Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 161 of 295
Found at i:54873339 original size:22 final size:22
Alignment explanation
Indices: 54873298--54873340 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
54873288 TTGGCCATTG
* **
54873298 TGGCGCATTCTGTTGGCATTTA
1 TGGCACATTCTGTTAACATTTA
54873320 TGGCACATTCTGTTAACATTT
1 TGGCACATTCTGTTAACATTT
54873341 GTGGAATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (22 bp):
TGGCACATTCTGTTAACATTTA
Found at i:54880331 original size:40 final size:40
Alignment explanation
Indices: 54880237--54880381 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
54880227 TACTCGAATG
*
54880237 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
54880278 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
54880318 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
54880358 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
54880382 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:54888342 original size:40 final size:40
Alignment explanation
Indices: 54888248--54888392 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
54888238 TACTCGAATG
*
54888248 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
54888289 ACATCCGGACTAAGAT-CTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
54888329 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
54888369 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
54888393 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:54889368 original size:22 final size:23
Alignment explanation
Indices: 54889343--54889390 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 23
54889333 GACTAACAAC
54889343 AGTCCTAT-ACATGCCATTATCA
1 AGTCCTATAACATGCCATTATCA
54889365 AGTCCTATCAACATGCCATTATCA
1 AGTCCTAT-AACATGCCATTATCA
54889389 AG
1 AG
54889391 GTTCAACCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 8 0.33
24 16 0.67
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (23 bp):
AGTCCTATAACATGCCATTATCA
Found at i:54889898 original size:40 final size:40
Alignment explanation
Indices: 54889821--54890038 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
54889811 AAACCAAGTA
* * *
54889821 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
54889860 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
54889900 CCTTTGGGACTTAGCCCGGATATAGCAACTC-CTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCAC-ACAAATG
**
54889940 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
54889980 CCTTCGGGACTTAGCCCGGA-ATTAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
54890020 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54890039 TTACCATCCG
Statistics
Matches: 163, Mismatches: 10, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
39 16 0.10
40 146 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:54897829 original size:40 final size:40
Alignment explanation
Indices: 54897759--54897976 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
54897749 AAACCAAGTA
* *
54897759 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
** * *
54897798 CCTTTAGGACTTAGCCCAGATATATTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
54897838 CCTTCGAGACATAGCCCGGATATAGTAACTCCCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
54897878 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
54897918 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
54897958 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54897977 TTACCATCCG
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 13 0.08
40 144 0.92
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54902406 original size:20 final size:20
Alignment explanation
Indices: 54902381--54902424 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
54902371 CCTCTAAAAC
*
54902381 AGATTCCTTACCTTACAGTT
1 AGATTCCTTACCCTACAGTT
*
54902401 AGATTCTTTACCCTACAGTT
1 AGATTCCTTACCCTACAGTT
54902421 -GATT
1 AGATT
54902425 TATCTCCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (20 bp):
AGATTCCTTACCCTACAGTT
Found at i:54906965 original size:40 final size:40
Alignment explanation
Indices: 54906845--54907148 Score: 382
Period size: 40 Copynumber: 7.7 Consensus size: 40
54906835 GGATATAACC
* * * * *
54906845 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* *
54906884 ACTAGCACAAATGCCTT-GGGACTTAGCCCGG-ATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
54906923 ACTCGCACAAATGCCTTCGGGGCTTAGCTCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
54906963 ACTCGCACAAAAGCCTTCGAGATTTAGCTCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
54907003 ACTCGCACAAATGCCTTCGGGACTTAGCCCGAAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
*
54907043 ACTCGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* **
54907083 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGAATTTTTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
54907123 ACTCGCACAAATGCCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
54907149 ACCCCGTTAG
Statistics
Matches: 232, Mismatches: 30, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
39 40 0.17
40 190 0.82
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:54915275 original size:40 final size:40
Alignment explanation
Indices: 54915198--54915458 Score: 382
Period size: 40 Copynumber: 6.5 Consensus size: 40
54915188 ATGGTCACTA
* *
54915198 GCACAAATGCCTT-GGGACTTAGCCCG-GATATAATAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGAAAT-TAGTAACTC
* * *
54915237 GCACAAATGCCTTTGGGGCTTAGCCCGAAATTTGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
* * *
54915277 GCACAAAAGCCTTCGAGACTTAGCCCGGAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
*
54915317 GCACAAATGCCTTCGGGACTTAGCCCGAAATTTGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
*
54915357 GCACAAAAGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
* * *
54915397 GCACAAATGCCTTCGAGACTTAGCCCGGAATTTGTAACTC
1 GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
54915437 GCACAAATGCCTTCGGGACTTA
1 GCACAAATGCCTTCGGGACTTA
54915459 ACCCCGTTAG
Statistics
Matches: 199, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
39 13 0.07
40 184 0.92
41 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTAACTC
Found at i:54918514 original size:16 final size:16
Alignment explanation
Indices: 54918490--54918524 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
54918480 AGCCTACATT
54918490 TTTCATTTATTCACAC
1 TTTCATTTATTCACAC
* *
54918506 TTTCCTTTATTCAGAC
1 TTTCATTTATTCACAC
54918522 TTT
1 TTT
54918525 TCTCCACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTCATTTATTCACAC
Found at i:54923020 original size:20 final size:20
Alignment explanation
Indices: 54922997--54923036 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54922987 CCTTTTGGCA
* *
54922997 CATTCTATTCGCCTTTGTGG
1 CATTCTACTAGCCTTTGTGG
*
54923017 CATTCTGCTAGCCTTTGTGG
1 CATTCTACTAGCCTTTGTGG
54923037 TGTACTCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.23, T:0.42
Consensus pattern (20 bp):
CATTCTACTAGCCTTTGTGG
Found at i:54928379 original size:29 final size:30
Alignment explanation
Indices: 54928324--54928383 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54928314 TTCCCGAGCC
