGCTGATG
Found at i:59880673 original size:94 final size:91
Alignment explanation
Indices: 59880465--59880730 Score: 240
Period size: 94 Copynumber: 2.8 Consensus size: 91
59880455 GAGGCCGACA
* * * * *
59880465 CCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCATGCTGATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCT-T-AC-TCTCAAGGCTGATG-CATGTCCCAGACAT
* * *
59880530 GGTCTTACACTGACACATCTCGTAGTCGATG
62 -GTCTTACACTAACACATCTCGTAGCCAATG
59880561 -CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAAGGCTGATGCATGTCCCAGACATGTC
1 CCATGTCCCAGACATGGTCTTACACTGGCTTAC-TCTCAAGGCTGATGCATGTCCCAGACATGTC
*
59880624 TTACACTAACTC-TCCTC-TCAATGCCAATG
65 TTACACTAACACAT-CTCGT--A-GCCAATG
* * *
59880653 CCATGTCCCAGACATGGTCTTACAGTGGC-T-CTCAT-AATGTGGCTAATCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTTACTC-TCAA---GGCTGATGCATGTCCCAGACAT
*
59880715 GTCTTACACTAGCACA
62 GTCTTACACTAACACA
59880731 CAAAATAACA
Statistics
Matches: 144, Mismatches: 15, Indels: 23
0.79 0.08 0.13
Matches are distributed among these distances:
89 2 0.01
90 16 0.11
91 19 0.13
92 20 0.14
93 16 0.11
94 58 0.40
95 13 0.09
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (91 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTTACTCTCAAGGCTGATGCATGTCCCAGACATGTCT
TACACTAACACATCTCGTAGCCAATG
Found at i:59880711 original size:140 final size:140
Alignment explanation
Indices: 59880466--59880724 Score: 330
Period size: 140 Copynumber: 1.8 Consensus size: 140
59880456 AGGCCGACAC
* * **
59880466 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCCATGCTGATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTAACTCTCACATATCAATGCCAATGCCATGTCCCAGACATG
* * *
59880531 GTCTTACACTGACACATCTCGTAGTCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCT
66 GTCTTACACTGA-ACATCTCATAGTCAATCCATGTCCCAGACATGTCTTACACTGGCTTACGTCT
59880596 CAAGGCTGATG
130 CAAGGCTGATG
* *
59880607 CATGTCCCAGACAT-GTCTTACACTAACTCTC-C-TCTCAATGCCAATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTAACTCTCACATATCAATGCCAATGCCATGTCCCAGACATG
* *
59880669 GTCTTACAGTG-GC-TCTCATAATGTGGCTAATCCATGTCCCAGACATGTCTTACACT
66 GTCTTACACTGAACATCTCAT-A-GT--C-AATCCATGTCCCAGACATGTCTTACACT
59880725 AGCACACAAA
Statistics
Matches: 102, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
135 5 0.05
136 2 0.02
137 2 0.02
138 36 0.35
139 2 0.02
140 42 0.41
141 13 0.13
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAACTCTCACATATCAATGCCAATGCCATGTCCCAGACATG
GTCTTACACTGAACATCTCATAGTCAATCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
AAGGCTGATG
Found at i:59892207 original size:46 final size:46
Alignment explanation
Indices: 59892065--59892232 Score: 139
Period size: 46 Copynumber: 3.6 Consensus size: 46
59892055 TATTTGTGTT
* *
59892065 GATGCCATGTCCTAGACATGGTCTTACACT-GAC--ACATCTCATA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACGTCTCA-AGGCC
* * * * * *
59892111 AATGCATGTCCCAAACATGCCTTACACTAGCTTACGTGTCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAGGCC
* * *
59892157 GATGCATCTCCCAGACATGTCTTACACTATCTCT-CGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCT-TACGTCTCAAGGCC
59892203 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATG-CATGTCCCAGACAT-GTCTTACACT
59892233 GGCTCTCATA
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
44 10 0.10
45 14 0.14
46 49 0.51
47 14 0.14
48 10 0.10
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCAAGGCC
Found at i:59898457 original size:55 final size:55
Alignment explanation
Indices: 59898354--59898485 Score: 138
Period size: 55 Copynumber: 2.4 Consensus size: 55
59898344 GCTGTGGGTG
* * * **
59898354 AACCTGCCAAAATAACACGAGCGTGAGACACGCTCGTACCTTGAAACCGTGGCCA
1 AACCTGTCAAATTAACACGGGCGTGAGACACGCTCGTACCAAGAAACCGTGGCCA
* * * * * *
59898409 AACCTGTCAAATTAACACGGGCGTGCGAGACGCTCGTGCCAAGCAACCGTGGTCG
1 AACCTGTCAAATTAACACGGGCGTGAGACACGCTCGTACCAAGAAACCGTGGCCA
* * *
59898464 AACCTGTTAGATTAACATGGGC
1 AACCTGTCAAATTAACACGGGC
59898486 ATAGGAATAC
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.17
Consensus pattern (55 bp):
AACCTGTCAAATTAACACGGGCGTGAGACACGCTCGTACCAAGAAACCGTGGCCA
Found at i:59900346 original size:6 final size:6
Alignment explanation
Indices: 59900337--59900414 Score: 86
Period size: 6 Copynumber: 13.0 Consensus size: 6
59900327 GATGATGATG
* *
59900337 TTTAAT TTTA-T TTTATT TTTATT TTTATC TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
59900384 TTCATT CTGATT TTGATT TTATATT TTTATT
1 TTTATT TTTATT TTTATT TT-TATT TTTATT
59900415 AATTTCACCT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
5 5 0.08
6 53 0.84
7 5 0.08
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:59903142 original size:40 final size:40
Alignment explanation
Indices: 59903104--59903288 Score: 291
Period size: 40 Copynumber: 4.6 Consensus size: 40
59903094 ACTACTTGCT
* * *
59903104 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
59903144 CAAATGCCTTCGTGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
59903184 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
59903224 CAAATGCCTTCGGGACTTAGCCCAGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
59903264 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
59903289 TTATCATCCG
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
39 1 0.01
40 135 0.99
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59908772 original size:24 final size:24
Alignment explanation
Indices: 59908740--59908792 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
59908730 ATGCTCTGTC
59908740 TCATCTTTTGAATAAATTAAGATA
1 TCATCTTTTGAATAAATTAAGATA
59908764 TCATCTTTTGAATAAATTAAGATA
1 TCATCTTTTGAATAAATTAAGATA
59908788 TCATC
1 TCATC
59908793 AATAAATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (24 bp):
TCATCTTTTGAATAAATTAAGATA
Found at i:59908798 original size:19 final size:20
Alignment explanation
Indices: 59908750--59908799 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 20
59908740 TCATCTTTTG
59908750 AATAAATTAAGATATCATCTTTT
1 AATAAATTAAGATATCATC---T
59908773 GAATAAATTAAGATATCATC-
1 -AATAAATTAAGATATCATCT
59908793 AATAAAT
1 AATAAAT
59908800 CCATAAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.27
24 19 0.73
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.36
Consensus pattern (20 bp):
AATAAATTAAGATATCATCT
Found at i:59924443 original size:22 final size:23
Alignment explanation
Indices: 59924418--59924469 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
59924408 TATAAAACTT
59924418 AATAAAAA-TAAG-CTTAAAGAAA
1 AATAAAAAGT-AGTCTTAAAGAAA
**
59924440 AATAAAAAGTAGTCTTAAATTAA
1 AATAAAAAGTAGTCTTAAAGAAA
59924463 AATAAAA
1 AATAAAA
59924470 GTAAAAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAA
Found at i:59930528 original size:46 final size:46
Alignment explanation
Indices: 59930459--59930636 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 46
59930449 TGTAACCCGC
*
59930459 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGATGTTCGCAT
* * * **
59930505 CCATAAGTGAACTCGGACACAACTCAACAAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCGCAT
* **
59930555 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
*
59930598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATG
59930637 CTCAATCATC
Statistics
Matches: 106, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 5 0.05
46 61 0.58
47 27 0.25
48 3 0.03
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:59930578 original size:93 final size:93
Alignment explanation
Indices: 59930466--59930637 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
59930456 CGCCCATAAG
**
59930466 CGAACTCGGACTCAACTCAACGAGCTCAGG-TGTTCGCATCCATAAGTGAACTCGGACACAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACACAACTC
59930530 AACAAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
* *
59930559 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
*
59930624 ACGAGTTCGGATGC
66 ACAAGTTCGGATGC
59930638 TCAATCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACACAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:59931621 original size:20 final size:21
Alignment explanation
Indices: 59931575--59931618 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
59931565 TGTCAGAAGG
59931575 AAATAAGAGAAAAATTAAAAA
1 AAATAAGAGAAAAATTAAAAA
59931596 AAATAAGAGAAAAATTAAAAA
1 AAATAAGAGAAAAATTAAAAA
59931617 AA
1 AA
59931619 TAAAAATTTA
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:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (21 bp):
AAATAAGAGAAAAATTAAAAA
Found at i:59933835 original size:12 final size:13
Alignment explanation
Indices: 59933818--59933846 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
59933808 CTCATGCATG
59933818 AATAAATAAA-GC
1 AATAAATAAATGC
59933830 AATAAATAAATGC
1 AATAAATAAATGC
59933843 AATA
1 AATA
59933847 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:59935951 original size:68 final size:68
Alignment explanation
Indices: 59935837--59935963 Score: 177
Period size: 68 Copynumber: 1.9 Consensus size: 68
59935827 CAGATGGTAT
* *
59935837 GTAGCTAGGTCACATGTGTAATACGAGATGTATACCATGTGTACAAGAGAGCTACGAGACATTAT
1 GTAGCTAGGTCACATGGGTAATACGAGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
59935902 GAG
66 GAG
* * *
59935905 GTAGCTAGGTCGCATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAGA
1 GTAGCTAGGTCACATGGGTAATACGA-GATGTACACCATGT-GTACAAGAGAGCTACGAGA
59935964 TAGATGTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
68 50 0.96
69 2 0.04
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (68 bp):
GTAGCTAGGTCACATGGGTAATACGAGATGTACACCATGTGTACAAGAGAGCTACGAGACATTAT
GAG
Found at i:59936020 original size:67 final size:66
Alignment explanation
Indices: 59935936--59936090 Score: 175
Period size: 66 Copynumber: 2.3 Consensus size: 66
59935926 TACTATGTGT
* * * ** * * *
59935936 ACACCATGTAGACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAA
1 ACACCATGTAAACAAGAGAGCTACAAGATA-AAGTAGCTAGGTCACATGAGTGGTGCCAAGTGAA
59936001 GG
65 GG
* *
59936003 ACACCATGTAAACAAGAGAGCTACAAGATAAAGTGGCTAGGTCACATGAGTGGTGCTAAGTGAAG
1 ACACCATGTAAACAAGAGAGCTACAAGATAAAGTAGCTAGGTCACATGAGTGGTGCCAAGTGAAG
59936068 G
66 G
* * **
59936069 CCGCCATGTGTACAAGAGAGCT
1 ACACCATGTAAACAAGAGAGCT
