Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 757 of 770
Found at i:239974441 original size:40 final size:41
Alignment explanation
Indices: 239974347--239974444 Score: 98
Period size: 38 Copynumber: 2.5 Consensus size: 41
239974337 AAGCAATATT
* *
239974347 TGACACCAGTGTCTCATCG-GCCTAGCCGAAGTAAAGTTGG
1 TGACACCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTTAG
** * *
239974387 T-AC-CCAGTACCTCATCGAATCTATCCGAAG-AAA-TATAG
1 TGACACCAGTGTCTCATCGAACCTAGCCGAAGTAAAGT-TAG
239974425 TGACACCAGTGTCTCATCGA
1 TGACACCAGTGTCTCATCGA
239974445 CTCGAGGTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
37 1 0.02
38 18 0.39
39 13 0.28
40 14 0.30
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (41 bp):
TGACACCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTTAG
Found at i:239974708 original size:18 final size:19
Alignment explanation
Indices: 239974682--239974720 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
239974672 TTTCAATTCA
239974682 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
239974701 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
239974719 AT
1 AT
239974721 ATCTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:239976047 original size:7 final size:7
Alignment explanation
Indices: 239976037--239976084 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
239976027 TATTTATATA
239976037 ATATAAT
1 ATATAAT
239976044 ATATAAT
1 ATATAAT
*
239976051 ATA-ATT
1 ATATAAT
239976057 ACTATAAT
1 A-TATAAT
239976065 ATAATAAT
1 AT-ATAAT
*
239976073 ATTTAAT
1 ATATAAT
239976080 ATATA
1 ATATA
239976085 TTTTAACACA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
6 3 0.09
7 21 0.62
8 10 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATAAT
Found at i:239976085 original size:19 final size:18
Alignment explanation
Indices: 239976042--239976085 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
239976032 ATATAATATA
*
239976042 ATATATAATATAATTACT
1 ATATATAATATAATTAAT
*
239976060 ATAATATAATAATATTTAAT
1 AT-ATATAAT-ATAATTAAT
239976080 ATATAT
1 ATATAT
239976086 TTTAACACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATATAATATAATTAAT
Found at i:239976689 original size:13 final size:13
Alignment explanation
Indices: 239976671--239976695 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
239976661 AAGGGTTGAT
239976671 TTAGGTTAGATCG
1 TTAGGTTAGATCG
239976684 TTAGGTTAGATC
1 TTAGGTTAGATC
239976696 ATACCAACTC
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:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TTAGGTTAGATCG
Found at i:239981136 original size:13 final size:13
Alignment explanation
Indices: 239981118--239981149 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
239981108 AAATTGAAGT
239981118 CACACGGCCAAGC
1 CACACGGCCAAGC
239981131 CACACGGCCAAGC
1 CACACGGCCAAGC
239981144 CACACG
1 CACACG
239981150 CCCGTGTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.47, G:0.22, T:0.00
Consensus pattern (13 bp):
CACACGGCCAAGC
Found at i:239983985 original size:28 final size:28
Alignment explanation
Indices: 239983953--239984022 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
239983943 AATGAGATTG
*
239983953 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
239983981 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
239984009 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
239984023 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:239991897 original size:119 final size:119
Alignment explanation
Indices: 239991670--239991955 Score: 352
Period size: 119 Copynumber: 2.4 Consensus size: 119
239991660 ATTCAGATGA
* *
239991670 TAATTCCGGGCTAA-TTCCGAAAGCATTTGTGCT-AGTGACTA-ATTCCGGGCTAAGTCCCGAAG
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTGACTATA-TCCGGGCTAAGTCCCGAAG
* * * *
239991732 GCATTTGTGCTAGGACTAATTCCGGGATAAGTCCCGAAGGCATTTGTGC-TAGTGAC
64 GCATTTGTGCGAGGACTAATTCCGGGATAAGTCCCGAAGACATTTGTGCGAACT-AC
* *
239991788 TAATTCTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTGACTATATCCGGGCTAAGTCCCGAAGGC
* *
239991853 ATTTGTGCGAGTTACT-ATATCC-GGCTAAGTCCCGAAGACATTTGTGCGAACTAC
66 ATTTGTGCGAG-GACTAAT-TCCGGGATAAGTCCCGAAGACATTTGTGCGAACTAC
* * *
239991907 T-ATATCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATATCCGG
1 TAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTGACTATATCCGG
239991956 TTAAAGCCCG
Statistics
Matches: 146, Mismatches: 15, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
118 16 0.11
119 121 0.83
120 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (119 bp):
TAATTCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCGAGGACTAATTCCGGGATAAGTCCCGAAGACATTTGTGCGAACTAC
Found at i:239991942 original size:79 final size:79
Alignment explanation
Indices: 239991674--239991969 Score: 345
Period size: 79 Copynumber: 3.7 Consensus size: 79
239991664 AGATGATAAT
* * *
239991674 TCCGGGCTAA-TTCCGAAAGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCC-GGCTAAGTCCCGAAGGCATTT
*
239991738 GTGCTAGGACTA--AT-
65 GTGC--GAACTACTATA
* * *
239991752 TCCGGGATAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTC-CGGCTAAGTCCCGAAGGCATTT
* **
239991817 GTGTGAGTTACTATA
65 GTGCGAACTACTATA
* *
239991832 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGCTAAGTCCCGAAGACATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGCTAAGTCCCGAAGGCATTT
239991896 GTGCGAACTACTATA
65 GTGCGAACTACTATA
* * *
239991911 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCT-ATATCCGGTTAAAG-CCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGCT-AAGTCCCGAAGG
239991970 TACTTGGTTT
Statistics
Matches: 190, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
77 3 0.02
78 9 0.05
79 139 0.73
80 39 0.21
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGCTAAGTCCCGAAGGCATTTG
TGCGAACTACTATA
Found at i:239991950 original size:40 final size:40
Alignment explanation
Indices: 239991674--239991955 Score: 353
Period size: 40 Copynumber: 7.1 Consensus size: 40
239991664 AGATGATAAT
* * *
239991674 TCCGGGCTAA-TTCCGAAAGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
239991712 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-GACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
239991751 TTCCGGGATAAGTCCCGAAGGCATTTGTGCTAGTGACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* * *
239991791 TTCTGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
*
239991832 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
* *
239991872 TCC-GGCTAAGTCCCGAAGACATTTGTGCGAACT-ACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTGACTATA
* *
239991911 TCCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
239991951 TCCGG
1 TCCGG
239991956 TTAAAGCCCG
Statistics
Matches: 221, Mismatches: 16, Indels: 11
0.89 0.06 0.04
Matches are distributed among these distances:
39 84 0.38
40 136 0.62
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:239995177 original size:28 final size:28
Alignment explanation
Indices: 239995145--239995214 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
239995135 AATAAGATTG
*
239995145 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
239995173 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
239995201 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
239995215 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:239999158 original size:46 final size:46
Alignment explanation
Indices: 239999108--239999283 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
239999098 AGGATGGGCA
239999108 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
239999154 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
239999201 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
239999247 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
239999284 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:239999259 original size:93 final size:93
Alignment explanation
Indices: 239999104--239999275 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
239999094 CACTAGGATG
* *
239999104 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
239999169 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
239999197 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
239999262 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
239999276 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:240002284 original size:15 final size:15
Alignment explanation
Indices: 240002245--240002322 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
240002235 GTATCTTGGG
*
240002245 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
240002260 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
240002275 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
*
240002288 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
240002303 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
240002317 TTTCTT
1 TTTCTT
240002323 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
12 2 0.04
13 7 0.13
14 12 0.23
15 30 0.57
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:240002311 original size:28 final size:28
Alignment explanation
Indices: 240002236--240002318 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
240002226 CATAGTATCG
* * * *
240002236 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GG-TTTCTC
240002266 TAT-TCTGGATTTCTTTATTCGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGTTTCTC
240002294 TATCTTGGATTTCTTTATTCGGTTT
1 TATCTTGGATTTCTTTATTCGGTTT
240002319 TCTTGTTATC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
28 27 0.57
29 4 0.09
30 16 0.34
ACGTcount: A:0.11, C:0.17, G:0.16, T:0.57
Consensus pattern (28 bp):
TATCTTGGATTTCTTTATTCGGTTTCTC
Found at i:240004744 original size:46 final size:46
Alignment explanation
Indices: 240004689--240004869 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
240004679 TAGGATGGTT
240004689 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
240004735 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
240004781 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
240004828 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
240004870 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:240004850 original size:93 final size:93
Alignment explanation
Indices: 240004691--240004861 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
240004681 GGATGGTTGA
* *
240004691 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
240004756 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
240004784 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
240004849 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
240004862 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:240006228 original size:40 final size:40
Alignment explanation
Indices: 240006183--240006312 Score: 156
Period size: 40 Copynumber: 3.2 Consensus size: 40
240006173 CGGAATACAA
240006183 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
240006223 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
240006263 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*
240006303 CCAGATATAA
1 CCGGATATAA
240006313 TTTCCAGCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:240014183 original size:28 final size:27
Alignment explanation
Indices: 240014120--240014188 Score: 120
Period size: 27 Copynumber: 2.5 Consensus size: 27