54928324 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
* * *
54928354 TAGGGGCAAAATTGTAATTTTG-AAAAGTT
1 TAGGGGCAAAAATGTAAATATGCAAAAGTT
54928383 T
1 T
54928384 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.30
30 19 0.70
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATGCAAAAGTT
Found at i:54928808 original size:67 final size:64
Alignment explanation
Indices: 54928689--54928838 Score: 160
Period size: 67 Copynumber: 2.3 Consensus size: 64
54928679 ATACAGATAG
* * * *
54928689 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTAC--GACA-
54928754 TA
63 TA
* * * **
54928756 TGATGTAGCTAGGTCGCATGGGTGAT-CTATGTGTACACCATGTAG-ACAAGAGAGCTACGGGAT
1 T-ATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGT-GTACAAGAGAGCTACGACAT
54928819 A
64 A
54928820 TATGTAGCTAGGTCGCATG
1 TATGTAGCTAGGTCGCATG
54928839 TGTAGTACTA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
63 18 0.25
64 3 0.04
65 2 0.03
67 28 0.39
68 21 0.29
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGATGATGCTAAGTGCACACCATGTGTACAAGAGAGCTACGACATA
Found at i:54928958 original size:50 final size:50
Alignment explanation
Indices: 54928828--54929025 Score: 263
Period size: 50 Copynumber: 4.0 Consensus size: 50
54928818 TATATGTAGC
* * *
54928828 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T
* * * * *
54928879 TCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAT
* * *
54928929 TAGGTCACGTGTGCAGTACTAAGTGCAGGCTACTATGTGTACCGGATAAT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAT
* *
54928979 T-GGTCACATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCAGATA
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
54929026 GTTTGGCTAC
Statistics
Matches: 128, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 41 0.32
50 46 0.36
51 41 0.32
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (50 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAT
Found at i:54932831 original size:30 final size:29
Alignment explanation
Indices: 54932788--54932848 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
54932778 CAAGTAGCTG
54932788 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
54932817 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
54932847 AA
1 AA
54932849 ACTTCCGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:54940167 original size:39 final size:39
Alignment explanation
Indices: 54940124--54940215 Score: 184
Period size: 39 Copynumber: 2.4 Consensus size: 39
54940114 AGTCGGTATT
54940124 GCACACTTAGTGCCTCAAGTAGCTGAAGCTAGTTAAATC
1 GCACACTTAGTGCCTCAAGTAGCTGAAGCTAGTTAAATC
54940163 GCACACTTAGTGCCTCAAGTAGCTGAAGCTAGTTAAATC
1 GCACACTTAGTGCCTCAAGTAGCTGAAGCTAGTTAAATC
54940202 GCACACTTAGTGCC
1 GCACACTTAGTGCC
54940216 AAAGCTAGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 53 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (39 bp):
GCACACTTAGTGCCTCAAGTAGCTGAAGCTAGTTAAATC
Found at i:54940231 original size:30 final size:29
Alignment explanation
Indices: 54940188--54940251 Score: 119
Period size: 30 Copynumber: 2.2 Consensus size: 29
54940178 CAAGTAGCTG
54940188 AAGCTAGTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
54940217 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
54940247 AAGCT
1 AAGCT
54940252 TCTGTTTCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:54944944 original size:43 final size:43
Alignment explanation
Indices: 54944861--54944944 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
54944851 TTCTCCTATA
* * *
54944861 AAAAAGAATTTACAGAGAGGAGAAGATAATCGTAGGTTGTTTT
1 AAAAAGAATTTACAAAGAGGAGAAGATAAACATAGGTTGTTTT
54944904 AAAAAGAATTTACAAAGAGGAGAAGATAAACAT-GGATTGTT
1 AAAAAGAATTTACAAAGAGGAGAAGATAAACATAGG-TTGTT
54944945 GGTTTTACCG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 2 0.05
43 35 0.95
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.25
Consensus pattern (43 bp):
AAAAAGAATTTACAAAGAGGAGAAGATAAACATAGGTTGTTTT
Found at i:54952744 original size:6 final size:6
Alignment explanation
Indices: 54952726--54952775 Score: 54
Period size: 5 Copynumber: 8.7 Consensus size: 6
54952716 CTAATGTTAT
54952726 AAAAG- AAAA-A AAAAGA AAAAGA AAATAGTA AAAAG- AAAAG- AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAA-AG-A AAAAGA AAAAGA AAAAGA
54952772 AAAA
1 AAAA
54952776 AAATTACAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 18 0.45
6 14 0.35
7 4 0.10
8 4 0.10
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:54954752 original size:24 final size:24
Alignment explanation
Indices: 54954702--54954750 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
54954692 TTGGTTTTGG
* *
54954702 TATTTTACTTAGTTCCATTAATTT
1 TATTTAACTTAGTTACATTAATTT
*
54954726 TATTTAACTTAGTTATATTTAATTT
1 TATTTAACTTAGTTACA-TTAATTT
54954751 ATATAGGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.29, C:0.08, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTTAACTTAGTTACATTAATTT
Found at i:54955080 original size:24 final size:24
Alignment explanation
Indices: 54955026--54955080 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
54955016 TAACCCACTT
** *
54955026 TAGGGTTTGTAACTAACTTCAAAT
1 TAGGGTTCATAACTAACTTCAAAC
* *
54955050 TAAGGTTCATAACTAACTTCATAC
1 TAGGGTTCATAACTAACTTCAAAC
54955074 TAGGGTT
1 TAGGGTT
54955081 TTAGGGTAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (24 bp):
TAGGGTTCATAACTAACTTCAAAC
Found at i:54958620 original size:9 final size:9
Alignment explanation
Indices: 54958606--54958638 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
54958596 TGGAGGTTTC
54958606 AAAATAAAT
1 AAAATAAAT
54958615 AAAATAAAT
1 AAAATAAAT
54958624 -AAATAAAT
1 AAAATAAAT
54958632 AAAATAA
1 AAAATAA
54958639 TTGAGAGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:54979241 original size:27 final size:26
Alignment explanation
Indices: 54979211--54979272 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 26
54979201 AGCACTTTTG
*
54979211 GGAAGCTCACAAGGAGCCAATTTAAT-A
1 GGAAGCTCACAAAGAGCC--TTTAATCA
54979238 GGAAGCTCACAAAGAGCCTTTAATCA
1 GGAAGCTCACAAAGAGCCTTTAATCA
*
54979264 GGATGCTCA
1 GGAAGCTCA
54979273 TAAGAGCTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 6 0.19
26 9 0.28
27 17 0.53
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTTTAATCA
Found at i:54980213 original size:38 final size:38
Alignment explanation
Indices: 54980162--54980239 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
54980152 GAAAAGAATA
54980162 CTTACCCAATTAAGCCAAGAAAGCTTGCTTTCTCTTTC
1 CTTACCCAATTAAGCCAAGAAAGCTTGCTTTCTCTTTC
*
54980200 CTTACCCAATTAAGCCGAGAAAGCTTGCTTTCTCTTTC
1 CTTACCCAATTAAGCCAAGAAAGCTTGCTTTCTCTTTC
54980238 CT
1 CT
54980240 AGGGTTTCCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (38 bp):
CTTACCCAATTAAGCCAAGAAAGCTTGCTTTCTCTTTC
Found at i:54994571 original size:3 final size:3
Alignment explanation
Indices: 54994554--54994601 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
54994544 CTTCGCTTGA
* * * *
54994554 TTC TTC CTC -TC TTC TTC TTC TTC GTC GTC GTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
54994601 T
1 T
54994602 CACTCTCAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.00, C:0.35, G:0.06, T:0.58