59936091 TCGATTTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
66 46 0.62
67 28 0.38
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (66 bp):
ACACCATGTAAACAAGAGAGCTACAAGATAAAGTAGCTAGGTCACATGAGTGGTGCCAAGTGAAG
G
Found at i:59943317 original size:28 final size:29
Alignment explanation
Indices: 59943258--59943318 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
59943248 GAAAGCATGA
* **
59943258 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGAGATTTGGGCCTAATGGACC
*
59943287 ATATGAATGAGA-TTGGGCCTAGTGGACC
1 ATATGAATGAGATTTGGGCCTAATGGACC
59943315 ATAT
1 ATAT
59943319 ACATGTATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 17 0.61
29 11 0.39
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGACC
Found at i:59955234 original size:40 final size:40
Alignment explanation
Indices: 59955190--59955345 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
59955180 GGATATAGCT
* * * *
59955190 ACTCGCTCAAATGCCTTCGAGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATGGTA
59955230 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATGGTA
*
59955270 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATGGTA
* *
59955310 ACTCGCACAAATTCCTTCGGGACTTAGCTCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
59955346 CATCCGAATA
Statistics
Matches: 107, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.02
40 103 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATGGTA
Found at i:59961351 original size:153 final size:153
Alignment explanation
Indices: 59961073--59961377 Score: 601
Period size: 153 Copynumber: 2.0 Consensus size: 153
59961063 TCGTTCATAG
59961073 TCGGTAACTGACATGGAACCTTGTTTGAGTTCAAGAAATTCCATTCGTTTTTGGTCGATGAATCT
1 TCGGTAACTGACATGGAACCTTGTTTGAGTTCAAGAAATTCCATTCGTTTTTGGTCGATGAATCT
59961138 CTGACTGATATACTTCTTTCGAAACTCGGTTTGGAAGAACTCCCAAGTTACTTGCTCTCTGGGCA
66 CTGACTGATATACTTCTTTCGAAACTCGGTTTGGAAGAACTCCCAAGTTACTTGCTCTCTGGGCA
59961203 CAACAGAAGTCAACGTATTCCAT
131 CAACAGAAGTCAACGTATTCCAT
*
59961226 TCGGTAACTGACATGGAACCTTGTTTGAGTTCAAGAAATTCTATTCGTTTTTGGTCGATGAATCT
1 TCGGTAACTGACATGGAACCTTGTTTGAGTTCAAGAAATTCCATTCGTTTTTGGTCGATGAATCT
59961291 CTGACTGATATACTTCTTTCGAAACTCGGTTTGGAAGAACTCCCAAGTTACTTGCTCTCTGGGCA
66 CTGACTGATATACTTCTTTCGAAACTCGGTTTGGAAGAACTCCCAAGTTACTTGCTCTCTGGGCA
59961356 CAACAGAAGTCAACGTATTCCA
131 CAACAGAAGTCAACGTATTCCA
59961378 CCAATAGTAG
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 151 1.00
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (153 bp):
TCGGTAACTGACATGGAACCTTGTTTGAGTTCAAGAAATTCCATTCGTTTTTGGTCGATGAATCT
CTGACTGATATACTTCTTTCGAAACTCGGTTTGGAAGAACTCCCAAGTTACTTGCTCTCTGGGCA
CAACAGAAGTCAACGTATTCCAT
Found at i:59963389 original size:40 final size:40
Alignment explanation
Indices: 59963343--59963563 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
59963333 GCTACTCACT
** *
59963343 CAAATGCCTTCGGGAAATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TGGTAACTCGCA
*
59963383 CCAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCA
59963423 CAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCA
*
59963463 CAAATGTCTTCGGGACTTAGCCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCA
* * *
59963503 CAAATACCTTCGAGACTTAGCCC-AATTTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTTGGTAACTCGCA
* *
59963543 CAAATACCTTCGTGACTTAGC
1 CAAATGCCTTCGGGACTTAGC
59963564 TCGGTTATCA
Statistics
Matches: 168, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 165 0.98
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTGGTAACTCGCA
Found at i:59970933 original size:27 final size:27
Alignment explanation
Indices: 59970782--59971059 Score: 220
Period size: 27 Copynumber: 10.3 Consensus size: 27
59970772 TTAGTTTACC
* **
59970782 AAATCACCAAAATACCTTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
59970809 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
59970836 AAATTACCAAAATACTCTTGATTAGCA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
59970863 AAATCACCAAAATACCCCTTGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
59970890 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
59970917 AGATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
59970944 AAATTGCCAAAATACCCCT-GATTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* *** *
59970970 AAATTACTAAAATA-CCCTCGACCTATA
1 AAATTACCAAAATACCCCT-GGTTTGTA
** **
59970997 AAATTACTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* * **
59971024 AAATTACCAAAGTACCCCTGATTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
59971051 AAATTACCA
1 AAATTACCA
59971060 TTCCACCCTC
Statistics
Matches: 205, Mismatches: 43, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
25 4 0.02
26 17 0.08
27 180 0.88
28 4 0.02
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:59971094 original size:27 final size:27
Alignment explanation
Indices: 59970970--59971094 Score: 96
Period size: 27 Copynumber: 4.6 Consensus size: 27
59970960 CCTGATTGTG
* * *
59970970 AAATTACTAAAATACCCTCGACCTATA
1 AAATTACTGAAATACCCTCGACTTACA
**
59970997 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACTTACA
* *
59971024 AAATTAC-CAAAGTACCC-CTGATTTACA
1 AAATTACTGAAA-TACCCTC-GACTTACA
* * *
59971051 AAATTAC--CATTCCACCCTCGATTTACA
1 AAATTACTGAAAT--ACCCTCGACTTACA
59971078 AAATTACTGAAATACCC
1 AAATTACTGAAATACCC
59971095 CTGTAGGGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
25 1 0.01
26 5 0.06
27 71 0.89
28 1 0.01
29 2 0.03
ACGTcount: A:0.40, C:0.26, G:0.06, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACTTACA
Found at i:59971109 original size:27 final size:27
Alignment explanation
Indices: 59971079--59971220 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
59971069 CGATTTACAA
* *
59971079 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
59971106 AATTACCAAAATACTCC-TGTAGGGTAG
1 AATTACCGAAATAC-CCTTGTAGGGTAG
* *
59971133 AATTATCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
59971160 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
59971187 AATTACC-AAGATACCCTTTTAGGGTAA
1 AATTACCGAA-ATACCCTTGTAGGGTAG
59971214 AATTACC
1 AATTACC
59971221 ATTTTGCCCC
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.04
27 95 0.94
28 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:59971660 original size:22 final size:22
Alignment explanation
Indices: 59971608--59971669 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
59971598 GCCAATTATT
* *
59971608 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTATGTGCCAAC
* *
59971630 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
59971652 CTGATTATGGCTATGTGC
1 CTGATTATGGCTATGTGC
59971670 TAAACGTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
21 1 0.03
22 31 0.94
23 1 0.03
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:59971890 original size:28 final size:28
Alignment explanation
Indices: 59971831--59971958 Score: 163
Period size: 28 Copynumber: 4.6 Consensus size: 28
59971821 ATTCTGTTAA
* * *
59971831 GTGGCTTTGCCACATTA-TCTGGTTCTG
1 GTGGCTATGCCACAATATTCTGTTTCTG
* *
59971858 GTGGCTCTGCCACAATATTCAGTTTCTG
1 GTGGCTATGCCACAATATTCTGTTTCTG
59971886 GTGGCTATGCCACAATATTCTGTTTCTG
1 GTGGCTATGCCACAATATTCTGTTTCTG
*
59971914 GTTGCTATGCCACAA-ATATCTG-TTCTG
1 GTGGCTATGCCACAATAT-TCTGTTTCTG
*
59971941 GTGGCTCTGCCACAATAT
1 GTGGCTATGCCACAATAT
59971959 CTATATCTGG
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
27 35 0.39
28 54 0.61
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (28 bp):
GTGGCTATGCCACAATATTCTGTTTCTG
Found at i:59971897 original size:55 final size:54
Alignment explanation
Indices: 59971831--59971960 Score: 163
Period size: 55 Copynumber: 2.4 Consensus size: 54
59971821 ATTCTGTTAA
* * *
59971831 GTGGCTTTGCCACATTATCTGGTTCTGGTGGCTCTGCCAC-AATATTCAGTTTCTG
1 GTGGCTATGCCACAATATCTGGTTCTGGTGGCTATGCCACAAATA-TCAG-TTCTG
* * *
59971886 GTGGCTATGCCACAATATTCTGTTTCTGGTTGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCACAATA-TCTGGTTCTGGTGGCTATGCCACAAATATCAGTTCTG
*
59971941 GTGGCTCTGCCACAATATCT
1 GTGGCTATGCCACAATATCT
59971961 ATATCTGGTG
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
54 3 0.05
55 36 0.55
56 23 0.35
57 4 0.06
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.37
Consensus pattern (54 bp):
GTGGCTATGCCACAATATCTGGTTCTGGTGGCTATGCCACAAATATCAGTTCTG
Found at i:59971967 original size:27 final size:26
Alignment explanation
Indices: 59971831--59971994 Score: 175
Period size: 27 Copynumber: 6.0 Consensus size: 26
59971821 ATTCTGTTAA
* *
59971831 GTGGCTTTGCCACATTATCTGGTTCTG
1 GTGGCTCTGCCACAATATCT-GTTCTG
*
59971858 GTGGCTCTGCCACAATATTCAGTTTCTG
1 GTGGCTCTGCCACAATA-TCTG-TTCTG
*
59971886 GTGGCTATGCCACAATATTCTGTTTCTG
1 GTGGCTCTGCCACAATA-TCTG-TTCTG
* *
59971914 GTTGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCAC-AATATCTGTTCTG
*
59971941 GTGGCTCTGCCACAATATCTATATCTG
1 GTGGCTCTGCCACAATATCTGT-TCTG
* **
59971968 GTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTTCTG
59971994 G
1 G
59971995 AAGTCATGCT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.11
27 54 0.45
28 49 0.41
29 4 0.03
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGTTCTG
Found at i:59972121 original size:6 final size:6
Alignment explanation
Indices: 59972112--59972174 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
59972102 TTGCATTCAC
* * *
59972112 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
59972161 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
59972175 AATGTTTCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 2 0.04
6 39 0.85
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:59988924 original size:24 final size:24
Alignment explanation
Indices: 59988766--59988925 Score: 146
Period size: 24 Copynumber: 6.6 Consensus size: 24
59988756 CAATCGATTT
* *
59988766 GCACACAAAGTGCTATTCAAATCC
1 GCACACATAGTGCCATTCAAATCC
* * *
59988790 GCACACTTAGTGCCATGCTAA-CC
1 GCACACATAGTGCCATTCAAATCC
59988813 GCACACATAGTGCC-TT-AGATATCC
1 GCACACATAGTGCCATTCA-A-ATCC
* * * * *
59988837 ACACACTCGTATTGACATTCAAATCA
1 GCACA--CATAGTGCCATTCAAATCC
* *
59988863 GCACACATAGTGCTATTCAATTCC
1 GCACACATAGTGCCATTCAAATCC
59988887 GCACACATAGTGCCATTCAAATCC
1 GCACACATAGTGCCATTCAAATCC
*
59988911 GCACACTTAGTGCCA
1 GCACACATAGTGCCA
59988926 ATGTCATTTC
Statistics
