Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 284 of 356
Found at i:92529845 original size:72 final size:72
Alignment explanation
Indices: 92529754--92529894 Score: 264
Period size: 72 Copynumber: 2.0 Consensus size: 72
92529744 TCCAGTGATG
92529754 TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
1 TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
92529819 CAATCAA
66 CAATCAA
* *
92529826 TAGAGTTTAGCCAATTTCTGTAAAGAGATGTCTGTCCTAACCGAGATGAAGTGAGCAGACTTGGT
1 TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
92529891 CAAT
66 CAAT
92529895 GAATCCACGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (72 bp):
TAGAGTTTAGCCAATTTCTGTAAAGAGAAGTCTGTCCTAACCGAGATGAAGTGAGCAAACTTGGT
CAATCAA
Found at i:92538661 original size:25 final size:25
Alignment explanation
Indices: 92538627--92538677 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
92538617 ATAATAATAA
92538627 TAATAATGCAATGTCATACTTAAAT
1 TAATAATGCAATGTCATACTTAAAT
92538652 TAATAATGCAATGTCATACTTAAAT
1 TAATAATGCAATGTCATACTTAAAT
92538677 T
1 T
92538678 GTAAATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (25 bp):
TAATAATGCAATGTCATACTTAAAT
Found at i:92539214 original size:48 final size:48
Alignment explanation
Indices: 92539089--92539359 Score: 310
Period size: 48 Copynumber: 5.6 Consensus size: 48
92539079 TGAGATCCCA
* ** * * *
92539089 TGTAAGACCATGTCTGGGACATGGGATCGGCATCCGAGATGAG-AGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGT-TGATATGTGTA-CCAG
* * * *
92539138 CGTAAAACCAAGTCTGGGACATGGCATCGGTGTTGATATGTGTTCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
* *
92539186 TGTAAGACCATGTCTGGGACATGACATCGGTGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
* ** *
92539234 TGTAAGACCATGTTTGGGACATGGCATTAGTGTTGATATGTGTACCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
* * *** * *
92539282 TGTAAGACCATGTTTAGGACATGGCATCGGCAATGATATGTGAACTAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
92539330 TGTAAGACCATGTCTGGGACATGGCATCGG
1 TGTAAGACCATGTCTGGGACATGGCATCGG
92539360 CACCGATATG
Statistics
Matches: 189, Mismatches: 32, Indels: 3
0.84 0.14 0.01
Matches are distributed among these distances:
48 162 0.86
49 27 0.14
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTACCAG
Found at i:92539384 original size:48 final size:48
Alignment explanation
Indices: 92539284--92539388 Score: 131
Period size: 48 Copynumber: 2.2 Consensus size: 48
92539274 TGTACCGGTG
* * * *
92539284 TAAGACCATGTTTAGGACATGGCATCGGCAATGATATGTGAACTAGTG
1 TAAGACCATGTCTAGGACATGGCATCGGCAACGATATGAGAACTAGTA
* * *
92539332 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAG-ACTTCGTA
1 TAAGACCATGTCTAGGACATGGCATCGGCAACGATATGAGAAC-TAGTA
92539380 TAAGACCAT
1 TAAGACCAT
92539389 ATATGGGATA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
47 2 0.04
48 47 0.96
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATCGGCAACGATATGAGAACTAGTA
Found at i:92539396 original size:48 final size:48
Alignment explanation
Indices: 92539284--92539401 Score: 130
Period size: 48 Copynumber: 2.5 Consensus size: 48
92539274 TGTACCGGTG
* * * * *
92539284 TAAGACCATGTTTAGGACATGGCATCGGCAATGATATGTGAACTAGTG
1 TAAGACCATGTATGGGACATGGCATCGGCAACGATATGAGAACTAGTA
* * *
92539332 TAAGACCATGTCTGGGACATGGCATCGGCACCGATATGAG-ACTTCGTA
1 TAAGACCATGTATGGGACATGGCATCGGCAACGATATGAGAAC-TAGTA
* *
92539380 TAAGACCATATATGGGATATGG
1 TAAGACCATGTATGGGACATGG
92539402 AGTTGACATG
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.03
48 57 0.97
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (48 bp):
TAAGACCATGTATGGGACATGGCATCGGCAACGATATGAGAACTAGTA
Found at i:92539978 original size:30 final size:29
Alignment explanation
Indices: 92539943--92540010 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
92539933 CACCCTTAAA
* * *
92539943 ATATTTTCACTATTAGTCCTTCAAATTTTC
1 ATATTTACA-TATTAATCCCTCAAATTTTC
* *
92539973 ATATTTACATTTTAATCCCTCAAATTTTG
1 ATATTTACATATTAATCCCTCAAATTTTC
92540002 AGTATTTAC
1 A-TATTTAC
92540011 TCTTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 17 0.53
30 15 0.47
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (29 bp):
ATATTTACATATTAATCCCTCAAATTTTC
Found at i:92543285 original size:21 final size:21
Alignment explanation
Indices: 92543259--92543306 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
92543249 AAGGGGAATT
92543259 TTGTAAAAGTTCTAAAATAGG
1 TTGTAAAAGTTCTAAAATAGG
92543280 TTGTAAAAGTTCTAAAATAGG
1 TTGTAAAAGTTCTAAAATAGG
92543301 TTGTAA
1 TTGTAA
92543307 TTGTGTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (21 bp):
TTGTAAAAGTTCTAAAATAGG
Found at i:92544050 original size:46 final size:46
Alignment explanation
Indices: 92543982--92544149 Score: 164
Period size: 46 Copynumber: 3.6 Consensus size: 46
92543972 TTATTTGTGT
92543982 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTAA
* * *
92544028 GCCAGTGTCAGACATGTTTGGGACATGCATTGGCTACGAGATGT--
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAA
* * * *
92544072 GACAGTGTAAGACCATGTCAGGGACATGGAATCGGC-ACAGATATGTGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATGT-A-A
* *
92544122 GCTAGTGTAAGACCATGTCTAGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
92544150 GTACCGGCCT
Statistics
Matches: 100, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
44 10 0.10
45 16 0.16
46 50 0.50
49 1 0.01
50 23 0.23
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAA
Found at i:92546181 original size:42 final size:44
Alignment explanation
Indices: 92546134--92546227 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 44
92546124 CGGCCTGAGG
92546134 ACACGGGCATG-CCAAAAGGC-ACACGAGCGTGTCCCTATGTCT
1 ACACGGGCATGTCCAAAAGGCTACACGAGCGTGTCCCTATGTCT
* ** * * * *
92546176 ACACGGGCGTGTCCCTATGTCTACATGGGCGTGTCCCTATGTCT
1 ACACGGGCATGTCCAAAAGGCTACACGAGCGTGTCCCTATGTCT
92546220 ACACGGGC
1 ACACGGGC
92546228 GTGTGACCCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 10 0.23
43 5 0.12
44 28 0.65
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (44 bp):
ACACGGGCATGTCCAAAAGGCTACACGAGCGTGTCCCTATGTCT
Found at i:92546185 original size:22 final size:22
Alignment explanation
Indices: 92546154--92546231 Score: 138
Period size: 22 Copynumber: 3.5 Consensus size: 22
92546144 GCCAAAAGGC
*
92546154 ACACGAGCGTGTCCCTATGTCT
1 ACACGGGCGTGTCCCTATGTCT
92546176 ACACGGGCGTGTCCCTATGTCT
1 ACACGGGCGTGTCCCTATGTCT
*
92546198 ACATGGGCGTGTCCCTATGTCT
1 ACACGGGCGTGTCCCTATGTCT
92546220 ACACGGGCGTGT
1 ACACGGGCGTGT
92546232 GACCCTATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.15, C:0.29, G:0.28, T:0.27
Consensus pattern (22 bp):
ACACGGGCGTGTCCCTATGTCT
Found at i:92550452 original size:33 final size:33
Alignment explanation
Indices: 92550410--92550476 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
92550400 GACTGTATTT
92550410 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
1 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
92550443 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
1 TTCATTTCAGCTACACCATTTTGTTATGGTGTG
92550476 T
1 T
92550477 AAGCGGCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (33 bp):
TTCATTTCAGCTACACCATTTTGTTATGGTGTG
Found at i:92553445 original size:19 final size:20
Alignment explanation
Indices: 92553421--92553458 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
92553411 TGCTTAGTGA
92553421 AAAATTTTCT-AAGTTTTGT
1 AAAATTTTCTAAAGTTTTGT
92553440 AAAATTTTCTAAAGTTTTG
1 AAAATTTTCTAAAGTTTTG
92553459 AGTTTAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
AAAATTTTCTAAAGTTTTGT
Found at i:92554023 original size:21 final size:21
Alignment explanation
Indices: 92553993--92554050 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
92553983 AAACAAGGGT
92553993 CACACGCCCGTGTGGGAATGG
1 CACACGCCCGTGTGGGAATGG
*
92554014 CACACACCCGTGTGGGAATGG
1 CACACGCCCGTGTGGGAATGG
92554035 CACACGCCCGTGTGGG
1 CACACGCCCGTGTGGG
92554051 CAAGCCGTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.19, C:0.31, G:0.36, T:0.14
Consensus pattern (21 bp):
CACACGCCCGTGTGGGAATGG
Found at i:92554104 original size:26 final size:26
Alignment explanation
Indices: 92554067--92554120 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
92554057 GTGTGGTCAC
92554067 ACACGCCGGTGTCCCGAACCCGTGTA
1 ACACGCCGGTGTCCCGAACCCGTGTA
*
92554093 ACACGCTC-GTGTCCCGAACTCGTGTA
1 ACACGC-CGGTGTCCCGAACCCGTGTA
92554119 AC
1 AC
92554121 TCTCTGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.20, C:0.37, G:0.24, T:0.19
Consensus pattern (26 bp):
ACACGCCGGTGTCCCGAACCCGTGTA
Found at i:92557608 original size:39 final size:40
Alignment explanation
Indices: 92557549--92557735 Score: 238
Period size: 39 Copynumber: 4.7 Consensus size: 40
92557539 TATTCGGATG
* *
92557549 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** ** * *
92557589 ATTTCCGGGC-AAAACCCGAAGGCAATTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
92557628 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-T
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
92557667 -TGAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 AT-AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
92557707 ATAACCGGG-TCAAGTCCCGAAGGCATTTG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTG
92557736 AGCAAGTAGT
Statistics
Matches: 127, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 68 0.54
40 57 0.45
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:92557660 original size:40 final size:40
Alignment explanation
Indices: 92557553--92557768 Score: 237
Period size: 39 Copynumber: 5.5 Consensus size: 40
92557543 CGGATGATAA
* * * *
92557553 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
** *
92557593 CCGGGC-AAAACCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
*
92557632 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGA-A-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT-ATAT
* *
92557671 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
92557711 CCGGG-TCAAGTCCCGAAGGCATTTGAGCAAG-TAGTTATAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
* *
92557751 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
92557769 TACATGGGTT
Statistics
Matches: 150, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 82 0.55
40 66 0.44
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:92557757 original size:79 final size:79
Alignment explanation
Indices: 92557549--92557768 Score: 245
Period size: 79 Copynumber: 2.8 Consensus size: 79
92557539 TATTCGGATG
* * *
92557549 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTATTTCCGGGC-AAAACCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAG-TTATATCCGGGCTAAATCCCGAAGGC
*
92557612 AATTGTGCGAGTTATT
64 AATTGTGCGAGTTACT
* * * *
92557628 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGC-G-AGTTATTGAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTA-T-ATCCGGGCTAAATCCCGAAGGC