Consensus pattern (3 bp):
TTC
Found at i:54997148 original size:16 final size:15
Alignment explanation
Indices: 54997127--54997195 Score: 70
Period size: 17 Copynumber: 4.4 Consensus size: 15
54997117 ATTTATCAAA
54997127 AATAAATTATTTATAT
1 AATAAATTATTT-TAT
54997143 AATAAATTA-TTT-T
1 AATAAATTATTTTAT
54997156 AATAAATTATTTAATAT
1 AATAAATTATTT--TAT
*
54997173 TATAAATTTATTTTAAT
1 AATAAA-TTATTTT-AT
54997190 AATAAA
1 AATAAA
54997196 ATTTCCAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
13 10 0.22
14 3 0.07
15 2 0.04
16 11 0.24
17 13 0.29
18 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAAATTATTTTAT
Found at i:54997180 original size:30 final size:30
Alignment explanation
Indices: 54997127--54997191 Score: 105
Period size: 29 Copynumber: 2.2 Consensus size: 30
54997117 ATTTATCAAA
54997127 AATAAATTATTTATATAATAAA-TTATTTT
1 AATAAATTATTTATATAATAAATTTATTTT
*
54997156 AATAAATTATTTAATATTATAAATTTATTTT
1 AATAAATTATTT-ATATAATAAATTTATTTT
54997187 AATAA
1 AATAA
54997192 TAAAATTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
29 12 0.36
30 9 0.27
31 12 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
AATAAATTATTTATATAATAAATTTATTTT
Found at i:54997185 original size:18 final size:19
Alignment explanation
Indices: 54997157--54997199 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
54997147 AATTATTTTA
*
54997157 ATAAA-TTA-TTTAATATT
1 ATAAATTTATTTTAATAAT
54997174 ATAAATTTATTTTAATAAT
1 ATAAATTTATTTTAATAAT
54997193 A-AAATTT
1 ATAAATTT
54997200 CCAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 5 0.22
18 9 0.39
19 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATAAATTTATTTTAATAAT
Found at i:54997194 original size:17 final size:15
Alignment explanation
Indices: 54997127--54997195 Score: 79
Period size: 13 Copynumber: 4.4 Consensus size: 15
54997117 ATTTATCAAA
54997127 AATAAATTATTTATAT
1 AATAAATTATTTA-AT
54997143 AATAAATTATTT--T
1 AATAAATTATTTAAT
54997156 AATAAATTATTTAAT
1 AATAAATTATTTAAT
54997171 ATTATAAATTTATTTTAAT
1 A--ATAAA-TTA-TTTAAT
54997190 AATAAA
1 AATAAA
54997196 ATTTCCAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
13 13 0.28
15 2 0.04
16 12 0.26
17 10 0.21
18 3 0.06
19 7 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATAAATTATTTAAT
Found at i:55000055 original size:20 final size:20
Alignment explanation
Indices: 55000030--55000069 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
55000020 ATACAAGGGA
55000030 CACACGCCAGTGTCACGGGC
1 CACACGCCAGTGTCACGGGC
*
55000050 CACACGCCTGTGTCACGGGC
1 CACACGCCAGTGTCACGGGC
55000070 TATGTGGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.40, G:0.30, T:0.12
Consensus pattern (20 bp):
CACACGCCAGTGTCACGGGC
Found at i:55012533 original size:24 final size:24
Alignment explanation
Indices: 55012504--55012549 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
55012494 TGGATGTTTA
*
55012504 AGGCCTCGTAGGCCCATATTAAGG
1 AGGCCTCGTAAGCCCATATTAAGG
*
55012528 AGGCCTTGTAAGCCCATATTAA
1 AGGCCTCGTAAGCCCATATTAA
55012550 AGAGTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (24 bp):
AGGCCTCGTAAGCCCATATTAAGG
Found at i:55015336 original size:6 final size:6
Alignment explanation
Indices: 55015325--55015385 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
55015315 ATTGAGTTCA
* * *
55015325 TTTATT TTTA-T TTTA-T TTTATT TTTATT TTTAGT TTTAGT TTTAGT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
55015371 TTTGTT ATTATT TTT
1 TTTATT TTTATT TTT
55015386 CTGTTTAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
5 10 0.21
6 38 0.79
ACGTcount: A:0.16, C:0.00, G:0.07, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:55022806 original size:23 final size:23
Alignment explanation
Indices: 55022780--55022846 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
55022770 TAATAAATTT
55022780 ATATATATAATAAAATATAAATA
1 ATATATATAATAAAATATAAATA
* **
55022803 ATATATAT-ACACCATATAAAATA
1 ATATATATAATAAAATAT-AAATA
55022826 ATATA-ATAATATATAATATAA
1 ATATATATAATA-A-AATATAA
55022847 TAAAATAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 8 0.24
23 20 0.59
24 2 0.06
25 4 0.12
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
ATATATATAATAAAATATAAATA
Found at i:55022831 original size:5 final size:5
Alignment explanation
Indices: 55022779--55022853 Score: 55
Period size: 5 Copynumber: 14.4 Consensus size: 5
55022769 TTAATAAATT
* * *
55022779 TATATA TATAA TAAAA TATAA -ATAA TATATA TACACCA TATAA AATAA
1 TATA-A TATAA TATAA TATAA TATAA TATA-A TATA--A TATAA TATAA
*
55022827 TATAA TA-ATA TATAA TATAA TAAAA TA
1 TATAA TATA-A TATAA TATAA TATAA TA
55022854 AATGGATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
4 5 0.09
5 38 0.68
6 9 0.16
7 4 0.07
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (5 bp):
TATAA
Found at i:55022835 original size:8 final size:8
Alignment explanation
Indices: 55022822--55022854 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
55022812 CACCATATAA
55022822 AATAATAT
1 AATAATAT
55022830 AATAATAT
1 AATAATAT
55022838 -ATAATAT
1 AATAATAT
*
55022845 AATAAAAT
1 AATAATAT
55022853 AA
1 AA
55022855 ATGGATTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
AATAATAT
Found at i:55022843 original size:7 final size:7
Alignment explanation
Indices: 55022782--55022967 Score: 65
Period size: 7 Copynumber: 26.6 Consensus size: 7
55022772 ATAAATTTAT
55022782 ATATATA
1 ATATATA
55022789 ATA-A-A
1 ATATATA
55022794 ATATA-A
1 ATATATA
55022800 ATA-AT-
1 ATATATA
55022805 ATATATA
1 ATATATA
*
55022812 CACCATATA
1 -A-TATATA
55022821 A-A-ATA
1 ATATATA
55022826 ATATAATA
1 ATAT-ATA
55022834 ATATATA
1 ATATATA
55022841 ATATAATA
1 ATAT-ATA
*
55022849 AAATA-A
1 ATATATA
*
55022855 ATGGATTTCCA
1 AT--ATAT--A
*
55022866 ATATCTA
1 ATATATA
55022873 ATA-ATAA
1 ATATAT-A
55022880 AGTATATA
1 A-TATATA
55022888 A-ATATA
1 ATATATA
*
55022894 ACATATA
1 ATATATA
* *
55022901 ATTTTTA
1 ATATATA
*
55022908 ATATAAA
1 ATATATA
55022915 ATA-ATA
1 ATATATA
55022921 ATGAGTATA
1 AT-A-TATA
*
55022930 ATATAAA
1 ATATATA
55022937 ATA-ATA
1 ATATATA
55022943 ATATATA
1 ATATATA
* *
55022950 GTAAATA
1 ATATATA
55022957 A-ATAATA
1 ATAT-ATA
55022964 ATAT
1 ATAT
55022968 TTGAAGTAAA
Statistics
Matches: 135, Mismatches: 19, Indels: 49
0.67 0.09 0.24
Matches are distributed among these distances:
5 12 0.09
6 29 0.21
7 52 0.39
8 24 0.18
9 15 0.11
11 3 0.02
ACGTcount: A:0.58, C:0.04, G:0.03, T:0.35
Consensus pattern (7 bp):
ATATATA
Found at i:55022934 original size:22 final size:20
Alignment explanation
Indices: 55022816--55022967 Score: 92
Period size: 20 Copynumber: 7.1 Consensus size: 20
55022806 TATATACACC
* *
55022816 ATATAAAATAATATAATAAT
1 ATATAATATAAAATAATAAT
55022836 ATATAATATAATAA-AATAAAT
1 ATATAATATAA-AATAAT-AAT
* **
55022857 GGATTTCCAATATCTAATAATAAAGT
1 --ATAT--AATATAAAATAAT-AA-T
*
55022883 ATATAAATATAACAT-ATAAT
1 ATAT-AATATAAAATAATAAT
* *
55022903 TTTTAATATAAAATAATAAT
1 ATATAATATAAAATAATAAT
55022923 GAGTATAATATAAAATAATAAT
1 -A-TATAATATAAAATAATAAT
* *
55022945 ATATAGTAAATAAATAATAAT
1 ATATAATATA-AAATAATAAT
55022966 AT
1 AT
55022968 TTGAAGTAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 23