Matches: 106, Mismatches: 23, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
22 2 0.02
23 16 0.15
24 71 0.67
26 13 0.12
27 3 0.03
28 1 0.01
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (24 bp):
GCACACATAGTGCCATTCAAATCC
Found at i:59990968 original size:79 final size:81
Alignment explanation
Indices: 59990859--59991041 Score: 205
Period size: 79 Copynumber: 2.3 Consensus size: 81
59990849 TCCTCGTTCA
* * * *
59990859 AATGCCTTCGGGACATAGCTCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTC-GGATCTTAACCCGG
* *
59990922 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
59990939 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATACCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGA
* *
59991002 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
59991018 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
59991042 CATCATTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.64
80 28 0.32
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATACCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:59991041 original size:40 final size:40
Alignment explanation
Indices: 59990857--59991041 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
59990847 GCTCCTCGTT
* * *
59990857 CAAATGCCTTCGGGACATAGCTCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59990897 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59990937 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
59990976 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
59991017 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59991042 CATCATTCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:59996935 original size:23 final size:23
Alignment explanation
Indices: 59996908--59996952 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
59996898 TTTAGGCACG
59996908 CATCGGGTGTACAAGATAGCTCT
1 CATCGGGTGTACAAGATAGCTCT
59996931 CATCGGGTGTACAAGATAGCTC
1 CATCGGGTGTACAAGATAGCTC
59996953 ATCGAGTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (23 bp):
CATCGGGTGTACAAGATAGCTCT
Found at i:59999024 original size:119 final size:120
Alignment explanation
Indices: 59998818--59999040 Score: 274
Period size: 119 Copynumber: 1.9 Consensus size: 120
59998808 TCCTCGTTCA
* *
59998818 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* * * *
59998883 TTAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAATAGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACC
* * **
59998938 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
59999000 ATATGGTCACTTAGCACAA-AGCCTTCGGGACATAGCCCGGA
64 ATATAGTAAC-TAGCACAATAGCCTTCGGGACATAACCCGGA
59999041 CATCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.74
120 19 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAATAGCCTTCGGGACATAACCCGGATTTAGTAACTCGCACC
Found at i:59999040 original size:40 final size:40
Alignment explanation
Indices: 59998816--59999040 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
59998806 GCTCCTCGTT
* *
59998816 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59998856 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
59998896 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
59998936 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
59998975 CAAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
59999016 CAAA-GCCTTCGGGACATAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
59999041 CATCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 12
0.83 0.10 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 115 0.72
41 12 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:60000960 original size:40 final size:40
Alignment explanation
Indices: 60000862--60001124 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
60000852 TCCTCGTTCA
* * * * *
60000862 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
60000901 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCATG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60000941 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
60000981 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
60001021 AATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
60001061 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
60001101 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
60001125 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 152 0.78
41 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:60001133 original size:41 final size:41
Alignment explanation
Indices: 60001056--60001133 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
60001046 TTAGTATCTC
* * *
60001056 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
60001097 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
60001134 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:60008733 original size:9 final size:9
Alignment explanation
Indices: 60008715--60008743 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
60008705 TTCAGACTAC
60008715 TTTTTA-TT
1 TTTTTATTT
60008723 TTTTTATTT
1 TTTTTATTT
60008732 TTTTTATTT
1 TTTTTATTT
60008741 TTT
1 TTT
60008744 AACAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTATTT
Found at i:60015662 original size:43 final size:43
Alignment explanation
Indices: 60015545--60015698 Score: 134
Period size: 43 Copynumber: 3.6 Consensus size: 43
60015535 TCGTACAATT
* * * *
60015545 CCAATGTCCTAGACATGGTCTTACATGT-AATCAAATATCAATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCAAGTAT-GATG
* * * * *
60015588 CCACTATCCTAGACAGGGTCTTACAC-AAAATCAAGTATGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAATCAAGTATGATG
* *
60015630 CCAATGTCCCAGACATGGACTTACACGTAAATCATAAGT-CGATG
1 CCAATGTCCCAGACATGGTCTTACACGTAAATC--AAGTATGATG
* * *
60015674 CCAACGTCCCAGACGTGGTCATACA
1 CCAATGTCCCAGACATGGTCTTACA
60015699 TGAAAACATA
Statistics
Matches: 89, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 24 0.27
43 36 0.40
44 25 0.28
45 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGTAAATCAAGTATGATG
Found at i:60028373 original size:46 final size:46
Alignment explanation
Indices: 60028323--60028496 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
60028313 GTTGAGCATT
60028323 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * * *
60028369 CGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TC
* *
60028416 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
* * *
60028462 CGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60028497 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTC
Found at i:60028486 original size:93 final size:93
Alignment explanation
Indices: 60028318--60028489 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
60028308 GGATGGTTGA
* * * *
60028318 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60028383 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60028411 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
60028476 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
60028490 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60035685 original size:26 final size:27
Alignment explanation
Indices: 60035645--60035704 Score: 104
Period size: 26 Copynumber: 2.2 Consensus size: 27
60035635 AAATAAGTGA
60035645 AAAGTTAGGATAAAATGGTAATTTTACC
1 AAAG-TAGGATAAAATGGTAATTTTACC
60035673 AAAGTAGG-TAAAATGGTAATTTTACC
1 AAAGTAGGATAAAATGGTAATTTTACC
60035699 AAAGTA
1 AAAGTA
60035705 TGTGTTATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 24 0.75
27 4 0.12
28 4 0.12
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (27 bp):
AAAGTAGGATAAAATGGTAATTTTACC
Found at i:60036187 original size:45 final size:45
Alignment explanation
Indices: 60036131--60036217 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
60036121 GAACTATGTG
*
60036131 ATCTGAACTCATTGTGTTGTGGTCTGAGTTAATGATATATGTAAC
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTAATGATATATGTAAC
* * * *
60036176 ATCTGATCTCATTGAGTTGTGGTTTGAGTTCATGATGTATGT
1 ATCTGAACTCATTGAGTTGTGGTCTGAGTTAATGATATATGT
60036218 GACACATGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.24, T:0.43
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTGGTCTGAGTTAATGATATATGTAAC
Found at i:60039691 original size:45 final size:45
Alignment explanation
Indices: 60039627--60039747 Score: 179
Period size: 45 Copynumber: 2.7 Consensus size: 45
60039617 GAATTTAAGA
* *
60039627 ATCCAAACTCAATGAGTTGGTCCGGGTTCATGATATGTATGAGAC
1 ATCCAAGCTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGAC
* *
60039672 ATCCAAGCTCGTTGAGTTGGTCCGGGTTCGTGATATGTATGAGAC
1 ATCCAAGCTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGAC
** *
60039717 ATCTGAGCTCATTGAGTTGGTCCGAGTTCAT
1 ATCCAAGCTCATTGAGTTGGTCCGGGTTCAT
60039748 TATGGATGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (45 bp):
ATCCAAGCTCATTGAGTTGGTCCGGGTTCATGATATGTATGAGAC
Found at i:60042685 original size:108 final size:110
Alignment explanation
Indices: 60042541--60042741 Score: 291
Period size: 108 Copynumber: 1.8 Consensus size: 110
60042531 ATCCTTTTGA
* *
60042541 AACTTACCATTGCCATGTCTCGACATGGCCTTACATGGTATCATTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGCCTGACATGGTATCATTGCCTTA-GAAACCTCACCAA
*
60042604 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
60042649 AACTTATCAATGCCATGTCTTGACATGGTCTGACATGGTGTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGCCTGACATGGTATCATTGCCTTAGAAACCTCACCAAT
60042714 TACCATGCCTTGGCATGGTCTTACATGG
66 TACCATGCCTTGGCATGGTCTTACATGG
60042742 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 27 0.33
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGCCTGACATGGTATCATTGCCTTAGAAACCTCACCAAT
TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:60042742 original size:55 final size:54
Alignment explanation
Indices: 60042494--60042748 Score: 242
Period size: 55 Copynumber: 4.8 Consensus size: 54
60042484 ACACGGATAC
* **
60042494 CTTACC-ATTGCCATGACTTCTCATGGTCTTACATGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * * *
60042543 CTTACC-ATTGCCATGTCTCGACATGGCCTTACATGGTATCATTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
60042596 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * * *
60042651 CTTATCAA-TGCCATGTCTTGACATGGTCTGACATGGTGTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