*
92557691 ATTTGTGCGAGTTACT
64 AATTGTGCGAGTTACT
* *
92557707 ATAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGC-AGTAGTTATATCCGGGCTAAATCCCGAAGG
92557769 TACATGGGTT
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
76 2 0.02
77 3 0.03
78 7 0.06
79 96 0.81
80 3 0.03
81 2 0.02
82 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTATATCCGGGCTAAATCCCGAAGGCAA
TTGTGCGAGTTACT
Found at i:92562370 original size:40 final size:40
Alignment explanation
Indices: 92562263--92562478 Score: 237
Period size: 39 Copynumber: 5.5 Consensus size: 40
92562253 CGGATGATAA
* * * *
92562263 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* * *
92562303 TCGGGCTAA-ACCCGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
*
92562342 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTATTGA-A-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT-ATAT
* *
92562381 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
* *
92562421 CCGGG-TCAAGTCCCGAAGGCATTTGAGCAAG-TAGTTATAT
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTA-TTATAT
* *
92562461 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
92562479 TACATGGGTT
Statistics
Matches: 150, Mismatches: 19, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
38 1 0.01
39 82 0.55
40 66 0.44
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAT
Found at i:92562467 original size:79 final size:78
Alignment explanation
Indices: 92562259--92562478 Score: 234
Period size: 79 Copynumber: 2.8 Consensus size: 78
92562249 TATTCGGATG
* * * *
92562259 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGT-GACTATTTTCGGGCTAAACCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AGTAG-TTATTATCCGGCTAATCCCGAAGGCA
*
92562323 ATTGTGCGAGTTATT
64 ATTGTGCGAGTTACT
* * *
92562338 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGC-G-AGTTATTGAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTATT-ATCC-GGCTAA-TCCCGAAGGC
*
92562401 ATTTGTGCGAGTTACT
63 AATTGTGCGAGTTACT
* *
92562417 ATAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAGTTA-TATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGC-AGTAGTTATTATCCGGCT-AATCCCGAAGG
92562479 TACATGGGTT
Statistics
Matches: 118, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
76 4 0.03
77 3 0.03
78 7 0.06
79 92 0.78
80 5 0.04
81 2 0.02
82 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAGTAGTTATTATCCGGCTAATCCCGAAGGCAAT
TGTGCGAGTTACT
Found at i:92566757 original size:32 final size:32
Alignment explanation
Indices: 92566721--92566832 Score: 117
Period size: 32 Copynumber: 3.6 Consensus size: 32
92566711 TTATTGTTAT
92566721 TCAATAACAATCAGTTATTTAGTATCAAACAA
1 TCAATAACAATCAGTTATTTAGTATCAAACAA
* * *
92566753 TCAATAACAATCTGTTATTCAG--TC-CACTAA
1 TCAATAACAATCAGTTATTTAGTATCAAAC-AA
* *
92566783 TACAGT--CATTCAGTTATTTAGTATCAAACAA
1 T-CAATAACAATCAGTTATTTAGTATCAAACAA
*
92566814 TCAATAACAATCAATTATT
1 TCAATAACAATCAGTTATT
92566833 CAGTCCAGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
29 14 0.23
30 8 0.13
31 8 0.13
32 32 0.52
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (32 bp):
TCAATAACAATCAGTTATTTAGTATCAAACAA
Found at i:92566799 original size:61 final size:61
Alignment explanation
Indices: 92566731--92566982 Score: 380
Period size: 61 Copynumber: 4.1 Consensus size: 61
92566721 TCAATAACAA
** *
92566731 TCAGTTATTTAGTATCAAACAATCAATAACAATCTGTTATTCAGTCCACTAATACAGTCAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
*
92566792 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAGTACAGTCAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
* * * *
92566853 TCAATTATTTAGTATCAAGCAATCAATAACAATAAATTATTCAGTCCGGTAATACAGTCAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
* * * *
92566914 TCAGTTATTCAGTATCAAACAATCAATAACAATCAATTATTC-GTCTAGTAATACAATTAT
1 TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
*
92566974 TTAGTTATT
1 TCAGTTATT
92566983 CAGTGCAATG
Statistics
Matches: 173, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 22 0.13
61 151 0.87
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (61 bp):
TCAGTTATTTAGTATCAAACAATCAATAACAATCAATTATTCAGTCCAGTAATACAGTCAT
Found at i:92570837 original size:79 final size:80
Alignment explanation
Indices: 92570752--92570975 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
92570742 GCTACTCGTT
* *
92570752 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
92570817 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* *
92570832 C-AATGCCTTCGGGACTTAACCCTGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCC-GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
92570894 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * *
92570910 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
92570973 GGA
64 GGA
92570976 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 28 0.22
79 74 0.59
80 23 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:92570848 original size:39 final size:40
Alignment explanation
Indices: 92570752--92570975 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
92570742 GCTACTCGTT
*
92570752 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
92570792 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
92570832 C-AATGCCTTCGGGACTTAACCCTGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
92570871 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
92570910 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
92570951 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
92570976 CATCATTCAA
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 70 0.43
40 78 0.48
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:92578240 original size:40 final size:40
Alignment explanation
Indices: 92578203--92578427 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
92578193 GATACTCGTT
* *
92578203 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
92578243 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
92578283 CAAATGCCTTCGAGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
92578323 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
92578362 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
92578403 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
92578428 CATCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 112 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:92578411 original size:79 final size:80
Alignment explanation
Indices: 92578229--92578427 Score: 244
Period size: 79 Copynumber: 2.5 Consensus size: 80
92578219 ATAGCCCGGT
* * * *
92578229 TATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC
*
92578294 GAGACTTAACTCGGA
66 GAGACTTAACTCGAA
* * *
92578309 TTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC
1 TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC
*
92578373 G-GATCTT-AGTCCGAA
66 GAGA-CTTAACT-CGAA
* *
92578388 TATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
92578428 CATCATTCAA
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
78 4 0.04
79 55 0.53
80 45 0.43
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC
GAGACTTAACTCGAA
Found at i:92578411 original size:119 final size:120
Alignment explanation
Indices: 92578203--92578420 Score: 273
Period size: 119 Copynumber: 1.8 Consensus size: 120
92578193 GATACTCGTT
* * *
92578203 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
* *
92578268 ATTTAGTAACTCGCACAAATGCCTTCGAGACTTAACTCGGATTTAGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGAGACTTAACTCGGATTTAGTAACTCGCA
* * **
92578323 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
92578385 GAATATGGTCACTTAGCACAAA-GCCTTCGGGACTTA
64 GAATATAGTAAC-TAGCACAAATGCCTTCGAGACTTA
92578421 GCCCGGACAT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
118 4 0.05
119 57 0.69
120 22 0.27
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGCACAAATGCCTTCGAGACTTAACTCGGATTTAGTAACTCGCA
Found at i:92584917 original size:17 final size:18
Alignment explanation
Indices: 92584864--92584989 Score: 157
Period size: 19 Copynumber: 6.9 Consensus size: 18
92584854 AATCATATCT
*
92584864 TCTAAGATTGTATATCATA
1 TCTAAGATTG-CTATCATA
*
92584883 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
92584901 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
92584918 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
*
92584936 TTTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
*
92584953 TCTAAGATTGCATATCACA
1 TCTAAGATTGC-TATCATA
*
92584972 TCTAAGGTTGCATATCAT
1 TCTAAGATTGC-TATCAT
92584990 TGAAGATTAT
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 32 0.34
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:92584922 original size:35 final size:35
Alignment explanation
Indices: 92584864--92584977 Score: 183
Period size: 35 Copynumber: 3.2 Consensus size: 35
92584854 AATCATATCT
92584864 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
92584901 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
92584936 TTTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
92584972 TCTAAG
1 TCTAAG
92584978 GTTGCATATC
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
35 53 0.73
36 10 0.14
37 10 0.14
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:92585839 original size:207 final size:207
Alignment explanation
Indices: 92585382--92586381 Score: 1662
Period size: 207 Copynumber: 4.8 Consensus size: 207
92585372 AAATTTGCTT
* * * * *
92585382 CTTCAATTTGTTCCCTGACAATACAGAGATGCCAAATCTTCTTAGATTTGCTTCAGCGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
* * * *
92585447 GCGAAAGCCAAATCAGCTATGTCTTTGATTT-TCTCCTTGTAAGCAGAAGGATACCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGT-TCCTTGTAAGCACAAGGATGCCAAACCATCT
* * ** * *
92585511 TGGATC-TGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCGAATA
130 TGGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATA
*
92585575 TAGAGACGCCAAA
195 TGGAGACGCCAAA
* *
92585588 CTTTGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
92585653 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
92585718 GGATCTTGTTTCAGTATAAACATCTAAAGGTCAGATCTGCTATGTGTCCGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
92585783 GGAGACGTCAAA
196 GGAGACGCCAAA
*
92585795 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
92585860 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
92585925 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATTTGCTATGTGTCTACCCTCCATCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
92585990 GGAGATGCCAAA
196 GGAGACGCCAAA
*
92586002 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAATGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
*
92586067 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAATGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* *