240014110 TAGTGAGTCT
240014120 GCACACTTAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTATATAATCAACTC
*
240014147 GCACGCTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATC-AACTC
240014175 GCACACTTAGTGCT
1 GCACACTTAGTGCT
240014189 GTACAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (27 bp):
GCACACTTAGTGCTATATAATCAACTC
Found at i:240014371 original size:20 final size:20
Alignment explanation
Indices: 240014346--240014388 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
240014336 ATAAATTTAT
240014346 CATTCCTTTCGGCATAATTA
1 CATTCCTTTCGGCATAATTA
240014366 CATTCCTTTCGGCATAATTA
1 CATTCCTTTCGGCATAATTA
240014386 CAT
1 CAT
240014389 AGACATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (20 bp):
CATTCCTTTCGGCATAATTA
Found at i:240019115 original size:40 final size:40
Alignment explanation
Indices: 240019070--240019256 Score: 261
Period size: 40 Copynumber: 4.7 Consensus size: 40
240019060 ATAACCACAA
* *
240019070 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
240019110 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
240019150 GCACAAAAGCCTT-GGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
240019189 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
240019229 GCATAAATGCCTTCGGGGCTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
240019257 GTATCATTCA
Statistics
Matches: 132, Mismatches: 13, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
39 36 0.27
40 94 0.71
41 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:240019172 original size:79 final size:79
Alignment explanation
Indices: 240019050--240019260 Score: 300
Period size: 79 Copynumber: 2.7 Consensus size: 79
240019040 TCTTCGGAAT
* *
240019050 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
240019114 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * *
240019129 TTAGCCCGGATATAACAACTCGCACAAAAGCCTT-GGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
240019193 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * *
240019208 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGGCTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
240019261 CATTCAATTG
Statistics
Matches: 116, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
79 77 0.66
80 39 0.34
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:240027162 original size:40 final size:40
Alignment explanation
Indices: 240027063--240027265 Score: 222
Period size: 40 Copynumber: 5.2 Consensus size: 40
240027053 TCTTCGGAAT
* ** *
240027063 TTAG-CCGGATATAACCACAAGCACAATTGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
240027101 TTA-ACCGG-TATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
240027139 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* *
240027179 TTAACCCGGATATAGCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * * * * *
240027218 TTAACCC-AATATAATC-ACTAGCATAAATGCCTTTGGGGC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
240027257 TTAGCCCGG
1 TTAGCCCGG
240027266 GTATCATTCA
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
37 20 0.14
38 34 0.24
39 25 0.18
40 62 0.44
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:240031319 original size:26 final size:26
Alignment explanation
Indices: 240031283--240031366 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
240031273 CATGAAATTC
240031283 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
240031309 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
240031335 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
240031361 TTATCA
1 TTATCA
240031367 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:240033977 original size:46 final size:44
Alignment explanation
Indices: 240033873--240033980 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
240033863 TGTCTTTGAC
** * * *
240033873 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
240033917 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
240033963 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
240033981 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:240041355 original size:46 final size:44
Alignment explanation
Indices: 240041251--240041358 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
240041241 TGTCTTTGAC
** * * *
240041251 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
240041295 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
240041341 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
240041359 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:240045283 original size:40 final size:40
Alignment explanation
Indices: 240045218--240045422 Score: 276
Period size: 40 Copynumber: 5.2 Consensus size: 40
240045208 TCTTCGGAAT
* ** *
240045218 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
240045257 TTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
240045297 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
240045337 TTAGCCCGGATATAACAACTCGCAC-AATGCCTTC-GGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *
240045375 TTAGCCC-GATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
240045414 TTAGCCCGG
1 TTAGCCCGG
240045423 GTATCATTCA
Statistics
Matches: 148, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
37 13 0.09
38 21 0.14
39 22 0.15
40 92 0.62
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:240049241 original size:70 final size:71
Alignment explanation
Indices: 240049154--240049316 Score: 319
Period size: 70 Copynumber: 2.3 Consensus size: 71
240049144 CGATTTGTCT
240049154 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTA-
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
240049218 CTTTCA
66 CTTTCA
240049224 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
240049289 CTTTCA
66 CTTTCA
240049295 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
240049317 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 64 0.70
71 28 0.30
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:240049354 original size:71 final size:69
Alignment explanation
Indices: 240049154--240049350 Score: 247
Period size: 70 Copynumber: 2.8 Consensus size: 69
240049144 CGATTTGTCT
* * * *
240049154 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAC
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAC
240049219 TTTCA
65 TTTCA
* * * *
240049224 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTA-
240049289 CTTTCA
64 CTTTCA
* *
240049295 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
240049351 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 65 0.55
71 31 0.26
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (69 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTACT
TTCA
Found at i:240068400 original size:40 final size:40
Alignment explanation
Indices: 240068315--240068465 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
240068305 AATTGAATGA
* * *
240068315 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
240068355 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
240068396 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
240068435 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
240068466 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:240068479 original size:40 final size:40
Alignment explanation
Indices: 240068351--240068481 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
240068341 TATGCTGGAA
* * *
240068351 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
240068391 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
240068431 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
240068471 ATTATATCCGG
1 ATTATATCCGG
240068482 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:240071879 original size:29 final size:29
Alignment explanation
Indices: 240071817--240071919 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
240071807 GTGACGAGAT
* * *
240071817 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
240071846 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
240071875 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
240071904 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
240071920 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:240075233 original size:26 final size:26
Alignment explanation
Indices: 240075204--240075311 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
240075194 TGGTACAAAT
240075204 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
240075230 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
240075256 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
240075282 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
240075308 TGAT
1 TGAT
240075312 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:240077009 original size:54 final size:53
Alignment explanation
Indices: 240076927--240077067 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
240076917 AGGAAGCGTC
240076927 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
240076981 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
240077035 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
240077068 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:240077078 original size:27 final size:27
Alignment explanation
Indices: 240076927--240077085 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
240076917 AGGAAGCGTC
*
240076927 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
240076954 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
240076981 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
240077008 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
240077035 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
240077062 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
240077086 GCAGCCTCGC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:240082296 original size:26 final size:26
Alignment explanation
Indices: 240082267--240082374 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
240082257 TGGTACAAAT
240082267 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
240082293 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
240082319 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
240082345 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
240082371 TGAT
1 TGAT
240082375 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:240084072 original size:54 final size:53
Alignment explanation
Indices: 240083990--240084130 Score: 237
Period size: 54 Copynumber: 2.6 Consensus size: 53
240083980 AGGAAGCGTC
240083990 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
240084044 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
240084098 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
240084131 ACTTCGTCAC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 7 0.08
54 76 0.92
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:240084141 original size:27 final size:27
Alignment explanation
Indices: 240083990--240084148 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
240083980 AGGAAGCGTC
*
240083990 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
240084017 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
240084044 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
240084071 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