60042704 CCTTACCAATTACCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
60042749 AAACCCTAAT
Statistics
Matches: 166, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
49 37 0.22
52 3 0.02
53 42 0.25
54 12 0.07
55 70 0.42
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:60052842 original size:18 final size:18
Alignment explanation
Indices: 60052786--60052848 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
60052776 CATTCTATAA
*
60052786 CAGTAGCAGTGGCAGTAAT
1 CAGT-GCAGTAGCAGTAAT
* *
60052805 CAGTGCAGTAACCA-TGAT
1 CAGTGCAGT-AGCAGTAAT
*
60052823 CAATGCAGTAGCAGTAAT
1 CAGTGCAGTAGCAGTAAT
60052841 CAGTGCAG
1 CAGTGCAG
60052849 AATACAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 3 0.09
18 26 0.74
19 6 0.17
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (18 bp):
CAGTGCAGTAGCAGTAAT
Found at i:60053149 original size:23 final size:23
Alignment explanation
Indices: 60053100--60053149 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
60053090 ACCCCATGCA
*
60053100 ATGCAACATAATATCATACATGG
1 ATGCAACACAATATCATACATGG
60053123 ATGCAACACACATAT-A-ACATGG
1 ATGCAACACA-ATATCATACATGG
60053145 CATGC
1 -ATGC
60053150 TCAAATACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (23 bp):
ATGCAACACAATATCATACATGG
Found at i:60053234 original size:27 final size:26
Alignment explanation
Indices: 60053212--60053273 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
60053202 GATATTACAG
60053212 TCATTTTACCCTACAGGGGTATTCGA
1 TCATTTTACCCTACAGGGGTATTCGA
* **
60053238 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTACAGGGGTA-TTCGA
60053265 TCATTTTAC
1 TCATTTTAC
60053274 TCTATGAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGGTATTCGA
Found at i:60053278 original size:27 final size:27
Alignment explanation
Indices: 60053212--60053297 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
60053202 GATATTACAG
**
60053212 TCATTTTACCCTACAGGGGTA-TTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
60053238 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
60053265 TCATTTTACTCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
60053292 TAATTT
1 TCATTT
60053298 GATCACATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 18 0.35
27 34 0.65
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:60053310 original size:27 final size:27
Alignment explanation
Indices: 60053254--60053310 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
60053244 TACCCTATGG
* * * *
60053254 GGGTATTTCGATCATTTTACTCTATGA
1 GGGTATTTCGATAATTTGACTCCATAA
60053281 GGGTATTTCGATAATTTGA-TCACATAA
1 GGGTATTTCGATAATTTGACTC-CATAA
60053308 GGG
1 GGG
60053311 CAAAATTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTGACTCCATAA
Found at i:60053324 original size:27 final size:27
Alignment explanation
Indices: 60053294--60053413 Score: 152
Period size: 27 Copynumber: 4.4 Consensus size: 27
60053284 TATTTCGATA
* **
60053294 ATTTGATCACATAAGGGCAAAATTATC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
60053321 ATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
60053348 ATTTTATCACATAAGGACTAAAT-GATC
1 ATTTTATCACATAAGGGCAAAATCG-TC
* *
60053375 ATTCTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
60053402 ATTTTATCACAT
1 ATTTTATCACAT
60053414 GTCATTTTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATCGTC
Found at i:60053359 original size:54 final size:54
Alignment explanation
Indices: 60053294--60053622 Score: 396
Period size: 54 Copynumber: 6.3 Consensus size: 54
60053284 TATTTCGATA
* ** * *
60053294 ATTTGATCACATAAGGGCAAAATTATCATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* * *
60053348 ATTTTATCACATAAGGACTAAAT-GATCATTCTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCG-TCATTTTATCACATAAGGGTAAAATCGTC
* *
60053402 ATTTTAT--C---A---C---AT-GTCATTTTATCACATAAGGGCAAAATCTTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* * *
60053444 ATTTTATCACATAAGGGCAAAATCGTCATTTTATTATATAAGGGTAAAATAGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* *
60053498 ATTTTATCACATAAGGGCGAAATCGTCATTTTATCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* *
60053552 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGAGAAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
*
60053606 ATTTTATCACATGAGGG
1 ATTTTATCACATAAGGG
60053623 TTCAGGTATG
Statistics
Matches: 238, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
42 33 0.14
43 3 0.01
44 1 0.00
46 1 0.00
47 1 0.00
49 1 0.00
50 1 0.00
52 1 0.00
53 2 0.01
54 194 0.82
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (54 bp):
ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
Found at i:60053397 original size:81 final size:81
Alignment explanation
Indices: 60053294--60053623 Score: 373
Period size: 81 Copynumber: 4.2 Consensus size: 81
60053284 TATTTCGATA
* * **
60053294 ATTTGATCACATAAGGGCAAAATTATCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
*
60053359 TAAGGACTAAAT-GATC
66 TAAGGACAAAATCG-TC
*
60053375 ATTCTATCACATAAGGGTAAAATCGTCATTTTAT--C-----A-C---AT-GTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
* *
60053428 TAAGGGCAAAATCTTC
66 TAAGGACAAAATCGTC
* * * * * *
60053444 ATTTTATCACATAAGGGCAAAATCGTCATTTTATTATATAAGGGTAAAATAGTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
* *
60053509 TAAGGGCGAAATCGTC
66 TAAGGACAAAATCGTC
* *
60053525 ATTTTATCACATAAGGGTAAAATTGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
60053590 TAAGAGA-AAAATCGTC
66 TAAG-GACAAAATCGTC
*
60053606 ATTTTATCACATGAGGGT
1 ATTTTATCACATAAGGGT
60053624 TCAGGTATGC
Statistics
Matches: 211, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
69 58 0.27
70 2 0.01
73 1 0.00
74 1 0.00
79 1 0.00
80 2 0.01
81 145 0.69
82 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (81 bp):
ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
TAAGGACAAAATCGTC
Found at i:60053419 original size:15 final size:15
Alignment explanation
Indices: 60053399--60053428 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60053389 GGGTAAAATC
60053399 GTCATTTTATCACAT
1 GTCATTTTATCACAT
60053414 GTCATTTTATCACAT
1 GTCATTTTATCACAT
60053429 AAGGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
GTCATTTTATCACAT
Found at i:60053431 original size:69 final size:69
Alignment explanation
Indices: 60053345--60053477 Score: 212
Period size: 69 Copynumber: 1.9 Consensus size: 69
60053335 GAGCAAAATC
* * *
60053345 GTCATTTTATCACATAAGGACTAAATGATCATTCTATCACATAAGGGTAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGACAAAATCATCATTCTATCACATAAGGGCAAAATCGTCATTTTATC
60053410 ACAT
66 ACAT
* * *
60053414 GTCATTTTATCACATAAGGGCAAAATCTTCATTTTATCACATAAGGGCAAAATCGTCATTTTAT
1 GTCATTTTATCACATAAGGACAAAATCATCATTCTATCACATAAGGGCAAAATCGTCATTTTAT
60053478 TATATAAGGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (69 bp):
GTCATTTTATCACATAAGGACAAAATCATCATTCTATCACATAAGGGCAAAATCGTCATTTTATC
ACAT
Found at i:60053432 original size:42 final size:42
Alignment explanation
Indices: 60053373--60053455 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
60053363 GACTAAATGA
*
60053373 TCATTCTATCACATAAGGGTAAAATCGTCATTTTATCACATG
1 TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATG
* *
60053415 TCATTTTATCACATAAGGGCAAAATCTTCATTTTATCACAT
1 TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACAT
60053456 AAGGGCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (42 bp):
TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATG
Found at i:60053453 original size:27 final size:27
Alignment explanation
Indices: 60053414--60053622 Score: 319
Period size: 27 Copynumber: 7.7 Consensus size: 27
60053404 TTTATCACAT
60053414 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
60053441 TTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * * *
60053468 GTCATTTTATTATATAAGGGTAAAATA
1 GTCATTTTATCACATAAGGGCAAAATC
*
60053495 GTCATTTTATCACATAAGGGCGAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
60053522 GTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
60053549 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
60053576 GTCATTTTATCACATAAGAGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
60053603 GTCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
60053623 TTCAGGTATG
Statistics
Matches: 162, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:60055499 original size:18 final size:18
Alignment explanation
Indices: 60055443--60055505 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
60055433 CATTCTATAA
*
60055443 CAGTAGCAGTGGCAGTAAT
1 CAGT-GCAGTAGCAGTAAT
* *
60055462 CAGTGCAGTAACCA-TGAT
1 CAGTGCAGT-AGCAGTAAT
*
60055480 CAATGCAGTAGCAGTAAT
1 CAGTGCAGTAGCAGTAAT
60055498 CAGTGCAG
1 CAGTGCAG
60055506 AATACAAACA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
17 3 0.09
18 26 0.74
19 6 0.17
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (18 bp):
CAGTGCAGTAGCAGTAAT
Found at i:60055806 original size:23 final size:23
Alignment explanation
Indices: 60055757--60055806 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
60055747 ACCCCATGCA
*
60055757 ATGCAACATAATATCATACATGG
1 ATGCAACACAATATCATACATGG
60055780 ATGCAACACACATAT-A-ACATGG
1 ATGCAACACA-ATATCATACATGG
60055802 CATGC
1 -ATGC
60055807 TCAAATACAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.42, C:0.22, G:0.14, T:0.22
Consensus pattern (23 bp):
ATGCAACACAATATCATACATGG
Found at i:60055891 original size:27 final size:26
Alignment explanation
Indices: 60055869--60055930 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
60055859 GATATTACAG
60055869 TCATTTTACCCTACAGGGGTATTCGA
1 TCATTTTACCCTACAGGGGTATTCGA
* **
60055895 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTACAGGGGTA-TTCGA
60055922 TCATTTTAC
1 TCATTTTAC
60055931 TCTATGAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 18 0.58
27 13 0.42
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGGTATTCGA
Found at i:60055935 original size:27 final size:27
Alignment explanation
Indices: 60055869--60055954 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 27
60055859 GATATTACAG
**
60055869 TCATTTTACCCTACAGGGGTA-TTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
60055895 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* *