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.09
20 28 0.27
21 19 0.18
22 20 0.19
23 10 0.10
24 5 0.05
25 11 0.11
26 1 0.01
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.36
Consensus pattern (20 bp):
ATATAATATAAAATAATAAT
Found at i:55022979 original size:23 final size:21
Alignment explanation
Indices: 55022913--55022982 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
55022903 TTTTAATATA
* *
55022913 AAATAATAATGAGTATAATATA-
1 AAATAATAAT-A-TATAGTAAAT
55022935 AAATAATAATATATAGTAAAT
1 AAATAATAATATATAGTAAAT
*
55022956 AAATAATAATATTTGAAGTAAAT
1 AAATAATAATATAT--AGTAAAT
55022979 AAAT
1 AAAT
55022983 TTAAAAATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.17
21 14 0.33
22 10 0.24
23 11 0.26
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AAATAATAATATATAGTAAAT
Found at i:55025189 original size:94 final size:94
Alignment explanation
Indices: 55025069--55025249 Score: 265
Period size: 94 Copynumber: 1.9 Consensus size: 94
55025059 ATGCCAAATC
* * * **
55025069 ATCTTGGATCTGCTCCGATACAAAAACATCCGAAGGTTAGATCTGCTATGTCT-TCGATTTGGTC
1 ATCTTGGATCTGCTCCGATACAAAAACATCCGAAGGTCAGATCTACTATGTCTCT-GATCTACTC
55025133 TCCGTCGAATATGGAGATGCCAAGTCTATT
65 TCCGTCGAATATGGAGATGCCAAGTCTATT
* ***
55025163 ATCTTGGATCTGCTTCGATGTGAAAACATCCGAAGGTCAGATCTACTATGTCTCTGATCTACTCT
1 ATCTTGGATCTGCTCCGATACAAAAACATCCGAAGGTCAGATCTACTATGTCTCTGATCTACTCT
55025228 CCGTCGAATATGGAGATGCCAA
66 CCGTCGAATATGGAGATGCCAA
55025250 ATCTGTTTCT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 76 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (94 bp):
ATCTTGGATCTGCTCCGATACAAAAACATCCGAAGGTCAGATCTACTATGTCTCTGATCTACTCT
CCGTCGAATATGGAGATGCCAAGTCTATT
Found at i:55027096 original size:94 final size:94
Alignment explanation
Indices: 55026976--55027156 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 94
55026966 ATGCCAAATC
* * * *
55026976 ATCTTGGATCTGCTCTGATACAAAAACA-TCTGAAGGTTAGATCTGCTATGTCTTCGATTTTCTC
1 ATCTTGGATCTGCTCTGATACAAAAACATTC-GAAGGTCAGATCTGCTATGTCTCCGATCTACTC
55027040 TCTGTCGAATATAGAGATGCCAAGTCTGTT
65 TCTGTCGAATATAGAGATGCCAAGTCTGTT
***
55027070 ATCTTGGATCTGCTTCT-ATGTGAAAACATTCGAAGGTCAGATCTGCTATGTCTCCGATCTACTC
1 ATCTTGGATCTGC-TCTGATACAAAAACATTCGAAGGTCAGATCTGCTATGTCTCCGATCTACTC
*
55027134 TCTGTCGAATATGGAGATGCCAA
65 TCTGTCGAATATAGAGATGCCAA
55027157 ATCTATTTCT
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
94 72 0.94
95 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (94 bp):
ATCTTGGATCTGCTCTGATACAAAAACATTCGAAGGTCAGATCTGCTATGTCTCCGATCTACTCT
CTGTCGAATATAGAGATGCCAAGTCTGTT
Found at i:55038683 original size:25 final size:26
Alignment explanation
Indices: 55038649--55038698 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
55038639 GAATTAGACT
55038649 ATTTCTTT-AATATGAATATAATATTA
1 ATTTCTTTAAATAT-AATATAATATTA
*
55038675 ATTT-TTTAAATATTATATAATATT
1 ATTTCTTTAAATATAATATAATATT
55038699 CTATCTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
ATTTCTTTAAATATAATATAATATTA
Found at i:55038817 original size:13 final size:13
Alignment explanation
Indices: 55038773--55038819 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
55038763 AGATTAGGTG
*
55038773 AAAAA-ATTATGT
1 AAAAATATTATAT
*
55038785 AAAAATATATTTAT
1 AAAAATAT-TATAT
55038799 AAAAATATTATAT
1 AAAAATATTATAT
55038812 AAAAATAT
1 AAAAATAT
55038820 CTAACAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 5 0.17
13 14 0.47
14 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAAATATTATAT
Found at i:55042450 original size:27 final size:27
Alignment explanation
Indices: 55042395--55042462 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
55042385 TTAGAATACA
* *
55042395 CCACAAAAGCTA-TTATTTAGAGTTTG
1 CCACAAAAGCTATTTATTTAGAGCTCG
*
55042421 CCACAAAAGCTATTTTTTTAGAGCTCG
1 CCACAAAAGCTATTTATTTAGAGCTCG
*
55042448 CCACAAAGGCTATTT
1 CCACAAAAGCTATTT
55042463 CTTAGTTGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 12 0.32
27 25 0.68
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (27 bp):
CCACAAAAGCTATTTATTTAGAGCTCG
Found at i:55044167 original size:662 final size:663
Alignment explanation
Indices: 55042881--55044205 Score: 1881
Period size: 662 Copynumber: 2.0 Consensus size: 663
55042871 ACATAAACAT
* * *
55042881 TATCCTCAACAAACATTCATACACTCATAGATTTTCTTTAGAAATTATTCATGTAGTCACATATA
1 TATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGAAATCATTCATGTAGTCACATACA
* * * *
55042946 TATTATTTTCATACTATACTTTTCATGGTTTCGGGTTCATAGTTTGATCGATTTTCCTACAGATG
66 TATCATTTTCATACTATACTTTTCATGGTTTCGGATTCATAGTTTAATCAATTTTCCTACAGATG
* * * *
55043011 TGCTTCAGTATAAACAATATACTTGCATGAGTCAGCATAGGAACTCACCTGATTTTTACCTACTA
131 TGCTTCAGTATAAACAATATACTAGCATGAGTCAGCAAAGGAACTCACCTGATTCTCACCTACTA
* * * *
55043076 TAGTTCAAAGCTCTAGATCCAAATATCCATAACGAACCAATAACAACCATAGCGTAGAAACATAA
196 TAGTTCAAAACTCCAGATCCAAATATCCATAACGAACCAATAACAACAACAGCGTAGAAACATAA
* *
55043141 TTTCACCATTAATACTCTTGTACATACAGATTACTTATCATTTCAATAGTTGACAATTCCATGCA
261 TTTCACCATTAATACTCTTGTACATACAAATTACTTATCATTTCAATAGGTGACAATTCCATGCA
* * * * * * * * *
55043206 GAAACCTTATTCTTATAGTCTCGCTGCCCAATTACGAAATATAAATTTATTCATTCAGTACTTAA
326 AAAACCCTATACTTACAATCTCACTGCCAAATTACCAAATACAAATTTATTCATTCAGTACTTAA
* ** * * *
55043271 TATACAGAGCTGAAATAATTATCCTGATGCGAAGTAACATTAATCATAAAAGAACCATTGCCTTT
391 CATACAGAGCCAAAATAATTATCCTGATGCGAAGTAACAATAATCATAAAAGAACCATGGCCTCT
* * * *
55043336 AGCTCATCGATGTAGAATATAGTTAGGCTTAAGGAAGATTTCAGTAAATACCACTTAAGGAAGAG
456 AGATCATCAATGTAGAATACAGTTAGACTTAAGGAAGATTTCAGTAAATACCACTTAAGGAAGAG
* *
55043401 GAAAAAGAAACAAGAAACCCCTCAGAACTCATCTCCCACATATATATAACTTAACTTACATAATG
521 GAAAAAGAAACAAGAAACCCCTCAGAACTCATCTCCCACATATATATAACCTAACTTACATAATA
* * * * *
55043466 TAATTTAACAAGTGTTAAGTGTTTTAGAACTTACCTTCTTAATGGCCTACAA-TTTCTGAGAGAA
586 TAATTTAACAAGTGTCAAATGTTTCAGAACTTACCTTCTTAATGACCTAAAATTTTC-GAGAGAA
55043530 TTATTAATAAATAC
650 TTATTAATAAATAC
*
55043544 TATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGACATCATTCATGTAGTCACATACA
1 TATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGAAATCATTCATGTAGTCACATACA
*
55043609 TATCATTTTCATACTATACTTTTCATGGTTTCTGATTCATAGTTTAATCAATTTTCCTACAGATG
66 TATCATTTTCATACTATACTTTTCATGGTTTCGGATTCATAGTTTAATCAATTTTCCTACAGATG
* *
55043674 TGCTTCAGTATAAACAATATACTAG-ATGAGTTAGCAAAGGAATTCACCTGATTCTCACCTACTA
131 TGCTTCAGTATAAACAATATACTAGCATGAGTCAGCAAAGGAACTCACCTGATTCTCACCTACTA
* * * * *
55043738 TAGTTCAAAACTCCAGATCCAGATATCCATTACGAATCAATAGCAACAACAGCTTAGAAACATAA
196 TAGTTCAAAACTCCAGATCCAAATATCCATAACGAACCAATAACAACAACAGCGTAGAAACATAA
* * *
55043803 TTTCACCATTAATACTTTTGTACATACAAATTACTTATCATTTCAGT-GGTGACAA-TCCTGTGC
261 TTTCACCATTAATACTCTTGTACATACAAATTACTTATCATTTCAATAGGTGACAATTCC-ATGC
* * * * *
55043866 AAAAACCCTATACTTACAATCTCACTGTCAAATTACCAAATACAGATTT-TCTTATTCATTATTT
325 AAAAACCCTATACTTACAATCTCACTGCCAAATTACCAAATACAAATTTAT-TCATTCAGTACTT
* *
55043930 AACATGCAGAGCCAAAATACTTAGT-CTGATGCGAAGTAACTAATAATCATAAAAGAACCATGGC
389 AACATACAGAGCCAAAATAATTA-TCCTGATGCGAAGTAAC-AATAATCATAAAAGAACCATGGC
* * *
55043994 CTCTAGATCATCAATGTAGGATACATTTAGACTTAAGTAAGATTTCAGTAAATACCACTTAAGGA
452 CTCTAGATCATCAATGTAGAATACAGTTAGACTTAAGGAAGATTTCAGTAAATACCACTTAAGGA