92586132 GGATCTTGCTTCAGTAGAAACATCTGAAGGCCAGATCTGCTATGTGTTTGCCCTCCGTCGAATAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
*
92586197 GGAGATGCCAAA
196 GGAGACGCCAAA
92586209 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
92586274 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
92586339 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTTCTAT
131 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTAT
92586382 ACTTTAACCT
Statistics
Matches: 745, Mismatches: 47, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
206 122 0.16
207 623 0.84
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (207 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATAT
GGAGACGCCAAA
Found at i:92586528 original size:82 final size:79
Alignment explanation
Indices: 92586387--92586584 Score: 197
Period size: 82 Copynumber: 2.4 Consensus size: 79
92586377 TCTATACTTT
* *
92586387 AACCTGTTACCCTACTGCTTAGGTGG-TTAAGGCGAGTCATCATTGATCTGCTCCGCTACTGCTT
1 AACCTGTTACCCTACTGCTTAGG-GGATTAAGGCGAGTCAT-ATCGATCTGCT-C-C-ACTACTT
*
92586451 AGGGAGATAAAATCTG-TG
61 AAGGAGATAAAATCTGATG
*
92586469 AACCTGTTACCCTACTACTTAGGGGATTAAGGCGAGTC-T-TCGATCTGCTCCACTACTACTTAA
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATATCGATCTGCT-C-C-ACTACTTAA
* *
92586532 GGAGATAAGATCTGCAAATTT
63 GGAGATAAAATCTG---A-TG
*
92586553 AACCTGTTACCCTACTGCTTAGGCGATTAAGG
1 AACCTGTTACCCTACTGCTTAGGGGATTAAGG
92586585 AGCTGAATTT
Statistics
Matches: 101, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
79 33 0.33
81 3 0.03
82 34 0.34
84 31 0.31
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (79 bp):
AACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCATATCGATCTGCTCCACTACTTAAGGA
GATAAAATCTGATG
Found at i:92587547 original size:8 final size:8
Alignment explanation
Indices: 92587534--92587567 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
92587524 GGTCTCTCTA
92587534 TTTTTCTT
1 TTTTTCTT
92587542 TTTTTCTT
1 TTTTTCTT
92587550 TTTTTCTCT
1 TTTTTCT-T
92587559 TTTTTCTT
1 TTTTTCTT
92587567 T
1 T
92587568 ATCTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTTCTT
Found at i:92587596 original size:23 final size:21
Alignment explanation
Indices: 92587540--92587597 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 21
92587530 TCTATTTTTC
92587540 TTTTTTTCTTTTTTTCTCTTT
1 TTTTTTTCTTTTTTTCTCTTT
92587561 TTTCTTTATCTTTTTATTCTCTTT
1 TTT-TTT-TCTTTTT-TTCTCTTT
92587585 TTTTTTTGCTTTT
1 TTTTTTT-CTTTT
92587598 GAAATAGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.09
22 4 0.12
23 15 0.45
24 11 0.33
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (21 bp):
TTTTTTTCTTTTTTTCTCTTT
Found at i:92601924 original size:46 final size:48
Alignment explanation
Indices: 92601852--92601954 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
92601842 GGGTTGACAG
* * * *
92601852 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
92601898 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
92601946 GACAGGAAT
1 GACAGGAAT
92601955 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:92606251 original size:46 final size:48
Alignment explanation
Indices: 92606179--92606281 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
92606169 GGGTTGACAG
* * * *
92606179 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
92606225 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
92606273 GACAGGAAT
1 GACAGGAAT
92606282 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:92611949 original size:16 final size:16
Alignment explanation
Indices: 92611930--92611962 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
92611920 CAGAAAATCA
92611930 CGAAATGCCAAAAAGC
1 CGAAATGCCAAAAAGC
*
92611946 CGAAATGCCTAAAAGC
1 CGAAATGCCAAAAAGC
92611962 C
1 C
92611963 AGAAGTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (16 bp):
CGAAATGCCAAAAAGC
Found at i:92612237 original size:29 final size:28
Alignment explanation
Indices: 92612179--92612272 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
92612169 ATTGCATGAC
** *
92612179 TATGAATGTGATTGCACCTAATGGGTCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
92612207 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGA-TTGGGCCTAATGGGCCA
* * *
92612236 TATGAAAGAGATTGGGCCTAGTGGGCCA
1 TATGAATGTGATTGGGCCTAATGGGCCA
*
92612264 TATGCATGT
1 TATGAATGT
92612273 ATAACGACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 33 0.59
29 23 0.41
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTGGGCCTAATGGGCCA
Found at i:92612354 original size:4 final size:4
Alignment explanation
Indices: 92612345--92612369 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
92612335 GGCATAAAAC
92612345 TTAA TTAA TTAA TTAA TTAA TTAA T
1 TTAA TTAA TTAA TTAA TTAA TTAA T
92612370 CACGATCGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:92616532 original size:16 final size:16
Alignment explanation
Indices: 92616511--92616541 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92616501 TAGCAAATCG
92616511 CGAAATGCCAAAAAGT
1 CGAAATGCCAAAAAGT
*
92616527 CGAAATGCCGAAAAG
1 CGAAATGCCAAAAAG
92616542 CCGGAAGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.23, T:0.10
Consensus pattern (16 bp):
CGAAATGCCAAAAAGT
Found at i:92616812 original size:29 final size:28
Alignment explanation
Indices: 92616765--92616854 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
92616755 CATGACTATA
** *
92616765 AATGTGATTGGGCAAAATGGGCGATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
*
92616793 AATGTGATTTGGGCCTAATGGGCTATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATG
* *
92616822 AAAGAGATTGGGCCTAATGGGCCATATG
1 AATGTGATTGGGCCTAATGGGCCATATG
*
92616850 CATGT
1 AATGT
92616855 ATGTAGACTT
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 29 0.56
29 23 0.44
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATG
Found at i:92616841 original size:28 final size:28
Alignment explanation
Indices: 92616770--92616849 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 28
92616760 CTATAAATGT
** * * *
92616770 GATTGGGCAAAATGGGCGATATGAATGT
1 GATTGGGCCTAATGGGCCATATGAAAGA
*
92616798 GATTTGGGCCTAATGGGCTATATGAAAGA
1 GA-TTGGGCCTAATGGGCCATATGAAAGA
92616827 GATTGGGCCTAATGGGCCATATG
1 GATTGGGCCTAATGGGCCATATG
92616850 CATGTATGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.29, C:0.11, G:0.34, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATGAAAGA
Found at i:92629314 original size:44 final size:43
Alignment explanation
Indices: 92629243--92629325 Score: 112
Period size: 44 Copynumber: 1.9 Consensus size: 43
92629233 GATTCTAATA
* *
92629243 TGTGTTTTCGTGTAAGACCACATCTGGGACGTTGGCATCAATT
1 TGTGTTTACGTGTAAGACCACATCTGGGACATTGGCATCAATT
** *
92629286 TGTGATTTACGTGTAAGACCATGTCTGGGACATTGTCATC
1 TGTG-TTTACGTGTAAGACCACATCTGGGACATTGGCATC
92629326 GTATTCGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 4 0.12
44 30 0.88
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTGTTTACGTGTAAGACCACATCTGGGACATTGGCATCAATT
Found at i:92633188 original size:23 final size:21
Alignment explanation
Indices: 92633152--92633204 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 21
92633142 GTGTAAGCTG
92633152 ATAATAATATACAAATGTAATA
1 ATAATAATATACAAATGTAA-A
*
92633174 ATAATATATATACAATTGTAAA
1 ATAATA-ATATACAAATGTAAA
92633196 ATAAATAAT
1 AT-AATAAT
92633205 TAATTACTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 11 0.39
23 17 0.61
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (21 bp):
ATAATAATATACAAATGTAAA
Found at i:92633755 original size:18 final size:17
Alignment explanation
Indices: 92633693--92633853 Score: 223
Period size: 18 Copynumber: 9.1 Consensus size: 17
92633683 CTTCAATGAT
*
92633693 ATGCAATCTTAGATGTG
1 ATGCAATCTTAGATATG
*
92633710 ATATGCAATCTTTGATATG
1 --ATGCAATCTTAGATATG
*
92633729 ATACAATCTTAGATATG
1 ATGCAATCTTAGATATG
92633746 ATGGCAATCTTAGATATG
1 AT-GCAATCTTAGATATG
92633764 ATAGCAATCTTAGATATG
1 AT-GCAATCTTAGATATG
*
92633782 ATACAATCTTAGATATG
1 ATGCAATCTTAGATATG
92633799 ATTGCAATCTTAGATATG
1 A-TGCAATCTTAGATATG
*
92633817 ATACAATCTTAGATATG
1 ATGCAATCTTAGATATG
92633834 ATTGCAATCTTAGATATG
1 A-TGCAATCTTAGATATG
92633852 AT
1 AT
92633854 ATACAATCTT
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
17 49 0.38
18 65 0.50
19 15 0.12
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.37
Consensus pattern (17 bp):
ATGCAATCTTAGATATG
Found at i:92633762 original size:35 final size:35
Alignment explanation
Indices: 92633696--92633866 Score: 229
Period size: 35 Copynumber: 4.8 Consensus size: 35
92633686 CAATGATATG
* *
92633696 CAATCTTAGATGTGATATGCAATCTTTGATATGA-TA
1 CAATCTTAGATATGATA--CAATCTTAGATATGATTA
*
92633732 CAATCTTAGATATGATGGCAATCTTAGATATGA-TA
1 CAATCTTAGATATGAT-ACAATCTTAGATATGATTA
*
92633767 GCAATCTTAGATATGATACAATCTTAGATATGATTG
1 -CAATCTTAGATATGATACAATCTTAGATATGATTA
*
92633803 CAATCTTAGATATGATACAATCTTAGATATGATTG
1 CAATCTTAGATATGATACAATCTTAGATATGATTA
92633838 CAATCTTAGATATGATATACAATCTTAGA
1 CAATCTTAGATATG--ATACAATCTTAGA
92633867 AGATATGATT
Statistics
Matches: 125, Mismatches: 5, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
35 80 0.64
36 32 0.26
37 13 0.10
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (35 bp):
CAATCTTAGATATGATACAATCTTAGATATGATTA
Found at i:92633780 original size:53 final size:53
Alignment explanation
Indices: 92633695--92633853 Score: 257
Period size: 53 Copynumber: 3.0 Consensus size: 53
92633685 TCAATGATAT
* *
92633695 GCAATCTTAGATGTGATATGCAATCTTTGATATGATACAATCTTAGATATGATG
1 GCAATCTTAGATATGATA-GCAATCTTAGATATGATACAATCTTAGATATGATG
*
92633749 GCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATT
1 GCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATG
*
92633802 GCAATCTTAGATATGATA-CAATCTTAGATATGATTGCAATCTTAGATATGAT
1 GCAATCTTAGATATGATAGCAATCTTAGATATGA-TACAATCTTAGATATGAT
92633854 ATACAATCTT
Statistics
Matches: 100, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
52 15 0.15
53 68 0.68
54 17 0.17
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (53 bp):
GCAATCTTAGATATGATAGCAATCTTAGATATGATACAATCTTAGATATGATG
Found at i:92634206 original size:25 final size:26
Alignment explanation
Indices: 92634159--92634207 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
92634149 TCTCTCCTTG
** *
92634159 ATTTTTTTAATTCTCTTTTATATTTT
1 ATTTTTTTAATAATCTTTAATATTTT
92634185 ATTTTTTTAATAAT-TTTAATATT
1 ATTTTTTTAATAATCTTTAATATT
92634208 ATATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (26 bp):
ATTTTTTTAATAATCTTTAATATTTT
Found at i:92638973 original size:40 final size:40
Alignment explanation
Indices: 92638918--92639183 Score: 462
Period size: 40 Copynumber: 6.7 Consensus size: 40
92638908 AGCATTGGAT
92638918 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
92638958 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