240084098 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
240084125 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
240084149 GCAGGCCTCG
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 105 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:240091232 original size:83 final size:83
Alignment explanation
Indices: 240091091--240091349 Score: 329
Period size: 83 Copynumber: 3.1 Consensus size: 83
240091081 ATCTGTAGCG
* * ** *
240091091 AATCATCTTGAATTTGTTTGAGAACATTTGAGAGTTATATATGCTACATCCTTGATTTGTTCCTT
1 AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
* *
240091156 GTAAGCATAAGGTTGCCA
66 GTAAGCACAAGGATGCCA
* * * * *
240091174 AGTCATCTTGAGTCTGTTTGAGAACATTTGAGTGTTATATTTGCAATGTTCTCGATTTGTTCCTT
1 AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
240091239 GTAAGCACAAGGATGCCA
66 GTAAGCACAAGGATGCCA
* * * * * * *
240091257 AATCATCTTGAGTCTATTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTT
1 AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
*
240091322 GTGAGCACAAGGATGCCA
66 GTAAGCACAAGGATGCCA
*
240091340 AATCAACTTG
1 AATCATCTTG
240091350 GATCTGCTTC
Statistics
Matches: 151, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 151 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (83 bp):
AATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATATGCTATGTCCTCGATTTGTTCCTT
GTAAGCACAAGGATGCCA
Found at i:240091687 original size:117 final size:117
Alignment explanation
Indices: 240091506--240091781 Score: 366
Period size: 117 Copynumber: 2.4 Consensus size: 117
240091496 ATCTGCAACA
* * * *
240091506 TCCTCGATTTGTTTCTTGTAAACACAAGAAT-ACAAATCATCTTGGATCTGCTTCAGCATAAACA
1 TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAAACA
* *
240091570 TCTGAAGGT-TAGATCTACT-ATTTTGAGAACGTCTGAGAGTCAAATCTACTATG
66 TCTGAA-GTCTAGATCTACTGACTTTGAGAACGTCCGAGAGTCAAATC--CTATG
* * * *
240091623 TCCTCGATTTGTTCCTTGTGAGCACAAGGATGCCAAATCAACTTGGATCTGCTTCA-TATCAACA
1 TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAAACA
* *
240091687 TCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCCGAGAGTCAAATCCTATG
66 TCTGAAGTCTAGATCTACTGACTTTGAGAACGTCCGAGAGTCAAATCCTATG
*
240091739 TCCTCGA-TTGTTCCTTGTAAGCACAGGGATGCC-AATCATCTTG
1 TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTG
240091782 AGTCTATTTG
Statistics
Matches: 141, Mismatches: 15, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
114 9 0.06
115 24 0.17
116 14 0.10
117 48 0.34
118 46 0.33
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (117 bp):
TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGCATAAACA
TCTGAAGTCTAGATCTACTGACTTTGAGAACGTCCGAGAGTCAAATCCTATG
Found at i:240103711 original size:43 final size:43
Alignment explanation
Indices: 240103659--240103809 Score: 119
Period size: 47 Copynumber: 3.4 Consensus size: 43
240103649 CATGATATAC
*
240103659 ATAACATATATAAAAATAAATAAATATTATATATA-AAATGTAA
1 ATAA-ATATATAAAAATAAATAAATATTATAAATATAAATGTAA
* *
240103702 TATAAATATATATAGAATATAATAGATAATATATAAATATAAATGTAA
1 -ATAAATATATA-AAAATA-AATAAAT-AT-TATAAATATAAATGTAA
* * * * * * *
240103750 ATATATATATAATTAATAAATATATAATATAAGTGAAAAATAT-A
1 ATAAATATATAA-AAATAAATAAATATTATAAAT-ATAAATGTAA
240103794 AT-AATATATAAAAATA
1 ATAAATATATAAAAATA
240103810 GTGATAATTT
Statistics
Matches: 88, Mismatches: 12, Indels: 16
0.76 0.10 0.14
Matches are distributed among these distances:
42 4 0.05
43 15 0.17
44 18 0.20
45 13 0.15
46 9 0.10
47 21 0.24
48 8 0.09
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (43 bp):
ATAAATATATAAAAATAAATAAATATTATAAATATAAATGTAA
Found at i:240103736 original size:31 final size:31
Alignment explanation
Indices: 240103701--240103775 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 31
240103691 ATAAAATGTA
240103701 ATATAAATATATA--TAGAATATAATAGATAAT
1 ATATAAATATATATGTA-AATAT-ATAGATAAT
* *
240103732 ATATAAATATAAATGTAAATATATATATAAT
1 ATATAAATATATATGTAAATATATAGATAAT
240103763 -TAATAAATATATA
1 AT-ATAAATATATA
240103776 ATATAAGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
30 1 0.03
31 30 0.79
32 5 0.13
33 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (31 bp):
ATATAAATATATATGTAAATATATAGATAAT
Found at i:240103781 original size:20 final size:20
Alignment explanation
Indices: 240103706--240103801 Score: 76
Period size: 20 Copynumber: 4.8 Consensus size: 20
240103696 ATGTAATATA
* *
240103706 AATATATATAGAATATAA-T
1 AATAAATATATAATATAATT
*
240103725 AGAT-AATATATAAATATAAAT
1 A-ATAAATATAT-AATATAATT
*
240103746 -GTAAATATAT-ATATAATT
1 AATAAATATATAATATAATT
*
240103764 AATAAATATATAATATAAGTG
1 AATAAATATATAATATAA-TT
240103785 AA-AAATATAATAATATA
1 AATAAATAT-ATAATATA
240103802 TAAAAATAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
18 7 0.11
19 16 0.25
20 28 0.44
21 12 0.19
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
AATAAATATATAATATAATT
Found at i:240105499 original size:14 final size:13
Alignment explanation
Indices: 240105478--240105517 Score: 57
Period size: 11 Copynumber: 3.2 Consensus size: 13
240105468 AATTCAAGTA
240105478 AATATTTAAACAT
1 AATATTTAAACAT
240105491 AATTATTTAAA-A-
1 AA-TATTTAAACAT
240105503 AATATTTAAACAT
1 AATATTTAAACAT
240105516 AA
1 AA
240105518 AATATAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 8 0.33
12 3 0.12
13 5 0.21
14 8 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATTTAAACAT
Found at i:240109755 original size:27 final size:28
Alignment explanation
Indices: 240109690--240109759 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
240109680 AAATTTGTAC
240109690 AGCACTAAGTGTGCGAGTTGGATCATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
240109718 AGCACTAAGTGTGCGAGTT-GATTATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
240109745 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
240109760 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTGGATCATAT
Found at i:240109770 original size:27 final size:27
Alignment explanation
Indices: 240109690--240109771 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
240109680 AAATTTGTAC
* *
240109690 AGCACTAAGTGTGCGAGTTGGA-TCATAT
1 AGCACTAAGTGTGCGAGCT-CACT-ATAT
* * *
240109718 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
240109745 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
240109772 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 27 0.56
28 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:240117651 original size:27 final size:28
Alignment explanation
Indices: 240117586--240117655 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
240117576 AAATTTGTAC
240117586 AGCACTAAGTGTGCGAGTTGGATCATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
240117614 AGCACTAAGTGTGCGAGTT-GATTATAT
1 AGCACTAAGTGTGCGAGTTGGATCATAT
*
240117641 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
240117656 GACTCACTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTGGATCATAT
Found at i:240117666 original size:27 final size:27
Alignment explanation
Indices: 240117586--240117667 Score: 69
Period size: 27 Copynumber: 3.0 Consensus size: 27
240117576 AAATTTGTAC
* *
240117586 AGCACTAAGTGTGCGAGTTGGA-TCATAT
1 AGCACTAAGTGTGCGAGCT-CACT-ATAT
* * *
240117614 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
*
240117641 AGCACTGAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
240117668 GCTTTTGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 27 0.56
28 20 0.42
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:240120230 original size:44 final size:43
Alignment explanation
Indices: 240120127--240120342 Score: 240
Period size: 44 Copynumber: 5.0 Consensus size: 43
240120117 NNNNNNNNNN
* * *
240120127 AAAGGTCATGACTTTTAACGGTGCTTTT-CCACAAACGCTGCT
1 AAAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCT
*
240120169 -AAGGTCATGACTTTTAGCAGCGCTTTTCCCACAAACGCCGCT
1 AAAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* *
240120211 AAAAAGTCATGACTTTTAGCGTCGCTTTTCCCACAAACGCCGCT
1 -AAAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* ** *
240120255 AAAGGTCATGACCTTTAGCGGCGCTTTTCTTGA-AGACGCCGCT
1 AAAGGTCATGACTTTTAGCGGCGCTTTTC-CCACAAACGCCGCT
** * * * *
240120298 AAAGACCATGACCTTTAGCGCGCGCTTTTTCTAAAAACGCCGCT
1 AAAGGTCATGACTTTTAGCG-GCGCTTTTCCCACAAACGCCGCT
240120342 A
1 A
240120343 TATAACAGAC
Statistics
Matches: 149, Mismatches: 19, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
41 24 0.16
42 13 0.09
43 54 0.36
44 58 0.39
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (43 bp):
AAAGGTCATGACTTTTAGCGGCGCTTTTCCCACAAACGCCGCT
Found at i:240120279 original size:87 final size:85
Alignment explanation
Indices: 240120131--240120387 Score: 261
Period size: 87 Copynumber: 3.0 Consensus size: 85
240120121 NNNNNNAAAG
* * * *
240120131 GTCATGACTTTTAACGGT-GCTTTTCCACAAACGCTGCT-AAGGTCATGACTTTTAGCAGCGCTT
1 GTCATGACTTTTAGC-GTCGCTTTTCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTT
**
240120194 TTCCCACAAACGCCGCTAAAAA
65 TTCTGA-AAACGCCGCTAAAAA
240120216 GTCATGACTTTTAGCGTCGCTTTTCCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTT
1 GTCATGACTTTTAGCGTCGCTTTT-CCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTT
* *
240120281 TTCTTGAAGACGCCGCTAAAGA
65 TTC-TGAAAACGCCGCTAAAAA
* * * * * * *** *
240120303 -CCATGACCTTTAGCGCGCGCTTTTTCTAAAAACGCCGCTATATAACA-GACCTTTAGCGACGCT
1 GTCATGACTTTTAGCG-TCGC-TTTTCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCT
*
240120366 TTTTTGAAAACGCCGCTAAAAA
64 TTTCTGAAAACGCCGCTAAAAA
240120388 ATATAAACTT
Statistics
Matches: 145, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
84 2 0.01
85 36 0.25
86 44 0.30
87 58 0.40
88 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (85 bp):
GTCATGACTTTTAGCGTCGCTTTTCCACAAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTT
TCTGAAAACGCCGCTAAAAA
Found at i:240120280 original size:43 final size:43
Alignment explanation
Indices: 240120127--240120385 Score: 231
Period size: 43 Copynumber: 6.1 Consensus size: 43
240120117 NNNNNNNNNN
* * * *
240120127 AAAGGTCATGACTTTTAACGGTGCTTTT-CCACAAACGCTGCT
1 AAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* *
240120169 -AAGGTCATGACTTTTAGCAGCGCTTTTCCCACAAACGCCGCT
1 AAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
* * *
240120211 AAAAAGTCATGACTTTTAGCGTCGCTTTTCCCACAAACGCCGCT
1 -AAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
** *
240120255 AAAGGTCATGACCTTTAGCGGCGCTTTTCTTGA-AGACGCCGCT
1 AAAGGTCATGACCTTTAGCGGCGCTTTTC-CCACAAACGCCGCT
** * * *
240120298 AAAGACCATGACCTTTAGCGCGCGCTTTTTCTAAAAACGCCGCT
1 AAAGGTCATGACCTTTAGCG-GCGCTTTTCCCACAAACGCCGCT
* *** * ***
240120342 ATATAACA-GACCTTTAGCGACGCTTTTTTGA-AAACGCCGCT
1 AAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
240120383 AAA
1 AAA
240120386 AAATATAAAC
Statistics
Matches: 185, Mismatches: 26, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
41 36 0.19
42 22 0.12
43 65 0.35
44 62 0.34
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (43 bp):
AAAGGTCATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCT
Found at i:240127013 original size:23 final size:23
Alignment explanation
Indices: 240126931--240127017 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
240126921 CCTGATCAGT
*
240126931 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
240126953 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