* * * * *
55044059 AGAGGAAGAAGAAAGAAG-AACCCCATCAGAACTCATTTCTCACATGTATATAACCTAACTTACA
517 AGAGGAAAAAGAAACAAGAAACCCC-TCAGAACTCATCTCCCACATATATATAACCTAACTTACA
* * * *
55044123 TAGTATAATTTAACAAGTGTCAAATGTTTCAGAATTTGCCTTCTTAATTACCTAAAATTTTCGAG
581 TAATATAATTTAACAAGTGTCAAATGTTTCAGAACTTACCTTCTTAATGACCTAAAATTTTCGAG
55044188 AGAATTATTAATAAATAC
646 AGAATTATTAATAAATAC
55044206 GTTGAAATTA
Statistics
Matches: 582, Mismatches: 74, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
660 4 0.01
661 97 0.17
662 332 0.57
663 149 0.26
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (663 bp):
TATCCTCAACAAACATTCATACACTCATAAATTTTCTTTAGAAATCATTCATGTAGTCACATACA
TATCATTTTCATACTATACTTTTCATGGTTTCGGATTCATAGTTTAATCAATTTTCCTACAGATG
TGCTTCAGTATAAACAATATACTAGCATGAGTCAGCAAAGGAACTCACCTGATTCTCACCTACTA
TAGTTCAAAACTCCAGATCCAAATATCCATAACGAACCAATAACAACAACAGCGTAGAAACATAA
TTTCACCATTAATACTCTTGTACATACAAATTACTTATCATTTCAATAGGTGACAATTCCATGCA
AAAACCCTATACTTACAATCTCACTGCCAAATTACCAAATACAAATTTATTCATTCAGTACTTAA
CATACAGAGCCAAAATAATTATCCTGATGCGAAGTAACAATAATCATAAAAGAACCATGGCCTCT
AGATCATCAATGTAGAATACAGTTAGACTTAAGGAAGATTTCAGTAAATACCACTTAAGGAAGAG
GAAAAAGAAACAAGAAACCCCTCAGAACTCATCTCCCACATATATATAACCTAACTTACATAATA
TAATTTAACAAGTGTCAAATGTTTCAGAACTTACCTTCTTAATGACCTAAAATTTTCGAGAGAAT
TATTAATAAATAC
Found at i:55056676 original size:53 final size:54
Alignment explanation
Indices: 55056613--55056820 Score: 204
Period size: 53 Copynumber: 3.9 Consensus size: 54
55056603 TTCCTTTTTA
* *
55056613 AACTTACCATTGCCATGTCTTGAAATGGTCTTACATGGTATCCTTACCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * * * * *
55056666 AACTCACCATTGCCATG-CGTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTC-TTGACATGGTCTTACATGGTATCCTTACCTTATAG
** * * * * * * *
55056720 TAGTTTATCAATACCATGTCTTGATATGGTCTTACATGATTTCCTTTCCTTGTAG
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
* * *
55056775 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTTA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
55056821 AACCCTAATG
Statistics
Matches: 120, Mismatches: 31, Indels: 7
0.76 0.20 0.04
Matches are distributed among these distances:
52 1 0.01
53 44 0.37
54 36 0.30
55 38 0.32
56 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATAG
Found at i:55060915 original size:39 final size:39
Alignment explanation
Indices: 55060828--55060968 Score: 237
Period size: 39 Copynumber: 3.6 Consensus size: 39
55060818 GCCACTAGCT
* *
55060828 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
55060868 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
*
55060907 TAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
*
55060946 CGAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
55060969 AGTTATCAAC
Statistics
Matches: 96, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 71 0.74
40 25 0.26
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:55062238 original size:23 final size:24
Alignment explanation
Indices: 55062205--55062249 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
55062195 AGGATGGACA
*
55062205 CATTTTTTTTCT-TTTGTTTTCAT
1 CATTTTCTTTCTCTTTGTTTTCAT
*
55062228 CATTTTCTTTCTCTTTTTTTTC
1 CATTTTCTTTCTCTTTGTTTTC
55062250 CATTTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (24 bp):
CATTTTCTTTCTCTTTGTTTTCAT
Found at i:55068958 original size:39 final size:39
Alignment explanation
Indices: 55068816--55068959 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
55068806 GCCACTAGCT
* * *
55068816 CAAATGCCTTCGGGACTTAGCCTGGTTATAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
55068856 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
* * *
55068895 TAAATGCCTTCAGGACTTAACCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
*
55068934 CGAATGCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
55068960 TATCAACCGA
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 70 0.74
40 24 0.26
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
Found at i:55070248 original size:23 final size:23
Alignment explanation
Indices: 55070197--55070253 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 23
55070187 AAAGGATGGA
55070197 CACATTTT-TTTTCTTTTGTTTT
1 CACATTTTCTTTTCTTTTGTTTT
*
55070219 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTT-TCTTTTGTTTT
55070244 C-CA-TTTCTTT
1 CACATTTTCTTT
55070254 ATTACTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 9 0.29
23 8 0.26
24 3 0.10
25 11 0.35
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (23 bp):
CACATTTTCTTTTCTTTTGTTTT
Found at i:55072094 original size:27 final size:26
Alignment explanation
Indices: 55072048--55072100 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
55072038 ATATATAATT
* *
55072048 ATTATAAAATAATTATTTTTACTTAA
1 ATTATAAAATAATTAATTTTAATTAA
*
55072074 ATTATTAAAATATTTAATTTTAATTAA
1 ATTA-TAAAATAATTAATTTTAATTAA
55072101 TTTTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTATAAAATAATTAATTTTAATTAA
Found at i:55072102 original size:26 final size:25
Alignment explanation
Indices: 55072043--55072102 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 25
55072033 GAAAAATATA
*
55072043 TAATT-ATTATAAAATAATTATTTT
1 TAATTAATTATAAAATAATTAATTT
* *
55072067 TACTTAAATTATTAAAATATTTAATTT
1 TAATT-AATTA-TAAAATAATTAATTT
55072094 TAATTAATT
1 TAATTAATT
55072103 TTATAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 4 0.14
26 8 0.28
27 17 0.59
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TAATTAATTATAAAATAATTAATTT
Found at i:55079713 original size:43 final size:43
Alignment explanation
Indices: 55079651--55079757 Score: 160
Period size: 43 Copynumber: 2.5 Consensus size: 43
55079641 AAGGTATTAT
* **
55079651 TCGGGCCTTCAAGCCTAGCAGGCTATAATGTCAGTGAGTTAATA
1 TCGGG-CTTCGAGCCTAGCAGGCTATAATACCAGTGAGTTAATA
* *
55079695 TCGGGCTTTGAGCCTAGCAGGCTATAATACCGGTGAGTTAATA
1 TCGGGCTTCGAGCCTAGCAGGCTATAATACCAGTGAGTTAATA
55079738 TCGGGCTTCGAGCCTAGCAG
1 TCGGGCTTCGAGCCTAGCAG
55079758 CAGTAATGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 52 0.91
44 5 0.09
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (43 bp):
TCGGGCTTCGAGCCTAGCAGGCTATAATACCAGTGAGTTAATA
Found at i:55080370 original size:16 final size:18
Alignment explanation
Indices: 55080339--55080371 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
55080329 AACTCGTAAC
55080339 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
55080357 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
55080372 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:55080862 original size:15 final size:15
Alignment explanation
Indices: 55080842--55080872 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
55080832 TAAATATATA
55080842 TATATTTTTCATTTT
1 TATATTTTTCATTTT
55080857 TATATTTTTCATTTT
1 TATATTTTTCATTTT
55080872 T
1 T
55080873 TTTCAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TATATTTTTCATTTT
Found at i:55080893 original size:28 final size:27
Alignment explanation
Indices: 55080854--55080911 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
55080844 TATTTTTCAT
*
55080854 TTTTATATTTTTCATTTTTTTTCAAAA
1 TTTTAAATTTTTCATTTTTTTTCAAAA
*
55080881 TTTTAAATATTTTTATTTTTTTTCAAAA