60055922 TCATTTTACTCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
60055949 TAATTT
1 TCATTT
60055955 GATCACATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
26 18 0.35
27 34 0.65
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:60055967 original size:27 final size:27
Alignment explanation
Indices: 60055911--60055967 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
60055901 TACCCTATGG
* * * *
60055911 GGGTATTTCGATCATTTTACTCTATGA
1 GGGTATTTCGATAATTTGACTCCATAA
60055938 GGGTATTTCGATAATTTGA-TCACATAA
1 GGGTATTTCGATAATTTGACTC-CATAA
60055965 GGG
1 GGG
60055968 CAAAATTATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 2 0.08
27 23 0.92
ACGTcount: A:0.26, C:0.12, G:0.23, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTGACTCCATAA
Found at i:60055981 original size:27 final size:27
Alignment explanation
Indices: 60055951--60056070 Score: 152
Period size: 27 Copynumber: 4.4 Consensus size: 27
60055941 TATTTCGATA
* **
60055951 ATTTGATCACATAAGGGCAAAATTATC
1 ATTTTATCACATAAGGGCAAAATCGTC
*
60055978 ATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
* *
60056005 ATTTTATCACATAAGGACTAAAT-GATC
1 ATTTTATCACATAAGGGCAAAATCG-TC
* *
60056032 ATTCTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTC
60056059 ATTTTATCACAT
1 ATTTTATCACAT
60056071 GTCATTTTAT
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (27 bp):
ATTTTATCACATAAGGGCAAAATCGTC
Found at i:60056016 original size:54 final size:54
Alignment explanation
Indices: 60055951--60056279 Score: 396
Period size: 54 Copynumber: 6.3 Consensus size: 54
60055941 TATTTCGATA
* ** * *
60055951 ATTTGATCACATAAGGGCAAAATTATCATTTTATCACATAAGAGCAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* * *
60056005 ATTTTATCACATAAGGACTAAAT-GATCATTCTATCACATAAGGGTAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCG-TCATTTTATCACATAAGGGTAAAATCGTC
* *
60056059 ATTTTAT--C---A---C---AT-GTCATTTTATCACATAAGGGCAAAATCTTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* * *
60056101 ATTTTATCACATAAGGGCAAAATCGTCATTTTATTATATAAGGGTAAAATAGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* *
60056155 ATTTTATCACATAAGGGCGAAATCGTCATTTTATCACATAAGGGTAAAATTGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
* *
60056209 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGAGAAAAATCGTC
1 ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
*
60056263 ATTTTATCACATGAGGG
1 ATTTTATCACATAAGGG
60056280 TTCAGGTATG
Statistics
Matches: 238, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
42 33 0.14
43 3 0.01
44 1 0.00
46 1 0.00
47 1 0.00
49 1 0.00
50 1 0.00
52 1 0.00
53 2 0.01
54 194 0.82
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.33
Consensus pattern (54 bp):
ATTTTATCACATAAGGGCAAAATCGTCATTTTATCACATAAGGGTAAAATCGTC
Found at i:60056054 original size:81 final size:81
Alignment explanation
Indices: 60055951--60056280 Score: 373
Period size: 81 Copynumber: 4.2 Consensus size: 81
60055941 TATTTCGATA
* * **
60055951 ATTTGATCACATAAGGGCAAAATTATCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
*
60056016 TAAGGACTAAAT-GATC
66 TAAGGACAAAATCG-TC
*
60056032 ATTCTATCACATAAGGGTAAAATCGTCATTTTAT--C-----A-C---AT-GTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
* *
60056085 TAAGGGCAAAATCTTC
66 TAAGGACAAAATCGTC
* * * * * *
60056101 ATTTTATCACATAAGGGCAAAATCGTCATTTTATTATATAAGGGTAAAATAGTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
* *
60056166 TAAGGGCGAAATCGTC
66 TAAGGACAAAATCGTC
* *
60056182 ATTTTATCACATAAGGGTAAAATTGTCATTTTATCACATAAGGGCAAAATCGTCATTTTATCACA
1 ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
60056247 TAAGAGA-AAAATCGTC
66 TAAG-GACAAAATCGTC
*
60056263 ATTTTATCACATGAGGGT
1 ATTTTATCACATAAGGGT
60056281 TCAGGTATGC
Statistics
Matches: 211, Mismatches: 24, Indels: 28
0.80 0.09 0.11
Matches are distributed among these distances:
69 58 0.27
70 2 0.01
73 1 0.00
74 1 0.00
79 1 0.00
80 2 0.01
81 145 0.69
82 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (81 bp):
ATTTTATCACATAAGGGTAAAATCGTCATTTTATCACATAAGAGCAAAATCGTCATTTTATCACA
TAAGGACAAAATCGTC
Found at i:60056076 original size:15 final size:15
Alignment explanation
Indices: 60056056--60056085 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60056046 GGGTAAAATC
60056056 GTCATTTTATCACAT
1 GTCATTTTATCACAT
60056071 GTCATTTTATCACAT
1 GTCATTTTATCACAT
60056086 AAGGGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (15 bp):
GTCATTTTATCACAT
Found at i:60056088 original size:69 final size:69
Alignment explanation
Indices: 60056002--60056134 Score: 212
Period size: 69 Copynumber: 1.9 Consensus size: 69
60055992 GAGCAAAATC
* * *
60056002 GTCATTTTATCACATAAGGACTAAATGATCATTCTATCACATAAGGGTAAAATCGTCATTTTATC
1 GTCATTTTATCACATAAGGACAAAATCATCATTCTATCACATAAGGGCAAAATCGTCATTTTATC
60056067 ACAT
66 ACAT
* * *
60056071 GTCATTTTATCACATAAGGGCAAAATCTTCATTTTATCACATAAGGGCAAAATCGTCATTTTAT
1 GTCATTTTATCACATAAGGACAAAATCATCATTCTATCACATAAGGGCAAAATCGTCATTTTAT
60056135 TATATAAGGG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 58 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (69 bp):
GTCATTTTATCACATAAGGACAAAATCATCATTCTATCACATAAGGGCAAAATCGTCATTTTATC
ACAT
Found at i:60056089 original size:42 final size:42
Alignment explanation
Indices: 60056030--60056112 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
60056020 GACTAAATGA
*
60056030 TCATTCTATCACATAAGGGTAAAATCGTCATTTTATCACATG
1 TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATG
* *
60056072 TCATTTTATCACATAAGGGCAAAATCTTCATTTTATCACAT
1 TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACAT
60056113 AAGGGCAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.37
Consensus pattern (42 bp):
TCATTCTATCACATAAGGGCAAAATCGTCATTTTATCACATG
Found at i:60056110 original size:27 final size:27
Alignment explanation
Indices: 60056071--60056279 Score: 319
Period size: 27 Copynumber: 7.7 Consensus size: 27
60056061 TTTATCACAT
60056071 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
60056098 TTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* * * *
60056125 GTCATTTTATTATATAAGGGTAAAATA
1 GTCATTTTATCACATAAGGGCAAAATC
*
60056152 GTCATTTTATCACATAAGGGCGAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
60056179 GTCATTTTATCACATAAGGGTAAAATT
1 GTCATTTTATCACATAAGGGCAAAATC
60056206 GTCATTTTATCACATAAGGGCAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
* *
60056233 GTCATTTTATCACATAAGAGAAAAATC
1 GTCATTTTATCACATAAGGGCAAAATC
*
60056260 GTCATTTTATCACATGAGGG
1 GTCATTTTATCACATAAGGG
60056280 TTCAGGTATG
Statistics
Matches: 162, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
GTCATTTTATCACATAAGGGCAAAATC
Found at i:60059275 original size:37 final size:37
Alignment explanation
Indices: 60059211--60059297 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
60059201 ACATTGATAT
*
60059211 TCCAACCGA-AACACACTAGATACTCATAAGAGCTAA
1 TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
* ** * *
60059247 TCCACCCGATAACACGCTAGATGTTCATAAGAGTTAG
1 TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
*
60059284 TCCACCTGATAACA
1 TCCACCCGATAACA
60059298 TACCAATGGC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
36 8 0.19
37 35 0.81
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (37 bp):
TCCACCCGATAACACACTAGATACTCATAAGAGCTAA
Found at i:60060729 original size:21 final size:20
Alignment explanation
Indices: 60060697--60060737 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
60060687 ATACATCAAT
60060697 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
*
60060717 ATTTTGAATGTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
60060738 TTATACAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:60066784 original size:43 final size:43
Alignment explanation
Indices: 60066723--60066916 Score: 300
Period size: 43 Copynumber: 4.5 Consensus size: 43
60066713 CCGGCATTAC
*
60066723 GCCTGCTAGGCACGAAGGCCTGAATACACATCACAGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
60066766 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCA-GCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-CAGGCACGAA
* * * *
60066809 GCCTGCTAGGCACAAAGGCCCAAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
* *
60066852 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
*
60066895 ACCTGCTAGGCACGAAGGCCCG
1 GCCTGCTAGGCACGAAGGCCCG
60066917 TATATAATAC
Statistics
Matches: 141, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
42 1 0.01
43 138 0.98
44 2 0.01
ACGTcount: A:0.31, C:0.34, G:0.24, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAA
Found at i:60066964 original size:129 final size:129
Alignment explanation
Indices: 60066710--60066941 Score: 351
Period size: 129 Copynumber: 1.8 Consensus size: 129
60066700 ACATATCATT
* * * *
60066710 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCTGAATACACATCACAGGCACGAAGCCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAACCTGCTAG
*
60066775 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACAAAGGCCCAAATACACA
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACAAAGGCACAAATACACA
* *
60066839 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAACCTGCTAG
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAACCTGCTAG
* * * *
60066904 GCACGAAGGCCCGTATATA-AT-ACCAGCACTACGCCTGC
66 GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGC
60066942 GGGATTTATC
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
127 15 0.16
128 2 0.02
129 76 0.82
ACGTcount: A:0.31, C:0.34, G:0.22, T:0.13
Consensus pattern (129 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACAGGCACGAAACCTGCTAG
GCACGAAGGCCCGAATACACATCACCAGCACGAAGCCTGCTAGGCACAAAGGCACAAATACACA
Found at i:60085303 original size:21 final size:20
Alignment explanation
Indices: 60085264--60085304 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
60085254 ATACATCAGT
60085264 ATTTTGATGTTTAATGATAG
1 ATTTTGATGTTTAATGATAG
* *
60085284 ATTTTGAATTTTTGATGATAG
1 ATTTTG-ATGTTTAATGATAG
60085305 TTATACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (20 bp):
ATTTTGATGTTTAATGATAG
Found at i:60092341 original size:55 final size:55
Alignment explanation
Indices: 60092282--60092386 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
60092272 ACTTTAGGGT
* *