92638998 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
92639038 TGTATCCGGGCTAAGACCCGAAGGCAACTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
** *
92639078 TATATCCGGGCTGTGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
92639118 TATATCCGGGCTAAGACCC-AAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
92639157 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
92639184 ATGTGTTTGT
Statistics
Matches: 213, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
39 36 0.17
40 177 0.83
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:92646483 original size:39 final size:39
Alignment explanation
Indices: 92646406--92646663 Score: 377
Period size: 39 Copynumber: 6.7 Consensus size: 39
92646396 CATAGCATTG
92646406 GATATATCCGGGCTAAGACCGAA-GCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTT
92646444 GATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTT
1 GATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTT
92646483 GATATATCCGGGCTAAGACCCGAA-GCAATTATGCGAGTT
1 GATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGTT
* *
92646522 GATGTATCCGGGCTAAGACCGAAGGCAACTA-GCGAG-T
1 GATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTT
** *
92646559 GATATAT-CGGGCTGTGACCGAAGGCAATTATGCGAGAT
1 GATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTT
92646597 GATATATCCGGGCTAAGACCCGAAGGCAA-TATGCGAGTT
1 GATATATCCGGGCTAAGA-CCGAAGGCAATTATGCGAGTT
* *
92646636 GATATGT-CGGGTTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGA-CCGAAGGCAA
92646664 ATGTGTTTGT
Statistics
Matches: 202, Mismatches: 11, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
36 20 0.10
37 12 0.06
38 61 0.30
39 94 0.47
40 15 0.07
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (39 bp):
GATATATCCGGGCTAAGACCGAAGGCAATTATGCGAGTT
Found at i:92646612 original size:114 final size:117
Alignment explanation
Indices: 92646406--92646663 Score: 393
Period size: 114 Copynumber: 2.2 Consensus size: 117
92646396 CATAGCATTG
*
92646406 GATATATCCGGGCTAAGACCGAA-GCAATTATGCGAGTTGATATATCCGGGCTAAGACCGAAGGC
1 GATATATCCGGGCTAAGACCGAAGGCAACTATGCGAGTTGATATATCCGGGCTAAGACCGAAGGC
*
92646470 AATTATGCGAGTTGATATATCCGGGCTAAGACCCGAA-GCAATTATGCGAGTT
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAA-TATGCGAGTT
* **
92646522 GATGTATCCGGGCTAAGACCGAAGGCAACTA-GCGAG-TGATATAT-CGGGCTGTGACCGAAGGC
1 GATATATCCGGGCTAAGACCGAAGGCAACTATGCGAGTTGATATATCCGGGCTAAGACCGAAGGC
92646584 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATATGCGAGTT
66 AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATATGCGAGTT
* *
92646636 GATATGT-CGGGTTAAGACCCGAAGGCAA
1 GATATATCCGGGCTAAGA-CCGAAGGCAA
92646664 ATGTGTTTGT
Statistics
Matches: 131, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
113 9 0.07
114 77 0.59
115 12 0.09
116 27 0.21
117 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (117 bp):
GATATATCCGGGCTAAGACCGAAGGCAACTATGCGAGTTGATATATCCGGGCTAAGACCGAAGGC
AATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATATGCGAGTT
Found at i:92669150 original size:30 final size:30
Alignment explanation
Indices: 92669114--92669171 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
92669104 CAAGGGCTGG
* *
92669114 CACATGGATATGTGCCCAGCCCGTGTGGGT
1 CACATGGACATGTGCCCAGCCCATGTGGGT
* *
92669144 CACATGGGCATGTTCCCAGCCCATGTGG
1 CACATGGACATGTGCCCAGCCCATGTGG
92669172 CTCATAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.22
Consensus pattern (30 bp):
CACATGGACATGTGCCCAGCCCATGTGGGT
Found at i:92671794 original size:30 final size:30
Alignment explanation
Indices: 92671754--92671810 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
92671744 CATGGGCTGG
* *
92671754 CACATAGGCATGTGTCTAGCTTGTGTGAGT
1 CACATAGGCATGTGCCTAGCCTGTGTGAGT
*
92671784 CACATGGGCATGTGCCTAGCCTGTGTG
1 CACATAGGCATGTGCCTAGCCTGTGTG
92671811 GCTCCTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.30
Consensus pattern (30 bp):
CACATAGGCATGTGCCTAGCCTGTGTGAGT
Found at i:92672751 original size:38 final size:38
Alignment explanation
Indices: 92672709--92672785 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
92672699 TGATGGTACA
*
92672709 TCGGGTCGATCGCCCAAGAAGAGGAGTGATAGTCATAG
1 TCGGGTCGACCGCCCAAGAAGAGGAGTGATAGTCATAG
* *
92672747 TCGGGTCGACCGCCCAAGAGGAGGTGTGATAGTCATAG
1 TCGGGTCGACCGCCCAAGAAGAGGAGTGATAGTCATAG
92672785 T
1 T
92672786 TCCGGTAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.19
Consensus pattern (38 bp):
TCGGGTCGACCGCCCAAGAAGAGGAGTGATAGTCATAG
Found at i:92687370 original size:21 final size:21
Alignment explanation
Indices: 92687346--92687386 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92687336 ATATAAGTAC
*
92687346 AATAACAATAATGGTAATAAA
1 AATAAAAATAATGGTAATAAA
*
92687367 AATAAAAATAATTGTAATAA
1 AATAAAAATAATGGTAATAA
92687387 TAGCACGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (21 bp):
AATAAAAATAATGGTAATAAA
Found at i:92687512 original size:35 final size:34
Alignment explanation
Indices: 92687446--92687513 Score: 82
Period size: 35 Copynumber: 2.0 Consensus size: 34
92687436 ACATGATAGT
* **
92687446 AAAATAATAATAGTAATAATGTTAATAAAGATAC
1 AAAATAATAATAGTAAAAATGCCAATAAAGATAC
* *
92687480 AAAATGATAATAAGTAAAAATGCCAATGAAGATA
1 AAAATAATAAT-AGTAAAAATGCCAATAAAGATA
92687514 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.25
Consensus pattern (34 bp):
AAAATAATAATAGTAAAAATGCCAATAAAGATAC
Found at i:92687597 original size:12 final size:12
Alignment explanation
Indices: 92687553--92687600 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
92687543 TGTTCATGCG
*
92687553 TAAATATAAAGA
1 TAAATATAAACA
**
92687565 TAGGTATAATACA
1 TAAATATAA-ACA
92687578 TAAAATATAAACA
1 T-AAATATAAACA
92687591 TAAATATAAA
1 TAAATATAAA
92687601 GAGAGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 16 0.55
13 7 0.24
14 6 0.21
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.27
Consensus pattern (12 bp):
TAAATATAAACA
Found at i:92688128 original size:12 final size:12
Alignment explanation
Indices: 92688111--92688146 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
92688101 AAAGGTACGC
92688111 TTTTTTATATAT
1 TTTTTTATATAT
*
92688123 TTTTTTAAATAT
1 TTTTTTATATAT
92688135 TTTTTTGATATA
1 TTTTTT-ATATA
92688147 ATCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TTTTTTATATAT
Found at i:92693525 original size:37 final size:37
Alignment explanation
Indices: 92693466--92693574 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
92693456 AGCTCAGACG
** * *
92693466 AAATCTCCACACAAAGTTATCGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
92693503 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
92693540 TAATCTCCACACGTAGTCATCCGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
92693575 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:92693775 original size:48 final size:48
Alignment explanation
Indices: 92693721--92694149 Score: 657
Period size: 48 Copynumber: 8.8 Consensus size: 48
92693711 GCACATCGCC
92693721 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
92693769 TACATATTTCACACTAGCCATTCGGCTTTACCATATATACATATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
92693819 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
92693867 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
92693915 TATGTATATTTCACA-TTGACCATTCGGCTTTACCACATATACATATCTCA
1 TA--CATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
92693965 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
92694013 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACACATCTCATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
92694063 TATATATTTCACA-TTGACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACACTAG-CCATTCGGCTTTACCACATATACATATCTCA
* *
92694111 TACATATTTCACATTAGCCATTCTGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
92694150 TGCATGTTCA
Statistics
Matches: 350, Mismatches: 19, Indels: 24
0.89 0.05 0.06
Matches are distributed among these distances:
48 212 0.61
49 12 0.03
50 126 0.36
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:92693874 original size:98 final size:96
Alignment explanation
Indices: 92693721--92694149 Score: 666
Period size: 98 Copynumber: 4.4 Consensus size: 96
92693711 GCACATCGCC
*
92693721 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
*
92693786 CCATTCGGCTTTACCATATATACATATCTCATA
66 CCATTCGGCTTTACCACATATACATATCTC--A
*
92693819 TATATATTTCACATT-GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTA
92693883 GCCATTCGGCTTTACCACATATACATATCTCA
65 GCCATTCGGCTTTACCACATATACATATCTCA
*
92693915 TATGTATATTTCACATT-GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TA--CATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
92693979 TAGCCATTCGGCTTTACCACATATACATATCTCA
63 TAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
92694013 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACACATCTCATATATATATTTCACA-T
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACACT
* *
92694077 TGACCATTCGGCTTTACCACATATGCATATCTCA
64 AG-CCATTCGGCTTTACCACATATACATATCTCA
*
92694111 TACATATTTCACATTAGCCATTCTGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
92694150 TGCATGTTCA
Statistics
Matches: 313, Mismatches: 11, Indels: 14
0.93 0.03 0.04
Matches are distributed among these distances:
96 43 0.14
97 4 0.01
98 266 0.85
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:92693901 original size:146 final size:144
Alignment explanation
Indices: 92693721--92694149 Score: 700
Period size: 146 Copynumber: 2.9 Consensus size: 144
92693711 GCACATCGCC
* *
92693721 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACT-A
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTGA
* *
92693785 GCCATTCGGCTTTACCATATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTTA
66 -CCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAG-CCATTCGGCTTTA
92693849 CCACATATACATATCTCA
127 CCACATATACATATCTCA
92693867 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATGTATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA--TATATTTCACATT
*
92693932 GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACC
64 GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
92693997 ACATATACATATCTCA
129 ACATATACATATCTCA
*
92694013 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACACATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC--ATATATATTTCACATT
* *
92694078 GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCATTCTGCTTTACC
64 GACCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACC
92694143 ACATATA
129 ACATATA
92694150 TGCATGTTCA
Statistics
Matches: 268, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
146 223 0.83
147 1 0.00
148 43 0.16
149 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (144 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTGA
CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