1 TTTTAAAT-TTTTCATTTTTTTTCAAAA
55080909 TTT
1 TTT
55080912 GGAGTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTTAAATTTTTCATTTTTTTTCAAAA
Found at i:55080921 original size:28 final size:28
Alignment explanation
Indices: 55080861--55080930 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
55080851 CATTTTTATA
* *
55080861 TTTTTCATTTTTTTTCAAAATTTTAAAT
1 TTTTTTATTTTTTTTCAAAATTTGAAAT
* * *
55080889 ATTTTTATTTTTTTTCAAAATTTGGAGT
1 TTTTTTATTTTTTTTCAAAATTTGAAAT
55080917 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
55080931 AATTATTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.69
Consensus pattern (28 bp):
TTTTTTATTTTTTTTCAAAATTTGAAAT
Found at i:55087015 original size:20 final size:20
Alignment explanation
Indices: 55086990--55087031 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
55086980 CTTCTACTTC
*
55086990 AATGCCAGAGTTTGTTTTCG
1 AATGCCAGAGTTTGTTTCCG
55087010 AATGCCAGAGTTTGTTTCCG
1 AATGCCAGAGTTTGTTTCCG
55087030 AA
1 AA
55087032 CCCCCGTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
AATGCCAGAGTTTGTTTCCG
Found at i:55093224 original size:9 final size:9
Alignment explanation
Indices: 55093210--55093234 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
55093200 ATTTTCCTGT
55093210 TGTTCTTAG
1 TGTTCTTAG
55093219 TGTTCTTAG
1 TGTTCTTAG
55093228 TGTTCTT
1 TGTTCTT
55093235 GTAGTTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.12, G:0.20, T:0.60
Consensus pattern (9 bp):
TGTTCTTAG
Found at i:55114697 original size:260 final size:259
Alignment explanation
Indices: 55114231--55114746 Score: 836
Period size: 260 Copynumber: 2.0 Consensus size: 259
55114221 AAGTCAAGCC
* *
55114231 GACTTGGATTGATCAGATTCGAGATAAGCAAATAGTGGATGATTATTTTATTCTTCGATTTTAAG
1 GACTTGGATTGATCAGATTCAAGATAAGCAAATAGTGGATGATTATTTTATTCTTCGATTTTAAA
* * * *
55114296 AGGTTGAAGAGGGTAGGACTTCTGATTTTGGGCTAAATAGTAAGGGTGTTTTGTGTTTCAGAGGT
66 AGGTTGAAGAGGATAGGAATTCTGATTTTGGGCTAAATAGTAAGGGTGTTCTATGTTTCAGAGGT
*
55114361 CAGGTTTTTGTGCCTAATAATACTGAGTTGAGGCAATCCATATTACAGGAAGTGCATAGTAGCCC
131 CAGGTTTTTGTGCCTAATAATACTGAGTTGAGGCAATCCATATTACAGGAAATGCATAGTAGCCC
* * *
55114426 TTATGTTATGCATCCCGGTGGAAATAAGATGTATCAAGATCTCTGAGGGTTATACTGGTGGCTTA
196 TTATGTTATGCATCCCAGTGGAAATAAGATGTATCAAGATCTCTAAGAGTTATACT-GTGGCTTA
* *
55114491 GACTTGGATTGATCATATTCAAGATAAGCAGATAGTGGATGATT-TTTTGATTCTTCGATTTTAA
1 GACTTGGATTGATCAGATTCAAGATAAGCAAATAGTGGATGATTATTTT-ATTCTTCGATTTTAA
*
55114555 AAGGTTTAAGAGGATAGGAATTCTGATTTTGGGCTAAATAGTAAGGGTGTTCTATGTTTCAGAGG
65 AAGGTTGAAGAGGATAGGAATTCTGATTTTGGGCTAAATAGTAAGGGTGTTCTATGTTTCAGAGG
* * *
55114620 TTAGGTTTTTGTGCCTAATAATGCTGGGTTGAGGCAATCCATATTACAGGAAATGCATAGTAGCC
130 TCAGGTTTTTGTGCCTAATAATACTGAGTTGAGGCAATCCATATTACAGGAAATGCATAGTAGCC
* **
55114685 CTTATTTTATGCATCCCAGTGGAAATAAGATGTATCGTGATCTCTAAGAGTTATACTGTGGC
195 CTTATGTTATGCATCCCAGTGGAAATAAGATGTATCAAGATCTCTAAGAGTTATACTGTGGC
55114747 CCAATTTGAA
Statistics
Matches: 236, Mismatches: 19, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
259 9 0.04
260 227 0.96
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (259 bp):
GACTTGGATTGATCAGATTCAAGATAAGCAAATAGTGGATGATTATTTTATTCTTCGATTTTAAA
AGGTTGAAGAGGATAGGAATTCTGATTTTGGGCTAAATAGTAAGGGTGTTCTATGTTTCAGAGGT
CAGGTTTTTGTGCCTAATAATACTGAGTTGAGGCAATCCATATTACAGGAAATGCATAGTAGCCC
TTATGTTATGCATCCCAGTGGAAATAAGATGTATCAAGATCTCTAAGAGTTATACTGTGGCTTA
Found at i:55121585 original size:26 final size:26
Alignment explanation
Indices: 55121553--55121605 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
55121543 TTCTTTCTTT
55121553 CATCTTTCATCTTTTCTTTTCTCCTC
1 CATCTTTCATCTTTTCTTTTCTCCTC
55121579 CATCTTTCATCTTTTCTTTTCTCCTC
1 CATCTTTCATCTTTTCTTTTCTCCTC
55121605 C
1 C
55121606 TTCCTTTGAC
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:0.08, C:0.36, G:0.00, T:0.57
Consensus pattern (26 bp):
CATCTTTCATCTTTTCTTTTCTCCTC
Found at i:55123028 original size:34 final size:33
Alignment explanation
Indices: 55122970--55123041 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
55122960 TATGCATTTT
*
55122970 TGATACTGTACTGAATTGGGCTAAGGCCCACAC
1 TGATACTGTACTGAAATGGGCTAAGGCCCACAC
*
55123003 TGATACTGTTACT-ATAATGGGCTAAGGCCCACAT
1 TGATACTG-TACTGA-AATGGGCTAAGGCCCACAC
55123037 TGATA
1 TGATA
55123042 TTTCCACTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
33 9 0.26
34 26 0.74
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (33 bp):
TGATACTGTACTGAAATGGGCTAAGGCCCACAC
Found at i:55124946 original size:58 final size:57
Alignment explanation
Indices: 55124791--55124946 Score: 147
Period size: 57 Copynumber: 2.7 Consensus size: 57
55124781 CCACATGTCG
*
55124791 TATAACAGGATTACCAGTCCAGGCTAAATCC-TTATTATAACGTATGCTCACAAGAGT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTA-TATAACGTATGCTCACAAGAGT
** * * * * * * * *
55124848 TCGATTAGGGTTACTAGTCTAGGCTAAA-CCTTAATCATAACGTGTGCTCGAGAGGTA-T
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTAT-ATAACGTATGCTC-ACAAG-AGT
*
55124906 TATATCAGGATTACCCGTCCAGGCTAAATCCTTTATATAAC
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTATATAAC
55124947 AAGGTCATTG
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
56 3 0.04
57 35 0.47
58 30 0.40
59 7 0.09
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (57 bp):
TATATCAGGATTACCAGTCCAGGCTAAATCCTTTATATAACGTATGCTCACAAGAGT
Found at i:55131235 original size:64 final size:63
Alignment explanation
Indices: 55131084--55131338 Score: 196
Period size: 68 Copynumber: 3.9 Consensus size: 63
55131074 TGATACAGAT
* ** * * *
55131084 GATAA-GTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACGA
1 GATAATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACGA
* *
55131146 GACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGATAAGAGAGCTA
1 G--A-TA--ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTA
55131211 C-A
61 CGA
* * * * *
55131213 GGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 -GATA-ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTA
55131278 CGA
61 CGA
** * * *
55131281 GATAAACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 GATAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
55131339 CGAACTATAT
Statistics
Matches: 153, Mismatches: 26, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
62 2 0.01
63 19 0.12
64 26 0.17
65 4 0.03
66 25 0.16
67 31 0.20
68 45 0.29
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (63 bp):
GATAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGA
Found at i:55138040 original size:40 final size:40
Alignment explanation
Indices: 55137917--55138131 Score: 262
Period size: 39 Copynumber: 5.5 Consensus size: 40
55137907 GCTCCTCGTT
* * *
55137917 CAAATGCCTTC-GGACATAGCCCGG-TATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55137955 CAAATGCCTTCGGGACTTAACCCGGATTT-GTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55137994 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
55138034 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
55138073 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
55138114 CAAA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGGACTTA
55138132 GCACAAAGAC
Statistics
Matches: 154, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