240126973 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
240126996 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
240127018 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:240128592 original size:17 final size:18
Alignment explanation
Indices: 240128559--240128592 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
240128549 CTATTCTTTT
*
240128559 TGTTTCTTTTCTTTACTC
1 TGTTTCTTTTATTTACTC
240128577 TGTTTC-TTTATTTACT
1 TGTTTCTTTTATTTACT
240128593 TTTGTTACTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.09, C:0.18, G:0.06, T:0.68
Consensus pattern (18 bp):
TGTTTCTTTTATTTACTC
Found at i:240128598 original size:18 final size:19
Alignment explanation
Indices: 240128556--240128598 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
240128546 TCTCTATTCT
*
240128556 TTTTGTTTCTTTTCTTTAC
1 TTTTGTTTCTTTTATTTAC
*
240128575 -TCTGTTTC-TTTATTTAC
1 TTTTGTTTCTTTTATTTAC
240128592 TTTTGTT
1 TTTTGTT
240128599 ACTAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.07, C:0.14, G:0.07, T:0.72
Consensus pattern (19 bp):
TTTTGTTTCTTTTATTTAC
Found at i:240137496 original size:534 final size:540
Alignment explanation
Indices: 240135505--240140266 Score: 8118
Period size: 534 Copynumber: 8.9 Consensus size: 540
240135495 CTTTTTATTA
*
240135505 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCTAACCATAAACATGCATAATCTACCATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
* * *
240135570 AAACATCAAAATACGCAAATTTATAACATTGTTCAAACCCTAGACCTCCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
* *
240135635 ATGGTAGAAATAGGTAGATAATGCTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
* * *
240135700 AAGAACAGACTTACTATAGAGCTTGGAAAGCATAAA-AAAACCCTAGCCATGGTGGTCTTCAAAA
196 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
* * *
240135764 TTTCGGCCGAGGGGTTGAAGATGACCAAACTTTTTGCTTTTATTTTGTTTATGTAAACATTTAAT
261 TTTCGGCCGAGGGGTTGAAGATGACCAAA-ATTTGGCTTTTATTTTGTTTATTTAAACATTTAAT
* * *
240135829 TACTAAATTTTATCATACTATGGCAAAAATTACATTTTTACCCATAAGTTTTATCAT-TTTACAC
325 TACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACAC
* * *
240135893 TTTTGCCCATAGGCTTTTAAAATAATTTTCATTCAATTTATTTTCATCTTAAGCCTAGCCGAACC
390 TTTTACCC-TAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACC
*
240135958 ACTTTCATAACTATAAAAACCAACAATTTCCACTAAATCACACTTTTATGATAAATTTTATAACT
454 ACTTTCATAACTATAAAAACC-ACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACT
*
240136023 TTTACAAATTAGTCCTTTTTAGT
518 TTTACAAATTAGTCCTTTTTAGC
* * *
240136046 A-TTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCTAACAATAAACATGAATAATCTACCATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
* * *
240136110 AAACATC-AAATACACAAA-TTATATCATAGTTCAAACCCTAGACCTCCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
240136173 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTG-AAATCATTAAAAACGGGGC
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
* *
240136237 AAGAACAGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAC
196 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
* * * *
240136302 TTTCAGCCAAGGGGTTGAAGATGACCAAAACTTTTGCTTTTATTTTGTTTATGTAAACATTTAAT
261 TTTCGGCCGAGGGGTTGAAGATGACCAAAA-TTTGGCTTTTATTTTGTTTATTTAAACATTTAAT
240136367 TACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCAT-TTTACAC
325 TACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACAC
* *
240136431 TTTTGCCCATAGGCTTTTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACC
390 TTTTACCC-TAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACC
240136496 ACTTTCATAACTAT-AAAACGCACAATTTCCACTAAATCACAC-TTTATGACAAA-TTTATAACT
454 ACTTTCATAACTATAAAAAC-CACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACT
240136558 TTTACAAATTAGTCCTTTTTAGC
518 TTTACAAATTAGTCCTTTTTAGC
240136581 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
240136646 AAACATCAAAATACACAAATTT-TAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
240136710 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
* *
240136775 AAGAACGGACTTACTATGGACCTTGGAAAGCTTAAACAAAATCCTAGCCATGGTGGTCTTCAAAA
196 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
240136840 TTTCGGCCGA-GGGTTGAAGATGACCAAAATTTGGC-TTTATTTTGTTTATTTAAACATTTAATT
261 TTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATT
* * * *
240136903 ACTAAATTTTATCACACTATGGTAAAAATTA-A-ATTTGCCCCTAAATTTTATCTTATTTACACT
326 ACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACACT
240136966 TTTAGCCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCA-CTTAAGCCTAGCCGAACCA
391 TTTA-CCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACCA
240137030 CTTTCATAACTATAAAAACCACAATTTCCACTAAATCACACTTTTATGACAAAATTTTATAACTT
455 CTTTCATAACTATAAAAACCACAATTTCCACTAAATCACACTTTTATGAC-AAATTTTATAACTT
240137095 TTACAAATTAGTCCTTTTTAGC
519 TTACAAATTAGTCCTTTTTAGC
*
240137117 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCTAACCATAAACATGCATAATCTA-CATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
*
240137181 AAACATCAAAATACACAAATTTAT-ACATGGTTCAAACCCTAGACCTCCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
240137245 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
* *
240137310 AAGAA-AGACTTATTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
196 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
240137374 TTTCGG-CGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAAC-TTTAATT
261 TTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATT
* *
240137437 ACTAATTTTTATCATACTATGG-AAAAATTACATTTTTGCCCCT-AATTTTTTCATATTTACAC-
326 ACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACACT
240137499 TTTA-CCTAGGC-TGTAAAATAATTTTCATTCAATTTATTTTCA--TTAAGCCTAGCCGAACCAC
391 TTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACCAC
*
240137560 TTTCATAA-TATAAAACCCACAATTTCCACTAAATCACAC-TTTATGACAAATTTTATAA-TTTT
456 TTTCATAACTATAAAAACCACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACTTTT
240137622 ACAAATTAGTCCTTTTTAGC
521 ACAAATTAGTCCTTTTTAGC
240137642 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
*
240137707 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAAACCTTCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
240137772 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAAC-GGGC
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
240137836 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCAT-GTGGTCTTCAAAA
196 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
* * *
240137900 TTTCGGCCAAGGGGTTGAAGATGACCAAAATTTTGCTTTTATTTTGTTTATTTAAACAGTTAATT
261 TTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATT
240137965 ACTAAATTTTATCATACTATGGCAAAAATTACATTTTTG-CCCTAAATTTTATCAT-TTTACACT
326 ACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACACT
* *
240138028 TTTGCCCCTAGGCTTTTAAAATAATTTTCATTCAATTTATTTTCACC-TAAGCCTAG-CGAACCA
391 TTT-ACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACCA
*
240138091 CTTTCATAACTATAAAACCCACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACTTT
455 CTTTCATAACTATAAAAACCACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACTTT
240138156 TACAAATTAGTCC-TTTTAGC
520 TACAAATTAGTCCTTTTTAGC
*
240138176 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCTAACCATAAACATGCATAATCTACCATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
240138241 AAACATCAAAATA-ACAAATTTATAACATGGTTCAAA-CCTAGA-C-TCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
240138302 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTTGAAAATCATTAAAAACGGGG
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACG-TGAAAATCATTAAAAACGGGG
240138367 CAAGAACGGACTTACTATGGAGCTT-GAGAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAA
195 CAAGAACGGACTTACTATGGAGCTTGGA-AAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAA
* *
240138431 AATTTCGGCCGAGGGGTTGAAGATGACC-AAATTTTGCTTTTATTTTGTTTATGTAAACATTTAA
259 AATTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAA
240138495 TTACT-AATTTTATCATACTATGG-AAAAATTACATTTTTGCCCCTAAATTTTATC--ATTTACA
324 TTACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACA
*
240138556 CTTTT-CCCTAGGCTT-TAGAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCC-AACC
389 CTTTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACC
* * *
240138618 ACTTTCATAACTATAAAGACCCAAAATTTCCACTAAATCACAC-TTTACGACAAATTTTAATAAC
454 ACTTTCATAACTATAAA-AACCACAATTTCCACTAAATCACACTTTTATGACAAATTTT-ATAAC
*
240138682 ATTTTTACAAATTACTCCTTTTTAGC
517 --TTTTACAAATTAGTCCTTTTTAGC
*
240138708 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCAAACCATAAAC-TGCATAATCTA-CATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
* *
240138771 AAATATCAAACTACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
240138836 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
240138901 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
196 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
240138966 TTTCGGCCGAGGGGTTGAAGATGACCAAAATTT-GCTTTTATTTT-TTTATTTAAACATTTAATT
261 TTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATT
240139029 ACTAAATTTTATCATACTATGG-AAAAATTACATTTTTGCCCCTAAA-TTT-T-ATATTTACACT
326 ACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACACT
*
240139090 TTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCA-TTTAAGCCTAGCCGAACCAC
391 TTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACCAC
240139154 TTTCATAACTATAAAAACCCACAATTTCCACTAAATCACACTTTTATGA-AAATTTTATAAC-TT
456 TTTCATAACTATAAAAA-CCACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACTTT
240139217 TACAAATTAGTCCTTTTTAGC
520 TACAAATTAGTCCTTTTTAGC
240139238 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
240139303 AAACATCAAAATACACAAATTTATAACATGGTTCAAA-CCTA-ACCTTCATCATAACTCAAATAA
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
240139366 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAAC-GGGC
131 ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
240139430 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
196 AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
240139495 TTT-GGCCGAGGGGTTGAAGATGA-CAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATT
261 TTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATT
*
240139558 ACTAAA-TTTATCATACTATGGCAAAAATTAAATTTTTGCCCCTAAATTTTATCAT-TTTACACT
326 ACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACACT
240139621 TTTACCCTAGGCTT-T-AAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACCAC
391 TTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACCAC
240139684 TTTCATAACTATAAAAACCCACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACTTT
456 TTTCATAACTATAAAAA-CCACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACTTT
240139749 TACAAATTAGTCCTTTTTAGC
520 TACAAATTAGTCCTTTTTAGC
240139770 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
1 ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
240139835 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAT
66 AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATA-
*
240139900 AATGGTAGAAATAGGTGATATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGG
130 AATGGTAGAAATAGGT-AGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGG
240139965 GCAAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAAC-AAACCCTAGCCATGGTGGTCTTC-A
194 GCAAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAA
240140028 AATTTCGGCCGA-GGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAA
259 AATTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAA
* * *
240140092 TTACTAAATTTTATC-TACTACGGTAAAAATTACATTTTTG-CCCTAAA-TTTAT-TTATTTACA
324 TTACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACA
*
240140153 CTTTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTTAAGCCTAGTCGAAC
389 CTTTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACC-TTAAGCCTAGCCGAAC
*
240140218 CACTTTCATAACTATAAAAACCCACAATTT-CACTAAATCATACTTTTAT
453 CACTTTCATAACTATAAAAA-CCACAATTTCCACTAAATCACACTTTTAT
240140267 ACGATTTTGT
Statistics
Matches: 4043, Mismatches: 94, Indels: 173
0.94 0.02 0.04
Matches are distributed among these distances:
525 83 0.02
526 67 0.02
527 235 0.06
528 168 0.04
529 233 0.06
530 357 0.09
531 166 0.04
532 404 0.10
533 387 0.10
534 490 0.12
535 323 0.08
536 362 0.09
537 285 0.07
538 404 0.10
539 10 0.00
540 68 0.02
541 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (540 bp):
ATTTTCATTGAAAATCACTTAGCAAAAGTTGTTTCTCCAACCATAAACATGCATAATCTACCATT
AAACATCAAAATACACAAATTTATAACATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAA
ATGGTAGAAATAGGTAGATCATGTTACAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGC
AAGAACGGACTTACTATGGAGCTTGGAAAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAA
TTTCGGCCGAGGGGTTGAAGATGACCAAAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATT
ACTAAATTTTATCATACTATGGCAAAAATTACATTTTTGCCCCTAAATTTTATCATATTTACACT
TTTACCCTAGGCTTGTAAAATAATTTTCATTCAATTTATTTTCACCTTAAGCCTAGCCGAACCAC
TTTCATAACTATAAAAACCACAATTTCCACTAAATCACACTTTTATGACAAATTTTATAACTTTT
ACAAATTAGTCCTTTTTAGC
Found at i:240141015 original size:30 final size:31
Alignment explanation
Indices: 240140980--240141042 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
240140970 CCTTTTCATA
240140980 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
240141010 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
240141041 TT
1 TT
240141043 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:240141286 original size:24 final size:24
Alignment explanation
Indices: 240141235--240141377 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
240141225 GCTTTATCAT
*
240141235 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
240141260 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
240141284 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
240141307 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
240141331 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
240141355 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
240141378 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:240141314 original size:47 final size:48
Alignment explanation
Indices: 240141235--240141376 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
240141225 GCTTTATCAT
* *
240141235 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
240141284 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
240141331 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
240141377 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:240141335 original size:71 final size:72
Alignment explanation
Indices: 240141234--240141377 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
240141224 TGCTTTATCA
*
240141234 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
240141299 GCCCTTT
66 GCCCTTT
* * **
240141306 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
240141369 AGCCCTTT
65 AGCCCTTT
240141377 T
1 T
240141378 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:240141452 original size:20 final size:20
Alignment explanation
Indices: 240141427--240141487 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
240141417 TTATGATTAC
240141427 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
240141447 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
240141467 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
240141487 A
1 A
240141488 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:240141562 original size:25 final size:25
Alignment explanation
Indices: 240141530--240141577 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
240141520 ATACATAAAC
* * *
240141530 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
240141555 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
240141578 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:240146023 original size:533 final size:539
Alignment explanation
Indices: 240144240--240147187 Score: 5133
Period size: 532 Copynumber: 5.5 Consensus size: 539
240144230 TTGGGGCGTT
* *
240144240 ACAAATTTTATAACTTTTACAATTTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
1 ACAAAATTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
*
240144305 GTTGTTTCTCTAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAAC
66 GTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAAC
*
240144370 ATAGTTCAAACCCTAGACC-TCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTAC
131 ATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTAC
*
240144434 AAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGCAAGAACAGACTTACTATGGAGCTTGGA
196 AAGGATTTC-AAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGGA
240144499 AAGCTTAAA-AAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCA
260 AAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCA
*
240144563 AAATTTGGCTTTTATTTTCTTTATTTAAACATTTAATTACTAAATTTTATCATACTATGGAAAAA
325 AAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATTACTAAATTTTATCATACTATGGAAAAA
240144628 TTACATTTTTGCCCCTAAATTTTATCATATTTACACTTTTACCCTAGGCTTGTAAAATAATTTTC
390 TTACATTTTTGCCCCTAAATTTTATCATATTTACACTTTTACCCTAGGCTTGTAAAATAATTTTC
240144693 ATTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTATAAAAACCCACAATTTC
455 ATTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTATAAAAACCCACAATTTC
240144758 CACTAAATCACACTTTTATG
520 CACTAAATCACACTTTTATG
*
240144778 A-AAAATTTTATAAGTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAA
1 ACAAAA-TTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAA
240144842 AGTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAA
65 AGTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAA
240144907 CATGGTT-AAACCCTA-ACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTA
130 CATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTA
240144970 CAAGGATTTCAAAACGTGAAAATCATTAAAAAC-GGGCAAGAACGGACTTACTATGGAGCTTGGA
195 CAAGGATTTCAAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGGA
240145034 AAGCTTAAACAAAACCCTAGCCATGGTGGTCTTC-AAATTTCGGCC-AGGGGTTGAAGATGACCA
260 AAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCA
*
240145097 AAATTTTGCTTTTATTTTGTTTATTTAAACA-TTAA-TACTAAATTTTATCATACTATGGCAAAA
325 AAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATTACTAAATTTTATCATACTATGG-AAAA
* *
240145160 ATTACATTTTTGCCCCTAAATTTTATC--ATTTACACTTTTGCCCCTAGGCTTTTAAAA-AATTT
389 ATTACATTTTTGCCCCTAAATTTTATCATATTTACACTTTT-ACCCTAGGCTTGTAAAATAATTT
**
240145222 TCATTCAATTTATTTTCACCTT--GCC-AGCCGAACCACTTTCATAACTATAAAAACCCACAATT
453 TCATTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTATAAAAACCCACAATT
240145284 TCCACTAAATCACACTTTTATG
518 TCCACTAAATCACACTTTTATG
240145306 AC--AATTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
1 ACAAAATTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
240145369 GTTGTTTCTCTCAACCATAAACATGCATAATCTACCATTAAACATCAAAA-ACACAAATTTATAA
66 GTTGTTTCTC-CAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAA
* *
240145433 CATAGTTCAAACCCTAGACCTCCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTA
130 CATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTA
240145498 C-AGGATTTCAAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGGA
195 CAAGGATTTCAAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGGA
* *
240145562 AAGCTTAAACAAAACCCTAGCCATGGT-GCCTTCAAAGTTTCGGCCGAGGGGTTGAAGATGACCA
260 AAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCA
240145626 AAATTTGGCTTTTATTTTGTTTATTTAAACATTTTAATTACTAAA-TTTATCATACTATGG-AAA
325 AAATTTGGCTTTTATTTTGTTTATTTAAACA-TTTAATTACTAAATTTTATCATACTATGGAAAA
240145689 ATTACATTTTTG-CCCTAAATTTTATCATATTTACACTTTTACCCTAGGCTT-TAAAATAATTTT
389 ATTACATTTTTGCCCCTAAATTTTATCATATTTACACTTTTACCCTAGGCTTGTAAAATAATTTT
* *
240145752 CTTTCAATTTATTTTCAATTTAAGCCTAGCCGATCCACTTTCATAACTATAAAAACCCACAATTT
454 CATTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTATAAAAACCCACAATTT
240145817 CCACTAAATCACAC-TTTATG
519 CCACTAAATCACACTTTTATG
240145837 ACAAAATTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
1 ACAAAATTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
240145902 GTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAAC
66 GTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAAC
*
240145967 ATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATTGGTAGATCATGTTAC
131 ATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTAC
* *
240146032 AAGGATTTCAAAACATGAAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGACCTTGGA
196 AAGGATTTCAAAACGTG-AAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGGA
*
240146097 AAGCTTAAACAAAATCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCA
260 AAGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCA
*
240146162 AAATTTGGCTTTTATTTTGTTTATTTAAACATGTAATTACTAAATTTTATCATACTATGGTAAAA
325 AAATTTGGCTTTTATTTTGTTTATTTAAACATTTAATTACTAAATTTTATCATACTATGG-AAAA
* * * *
240146227 ATTAAATTTATGCCCCTAAATTTTATCTTATTTACACTTTTACCCTAGGCTTGTCAAATAATTTT
389 ATTACATTTTTGCCCCTAAATTTTATCATATTTACACTTTTACCCTAGGCTTGTAAAATAATTTT
* *
240146292 CATTCAATTTATTTTCACTTTAAGCCGAGCCGAACCACTTTCATAACTATAAAAACCCACAATTT
454 CATTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTATAAAAACCCACAATTT
240146357 CCACTAAATCACACTTTTATG
519 CCACTAAATCACACTTTTATG
* *
240146378 GCAAATTTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
1 ACAAAATTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
* *
240146443 GTTGTTTCTCTAACCATAAACATGCATAATCTACCCTTAAACATCAAAATACACAAATTTATAAC
66 GTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAAC
240146508 AT-GTTCAAACCCTAGACC-TCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTAC
131 ATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTAC
* * *
240146571 AAGGATTTCAAAA-ATGAAAATCATTAAAAACGGGGCAAGAACAGACTTACTATGCAGCTTGGAA
196 AAGGATTTCAAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGGAA
*
240146635 AGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCAAGGGGTTGAAGATGACCAA
261 AGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCAA
*
240146700 AATTTGGCTTTTATTTTGTTTATTTAAACATTTAATTACTAAATTTT-TCATACTACGGAAAAAT
326 AATTTGGCTTTTATTTTGTTTATTTAAACATTTAATTACTAAATTTTATCATACTATGGAAAAAT
240146764 TACATTTTTG-CCCT-AATTTTATCATATTTACACTTTTACCCTAGGCTTGT-AAATAATTTTCA
391 TACATTTTTGCCCCTAAATTTTATCATATTTACACTTTTACCCTAGGCTTGTAAAATAATTTTCA
*
240146826 TTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTATAAAAAACCCATAATTTC
456 TTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTAT-AAAAACCCACAATTTC
240146891 CACTAAATCACACTTTTATG
520 CACTAAATCACACTTTTATG
* *
240146911 A-AAAATTTTATAA-GTTTATAAATTAGTCCTTTTTAGCA-TTTCATTGAAAATCACTTAGCAAA
1 ACAAAA-TTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAA
*