ATATACATATCTCA
Found at i:92694191 original size:22 final size:22
Alignment explanation
Indices: 92694165--92694240 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
92694155 GTTCATATTC
92694165 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
92694187 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
92694211 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
92694234 ATCACAT
1 ATCACAT
92694241 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.29
23 12 0.29
24 12 0.29
25 5 0.12
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.30
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:92694198 original size:47 final size:47
Alignment explanation
Indices: 92694119--92694312 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
92694109 CATACATATT
* * * * *
92694119 TCACATTAGCCATTCTGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
92694166 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
92694213 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
92694260 TCACATTGGCCATTCGGCCTTCTCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
92694307 TCACAT
1 TCACAT
92694313 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:92694240 original size:94 final size:93
Alignment explanation
Indices: 92694071--92694312 Score: 290
Period size: 94 Copynumber: 2.6 Consensus size: 93
92694061 TATATATATT
* * *
92694071 TCACATTGACCATTCGGCTTTA-CCACATATGCATATCTCATACATAT-TTCACATTAGCCATTC
1 TCACATTGGCCATTCGGCCTTATCCACATATGCATA-CTC--ACAT-TCATCACATTAGCCATTC
* * *
92694134 TGCTTTACCACATATATGCATGTTCATATTCA
62 GGCCTTACCACATATATGCATGTTCACATTCA
* *
92694166 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACATTAGCCATTCGGC
*
92694231 CTTATCACATATATGCATGTTCACATTCA
65 CTTACCACATATATGCATGTTCACATTCA
* * * * *
92694260 TCACATTGGCCATTCGGCCTTCTCTCATATATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATC-CACATATGCATACTCACATTCATCACAT
92694313 AAAATCCTAA
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 92 0.72
95 20 0.16
96 4 0.03
97 11 0.09
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (93 bp):
TCACATTGGCCATTCGGCCTTATCCACATATGCATACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCA
Found at i:92694940 original size:21 final size:20
Alignment explanation
Indices: 92694907--92694949 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
92694897 TAAATTGTAT
*
92694907 ATTATAACCATTTTTGTAAAA
1 ATTATAACCA-TTTTCTAAAA
**
92694928 ATTATAATGATTTTCTAAAA
1 ATTATAACCATTTTCTAAAA
92694948 AT
1 AT
92694950 AGAACCGGGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTATAACCATTTTCTAAAA
Found at i:92701272 original size:40 final size:40
Alignment explanation
Indices: 92701182--92701442 Score: 271
Period size: 40 Copynumber: 6.5 Consensus size: 40
92701172 CTCAAGTAAT
* * * *
92701182 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
92701220 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
92701260 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
92701300 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
92701340 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * * *
92701380 CTT-TGGATCTTAGTCTGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
92701421 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
92701443 CATTCGAATA
Statistics
Matches: 184, Mismatches: 31, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
38 11 0.06
39 18 0.10
40 127 0.69
41 25 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:92701314 original size:80 final size:80
Alignment explanation
Indices: 92701182--92701442 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
92701172 CTCAAGTAAT
* * * * * *
92701182 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
92701245 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* * *
92701260 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGTCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
92701324 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * * * *
92701340 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTTGGATCTTAGTCTGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
92701405 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
92701421 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
92701443 CATTCGAATA
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 93 0.60
81 33 0.21
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:92701392 original size:120 final size:120
Alignment explanation
Indices: 92701181--92701442 Score: 304
Period size: 120 Copynumber: 2.2 Consensus size: 120
92701171 ACTCAAGTAA
* *
92701181 TCTTCGGGAT-TTAG-CCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCGGATATGG
1 TCTTCGGG-TCTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAG
* *
92701244 TCACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATG
65 TCACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAG
* *
92701299 TCTTCGGGTCTTAGCCCGGATATAA-TCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 TCTTCGGGTCTTAGCCCGGATATAACT-ACTAGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATA
* * * * *
92701363 G-CAACTCGCAC-GAATGCCTT-TGGATCTTAGTCTGGTTATAGTCACCTAGCACAAAAG
64 GTC-ACTAGCACAG-ATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCACAAAAG
* *
92701420 CCTTCGGGACTTAGCCCGGATAT
1 TCTTCGGGTCTTAGCCCGGATAT
92701443 CATTCGAATA
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
117 1 0.01
118 13 0.11
119 21 0.17
120 56 0.46
121 32 0.26
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (120 bp):
TCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAGATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAG
Found at i:92702136 original size:38 final size:38
Alignment explanation
Indices: 92702037--92702160 Score: 223
Period size: 38 Copynumber: 3.3 Consensus size: 38
92702027 TGCTTACCTA
92702037 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
92702075 TGGCCGAACA-ACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
*
92702112 TGGCCGAACATACACATCAACTTATGTACTCATTCATA
1 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
*
92702150 TCGCCGAACAT
1 TGGCCGAACAT
92702161 GCATGTCTAT
Statistics
Matches: 83, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
37 37 0.45
38 46 0.55
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.27
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACTCATTCATG
Found at i:92707832 original size:761 final size:761
Alignment explanation
Indices: 92706370--92707833 Score: 2421
Period size: 761 Copynumber: 1.9 Consensus size: 761
92706360 CAAACCAAGA
92706370 ATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCACCGGAAAACAGGAACCTCGAATTAC
1 ATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCACCGGAAAACAGGAACCTCGAATTAC
* *
92706435 TAGGGGACATTTCTTACACACTTTGTCGACAAGCACGTAACGACCCAAGGGATTTGACACCTGAA
66 TAGGGGACATTTCTTACACACTTTGTCGACAAGAACGTAACGACCCAAGGGATTTGACACCCGAA
* *
92706500 TTACGAACTCAGTAGACTCAATAGGTAAAGTCTTATTGGATGCTAAGGTTTCACATATGTAAGAA
131 TTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATATAAGAA
* * *
92706565 TGAGTAGAACCGGGGTCAATCAAAGCAATTACATTAGTATCAAAGAGAGTAAAAGTACCGGTAAT
196 TGAGTAGAACCGGGGTCAATCAAAGCAATCACATTAGAATCAAAGAGAGTAAAAGTACCAGTAAT
*
92706630 AACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAAGCGCACGAGCCT
261 AACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAAGAGCACGAGCCT
* *
92706695 CGGATCTGGTCGTAGCATCTCTAGATCCTCTCTGACCACCGCTAGCATTGCCCGTATTTCCAGAT
326 CAGATCTGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCCAGAT
*
92706760 GGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTACATTCTGTTCAGACAACCT
391 GGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTACATTCTATTCAGACAACCT
* * *
92706825 CGGGCAATCTTTAATGAAGTGGTCAACTGATCCGCACTTGTAACAGGAGCGGTCAGGGAATCTAC
456 CGGGCAATCTTTAATAAAGTGGTCAACTGACCCGCACTTGTAACAGGAGCGGTCAGGGAATATAC
* * * * ** * * *
92706890 AACTCCCTGAATGCCATTTATCGCAATATCGACATTTTGTTCTGTCTCGACGTTCATTCCCAACA
521 AACTCCCCGAATGCCATTTACCACAATATCGACACTCCGCTCTATCTCGACGATCATTCCCAACA
* * *
92706955 CTGGCGACCGAAGTGCCTCGTGTACCCACAGGAGGTTGATCACGATCTCGTCTAAAAAGGCCCGA
586 CTGGCGACCGAAGTGACTCGTGCACCCACAGGAGGTCGATCACGATCTCGTCTAAAAAGGCCCGA
* *
92707020 AGTGCCTCTAGACCGGCCCACATCATCTCGAAATTTCTTCGATGCCTGTTGAAGAGACTTTCCCG
651 AGTGCCTCTAGACCGGCCCAAATCATCTCGAAATTTCTTCGATGACTGTTGAAGAGACTTTCCCG
92707085 AGGATCTTTTACGAAACTCTCCAGTTCCCACATCAACTTTTTGTGG
716 AGGATCTTTTACGAAACTCTCCAGTTCCCACATCAACTTTTTGTGG
* *
92707131 ATAACATCAAATTCATCAAACGGCAAAAGTATCAAGTCCGCCGGAAAACAGGAACCTCGAATTAC
1 ATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCACCGGAAAACAGGAACCTCGAATTAC
92707196 TAGGGGACATTTCTTACACACTTTGTCGACAAGAACGTAACGACCCAAGGGATTTGACACCCGAA
66 TAGGGGACATTTCTTACACACTTTGTCGACAAGAACGTAACGACCCAAGGGATTTGACACCCGAA
92707261 TTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATATAAGAA
131 TTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATATAAGAA
*
92707326 TGAGTGGAACCGGGGTCAATCAAAGCAATCACATTAGAATCAAAGAGAGTAAAAGTACCAGTAAT
196 TGAGTAGAACCGGGGTCAATCAAAGCAATCACATTAGAATCAAAGAGAGTAAAAGTACCAGTAAT
* * * * * *
92707391 AACGTCTGGCGAGGAAGCATCCTCGCGTGCGCGTATAGCATAAGCTCTAGCAGGAGCACGAGCCT
261 AACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAAGAGCACGAGCCT
* * *
92707456 CAGATCTGGTCGTTGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGTCCGTATTTCTAGAT
326 CAGATCTGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCCAGAT
92707521 GGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTACATTCTATTCAGACAACCT
391 GGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTACATTCTATTCAGACAACCT
*
92707586 CGGGCAATCTTTAATAAAGTGGTCAACTGACCCGCACTTGTAACAGGAGCGGTCATGGAATATAC
456 CGGGCAATCTTTAATAAAGTGGTCAACTGACCCGCACTTGTAACAGGAGCGGTCAGGGAATATAC
*
92707651 AACTCCCCGAATGCCATTTACCACAATA-CTGGCACTCCGCTCTATCTCGACGATCAGTT-CCAA
521 AACTCCCCGAATGCCATTTACCACAATATC-GACACTCCGCTCTATCTCGACGATCA-TTCCCAA
* * * *
92707714 CACTGGCGACCGAAGTGACTCGTGCACTCACAGGGGGTCGATCGCGATCTCGTCTAGGAAA-GCC
584 CACTGGCGACCGAAGTGACTCGTGCACCCACAGGAGGTCGATCACGATCTCGTCTA-AAAAGGCC
** * * *
92707778 CGAAGTGTTTCTAGATCGGCCTAAATCATCTCTAAATTTCTTCGATGACTGTTGAA
648 CGAAGTGCCTCTAGACCGGCCCAAATCATCTCGAAATTTCTTCGATGACTGTTGAA
92707834 AGGGCCTCCA
Statistics
Matches: 649, Mismatches: 51, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
760 1 0.00
761 643 0.99
762 5 0.01
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (761 bp):
ATAACATCAAATTCATCAAACGGCAAAAGCATCAAGTCCACCGGAAAACAGGAACCTCGAATTAC
TAGGGGACATTTCTTACACACTTTGTCGACAAGAACGTAACGACCCAAGGGATTTGACACCCGAA
TTACGAACTCAGTAGACTCAATAGGTAAAGTCTTACTGGATGCTAAGGTTTCACATATATAAGAA
TGAGTAGAACCGGGGTCAATCAAAGCAATCACATTAGAATCAAAGAGAGTAAAAGTACCAGTAAT
AACATCAGGCGAAGAAGCATCCTCGCGGGCACGTATAGCATAAGCTCTAGCAAGAGCACGAGCCT
CAGATCTGGTCGTAGCATCTCTAGATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCCAGAT
GGTCTACCTCGAGCAGTGGTAGCACCCGGTTTCCCACTCTGATTTACATTCTATTCAGACAACCT
CGGGCAATCTTTAATAAAGTGGTCAACTGACCCGCACTTGTAACAGGAGCGGTCAGGGAATATAC
AACTCCCCGAATGCCATTTACCACAATATCGACACTCCGCTCTATCTCGACGATCATTCCCAACA
CTGGCGACCGAAGTGACTCGTGCACCCACAGGAGGTCGATCACGATCTCGTCTAAAAAGGCCCGA
AGTGCCTCTAGACCGGCCCAAATCATCTCGAAATTTCTTCGATGACTGTTGAAGAGACTTTCCCG
AGGATCTTTTACGAAACTCTCCAGTTCCCACATCAACTTTTTGTGG
Found at i:92710228 original size:40 final size:40
Alignment explanation
Indices: 92710138--92710398 Score: 289
Period size: 40 Copynumber: 6.5 Consensus size: 40
92710128 CTCAAGTAAT
* * * *
92710138 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
92710176 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
92710216 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
92710256 CTTCGGGTCTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
92710296 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
92710336 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
92710377 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
92710399 CATTCGAATA
Statistics
Matches: 189, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
38 11 0.06
39 18 0.10
40 131 0.69
41 26 0.14
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:92710269 original size:80 final size:80
Alignment explanation
Indices: 92710138--92710398 Score: 321
Period size: 80 Copynumber: 3.3 Consensus size: 80
92710128 CTCAAGTAAT
* * * * * *
92710138 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
92710201 CACTAGCACAGATGC
66 CACTAGCACAAATGC
* *
92710216 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
*
92710280 TCGCTAGCACAAATGC
65 TCACTAGCACAAATGC
* * * * * *
92710296 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
*
92710361 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
*
92710377 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
92710399 CATTCGAATA
Statistics
Matches: 157, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
78 12 0.08
79 16 0.10
80 97 0.62
81 32 0.20
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:92711045 original size:38 final size:38
Alignment explanation
Indices: 92710994--92711080 Score: 165
Period size: 38 Copynumber: 2.3 Consensus size: 38
92710984 TGCTTACCTA
*
92710994 TGGCCGAACATACACATCAACTTATGTACTCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACCCATTCATG
92711032 TGGCCGAACATACACATCAACTTATGTACCCATTCATG
1 TGGCCGAACATACACATCAACTTATGTACCCATTCATG
92711070 TGGCCGAACAT
1 TGGCCGAACAT
92711081 GCATGTCTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (38 bp):
TGGCCGAACATACACATCAACTTATGTACCCATTCATG
Found at i:92712704 original size:41 final size:42
Alignment explanation
Indices: 92712600--92712724 Score: 123
Period size: 43 Copynumber: 3.0 Consensus size: 42
92712590 ATAATGCCAA
* * *
92712600 TGTCCCAGACATGGTCTTACATGTAATCAAATAGCGATGCTAC
1 TGTCCCATACGTGGTCTTACACGTAATCAAATA-CGATGCTAC
* *
92712643 TGTCCTAGATA-G-GGTATTACACG-AATCAAATACGATGCTGAC
1 TGTCC--CATACGTGGTCTTACACGTAATCAAATACGATGCT-AC
*
92712685 -GTCCCATACGTGGTCTTACACGTAAATCAAATATGATGCT
1 TGTCCCATACGTGGTCTTACACGT-AATCAAATACGATGCT
92712725 TGTAACAACC
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
39 3 0.04
40 1 0.01
41 21 0.31
42 11 0.16
43 29 0.43
45 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (42 bp):
TGTCCCATACGTGGTCTTACACGTAATCAAATACGATGCTAC
Found at i:92717355 original size:13 final size:13
Alignment explanation
Indices: 92717337--92717361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92717327 ACAAACGATT
92717337 AAATTTTCACACG
1 AAATTTTCACACG
92717350 AAATTTTCACAC
1 AAATTTTCACAC
92717362 ATACTAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:92722256 original size:21 final size:21
Alignment explanation
Indices: 92722215--92722258 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
92722205 TATAGCTAAA
*
92722215 CTCACATATACTACATTAGTC
1 CTCACATATACTACATGAGTC
**
92722236 CTCACATATACTATGTGAGTC
1 CTCACATATACTACATGAGTC
92722257 CT
1 CT
92722259 AGAATTGACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (21 bp):
CTCACATATACTACATGAGTC
Found at i:92725346 original size:26 final size:26
Alignment explanation
Indices: 92725317--92725367 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
92725307 GGATCGACAG
92725317 TCTTTATATTCTGGAAGGTTCTACAA
1 TCTTTATATTCTGGAAGGTTCTACAA
92725343 TCTTTATATTCTGGAAGGTTCTACA
1 TCTTTATATTCTGGAAGGTTCTACA
92725368 GTGACCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (26 bp):
TCTTTATATTCTGGAAGGTTCTACAA
Found at i:92730116 original size:22 final size:22
Alignment explanation
Indices: 92730091--92730164 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
92730081 AAATATTAAA
92730091 ATAAATAATATTTATTTTTATG
1 ATAAATAATATTTATTTTTATG
* * *
92730113 ATAATTAA-ATGATATTTAATTATT
1 ATAAATAATAT-TTATTT--TTATG
*
92730137 AT-AATAATATTTATCTTTATG
1 ATAAATAATATTTATTTTTATG
*
92730158 AAAAATA
1 ATAAATA
92730165 TTAAAAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
21 7 0.18
22 16 0.41
23 8 0.21
24 8 0.21
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (22 bp):
ATAAATAATATTTATTTTTATG
Found at i:92730121 original size:26 final size:27
Alignment explanation
Indices: 92730070--92730144 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
92730060 TATGAAATGA
*
92730070 TAAATAA-ATTTAAATA-T-TAA-AA-
1 TAAATAATATTTAATTATTATAATAAT
* *
92730092 TAAATAATATTT-ATTTTTATGATAAT
1 TAAATAATATTTAATTATTATAATAAT
*
92730118 TAAATGATATTTAATTATTATAATAAT
1 TAAATAATATTTAATTATTATAATAAT
92730145 ATTTATCTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
22 9 0.22
23 5 0.12
24 2 0.05
25 2 0.05
26 11 0.27
27 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
TAAATAATATTTAATTATTATAATAAT
Found at i:92734415 original size:40 final size:41
Alignment explanation
Indices: 92734356--92734607 Score: 329
Period size: 40 Copynumber: 6.3 Consensus size: 41
92734346 CATTTGAATG
* *
92734356 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
92734396 TTATCCGGGCCAAGACCCGAAGGCATTTGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
92734436 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
92734476 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
*
92734516 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
92734556 ATATCCGGGCTAAGACCCGAGGGCATTTGTGCTTG-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
92734596 ATATCC-GGCTAA
1 ATATCCGGGCTAA
92734608 ATTCCGAAGA
Statistics
Matches: 186, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
39 10 0.05
40 171 0.92
41 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:92734599 original size:80 final size:80
Alignment explanation
Indices: 92734356--92734607 Score: 373
Period size: 80 Copynumber: 3.2 Consensus size: 80
92734346 CATTTGAATG
* *
92734356 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCCAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
92734421 TTTGTGCGAGTTGTT
66 TTTGTGCGAGTTGTT
* *
92734436 ATACCCGGGATAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
*
92734501 TTTGTGCGAGTTGAT
66 TTTGTGCGAGTTGTT
* * * *
92734516 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TATATCCGGGCTAAGACCCGAGGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
** *
92734580 ATTTGTGCTTGTGGTT
65 ATTTGTGCGAGTTGTT
92734596 ATATCC-GGCTAA
1 ATATCCGGGCTAA
92734608 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 15, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
79 6 0.04
80 147 0.94
81 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGTT
Found at i:92741506 original size:4 final size:4
Alignment explanation
Indices: 92741497--92741549 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
92741487 AAAGTAATAA
*
92741497 AAAT AAAT -AAT AAAT -AAT AAAAT AAAG AAA- ATAA- AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT A-AAT AAAT AAAT AAAT
92741543 AAAT AAA
1 AAAT AAA
92741550 AATTGGGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
3 9 0.21
4 31 0.72
5 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:92741506 original size:31 final size:29
Alignment explanation
Indices: 92741471--92741545 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 29
92741461 ACATGAAAGT
92741471 AATAATAAAAAAGTAAAAAGTAATA-AAAATA
1 AATAATAAAAAA-TAAAAA-TAA-AGAAAATA
*
92741502 AATAATAAATAAT-AAAATAAAGAAAATA
1 AATAATAAAAAATAAAAATAAAGAAAATA
92741530 AA-AATAAATAAATAAA
1 AATAATAAA-AAATAAA
92741546 TAAAAATTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
27 7 0.18
28 14 0.36
29 6 0.15
30 1 0.03
31 11 0.28
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (29 bp):
AATAATAAAAAATAAAAATAAAGAAAATA
Found at i:92741542 original size:23 final size:24
Alignment explanation
Indices: 92741492--92741552 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
92741482 AGTAAAAAGT
92741492 AATAAAAATAAATAATAAATAATAA
1 AATAAAAA-AAATAATAAATAATAA
*
92741517 AATAAAGAAAATAA-AAATAA-ATA
1 AATAAAAAAAATAATAAATAATA-A
92741540 AATAAATAAAAAT
1 AATAAA-AAAAAT
92741553 TGGGTTGCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 1 0.03
23 13 0.41
24 11 0.34
25 7 0.22
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (24 bp):
AATAAAAAAAATAATAAATAATAA
Found at i:92741546 original size:27 final size:28
Alignment explanation
Indices: 92741496--92741549 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
92741486 AAAAGTAATA
92741496 AAAATAAATAATAAATAATAAAATAAAG
1 AAAATAAATAATAAATAATAAAATAAAG
92741524 AAAATAAA-AATAAATAA-ATAAATAAA
1 AAAATAAATAATAAATAATA-AAATAAA
92741550 AATTGGGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 1 0.04
27 16 0.64
28 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAATAAATAATAAATAATAAAATAAAG
Found at i:92741551 original size:24 final size:24
Alignment explanation
Indices: 92741492--92741552 Score: 70
Period size: 27 Copynumber: 2.4 Consensus size: 24
92741482 AGTAAAAAGT
92741492 AATAAAAATAAATAATAAATAATAA
1 AATAAAAATAAA-AATAAATAATAA
92741517 AATAAAGAAAATAAAAATAAATAA-ATA
1 AAT--A-AAAATAAAAATAAATAATA-A
92741544 AATAAAAAT
1 AATAAAAAT
92741553 TGGGTTGCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
24 5 0.16
25 4 0.12
26 1 0.03
27 14 0.44
28 8 0.25
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (24 bp):
AATAAAAATAAAAATAAATAATAA
Found at i:92743890 original size:43 final size:43
Alignment explanation
Indices: 92743842--92743927 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
92743832 TATGTAATTG
*
92743842 ATATTGAAATGGCAAAGATGAGAAATGAGTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAGTATGAGATGAGAAA
* * *
92743885 ATATTGAAATGGAAAATATGGGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAGTATGAGATGAGAAA
92743928 TGAAATATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.49, C:0.01, G:0.27, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATGAGAAATGAGTATGAGATGAGAAA