60092282 ACGGCCATGACGCACGCCCGTATGGCCTACCCGTGGACAATACTGACTTATAGAC
1 ACGGCCATGACACACGCCCGTATGGCCTACCCATGGACAATACTGACTTATAGAC
* * * * *
60092337 ACGGCTATGGCACACGCCCTTGTGGCCTATCCATGGACAATACTGACTTA
1 ACGGCCATGACACACGCCCGTATGGCCTACCCATGGACAATACTGACTTA
60092387 AAAGTTTAAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (55 bp):
ACGGCCATGACACACGCCCGTATGGCCTACCCATGGACAATACTGACTTATAGAC
Found at i:60093225 original size:44 final size:44
Alignment explanation
Indices: 60093169--60093340 Score: 177
Period size: 44 Copynumber: 3.8 Consensus size: 44
60093159 GTGTATAACT
60093169 GCTGATGCATGTCCCAGACATGTCTTACACTAGCATGAAGCT-TA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCATGAA-CTCTA
* * * *
60093213 GCTGATGCATGTCCCAGACACGTCTTACACTGGCACTCATCTCTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCA-TGAACTCTA
* * * * *
60093258 CGCCGATGCCATCTCCCAGACATAGTCTTACATTGGCTATCGTAA-TGTA
1 -GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGC-AT-G-AACTCTA
60093307 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
60093341 CCTCGTCTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
44 35 0.33
45 4 0.04
46 17 0.16
47 25 0.24
48 19 0.18
49 4 0.04
50 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCATGAACTCTA
Found at i:60093322 original size:94 final size:94
Alignment explanation
Indices: 60093127--60093385 Score: 278
Period size: 94 Copynumber: 2.8 Consensus size: 94
60093117 TTACCGGTGC
* * * * * * *
60093127 CATGTCCCAGACATGGTCTTACACTAGCTCTCGTGTATAACTGCTGATG-CATGTCCCAGACAT-
1 CATGTCCCAGACA-CGTCTTACACTAGCACTCATCT-CAAC-GCCGATGCCATCTCCCAGACATA
* *
60093190 GTCTTACACTAGC-AT-G-AA-GCTTAGCTGATG
63 GTCTTACATTGGCTATCGTAATG--TAGCTGATG
* *
60093220 CATGTCCCAGACACGTCTTACACTGGCACTCATCTCTACGCCGATGCCATCTCCCAGACATAGTC
1 CATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCAGACATAGTC
60093285 TTACATTGGCTATCGTAATGTAGCTGATG
66 TTACATTGGCTATCGTAATGTAGCTGATG
* * * * * *
60093314 CATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCAGACATAGTC
60093379 TTACATT
66 TTACATT
60093386 AGCTCTCACA
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
90 6 0.04
91 15 0.11
92 28 0.20
93 15 0.11
94 74 0.52
95 2 0.01
96 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACACGTCTTACACTAGCACTCATCTCAACGCCGATGCCATCTCCCAGACATAGTC
TTACATTGGCTATCGTAATGTAGCTGATG
Found at i:60101873 original size:22 final size:23
Alignment explanation
Indices: 60101848--60101893 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
60101838 CAACCAAATC
60101848 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
60101870 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
60101893 A
1 A
60101894 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:60101899 original size:23 final size:23
Alignment explanation
Indices: 60101855--60101899 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
60101845 ATCAATTCAA
*
60101855 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
60101878 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
60101900 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:60107480 original size:13 final size:13
Alignment explanation
Indices: 60107462--60107486 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60107452 TAACCTACAA
60107462 AATTAAATAACAT
1 AATTAAATAACAT
60107475 AATTAAATAACA
1 AATTAAATAACA
60107487 CACAACTATT
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:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:60107744 original size:10 final size:10
Alignment explanation
Indices: 60107711--60107759 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
60107701 AAAAAGGAAT
*
60107711 GAGCTGAAAC
1 GAGCTCAAAC
60107721 GAGCT-AAATTC
1 GAGCTCAAA--C
60107732 GAGCTCAAAC
1 GAGCTCAAAC
*
60107742 GAGCTAAAAC
1 GAGCTCAAAC
60107752 GAGCTCAA
1 GAGCTCAA
60107760 GTGAGCTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 3 0.09
10 22 0.65
11 6 0.18
12 3 0.09
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:60107766 original size:20 final size:21
Alignment explanation
Indices: 60107711--60107759 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
60107701 AAAAAGGAAT
* *
60107711 GAGCTGAAACGAGCTAAATTC
1 GAGCTCAAACGAGCTAAATAC
60107732 GAGCTCAAACGAGCTAAA-AC
1 GAGCTCAAACGAGCTAAATAC
60107752 GAGCTCAA
1 GAGCTCAA
60107760 GTGAGCTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.14
Consensus pattern (21 bp):
GAGCTCAAACGAGCTAAATAC
Found at i:60109881 original size:42 final size:41
Alignment explanation
Indices: 60109811--60109891 Score: 99
Period size: 42 Copynumber: 2.0 Consensus size: 41
60109801 TTCTCTTTAA
* ** * *
60109811 TCTCTTTTTCAATTTCTTTTTCACTCTCAAATTTCTTTTCGT
1 TCTCTTTTTCAATCTCAATCTCAATCTC-AATTTCTTTTCGT
*
60109853 TCTCTTTTTCAATCTCAATCTCAATCTCATTTTCTTTTC
1 TCTCTTTTTCAATCTCAATCTCAATCTCAATTTCTTTTC
60109892 TTTGTTTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 10 0.30
42 23 0.70
ACGTcount: A:0.16, C:0.26, G:0.01, T:0.57
Consensus pattern (41 bp):
TCTCTTTTTCAATCTCAATCTCAATCTCAATTTCTTTTCGT
Found at i:60109909 original size:19 final size:20
Alignment explanation
Indices: 60109885--60109925 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
60109875 AATCTCATTT
60109885 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
60109904 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
60109924 TC
1 TC
60109926 GATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:60112107 original size:13 final size:13
Alignment explanation
Indices: 60112089--60112113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60112079 TAACCTACAA
60112089 AATTAAATAACAT
1 AATTAAATAACAT
60112102 AATTAAATAACA
1 AATTAAATAACA
60112114 CACAACTATT
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:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATTAAATAACAT
Found at i:60119810 original size:13 final size:13
Alignment explanation
Indices: 60119788--60119851 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
60119778 TTTGGCAATA
*
60119788 CTTTTAAAAAGTG
1 CTTTTGAAAAGTG
60119801 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
60119814 -TTGTGGAGAAGTG
1 CTT-TTGAAAAGTG
* *
60119827 CTTTTTAGAAGTG
1 CTTTTGAAAAGTG
60119840 CTTTTGAAAAGT
1 CTTTTGAAAAGT
60119852 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.30, C:0.06, G:0.25, T:0.39
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:60125624 original size:27 final size:26
Alignment explanation
Indices: 60125576--60125661 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
60125566 AGCATGGCTG
* * *
60125576 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
60125602 CCAGATGCAGATATTCTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
60125629 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
60125656 CCAGAA
1 CCAGAA
60125662 TACTTCCTCC
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 11 0.22
27 40 0.78
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:60129322 original size:27 final size:26
Alignment explanation
Indices: 60129282--60129367 Score: 118
Period size: 27 Copynumber: 3.2 Consensus size: 26
60129272 AGCATGGCTG
* * *
60129282 CCAGAACAAATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
60129308 CCAGATACAGATATTCTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
60129335 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
60129362 CCAGAA
1 CCAGAA
60129368 TACTTCCTCC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.23
27 41 0.77
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:60131651 original size:43 final size:43
Alignment explanation
Indices: 60131595--60131773 Score: 137
Period size: 43 Copynumber: 4.2 Consensus size: 43
60131585 CTTACATTTT
* * **
60131595 ATCACATATCGATGCCATTTTCCCAGACAGGGTCTTACACGAA
1 ATCACATAACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
* * * *
60131638 ATCATATAACGATGTCAATGCCCCAGACATGGTCTTACACGTA
1 ATCACATAACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
* * * * * * *
60131681 ATCACA-ATACAATGCCAATGTCCCAAACATGGTATTACATGTA
1 ATCACATA-ACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
* * * * * *
60131724 ATCACA-ATACAATGCCAATGTCCCAAACATGGTCTTACATGTA
1 ATCACATA-ACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
60131767 ATCACAT
1 ATCACAT
60131774 CTTGGTAACA
Statistics
Matches: 118, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
42 1 0.01
43 117 0.99
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGCCCCAGACAGGGTCTTACACGAA
Found at i:60131705 original size:86 final size:87
Alignment explanation
Indices: 60131575--60131772 Score: 213
Period size: 86 Copynumber: 2.3 Consensus size: 87
60131565 TGCCGTATCT
* * * * * * * *
60131575 CAGATATGGTCTTACATTTTATCAC-ATATCGATGCCATTTTCCCAGACAGGGTCTTACACGAAA
1 CAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAACAGGGTATTACACGAAA
* * *
60131639 TCA-TATAACGATGTCAATGCCC
66 TCACAAT-ACAATGCCAATGCCC
* * * *
60131661 CAGACATGGTCTTACACGTAATCACAATA-CAATGCCAATGTCCCAAACATGGTATTACATGTAA
1 CAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAACAGGGTATTACACGAAA
*
60131725 TCACAATACAATGCCAATGTCC
66 TCACAATACAATGCCAATGCCC
*
60131747 CAAACATGGTCTTACATGTAATCACA
1 CAGACATGGTCTTACATGTAATCACA
60131773 TCTTGGTAAC
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
86 87 0.95
87 5 0.05
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (87 bp):
CAGACATGGTCTTACATGTAATCACAATATCAATGCCAATGTCCCAAACAGGGTATTACACGAAA
TCACAATACAATGCCAATGCCC
Found at i:60139372 original size:43 final size:43
Alignment explanation
Indices: 60139348--60139514 Score: 271
Period size: 43 Copynumber: 3.9 Consensus size: 43
60139338 TCATATAATG
*
60139348 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
*
60139391 ATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
* *
60139434 ATTCCAATGTCCCAGACATAGTCTTACATGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
* * *
60139477 ATGCCAATGTCCCAAAAATGGTCTTACATGAAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
60139515 TCTCGGTAAT
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAATACA
Found at i:60140895 original size:12 final size:12
Alignment explanation
Indices: 60140858--60140889 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60140848 CTTCTCCCCT
*
60140858 TTCCCCTTTCCC
1 TTCCTCTTTCCC