240146973 AGTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACAAAAATTTATAA
65 AGTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAA
* *
240147038 CATGGTTCAAACCC-AAACCTTCATCATAACTCAAATAAGTGGTAGAAATAGGTAGATCATGTTA
130 CATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTA
240147102 CAAGGATTTCAAAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGG
195 CAAGGATTTC-AAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGG
240147167 AAAGCTTAAACAAAAACCCTA
259 AAAGCTTAAAC-AAAACCCTA
240147188 TGTACGCCCA
Statistics
Matches: 2300, Mismatches: 70, Indels: 83
0.94 0.03 0.03
Matches are distributed among these distances:
526 88 0.04
527 85 0.04
528 195 0.08
529 100 0.04
530 12 0.01
531 160 0.07
532 282 0.12
533 264 0.11
534 123 0.05
535 157 0.07
536 141 0.06
537 219 0.10
538 143 0.06
539 95 0.04
540 102 0.04
541 134 0.06
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.33
Consensus pattern (539 bp):
ACAAAATTTATAACTTTTACAAATTAGTCCTTTTTAGCATTTTCATTGAAAATCACTTAGCAAAA
GTTGTTTCTCCAACCATAAACATGCATAATCTACCATTAAACATCAAAATACACAAATTTATAAC
ATGGTTCAAACCCTAGACCTTCATCATAACTCAAATAAATGGTAGAAATAGGTAGATCATGTTAC
AAGGATTTCAAAACGTGAAAATCATTAAAAACGGGGCAAGAACGGACTTACTATGGAGCTTGGAA
AGCTTAAACAAAACCCTAGCCATGGTGGTCTTCAAAATTTCGGCCGAGGGGTTGAAGATGACCAA
AATTTGGCTTTTATTTTGTTTATTTAAACATTTAATTACTAAATTTTATCATACTATGGAAAAAT
TACATTTTTGCCCCTAAATTTTATCATATTTACACTTTTACCCTAGGCTTGTAAAATAATTTTCA
TTCAATTTATTTTCAATTTAAGCCTAGCCGAACCACTTTCATAACTATAAAAACCCACAATTTCC
ACTAAATCACACTTTTATG
Found at i:240147554 original size:26 final size:26
Alignment explanation
Indices: 240147518--240147627 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
240147508 TGATACAAAT
240147518 TGATGAATAGGTTAGGTAAATGTTCCA
1 TGAT-AATAGGTTAGGTAAATGTTCCA
240147545 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
240147571 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
240147596 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
240147622 TGATAA
1 TGATAA
240147628 GAATTTCATG
Statistics
Matches: 81, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
25 25 0.31
26 52 0.64
27 4 0.05
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:240147610 original size:51 final size:52
Alignment explanation
Indices: 240147518--240147627 Score: 177
Period size: 51 Copynumber: 2.1 Consensus size: 52
240147508 TGATACAAAT
240147518 TGATGAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGAT-AATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
* * *
240147571 TGATAATGGGTTAGGTAAATGTT-CATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
240147622 TGATAA
1 TGATAA
240147628 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 32 0.59
52 18 0.33
53 4 0.07
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.35
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:240149308 original size:26 final size:26
Alignment explanation
Indices: 240149253--240149391 Score: 170
Period size: 27 Copynumber: 5.2 Consensus size: 26
240149243 GAGGAAGCGT
*
240149253 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-AATATCTGA
*
240149280 TCTGGTGGCTCTGCCACAATATCTAA
1 TCTGGTGGCTCTGCCACAATATCTGA
*
240149306 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACA-ATATCTGA
*
240149333 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCAC-AATATCTG-A
* * * *
240149361 TCTGGTGACTCTGTCACATTATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGA
240149387 TCTGG
1 TCTGG
240149392 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
26 31 0.31
27 53 0.53
28 16 0.16
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:240149337 original size:53 final size:55
Alignment explanation
Indices: 240149253--240149391 Score: 194
Period size: 53 Copynumber: 2.6 Consensus size: 55
240149243 GAGGAAGCGT
* * *
240149253 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCAC-AATATCT-AA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGAA
* *
240149306 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGAA
* *
240149361 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
240149392 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
53 41 0.53
54 18 0.23
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGAATATCTGAA
Found at i:240156243 original size:25 final size:23
Alignment explanation
Indices: 240156203--240156250 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
240156193 TGCATTATGG
240156203 AAGGAAAATAAAGAAATGAAAAAAA
1 AAGGAAAATAAAGAAA--AAAAAAA
* *
240156228 AAGGAAAATGATGAAAAAAAAAA
1 AAGGAAAATAAAGAAAAAAAAAA
240156251 GAGTGTGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (23 bp):
AAGGAAAATAAAGAAAAAAAAAA
Found at i:240157571 original size:29 final size:29
Alignment explanation
Indices: 240157538--240157602 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
240157528 GTGACGAGAT
240157538 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
240157567 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
240157596 CGGCACT
1 TGGCACT
240157603 GGGTGTGTGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:240161076 original size:45 final size:45
Alignment explanation
Indices: 240161024--240161110 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
240161014 TATGTAATTT
*
240161024 GAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGACATCC
1 GAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGACATCC
*
240161069 GAACTCATTGAGTTATGGTCTGAGTTCGTGATATATGTGACA
1 GAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGACA
240161111 CATGTTTTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (45 bp):
GAACTCATTGAGTTATGGTCTGAGTTCATGATATATGTGACATCC
Found at i:240167373 original size:40 final size:40
Alignment explanation
Indices: 240167288--240167438 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
240167278 AATTGAATGA
* * *
240167288 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
240167328 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
240167369 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
240167408 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
240167439 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:240167452 original size:40 final size:40
Alignment explanation
Indices: 240167325--240167454 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
240167315 ATGCTGGAAA
* * * *
240167325 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
240167365 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
240167405 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
240167445 TTATATCCGG
1 TTATATCCGG
240167455 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:240169764 original size:26 final size:26
Alignment explanation
Indices: 240169728--240169780 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
240169718 GTTCCAAGAC
240169728 TCGGAATTTCAAATCGACGATGGCGA
1 TCGGAATTTCAAATCGACGATGGCGA
240169754 TCGGAATTTCAAATCGACGATGGCGA
1 TCGGAATTTCAAATCGACGATGGCGA
240169780 T
1 T
240169781 TGTTTGAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (26 bp):
TCGGAATTTCAAATCGACGATGGCGA
Found at i:240172851 original size:40 final size:40
Alignment explanation
Indices: 240172785--240172935 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
240172775 AAATTGAATG
* * *
240172785 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
240172824 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
240172864 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
240172904 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
240172936 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:240172949 original size:40 final size:40
Alignment explanation
Indices: 240172822--240172951 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
240172812 ATGCTGGAAA
* * * *
240172822 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
240172862 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
240172902 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
240172942 TTATATCCGG
1 TTATATCCGG
240172952 TTATATTTCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:240176571 original size:16 final size:16
Alignment explanation
Indices: 240176546--240176584 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
240176536 ACACATCACC
240176546 GTAC-AAGCCTGCTAG
1 GTACGAAGCCTGCTAG
240176561 GTACGAAGCCTGCTAG
1 GTACGAAGCCTGCTAG
*
240176577 GCACGAAG
1 GTACGAAG
240176585 GCCCAAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.28, C:0.26, G:0.31, T:0.15
Consensus pattern (16 bp):
GTACGAAGCCTGCTAG
Found at i:240176611 original size:43 final size:43
Alignment explanation
Indices: 240176563--240176677 Score: 180
Period size: 41 Copynumber: 2.7 Consensus size: 43
240176553 CCTGCTAGGT
* *
240176563 ACGAAGCCTGCTAGGCACGAAGGCCCAAATACACATCATCGGC
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGC
240176606 ACGAAGCCTGCTAGGCACGAAGG--CGAATACACATCACCGGC
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGC
* *
240176647 ACAAAGCATGCTAGGCACGAAGGCCCGAATA
1 ACGAAGCCTGCTAGGCACGAAGGCCCGAATA
240176678 TAATACCAGC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
41 37 0.56
43 29 0.44
ACGTcount: A:0.34, C:0.30, G:0.25, T:0.10
Consensus pattern (43 bp):
ACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGC
Found at i:240177959 original size:2 final size:2
Alignment explanation
Indices: 240177947--240177983 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
240177937 CACTTTCAAA
240177947 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
240177984 TGACTTTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:240182798 original size:28 final size:29
Alignment explanation
Indices: 240182731--240182830 Score: 125
Period size: 29 Copynumber: 3.5 Consensus size: 29
240182721 ATAGTGAATC
*
240182731 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
240182760 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * *
240182788 CGCACACTTAGTGCTGTACAATTTTAAAC-
1 CGCACACTTAGTGCTATATAA-TTCAAACT
240182817 CGCACACTTAGTGC
1 CGCACACTTAGTGC
240182831 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 34 0.53
30 5 0.08
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:240184168 original size:19 final size:21
Alignment explanation
Indices: 240184132--240184171 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
240184122 TCCACACCCA
240184132 TTTTTTTTCATCATTTTCTTTT
1 TTTTTTTTCA-CATTTTCTTTT
240184154 TTTTTTTTC-CA-TTTCTTT
1 TTTTTTTTCACATTTTCTTT
240184172 ATTCTCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
22 9 0.50
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTCACATTTTCTTTT
Found at i:240190620 original size:28 final size:29
Alignment explanation
Indices: 240190553--240190653 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
240190543 ATAGTGAATC
*
240190553 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
240190582 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
240190610 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
240190640 CGCACACTTAGTGC
1 CGCACACTTAGTGC
240190654 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:240191993 original size:18 final size:20
Alignment explanation
Indices: 240191957--240191996 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
240191947 TCCACACCCA
240191957 TTTTTTTTTCATCATTTTCTT
1 TTTTTTTTTCA-CATTTTCTT