Found at i:92749969 original size:61 final size:61
Alignment explanation
Indices: 92749873--92750004 Score: 185
Period size: 61 Copynumber: 2.2 Consensus size: 61
92749863 TTCGTCTCCT
* * * **
92749873 GCTTCTATTTCTAGCGGTGGGTTACTCTGAGTTCCTACCGCCACTGACTGCTTTTTCTGTA
1 GCTTCTATTTCTAGCGGTGGGTTACTCTAAATTCCTACCACCACTGACTGCTTTTTCCATA
* * *
92749934 GCTTCTATTTCTGGCGGTGGGTTACTCTAAATTCCTACCACCTCTGACTTCTTTTTCCATA
1 GCTTCTATTTCTAGCGGTGGGTTACTCTAAATTCCTACCACCACTGACTGCTTTTTCCATA
92749995 GCTTC-ATTTC
1 GCTTCTATTTC
92750005 CTTGCAACTA
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
60 5 0.08
61 58 0.92
ACGTcount: A:0.14, C:0.27, G:0.17, T:0.41
Consensus pattern (61 bp):
GCTTCTATTTCTAGCGGTGGGTTACTCTAAATTCCTACCACCACTGACTGCTTTTTCCATA
Found at i:92752910 original size:3 final size:3
Alignment explanation
Indices: 92752902--92752953 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
92752892 TTGCAACTTA
* *
92752902 TTC TTC TTC TTC TTC TTC TTC TTC CTA TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
92752950 TTC T
1 TTC T
92752954 CTGTTAAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:92753814 original size:20 final size:20
Alignment explanation
Indices: 92753789--92753838 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
92753779 TGGCTTAAAA
92753789 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
92753809 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
92753826 GTGGTAGTGGATT
1 TTGGTAGTGGATT
92753839 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:92758452 original size:20 final size:20
Alignment explanation
Indices: 92758427--92758476 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
92758417 TGGCTTAAAA
92758427 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
92758447 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
92758464 GTGGTAGTGGATT
1 TTGGTAGTGGATT
92758477 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:92759536 original size:22 final size:22
Alignment explanation
Indices: 92759508--92759552 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
92759498 AAAATTTATC
92759508 TGTTGCTCTTGAACCCTCGATT
1 TGTTGCTCTTGAACCCTCGATT
92759530 TGTTGCTCTTGAACCCTCGATT
1 TGTTGCTCTTGAACCCTCGATT
92759552 T
1 T
92759553 ACTCATAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.42
Consensus pattern (22 bp):
TGTTGCTCTTGAACCCTCGATT
Found at i:92762406 original size:19 final size:20
Alignment explanation
Indices: 92762379--92762416 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
92762369 AGTAGAAATT
92762379 TTTATTTCTA-GAAAATAAAA
1 TTTATTTCTATG-AAATAAAA
92762399 TTTA-TTCTATGAAATAAA
1 TTTATTTCTATGAAATAAA
92762417 TTTCTACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTATTTCTATGAAATAAAA
Found at i:92762708 original size:45 final size:46
Alignment explanation
Indices: 92762659--92762750 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
92762649 AATTTTCCAA
92762659 TTGAATAATTTTCTCAATCCAA-TCTAATTTCATTCAATGACAACT
1 TTGAATAATTTTCTCAATCCAATTCTAATTTCATTCAATGACAACT
*
92762704 TTGAATAATTTTCTCAATCCAATTCTAATTTCGTTCAATGACAACT
1 TTGAATAATTTTCTCAATCCAATTCTAATTTCATTCAATGACAACT
92762750 T
1 T
92762751 ACCGTAAAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 22 0.49
46 23 0.51
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (46 bp):
TTGAATAATTTTCTCAATCCAATTCTAATTTCATTCAATGACAACT
Found at i:92765083 original size:46 final size:47
Alignment explanation
Indices: 92764933--92765289 Score: 272
Period size: 47 Copynumber: 7.6 Consensus size: 47
92764923 GGTTAAGTGT
*
92764933 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTCATA-G-CTC-AAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCT--TACGCCTCGAAGC
* * *
92764980 CGATGCCATGTCCCAGACATGGTCTTACACTGACTAACACCTC-ATAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACGCCTCGA-AGC
* *
92765028 TGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGCCTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACGCCTCGAAGC
* * * * * * *
92765074 CGATACATGTCCCAAACATGGTCTTACACTGACTAACACCTTGTAGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACGCCTCGAAGC
* * *
92765121 CGATGCATGTCCCAAACAT-GTTTTACACTGGCTTACGCCTCGAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACGCCTCGAAGC
* ** * * *
92765167 TGATTTATGTCCCAGACAT-GTCTTACACTAGCCCT-CGTCTC-AATGC
1 CGATGCATGTCCCAGACATGGTCTTACACT-GGCTTACGCCTCGAA-GC
* * ** **
92765213 TGATGCCATGTCCC-GAACATGGTCTTACACTGACTCTCAC-AAT-GTGGC
1 CGATG-CATGTCCCAG-ACATGGTCTTACACTGGCT-T-ACGCCTCGAAGC
92765261 CGATGCATGTCCCAGACAT-GTCTTACACT
1 CGATGCATGTCCCAGACATGGTCTTACACT
92765290 AGCTCACACA
Statistics
Matches: 251, Mismatches: 44, Indels: 31
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 103 0.41
47 119 0.47
48 25 0.10
49 1 0.00
50 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACGCCTCGAAGC
Found at i:92765099 original size:93 final size:93
Alignment explanation
Indices: 92764933--92765195 Score: 345
Period size: 93 Copynumber: 2.8 Consensus size: 93
92764923 GGTTAAGTGT
* * *
92764933 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTCATA-G-CTC-AAGCCGATGCCATGTCCCA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT--TACGCCTCGAGGCCGAT-ACATGTCCCA
92764995 GACATGGTCTTACACTGACTAACACCTCATAGC
61 GACATGGTCTTACACTGACTAACACCTCATAGC
* *
92765028 TGATGCATGTCCCAGACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAAACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAGACAT
**
92765093 GGTCTTACACTGACTAACACCTTGTAGC
66 GGTCTTACACTGACTAACACCTCATAGC
* * * **
92765121 CGATGCATGTCCCAAACATGTTTTACACTGGCTTACGCCTCGAGGCTGATTTATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAGACAT
92765186 -GTCTTACACT
66 GGTCTTACACT
92765196 AGCCCTCGTC
Statistics
Matches: 151, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
91 2 0.01
92 11 0.07
93 113 0.75
94 21 0.14
95 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (93 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAGACAT
GGTCTTACACTGACTAACACCTCATAGC
Found at i:92765223 original size:93 final size:93
Alignment explanation
Indices: 92764934--92765292 Score: 308
Period size: 93 Copynumber: 3.8 Consensus size: 93
92764924 GTTAAGTGTC
* * * *
92764934 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCATA-G-CTC-AAGCCGATGCCATGTCCCAG
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCT--TACGCCTCGAGGCCGAT-ACATGTCCCAG
*
92764996 ACATGGTCTTACACT-G-ACTAACACCTCATAGCT
61 ACAT-GTCTTACACTAGCACT-ACACCTAATAGCT
* *
92765029 GATGCATGTCCCAGACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAAACATG
1 GATGCATGTCCCAAACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAGACAT-
** *
92765094 GTCTTACACT-G-ACTAACACCTTGTAGCC
65 GTCTTACACTAGCACT-ACACCTAATAGCT
* * **
92765122 GATGCATGTCCCAAACATGTTTTACACTGGCTTACGCCTCGAGGCTGATTTATGTCCCAGACATG
1 GATGCATGTCCCAAACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAGACATG
* **
92765187 TCTTACACTAGCCCT-CGTCTCAAT-GCT
66 TCTTACACTAGCACTACACCT-AATAGCT
* * ** * *
92765214 GATGCCATGTCCCGAACATGGTCTTACACTGACTCTCAC-AAT-GTGGCCGATGCATGTCCCAGA
1 GATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ACGCCTCGAGGCCGATACATGTCCCAGA
92765277 CATGTCTTACACTAGC
62 CATGTCTTACACTAGC
92765293 TCACACAAGT
Statistics
Matches: 226, Mismatches: 28, Indels: 21
0.82 0.10 0.08
Matches are distributed among these distances:
91 2 0.01
92 20 0.09
93 128 0.57
94 68 0.30
95 6 0.03
96 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.26
Consensus pattern (93 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCTTACGCCTCGAGGCCGATACATGTCCCAGACATG
TCTTACACTAGCACTACACCTAATAGCT
Found at i:92765223 original size:140 final size:139
Alignment explanation
Indices: 92764933--92765289 Score: 396
Period size: 140 Copynumber: 2.5 Consensus size: 139
92764923 GGTTAAGTGT
* * * * * **
92764933 CGATGCCATGTCCCAGACATGGTCTTATACTGGCTCATAGCTCAAGCCGATGCCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCACACCTGTAGCCGATG-CATGTCCCAGAC
* *
92764998 ATGGTCTTACACTGACTAACACCTCATAGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTA
65 AT-GTCTTACACTGACTAACACCTCATAGCTGATGCATGTCCCAGACATGTCTTACACTGCCCTA
*
92765063 CGCCTCGAGGC
129 CGCCTCAAGGC
* * *
92765074 CGAT-ACATGTCCCAAACATGGTCTTACACTGACTAACACCTTGTAGCCGATGCATGTCCCAAAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCACACC-TGTAGCCGATGCATGTCCCAGAC
* * * * * **
92765138 ATGTTTTACACTGGCTTACGCCTCGA-GGCTGATTTATGTCCCAGACATGTCTTACACTAGCCCT
65 ATGTCTTACACTGACTAACACCTC-ATAGCTGATGCATGTCCCAGACATGTCTTACACT-GCCCT
* *
92765202 -CGTCTCAATGC
128 ACGCCTCAAGGC
* * * * *
92765213 TGATGCCATGTCCCGAACATGGTCTTACACTGACTCTCACAATGTGGCCGATGCATGTCCCAGAC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGACTCACAC-CTGTAGCCGATGCATGTCCCAGAC
92765278 ATGTCTTACACT
65 ATGTCTTACACT
92765290 AGCTCACACA
Statistics
Matches: 180, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
139 58 0.32
140 109 0.61
141 13 0.07
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.27
Consensus pattern (139 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGACTCACACCTGTAGCCGATGCATGTCCCAGACA
TGTCTTACACTGACTAACACCTCATAGCTGATGCATGTCCCAGACATGTCTTACACTGCCCTACG
CCTCAAGGC
Found at i:92767070 original size:3 final size:3
Alignment explanation
Indices: 92767062--92767087 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
92767052 CTCTTATTTT
92767062 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
92767088 TTAATTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:92779199 original size:17 final size:17
Alignment explanation
Indices: 92779173--92779212 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
92779163 TTTTTAAAAG
*
92779173 GAAAAAAAATGAATCTT
1 GAAAACAAATGAATCTT
92779190 GAAAACAAATGAATCTT
1 GAAAACAAATGAATCTT
*
92779207 AAAAAC
1 GAAAAC
92779213 CTTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (17 bp):
GAAAACAAATGAATCTT
Found at i:92786362 original size:17 final size:19
Alignment explanation
Indices: 92786326--92786372 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
92786316 CCAATGCAAG
* *
92786326 TTGGTAAGTTGGCAACA-T
1 TTGGTAAGCTCGCAACATT
92786344 TTGGTAAGCTCGC-ACATT
1 TTGGTAAGCTCGCAACATT
*
92786362 TTGGTGAGCTC
1 TTGGTAAGCTC
92786373 TTCTAGTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (19 bp):
TTGGTAAGCTCGCAACATT
Found at i:92792853 original size:25 final size:25
Alignment explanation
Indices: 92792824--92792875 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
92792814 TCATATTGAC
92792824 TAATGAGTGCTTTTATTGATATCCT
1 TAATGAGTGCTTTTATTGATATCCT
92792849 TAATGAGTGCTTTTATTGATATCCT
1 TAATGAGTGCTTTTATTGATATCCT
92792874 TA
1 TA
92792876 CACACCTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (25 bp):
TAATGAGTGCTTTTATTGATATCCT
Found at i:92802255 original size:123 final size:123
Alignment explanation