38 13 0.08
39 82 0.53
40 48 0.31
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:55138044 original size:79 final size:79
Alignment explanation
Indices: 55137917--55138131 Score: 267
Period size: 79 Copynumber: 2.7 Consensus size: 79
55137907 GCTCCTCGTT
* * *
55137917 CAAATGCCTTCGGACATAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG-
1 CAAATGCCTTCGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAACCCGGA
*
55137980 ATTTGTAACTCGCA
66 ATTAGTAACTCGCA
* *
55137994 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTC-GGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAACCCGG
*
55138058 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
55138073 CAAATGCCTTCGGATCTTAATCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTA
1 CAAATGCCTTCGGA-CTTAACCCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTA
55138132 GCACAAAGAC
Statistics
Matches: 119, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
77 11 0.09
78 23 0.19
79 77 0.65
80 8 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAACCCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:55138132 original size:21 final size:21
Alignment explanation
Indices: 55138106--55138154 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
55138096 GGATATGGTC
*
55138106 ACTTAGCACAAAGCCTTCGGG
1 ACTTAGCACAAAGACTTCGGG
55138127 ACTTAGCACAAAGACTTCGGG
1 ACTTAGCACAAAGACTTCGGG
55138148 ACTTAGC
1 ACTTAGC
55138155 CCGGACATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (21 bp):
ACTTAGCACAAAGACTTCGGG
Found at i:55145889 original size:40 final size:40
Alignment explanation
Indices: 55145801--55146029 Score: 259
Period size: 40 Copynumber: 5.7 Consensus size: 40
55145791 GCTCCTAGTT
* *
55145801 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGT-AACTCGCA
55145842 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
55145882 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
55145922 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTA--ACTCGCA
* * * * *
55145963 CAAATGCCTTC-GGATCTTAAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAA-CCCGGATTTAGTAAC-TCGCA
*
55146005 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
55146030 CATCATTCAA
Statistics
Matches: 163, Mismatches: 17, Indels: 17
0.83 0.09 0.09
Matches are distributed among these distances:
39 16 0.10
40 68 0.42
41 54 0.33
42 17 0.10
43 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:55145906 original size:81 final size:81
Alignment explanation
Indices: 55145801--55146029 Score: 270
Period size: 81 Copynumber: 2.8 Consensus size: 81
55145791 GCTCCTAGTT
* * *
55145801 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAACCCGGTTATAGT-AACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
55145866 GATTTAGTA-ACTCGCA
65 GAATTAGTACACTCGCA
*
55145882 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
55145945 GAATTAGTATCTCTCGCA
65 GAATTAGTA-CACTCGCA
* * * * *
55145963 CAAATGCCTTC-GGATCTTAAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAA-CCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCC
55146026 CGGA
63 CGGA
55146030 CATCATTCAA
Statistics
Matches: 128, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
79 16 0.12
80 24 0.19
81 50 0.39
82 20 0.16
83 18 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTACACTCGCA
Found at i:55163825 original size:3 final size:3
Alignment explanation
Indices: 55163819--55163856 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
55163809 GTGGTGGTGG
*
55163819 TGA TGA TGA TAA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
55163857 GAAACGATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:55177745 original size:2 final size:2
Alignment explanation
Indices: 55177740--55177769 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55177730 TAAATATATA
55177740 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
55177770 AATGAGATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:55177943 original size:15 final size:15
Alignment explanation
Indices: 55177925--55177981 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
55177915 TATCTGTTTT
*
55177925 ATTGAATTTATATTG
1 ATTGAAATTATATTG
*
55177940 ATTGAAATTATTTTG
1 ATTGAAATTATATTG
*
55177955 ATTGAATTTATATTG
1 ATTGAAATTATATTG
55177970 ATT-AAATTATAT
1 ATTGAAATTATAT
55177982 AATATATATG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
14 8 0.22
15 29 0.78
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (15 bp):
ATTGAAATTATATTG
Found at i:55177960 original size:30 final size:28
Alignment explanation
Indices: 55177921--55177979 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 28
55177911 TGAATATCTG
55177921 TTTTATTGAATTTATATTGATTGAAATTA
1 TTTTATTGAATTTATATTGATT-AAATTA
55177950 TTTTGATTGAATTTATATTGATTAAATTA
1 TTTT-ATTGAATTTATATTGATTAAATTA
55177979 T
1 T
55177980 ATAATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 18 0.62
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTAAATTA
Found at i:55178391 original size:23 final size:23
Alignment explanation
Indices: 55178365--55178439 Score: 95
Period size: 21 Copynumber: 3.4 Consensus size: 23
55178355 AGGCACTTTA
55178365 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
55178388 TGTGTCGTA--TCAGGCACCTCG
1 TGTGTCGTATTTCAGGCACCTCG
* **
55178409 TGTGTCGT-TTT-AGGCACTTTA
1 TGTGTCGTATTTCAGGCACCTCG
55178430 TGTGTCGTAT
1 TGTGTCGTAT
55178440 ACTGATCAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
21 35 0.76
22 2 0.04
23 9 0.20
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.39
Consensus pattern (23 bp):
TGTGTCGTATTTCAGGCACCTCG
Found at i:55180200 original size:14 final size:14
Alignment explanation
Indices: 55180019--55180202 Score: 102
Period size: 14 Copynumber: 13.1 Consensus size: 14
55180009 GAACTCTCAC
* *
55180019 ATGCAGATTCATAA
1 ATGCGGATTCATAG
* *
55180033 ATGTGGATTCATAT
1 ATGCGGATTCATAG
*
55180047 ATGCGAATTCATAG
1 ATGCGGATTCATAG
* * *
55180061 ATACGAATCCATACG
1 ATGCGGATTCATA-G
*
55180076 -TGTGGATTCATAG
1 ATGCGGATTCATAG
* * *
55180089 ATGCAGATTTATAC
1 ATGCGGATTCATAG
* *
55180103 ATGCAGAATT-ATAT
1 ATGC-GGATTCATAG
* * *
55180117 ACGCGGATTTATAC
1 ATGCGGATTCATAG
** * *
55180131 ATGCAAATTTATCG
1 ATGCGGATTCATAG
* *
55180145 ATGTGGATTTATAG
1 ATGCGGATTCATAG
*
55180159 ATGCGAATTCATAG
1 ATGCGGATTCATAG
*
55180173 ATACGGATTCATAG
1 ATGCGGATTCATAG
*
55180187 ATGTGGATTCATAG
1 ATGCGGATTCATAG
55180201 AT
1 AT
55180203 ACAAAATGTC
Statistics
Matches: 128, Mismatches: 38, Indels: 8
0.74 0.22 0.05
Matches are distributed among these distances:
13 5 0.04
14 119 0.93
15 4 0.03
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (14 bp):
ATGCGGATTCATAG
Found at i:55182295 original size:17 final size:17
Alignment explanation
Indices: 55182273--55182305 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55182263 CATCGTGGCA
55182273 TCCCATGTTTGATGTCG
1 TCCCATGTTTGATGTCG
55182290 TCCCATGTTTGATGTC
1 TCCCATGTTTGATGTC
55182306 ACTACATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.42
Consensus pattern (17 bp):
TCCCATGTTTGATGTCG
Found at i:55183292 original size:16 final size:16
Alignment explanation