240191978 TTTTTTTTTC-CA-TTTCTT
1 TTTTTTTTTCACATTTTCTT
240191996 T
1 T
240191997 ATTCTCCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
19 2 0.11
21 10 0.53
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTCACATTTTCTT
Found at i:240193123 original size:40 final size:40
Alignment explanation
Indices: 240193066--240193257 Score: 296
Period size: 40 Copynumber: 4.8 Consensus size: 40
240193056 CGGATGATAA
240193066 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
240193106 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
240193146 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
240193186 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* *
240193226 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
240193258 AGCTATATCC
Statistics
Matches: 138, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:240201658 original size:44 final size:45
Alignment explanation
Indices: 240201568--240201696 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
240201558 GACAGAACGA
*
240201568 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
240201614 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
240201658 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
240201697 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:240209035 original size:44 final size:45
Alignment explanation
Indices: 240208945--240209073 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
240208935 GACAGAACGA
*
240208945 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
240208991 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
240209035 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
240209074 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:240212245 original size:27 final size:26
Alignment explanation
Indices: 240212204--240212315 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
240212194 AGGAAGCGTC
*
240212204 CTGGTGGCTAC-GCCACAATTATATGAT
1 CTGGTGGCT-CTGCCAC-ATTATCTGAT
*
240212231 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
240212258 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
240212286 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
240212312 CTGG
1 CTGG
240212316 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.11
27 50 0.67
28 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:240212308 original size:54 final size:54
Alignment explanation
Indices: 240212204--240212315 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
240212194 AGGAAGCGTC
*
240212204 CTGGTGGCTACGCCACAATTATATGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTACGCCACAATTATATGATCTGGTGACTCTGCCACATATATCTGTT
* * *
240212258 CTGGTGGCT-CTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTAC-GCCACAATTATATG-ATCTGGTGACTCTGCCACATATATCTGTT
240212312 CTGG
1 CTGG
240212316 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.63
55 18 0.35
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTACGCCACAATTATATGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:240216310 original size:46 final size:46
Alignment explanation
Indices: 240216243--240216371 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
240216233 TGTAACCCGC
* * * *
240216243 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
240216289 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
240216335 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
240216372 TGCCCAAATA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:240225428 original size:30 final size:30
Alignment explanation
Indices: 240225392--240225452 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
240225382 TCCTTAACTC
240225392 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
240225422 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
240225452 A
1 A
240225453 TGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:240228002 original size:29 final size:29
Alignment explanation
Indices: 240227970--240228077 Score: 91
Period size: 29 Copynumber: 3.8 Consensus size: 29
240227960 TTAGTGCCAC
*
240227970 TGAACGATCTCGCACACATAGTGCTCGGT
1 TGAACGATCTCGCACACATAGTGCTCAGT
* *
240227999 TGAA--A-CTCGCACACACAGTGCCTCAAT
1 TGAACGATCTCGCACACATAGTG-CTCAGT
* *
240228026 T-ATCGATTTCGCACACATAGTGCTCAGT
1 TGAACGATCTCGCACACATAGTGCTCAGT
* * *
240228054 TAAAAGAAT-TTGCACACATAGTGC
1 TGAACG-ATCTCGCACACATAGTGC
240228078 CTCTAATCAT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
26 15 0.24
27 6 0.10
28 7 0.11
29 33 0.52
30 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (29 bp):
TGAACGATCTCGCACACATAGTGCTCAGT
Found at i:240229928 original size:75 final size:76
Alignment explanation
Indices: 240229832--240230003 Score: 215
Period size: 75 Copynumber: 2.3 Consensus size: 76
240229822 CGAGGTATAA
* * * * * *
240229832 AACCCGAACATAACACCAGCACGAAGCCTACGGGTCTTTAAACTCAGATATAATA-CAGCAC-TA
1 AACCCGGATATAATACCAGCACGAAGCCTACGGG-ATTT-AACCCAGATATAATACCAGCACGAA
240229895 GCCTGC-GGATTT
64 GCCTGCGGGATTT
*
240229907 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAGATATAATACCAGCACGAAGC
1 AACCCGGATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCACGAAGC
240229972 CTGCGGGATTT
66 CTGCGGGATTT
* * *
240229983 AACCTGGATATATTTCCAGCA
1 AACCCGGATATAATACCAGCA
240230004 TAAAGCCTGC
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
73 14 0.17
74 9 0.11
75 37 0.44
76 24 0.29
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (76 bp):
AACCCGGATATAATACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCACGAAGC
CTGCGGGATTT
Found at i:240229948 original size:38 final size:38
Alignment explanation
Indices: 240229832--240230031 Score: 208
Period size: 38 Copynumber: 5.3 Consensus size: 38
240229822 CGAGGTATAA
* * * * *
240229832 AACCCGAACATAACACCAGCACGAAGCCTACGGGTCTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTT
* * *
240229871 AAACTCAGATATAATA-CAGCAC-TAGCCTGC-GGATTT
1 -AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
240229907 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
*
240229945 AACCCAGATATAATACCAGCACGAAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
* * * ** * *
240229983 AACCTGGATATATTTCCAGCATAAAGCCTGCGAGTTTT
1 AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
240230021 AAGCCCGGATA
1 AA-CCCGGATA
240230032 CACATCAAAT
Statistics
Matches: 135, Mismatches: 21, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
35 13 0.10
36 9 0.07
37 9 0.07
38 81 0.60
39 13 0.10
40 10 0.07
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
AACCCGGATATAATACCAGCACGAAGCCTGCGGGATTT
Found at i:240231934 original size:40 final size:39
Alignment explanation
Indices: 240231889--240232096 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
240231879 CGGAATACAA
*
240231889 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
240231929 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
240231969 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
240232009 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
240232049 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
240232089 CCGGATAT
1 CCGGATAT
240232097 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:240232036 original size:80 final size:81
Alignment explanation
Indices: 240231889--240232094 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
240231879 CGGAATACAA
* * * *
240231889 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
240231953 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
240231969 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
240232032 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
240232049 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
240232095 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:240240074 original size:80 final size:81
Alignment explanation
Indices: 240239927--240240131 Score: 238
Period size: 80 Copynumber: 2.6 Consensus size: 81
240239917 CGGAATACAA
* * * *
240239927 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
240239991 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
240240007 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
240240070 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
240240087 CCGGATTTAA-TACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
240240132 ATCATTTAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 28 0.26
80 75 0.69
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:240240116 original size:39 final size:40
Alignment explanation
Indices: 240239943--240240131 Score: 211
Period size: 40 Copynumber: 4.8 Consensus size: 40
240239933 ATAACCACAT
* ** * *
240239943 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
* * *
240239983 GCACAAATGCCTTCGGGTATTAGCCCGGATTTAACAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
* *
240240023 GCACGAATGCCTTCGGGTCTTAGCCCGGATTT-AGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACT-ACTA
* * *
240240063 GCATAATTGCCTTCGGGTCTTAACCCGGATTTAA-TACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
* * *
240240102 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
240240132 ATCATTTAAT
Statistics
Matches: 129, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 31 0.24
40 97 0.75
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACTACTA
Found at i:240245306 original size:39 final size:41
Alignment explanation
Indices: 240245252--240245393 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 41
240245242 AACCCAAGTA
* *
240245252 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
240245291 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
*
240245331 CCTTCGGGACTTAGCCCAGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
240245371 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
240245394 CATTCGAATA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
39 13 0.14
40 76 0.83
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:240253521 original size:22 final size:22
Alignment explanation
Indices: 240253479--240253522 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
240253469 AATTATTTAC
* *
240253479 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
240253501 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
240253523 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:240253802 original size:39 final size:41
Alignment explanation
Indices: 240253748--240253889 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 41
240253738 AACCCAAGTA
* *
240253748 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
* *
240253787 CCTTCGGGTCTTAGCCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
240253827 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
240253867 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
240253890 CATTCGAATA
Statistics
Matches: 94, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
39 13 0.14
40 78 0.83
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAACTAGCACAAATG
Found at i:240258478 original size:13 final size:14
Alignment explanation
Indices: 240258454--240258484 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
240258444 ATTATTATTA
240258454 ATATTAATATATGT
1 ATATTAATATATGT
240258468 ATATT-ATATATGT
1 ATATTAATATATGT
240258481 ATAT
1 ATAT
240258485 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:240258703 original size:18 final size:20