Indices: 92802032--92802273 Score: 430
Period size: 123 Copynumber: 2.0 Consensus size: 123
92802022 CAACTTCCTA
*
92802032 TAGTTGATGCAAACTCTCCATTCCATGATTGTGCATGTTGGAATCAATTCATTCTTCTCATTAGC
1 TAGTTGATGCAAACTCTCCATCCCATGATTGTGCATGTTGGAATCAATTCATTCTTCTCATTAGC
92802097 CACAACAGTCATGCCTCCTTTCTTAGGGACAACCTGCACAGGACTCACAAGAACAATC
66 CACAACAGTCATGCCTCCTTTCTTAGGGACAACCTGCACAGGACTCACAAGAACAATC
*
92802155 TAGTTGATGCAAACTCTCCATCCCATGATTTTGCATGTTGGAATCAATTCATTCTTCTCATTAGC
1 TAGTTGATGCAAACTCTCCATCCCATGATTGTGCATGTTGGAATCAATTCATTCTTCTCATTAGC
* * * *
92802220 CACAATAGTCATGCCTCCTTTCTTAGGGACTACCTGTACAGGACTTACAAGAAC
66 CACAACAGTCATGCCTCCTTTCTTAGGGACAACCTGCACAGGACTCACAAGAAC
92802274 TGTCAGAAAT
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 113 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (123 bp):
TAGTTGATGCAAACTCTCCATCCCATGATTGTGCATGTTGGAATCAATTCATTCTTCTCATTAGC
CACAACAGTCATGCCTCCTTTCTTAGGGACAACCTGCACAGGACTCACAAGAACAATC
Found at i:92809046 original size:43 final size:43
Alignment explanation
Indices: 92808972--92809096 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 43
92808962 TTCACATTAA
* **
92808972 TGATATCA-TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCC
1 TGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCC
*
92809013 TGATATCATTTCATCGGCATTATAGCCTGCTAGGCCCGAAGCC
1 TGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCC
* * * * *
92809056 CGATATTATCTCACCGGCATAATAGCTTGCTAGGCCCGAAG
1 TGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAG
92809097 ACTAATAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
41 8 0.11
42 11 0.15
43 53 0.74
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (43 bp):
TGATATCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCC
Found at i:92810288 original size:29 final size:28
Alignment explanation
Indices: 92810247--92810315 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
92810237 ACACTCACAC
* *
92810247 AACCCATATATTT-CACAATTTCACATTTT
1 AACCCA-AAATTTCCAC-ATTTCACAATTT
92810276 AACCACAAAATTTCCACATTTCACAATTT
1 AACC-CAAAATTTCCACATTTCACAATTT
*
92810305 AATCCAAAATT
1 AACCCAAAATT
92810316 GACATTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 7 0.20
29 23 0.66
30 5 0.14
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.35
Consensus pattern (28 bp):
AACCCAAAATTTCCACATTTCACAATTT
Found at i:92815243 original size:27 final size:28
Alignment explanation
Indices: 92815159--92815256 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
92815149 CATGAGATTG
* * * *
92815159 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
92815188 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
92815216 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
92815243 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
92815257 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:92815267 original size:27 final size:27
Alignment explanation
Indices: 92815187--92815269 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
92815177 TAAATTGTAC
* *
92815187 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
92815215 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
92815242 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
92815269 A
1 A
92815270 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:92815270 original size:29 final size:27
Alignment explanation
Indices: 92815159--92815270 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
92815149 CATGAGATTG
** * *
92815159 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
92815188 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
92815216 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
92815243 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
92815271 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:92818147 original size:39 final size:39
Alignment explanation
Indices: 92818090--92818170 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
92818080 ATTACCAGCA
* *
92818090 CCAGCACGAAGCCTGCGGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCCGCGGGACTTTAGCCCGGACACATTT
* *
92818129 CCAGCATGAAGCCCGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCCGCGGGACTTTAGCCCGGACACATTT
92818168 CCA
1 CCA
92818171 ATGTCTTGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.33, G:0.25, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCCGCGGGACTTTAGCCCGGACACATTT
Found at i:92822809 original size:43 final size:43
Alignment explanation
Indices: 92822746--92822916 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
92822736 TCTGAACTCA
* * **
92822746 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCTGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAATATCAT
* * *
92822788 TTCATCGGCATTATAGCCTGCTAAGCCTGAAGCCCAATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAATATCAT
* * *
92822831 CTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATAAT-ATT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAAT-ATCA-T
* * * *
92822875 ATTCACCAGC-TTAAAGCTTGCTAGGCC-GAGGCCCGAATATCA
1 -TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCC-AATATCA
92822917 CATTTCGATA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
42 11 0.10
43 66 0.63
44 21 0.20
45 7 0.07
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAATATCAT
Found at i:92834126 original size:13 final size:13
Alignment explanation
Indices: 92834108--92834132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92834098 GAGCAATTGC
92834108 ACACGGGCGTGTT
1 ACACGGGCGTGTT
92834121 ACACGGGCGTGT
1 ACACGGGCGTGT
92834133 CCCTACCGAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:92843687 original size:22 final size:23
Alignment explanation
Indices: 92843638--92843689 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
92843628 TTTAAATTTT
* * *
92843638 ATAAATTAAATTCTTATTAAATA
1 ATAAATTAAAATATTATGAAATA
*
92843661 TTAAATTAAAATATT-TGAAATA
1 ATAAATTAAAATATTATGAAATA
92843683 ATAAATT
1 ATAAATT
92843690 TCTTGTTAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAATTAAAATATTATGAAATA
Found at i:92846755 original size:20 final size:22
Alignment explanation
Indices: 92846715--92846757 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 22
92846705 TAGGAGAGTG
92846715 AAATGAACGAGAAACGGGCCAA
1 AAATGAACGAGAAACGGGCCAA
*
92846737 AAATGAA-GA-AAATGGGCCAA
1 AAATGAACGAGAAACGGGCCAA
92846757 A
1 A
92846758 GTACAAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.53, C:0.14, G:0.26, T:0.07
Consensus pattern (22 bp):
AAATGAACGAGAAACGGGCCAA
Found at i:92855641 original size:14 final size:14
Alignment explanation
Indices: 92855622--92855651 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
92855612 CATTCCGAAG
92855622 TATATATATATACA
1 TATATATATATACA
92855636 TATATATATATACA
1 TATATATATATACA
92855650 TA
1 TA
92855652 AGTATGCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TATATATATATACA
Found at i:92856164 original size:27 final size:27
Alignment explanation
Indices: 92856133--92856310 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
92856123 TAAATTGTAC
92856133 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
92856160 TGCACTAAGTGTGTGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92856186 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
92856214 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
92856242 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92856269 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
92856296 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92856311 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:92856247 original size:82 final size:81
Alignment explanation
Indices: 92856134--92856289 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
92856124 AAATTGTACA
* * *
92856134 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
92856198 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
92856215 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
92856280 TGCGAGTTGA
65 TGCGAATTGA
92856290 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:92856301 original size:82 final size:81
Alignment explanation
Indices: 92856130--92856310 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
92856120 GATTAAATTG
* * *
92856130 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGTGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
92856195 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
92856211 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
92856275 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
92856293 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
92856311 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:92863672 original size:12 final size:12
Alignment explanation
Indices: 92863655--92863681 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
92863645 ATTCCGAAGT
92863655 ATATATATATAC
1 ATATATATATAC
92863667 ATATATATATAC
1 ATATATATATAC
92863679 ATA
1 ATA
92863682 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:92864197 original size:27 final size:27
Alignment explanation
Indices: 92864163--92864340 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
92864153 TAAATTGTAC
92864163 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
92864190 TGCGCTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92864216 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
92864244 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
92864272 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92864299 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
92864326 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92864341 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:92864280 original size:82 final size:81
Alignment explanation
Indices: 92864164--92864319 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
92864154 AAATTGTACA
* * *
92864164 GCACTAAGTGTGCGATTTGACTATGTTGCGCTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
92864228 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
92864245 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
92864310 TGCGAGTTGA
65 TGCGAATTGA
92864320 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:92864331 original size:82 final size:81
Alignment explanation
Indices: 92864160--92864340 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
92864150 GATTAAATTG
* * *
92864160 TACAGCACTAAGTGTGCGATTTGACTATGTTGCGCTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
92864225 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
92864241 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
92864305 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
92864323 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
92864341 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Done.