60140870 TTCCTCTTTCCC
1 TTCCTCTTTCCC
60140882 TTCCTCTT
1 TTCCTCTT
60140890 CTCCTTGGGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (12 bp):
TTCCTCTTTCCC
Found at i:60143654 original size:19 final size:20
Alignment explanation
Indices: 60143630--60143675 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
60143620 CATCCAAACA
60143630 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
*
60143649 CCAGAAAAGTAAATTATTTT
1 CCAGAAAAGTAAATCATTTT
60143669 CCAGAAA
1 CCAGAAA
60143676 TCATTTTCTG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:60144022 original size:43 final size:43
Alignment explanation
Indices: 60143961--60144122 Score: 209
Period size: 43 Copynumber: 3.8 Consensus size: 43
60143951 CTACAATTCC
* * * *
60143961 ATGTCACAGATATGGTCTTACATGTTATCACATATCGATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* * * *
60144004 ATGTCCCAAACATGGTCTTACACGAAATCATATAACGATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
* *
60144047 ATTTCCCAGACATGGTCTTACACGTAATCACA-ATACAATGCCA
1 ATGTCCCAGACATGGTCTTACACGTAATCACATAT-CGATGCCA
*
60144090 ATGTCCCAGACATGGTCTTACATGTAATCACAT
1 ATGTCCCAGACATGGTCTTACACGTAATCACAT
60144123 CTTAATAATC
Statistics
Matches: 101, Mismatches: 16, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 1 0.01
43 100 0.99
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (43 bp):
ATGTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA
Found at i:60161021 original size:40 final size:40
Alignment explanation
Indices: 60160947--60161166 Score: 272
Period size: 40 Copynumber: 5.6 Consensus size: 40
60160937 AACCCAAGTA
* * *
60160947 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
60160986 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
60161026 CCTTCGGGACTTAGCTCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
60161066 CCTTCGGGACTTAGCCCAGATATAGTCAATAGCACAACA-G
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAA-ATG
*
60161106 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
60161145 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
60161167 CATCCGAATA
Statistics
Matches: 159, Mismatches: 16, Indels: 13
0.85 0.09 0.07
Matches are distributed among these distances:
38 18 0.11
39 19 0.12
40 119 0.75
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:60161079 original size:80 final size:79
Alignment explanation
Indices: 60160947--60161166 Score: 311
Period size: 80 Copynumber: 2.8 Consensus size: 79
60160937 AACCCAAGTA
* * *
60160947 CCTTCGGGATTTAGCCAGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
60161012 CACTAGCACAAAAG
66 CAATAGCACAAAAG
* *
60161026 CCTTCGGGACTTAGCTCGGATATAGCAACTCGCACAAACGCCTTCGGGACTTAGCCCAGATATAG
1 CCTTCGGGACTTAGC-CGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
60161091 TCAATAGCACAACAG
65 TCAATAGCACAAAAG
* *
60161106 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATGCCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
60161167 CATCCGAATA
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
78 16 0.13
79 21 0.17
80 88 0.69
81 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAAAG
Found at i:60165790 original size:15 final size:15
Alignment explanation
Indices: 60165761--60165810 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
60165751 CAAAGATAAC
*
60165761 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
60165775 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
60165790 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
60165805 AAGAAA
1 AAGAAA
60165811 CCCAAGATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.60, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:60165819 original size:15 final size:15
Alignment explanation
Indices: 60165772--60165819 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
60165762 AGAAAACCGA
60165772 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
60165786 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
60165802 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
60165817 ATA
1 ATA
60165820 CGATACAATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 26 0.96
16 1 0.04
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60168024 original size:27 final size:27
Alignment explanation
Indices: 60167994--60168171 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
60167984 ATATTGAGCC
* * * *
60167994 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
60168021 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60168048 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
60168076 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
60168103 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
60168130 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
60168157 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60168172 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:60168133 original size:82 final size:81
Alignment explanation
Indices: 60168015--60168170 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
60168005 TGCTATATAA
* *
60168015 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
60168080 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
60168097 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
60168161 CACTTAGTGC
65 CACTTAGTGC
60168171 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:60168185 original size:82 final size:83
Alignment explanation
Indices: 60167994--60168185 Score: 216
Period size: 82 Copynumber: 2.3 Consensus size: 83
60167984 ATATTGAGCC
* * * * *
60167994 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
*
60168058 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* * **
60168076 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAATCAAATCGCACAC
60168137 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
*
60168157 CGCACACTTAGTGCTGTACAATTTAATTC
1 CGCACACTTAGTGCTGTACAATTCAATTC
60168186 CCGTGCACTT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 70 0.77
83 1 0.01
84 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAATCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:60182572 original size:51 final size:51
Alignment explanation
Indices: 60182517--60182664 Score: 226
Period size: 51 Copynumber: 2.9 Consensus size: 51
60182507 TGAACCTTAG
60182517 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
60182568 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * *
60182619 GAATAAAATAGCTTT-GGCTACAAGGGTGGTATTGTGTGAAGGCCAC
1 GAATAAAATAGCTTTGGGC-ACAAGTGTGGTACTATGTGAAGGCCAC
60182665 CATGTATCCG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 2 0.02
51 86 0.98
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:60194155 original size:61 final size:61
Alignment explanation
Indices: 60194013--60194199 Score: 174
Period size: 60 Copynumber: 3.1 Consensus size: 61
60194003 TCAAGCTTTA
* ** * *
60194013 CTGGGCC-TAAGCCCTATTAAAAAATCAGAGT-TAACTGGGCCTCAGCCCATAGCAATATTAAT
1 CTGGGCCGT-AGCCCTATTACAGTATCAGAGTAT-ACTGGGCCT-AGCCCATATCAATATCAAT
*
60194075 CTGGGCCGTAGCCC-CTTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAGA-ATCAAT
1 CTGGGCCGTAGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCA-ATATCAAT
* * ** *
60194135 CTGGGCCGTAGCCCTATTACAAGT-TGAGA-TATATTGGGCCTTCCCCATATCAACA-CAAT
1 CTGGGCCGTAGCCCTATTAC-AGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
60194194 -TGGGCC
1 CTGGGCC
60194200 CATTTCAATA
Statistics
Matches: 108, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
58 6 0.06
59 5 0.05
60 50 0.46
61 30 0.28
62 16 0.15
63 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (61 bp):
CTGGGCCGTAGCCCTATTACAGTATCAGAGTATACTGGGCCTAGCCCATATCAATATCAAT
Found at i:60195243 original size:45 final size:45
Alignment explanation
Indices: 60195165--60195293 Score: 133
Period size: 46 Copynumber: 2.9 Consensus size: 45
60195155 CTTTCATTCA
* * * *
60195165 TTCACTGGCATT-TTGCCTACTAGGCTCG--AGGCCCAACATCAT-
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAA-ATAATG
*
60195207 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCGAATAATG
1 TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAAATAATG
* **
60195252 TCTCACCGGCATAATAGTTTGCTAGGCTC-AAAGGCCCAAATA
1 T-TCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAAATA
60195294 TAATACCATC
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 4 0.05
45 20 0.27
46 24 0.33
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TTCACCGGCATTATAGCCTGCTAGGCTCGAAAGGCCCAAATAATG
Found at i:60195351 original size:38 final size:38
Alignment explanation
Indices: 60195291--60195598 Score: 445
Period size: 38 Copynumber: 8.1 Consensus size: 38
60195281 AAAGGCCCAA
* * * *
60195291 ATATAATACCATCACTAGGCCTGCGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
60195329 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
60195367 ATATATTACCAGTACGAAGCCTACGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
60195405 ATATATTACTAACACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
*
60195443 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* **
60195481 ATATAATACCAGCACGAAGCCTGCGGGATTTAATCCAA
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
60195519 ATATATTACCAGCACGAAGCTTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
60195557 ATATATTACCAGCATGAAGCCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
60195595 ATAT
1 ATAT
60195599 CATATTTCGA
Statistics
Matches: 243, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 243 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:60198287 original size:25 final size:25
Alignment explanation
Indices: 60198258--60198305 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
60198248 TTATAATATG
* *
60198258 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
60198283 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
60198306 GTTTATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:60198432 original size:20 final size:20
Alignment explanation
Indices: 60198342--60198424 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
60198332 ATTTTGATAA
60198342 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
60198362 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
60198382 AGATGACATGTAT-AGTATGC
1 ACATGATATGTATGA-TATGC