Alignment explanation
Indices: 240258684--240258732 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
240258674 GTTCTTAATA
*
240258684 TTATATTTT-ATATTATTAT
1 TTATATTTTAATATTATTAG
240258703 TATATATTTTAATATTATTAG
1 T-TATATTTTAATATTATTAG
240258724 TTATATTTT
1 TTATATTTT
240258733 TCTTTCATAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 16 0.59
21 10 0.37
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTATATTTTAATATTATTAG
Found at i:240258710 original size:20 final size:22
Alignment explanation
Indices: 240258685--240258733 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
240258675 TTCTTAATAT
240258685 TATATTTT-ATATTATTA-TTA
1 TATATTTTAATATTATTAGTTA
240258705 TATATTTTAATATTATTAGTTA
1 TATATTTTAATATTATTAGTTA
240258727 TAT-TTTT
1 TATATTTT
240258734 CTTTCATACT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.30
21 13 0.48
22 6 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATTTTAATATTATTAGTTA
Found at i:240272046 original size:2 final size:2
Alignment explanation
Indices: 240272039--240272073 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
240272029 TGAAAGTCGA
*
240272039 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
240272074 TTTTAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
AT
Found at i:240274008 original size:29 final size:29
Alignment explanation
Indices: 240273975--240274039 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
240273965 GTGACGAGAT
240273975 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
240274004 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
240274033 CGGCACT
1 TGGCACT
240274040 GGGTGTGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:240276472 original size:43 final size:43
Alignment explanation
Indices: 240276419--240276543 Score: 187
Period size: 43 Copynumber: 2.9 Consensus size: 43
240276409 GCTGGTATTA
*
240276419 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
* **
240276462 TATTTGGGCCTTCGTGCCTAGCAGGCTTCCTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
* * *
240276505 TATTCAGGCCTTTGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGA
240276544 AATGATATGT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAATGCCGGTGATGTG
Found at i:240277218 original size:23 final size:23
Alignment explanation
Indices: 240277188--240277238 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
240277178 GGTGTGAAAG
240277188 TATGTGAAAGTATTTGATTTAAT
1 TATGTGAAAGTATTTGATTTAAT
240277211 TATGTGAAAGTATTTGATTTAAT
1 TATGTGAAAGTATTTGATTTAAT
240277234 TATGT
1 TATGT
240277239 TATACGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (23 bp):
TATGTGAAAGTATTTGATTTAAT
Found at i:240284945 original size:46 final size:46
Alignment explanation
Indices: 240284878--240285051 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
240284868 TGTAACCCGC
240284878 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
240284924 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
240284974 --TTCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
** * *
240285016 CCATAAATGAACTCGGACTCAACTCCACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
240285052 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 3 0.03
43 1 0.01
44 2 0.02
45 25 0.24
46 37 0.35
47 25 0.24
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:240285046 original size:92 final size:93
Alignment explanation
Indices: 240284885--240285055 Score: 281
Period size: 92 Copynumber: 1.8 Consensus size: 93
240284875 CGCCCATAAG
* * *
240284885 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
240284950 ACGAGCTCGGATGCCTAGTTACATTTCA
66 ACGAGCTCGGATGCCTAGTTACATTTCA
* *
240284978 CGAACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAAATGAACTCGGACTCAACTCC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
*
240285042 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
240285056 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 46 0.64
93 26 0.36
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATTTCA
Found at i:240288417 original size:40 final size:39
Alignment explanation
Indices: 240288372--240288578 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
240288362 CGGAATACAA
*
240288372 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
240288412 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
240288452 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
240288492 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTA-A
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
240288531 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
240288571 CCGGATAT
1 CCGGATAT
240288579 CATTCAATTG
Statistics
Matches: 140, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.23
40 108 0.77
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:240288512 original size:80 final size:80
Alignment explanation
Indices: 240288370--240288576 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
240288360 TTCGGAATAC
* * *
240288370 AACCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAA
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAA
240288434 ATGCCTTCGGGTATT
66 ATGCCTTCGGGTATT
* * *
240288449 AGCCCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCAC
1 A-ACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCAC
* *
240288512 AATTGCCTTCGGGTCTT
64 AAATGCCTTCGGGTATT
** * ** * *
240288529 AACCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
240288577 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
79 39 0.36
80 65 0.60
81 1 0.01
82 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
AACCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAA
ATGCCTTCGGGTATT
Found at i:240295586 original size:40 final size:39
Alignment explanation
Indices: 240295541--240295747 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
240295531 CGGAATACAA
*
240295541 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
240295581 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
240295621 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
240295661 CCGGATGTAGTCACTAGCAC-AATGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
240295700 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
240295740 CCGGATAT
1 CCGGATAT
240295748 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
39 35 0.24
40 108 0.76
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:240295681 original size:80 final size:80
Alignment explanation
Indices: 240295541--240295745 Score: 245
Period size: 79 Copynumber: 2.6 Consensus size: 80
240295531 CGGAATACAA
* * *
240295541 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
240295605 GCCTTCGGGTATTAGC
65 GCCTTCGGGTATTAAC
* *
240295621 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
240295684 GCCTTCGGGTCTTAAC
65 GCCTTCGGGTATTAAC
** * ** * *
240295700 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
240295746 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 55 0.51
80 49 0.45
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
CCTTCGGGTATTAAC
Found at i:240302517 original size:22 final size:23
Alignment explanation
Indices: 240302492--240302537 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
240302482 CAACCAAATC
240302492 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
240302514 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
240302537 A
1 A
240302538 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:240302543 original size:23 final size:23
Alignment explanation
Indices: 240302499--240302543 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
240302489 ATCAATTCAA
*
240302499 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
240302522 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
240302544 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:240310203 original size:22 final size:23
Alignment explanation
Indices: 240310178--240310223 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
240310168 CAACCAAATC
240310178 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
240310200 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
240310223 A
1 A
240310224 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:240310229 original size:23 final size:23
Alignment explanation
Indices: 240310185--240310229 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
240310175 ATCAATTCAA
*
240310185 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
240310208 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
240310230 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:240316058 original size:17 final size:17
Alignment explanation
Indices: 240316038--240316071 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
240316028 CATTTAAAAA
240316038 TTATTTCCATT-TTTTTC
1 TTATTTCC-TTCTTTTTC
240316055 TTATTTCCTTCTTTTTC
1 TTATTTCCTTCTTTTTC
240316072 CCAATATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 14 0.88
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTCCTTCTTTTTC
Found at i:240320422 original size:43 final size:43
Alignment explanation
Indices: 240320271--240320441 Score: 129
Period size: 43 Copynumber: 4.0 Consensus size: 43
240320261 TAGGATTTCT
* * **
240320271 GATATGTGATTTCATGTAAGACCACATCTAGGACGTTGGCATCA
1 GATATTTGAATTCATGTAAGACCATGTCTAGGACGTTGGCAT-A
* * * * *
240320315 G---TTTGAGATTTATGTGTAAGACCATGTCTGGGACATCGACAT-
1 GATATTTGA-ATTCA--TGTAAGACCATGTCTAGGACGTTGGCATA
* * *
240320357 CATATTTGAATTCATGTGAGACCCTGTCTAGGACAG-TGGCATA
1 GATATTTGAATTCATGTAAGACCATGTCTAGGAC-GTTGGCATA
*
240320400 GATATTTG-ATTACATGTAAGACCATGTCTGGGACGTTGGCAT
1 GATATTTGAATT-CATGTAAGACCATGTCTAGGACGTTGGCAT
240320442 TGTACGAGCT
Statistics
Matches: 96, Mismatches: 21, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
41 4 0.04
42 28 0.29
43 32 0.33
44 27 0.28
45 5 0.05
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
GATATTTGAATTCATGTAAGACCATGTCTAGGACGTTGGCATA
Found at i:240326148 original size:29 final size:29
Alignment explanation
Indices: 240326086--240326188 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
240326076 GTGACGAGAT
* * *
240326086 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
240326115 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
240326144 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
240326173 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
240326189 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:240333297 original size:30 final size:30
Alignment explanation
Indices: 240333263--240333323 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
240333253 TTCCCGAGCC
240333263 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
240333293 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
240333323 T
1 T
240333324 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:240337399 original size:27 final size:28
Alignment explanation
Indices: 240337343--240337412 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
240337333 AAATTTGTAC
240337343 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
240337371 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
240337398 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
240337413 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Done.