60198402 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
60198422 ACA
1 ACA
60198425 CGAGATGTTC
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.02
20 55 0.96
21 1 0.02
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:60198535 original size:23 final size:24
Alignment explanation
Indices: 60198477--60198596 Score: 147
Period size: 24 Copynumber: 5.0 Consensus size: 24
60198467 GAGGAAGTGC
*
60198477 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
60198501 AAAAGGGATTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
60198525 -AAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60198548 AAAAAAGGGCTT-TGCCCCAGTTATT
1 --AAAAGGGCTTATGCCCCAGTTATT
*
60198573 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
60198597 ATGATAAAGT
Statistics
Matches: 84, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
23 27 0.32
24 28 0.33
25 20 0.24
26 9 0.11
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:60198547 original size:47 final size:47
Alignment explanation
Indices: 60198478--60198575 Score: 144
Period size: 47 Copynumber: 2.1 Consensus size: 47
60198468 AGGAAGTGCA
60198478 AAAGGGCTTATGCCCCAATTATT-AAAAGGGATTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATTAAAAAGGGATT-TGCCCCAGTTATT
* * *
60198525 AAAGGGCTTATGCCCTAGTTATTAAAAAAGGGCTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATT-AAAAAGGGATTTGCCCCAGTTATT
60198573 AAA
1 AAA
60198576 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
47 21 0.46
48 16 0.35
49 9 0.20
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAATTATTAAAAAGGGATTTGCCCCAGTTATT
Found at i:60198827 original size:31 final size:31
Alignment explanation
Indices: 60198789--60198852 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
60198779 CGTTTACCGT
60198789 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
60198820 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
60198851 AA
1 AA
60198853 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:60200942 original size:48 final size:48
Alignment explanation
Indices: 60200886--60200980 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 48
60200876 AACTATGGTC
* *
60200886 TTATACTAGCTCTGCTCT-GCCCGTGCTGATGCCTATTCCCA-ATAGGTT
1 TTATACTAGCACT-CACTAGCCCGTGCTGATGCCTA-TCCCAGATAGGTT
* *
60200934 TTATACTAGCACTCACTAGGCTGTGCTGATGCCTATCCCAGATAGGT
1 TTATACTAGCACTCACTAGCCCGTGCTGATGCCTATCCCAGATAGGT
60200981 CTTACGCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
47 8 0.20
48 33 0.80
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (48 bp):
TTATACTAGCACTCACTAGCCCGTGCTGATGCCTATCCCAGATAGGTT
Found at i:60202444 original size:38 final size:38
Alignment explanation
Indices: 60202367--60202596 Score: 264
Period size: 38 Copynumber: 6.1 Consensus size: 38
60202357 AAGGCCCGAT
* * * * *
60202367 TATAATACCAGTACTAGGCCTGTGGG-TTTAAGCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* *
60202404 TATAATACCAGCATGAAGCCTGCGGGATTTAACCTGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* * * *
60202442 TATATTATCAGCACGAAGCCTGCAGTATTTAACCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* *
60202480 TATAATACCAGCACGAAGCCTACAGGATTTAACCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* * * *
60202518 TATATTACCAGCACGAAGCCTACGGAATCTAACCCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
* * * *
60202556 TACATTACTAGCACGAAGCCTGCGGGATTTAACTCGGA
1 TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
60202594 TAT
1 TAT
60202597 CATATTTCGA
Statistics
Matches: 164, Mismatches: 28, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
37 21 0.13
38 143 0.87
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (38 bp):
TATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGA
Found at i:60208239 original size:15 final size:15
Alignment explanation
Indices: 60208198--60208260 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 15
60208188 GAAAACCAGA
*
60208198 ATAAAGAAGTCCAAG
1 ATAAAGAAATCCAAG
* * *
60208213 ACAGAGGAATCCAAG
1 ATAAAGAAATCCAAG
*
60208228 ATAAAGATATCCAAG
1 ATAAAGAAATCCAAG
* *
60208243 GTACAGAAATCCAAG
1 ATAAAGAAATCCAAG
60208258 ATA
1 ATA
60208261 CCATATCATA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.51, C:0.16, G:0.19, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:60224399 original size:47 final size:47
Alignment explanation
Indices: 60224347--60224993 Score: 1008
Period size: 47 Copynumber: 13.6 Consensus size: 47
60224337 GATAATTGTG
* *
60224347 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60224394 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
60224441 ATATGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60224488 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
60224537 ATATGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGA
60224584 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
60224633 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
60224682 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
60224729 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGA
60224778 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60224827 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60224874 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
60224921 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60224968 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
60224994 TCCCGAAGGG
Statistics
Matches: 558, Mismatches: 32, Indels: 20
0.91 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 331 0.59
49 218 0.39
50 2 0.00
51 5 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:60224534 original size:96 final size:95
Alignment explanation
Indices: 60224347--60224993 Score: 1016
Period size: 96 Copynumber: 6.8 Consensus size: 95
60224337 GATAATTGTG
* *
60224347 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT-A
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAA
*
60224411 TGTGATAAGGCCTAATAGCCGATGTGATGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
60224441 ATATGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATAC
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA-
60224506 ATGTGATAAGGCCTAATGGCCGATGTGATGA
65 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
60224537 ATATGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATA
60224601 CATGTGATAAGGCCTAATGGCCGATGTGATGA
65 -ATGTGATAAGGCCTAATGGCCGATGTGATGA
60224633 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
60224698 -ATGTGATAAGGCCGAATGGCCAATGTGATGA
64 AATGTGATAAGGCCTAATGGCCGATGTGATGA
60224729 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
60224794 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 A-ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
60224827 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-A
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAA
*
60224891 TGTGATGAGGCCTAATGGCCGATGTGATGA
66 TGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
60224921 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-AA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAA
60224985 TGTGATAAG
66 TGTGATAAG
60224994 TCCCGAAGGG
Statistics
Matches: 520, Mismatches: 24, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
94 151 0.29
95 1 0.00
96 278 0.53
98 88 0.17
99 2 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (95 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAA
TGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:60224668 original size:145 final size:143
Alignment explanation
Indices: 60224347--60224993 Score: 1034
Period size: 145 Copynumber: 4.5 Consensus size: 143
60224337 GATAATTGTG
*
60224347 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
60224410 ATGTGATAAGGCCTAATAGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
60224475 GCCAATGTGATGA
131 GCCGATGTGATGA
*
60224488 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTGTATAT
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
60224553 ATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTA
66 ATGTGATAAGGCCT-AATAGCCAATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTA
60224617 ATGGCCGATGTGATGA
128 ATGGCCGATGTGATGA
60224633 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
60224698 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATACATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAGGCCTAA
60224763 TGGCCGATGTGATGA
129 TGGCCGATGTGATGA
*
60224778 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
60224843 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
60224908 GCCGATGTGATGA
131 GCCGATGTGATGA
* * * * * * * *
60224921 ATGTGAAAGTGTATAT--ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
60224984 ATGTGATAAG
66 ATGTGATAAG
60224994 TCCCGAAGGG
Statistics
Matches: 478, Mismatches: 22, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
141 54 0.11
142 4 0.01
143 141 0.29
145 278 0.58
146 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (143 bp):
ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:60227191 original size:38 final size:38
Alignment explanation
Indices: 60227127--60227201 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
60227117 AATCCGAGTT
*
60227127 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
60227165 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
60227202 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:60227316 original size:40 final size:40
Alignment explanation
Indices: 60227255--60227538 Score: 417
Period size: 40 Copynumber: 7.1 Consensus size: 40
60227245 AGGTCTCGAC
*
60227255 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
60227294 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
60227334 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
60227374 GATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
60227414 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
60227454 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * * *
60227494 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
60227534 GATGT
1 GATGT
60227539 GTATTCGGGC
Statistics
Matches: 220, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
39 4 0.02
40 216 0.98
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Done.