Indices: 55183255--55183292 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
55183245 AAAATGTTTT
55183255 TAAAAATTTAAAATTA
1 TAAAAATTTAAAATTA
*
55183271 TTAAAATTATAAAA-TA
1 TAAAAATT-TAAAATTA
55183287 TAAAAA
1 TAAAAA
55183293 AATAGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAAATTTAAAATTA
Found at i:55183312 original size:47 final size:48
Alignment explanation
Indices: 55183207--55183315 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 48
55183197 ATGTAATTAA
*
55183207 TTAATTTTTTAAAATT-TAAAAATTCATAAAAAATATAAAAAATGTTT
1 TTAATTTTTTAAAATTATTAAAATTCATAAAAAATATAAAAAATGTTT
*** *
55183254 TTAAAAATTTAAAATTATTAAAATT-ATAAAATATA-AAAAAATAG-TT
1 TTAATTTTTTAAAATTATTAAAATTCATAAAAAATATAAAAAAT-GTTT
*
55183300 TTAATTTTTTTAAATT
1 TTAATTTTTTAAAATT
55183316 TAATTAATTG
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
46 21 0.41
47 23 0.45
48 7 0.14
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (48 bp):
TTAATTTTTTAAAATTATTAAAATTCATAAAAAATATAAAAAATGTTT
Found at i:55184021 original size:13 final size:13
Alignment explanation
Indices: 55184005--55184030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55183995 TCAAATGATA
55184005 ATTTTAAAATATT
1 ATTTTAAAATATT
55184018 ATTTTAAAATATT
1 ATTTTAAAATATT
55184031 TGTTAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTTAAAATATT
Found at i:55186652 original size:26 final size:24
Alignment explanation
Indices: 55186623--55186671 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
55186613 ACTAAAAAAT
*
55186623 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
55186649 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
55186672 TAAGACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:55186691 original size:21 final size:22
Alignment explanation
Indices: 55186658--55186700 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
55186648 ATTTAAAAAC
* *
55186658 ATAAAAACAAATATTAAGACAA
1 ATAAAAACAAATACTAAAACAA
*
55186680 ATAAAAA-TAATACTAAAACAA
1 ATAAAAACAAATACTAAAACAA
55186701 TTCTTAAAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
ATAAAAACAAATACTAAAACAA
Found at i:55190270 original size:10 final size:10
Alignment explanation
Indices: 55190257--55190292 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
55190247 AGCTCAACTC
55190257 AGCTCATTTG
1 AGCTCATTTG
* *
55190267 AGCTCGTTTC
1 AGCTCATTTG
55190277 AGCTCATTTG
1 AGCTCATTTG
55190287 AGCTCA
1 AGCTCA
55190293 ACCGAGCTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (10 bp):
AGCTCATTTG
Found at i:55190270 original size:20 final size:20
Alignment explanation
Indices: 55190247--55190294 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
55190237 AGCTCCGTCC
55190247 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
***
55190267 AGCTCGTTTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
55190287 AGCTCAAC
1 AGCTCAAC
55190295 CGAGCTTACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:55190300 original size:20 final size:19
Alignment explanation
Indices: 55190247--55190300 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
55190237 AGCTCCGTCC
55190247 AGCTCAACTCAGCTCATTTG
1 AGCTCAAC-CAGCTCATTTG
***
55190267 AGCTCGTTTCAGCTCATTTG
1 AGCTC-AACCAGCTCATTTG
55190287 AGCTCAACCGAGCT
1 AGCTCAACC-AGCT
55190301 TACTTTCAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.96
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (19 bp):
AGCTCAACCAGCTCATTTG
Found at i:55192873 original size:6 final size:6
Alignment explanation
Indices: 55192848--55192895 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
55192838 AGTGTGAAAG
** * *
55192848 AAAGCAA AAAGAA AGTGAA AAAGAA AAAGAG AAGGAA AAAGAA AAAGA
1 AAAG-AA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGA
55192896 GATCGAGAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:55192876 original size:18 final size:18
Alignment explanation
Indices: 55192848--55192945 Score: 76
Period size: 18 Copynumber: 5.4 Consensus size: 18
55192838 AGTGTGAAAG
55192848 AAAGCAAAAAGAAAGTGAA
1 AAAG-AAAAAGAAAGTGAA
55192867 AAAGAAAAAGAGAAG-GAA
1 AAAGAAAAAGA-AAGTGAA
* *
55192885 AAAGAAAAAGAGA-TCGAG
1 AAAGAAAAAGAAAGT-GAA
** *
55192903 AGTGAAAAAGAATGTG-A
1 AAAGAAAAAGAAAGTGAA
* *
55192920 GAAGAAAAAGAAAATTGAA
1 AAAGAAAAAG-AAAGTGAA
55192939 AAAGAAA
1 AAAGAAA
55192946 TTGAGTCTGA
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
17 8 0.13
18 37 0.62
19 15 0.25
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.07
Consensus pattern (18 bp):
AAAGAAAAAGAAAGTGAA
Found at i:55194693 original size:10 final size:10
Alignment explanation
Indices: 55194680--55194715 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
55194670 AGCTCAACTC
*
55194680 AGCTCATTTG
1 AGCTCGTTTG
*
55194690 AGCTCGTTTC
1 AGCTCGTTTG
55194700 AGCTCGTTTG
1 AGCTCGTTTG
55194710 AGCTCG
1 AGCTCG
55194716 ACCGAGCTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.14, C:0.25, G:0.25, T:0.36
Consensus pattern (10 bp):
AGCTCGTTTG
Found at i:55194693 original size:20 final size:20
Alignment explanation
Indices: 55194670--55194714 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
55194660 AGCTCCGTCC
55194670 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
55194690 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
55194710 AGCTC
1 AGCTC
55194715 GACCGAGCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:55194715 original size:20 final size:20
Alignment explanation
Indices: 55194678--55194715 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
55194668 CCAGCTCAAC
55194678 TCAGCTCATTTGAGCTCGTT
1 TCAGCTCATTTGAGCTCGTT
*
55194698 TCAGCTCGTTTGAGCTCG
1 TCAGCTCATTTGAGCTCG
55194716 ACCGAGCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.24, T:0.37
Consensus pattern (20 bp):
TCAGCTCATTTGAGCTCGTT
Found at i:55198528 original size:10 final size:10
Alignment explanation
Indices: 55198509--55198558 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
55198499 TGAAACTCTA
55198509 AAAGATAAAT
1 AAAGATAAAT
55198519 ACAA-ATAAAT
1 A-AAGATAAAT
*
55198529 AAAGATAATT
1 AAAGATAAAT
55198539 AAAGATAAAT
1 AAAGATAAAT
55198549 GAAA-ATAAAT
1 -AAAGATAAAT
55198559 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:55199390 original size:96 final size:97
Alignment explanation
Indices: 55199220--55199401 Score: 285
Period size: 96 Copynumber: 1.9 Consensus size: 97
55199210 ATTTTATTTA
* * * *
55199220 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCA
55199285 CCCCGGTTACTCAGCCCAACATACTCCTAATT
66 CCCCGGTTACTCAGCCCAACATACTCCTAATT
* * *
55199317 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATAATAGCTAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCA
*
55199381 CCCCTGTTACTCAGCCCAACA
66 CCCCGGTTACTCAGCCCAACA
55199402 CATTCTTAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
96 68 0.88
97 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCGAAGAGAGATAACAGCCAAGCACCCCA
CCCCGGTTACTCAGCCCAACATACTCCTAATT
Found at i:55200217 original size:15 final size:17
Alignment explanation
Indices: 55200197--55200249 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
55200187 TTAATATCTG
55200197 AAAATAATAA-AT-AAT
1 AAAATAATAAGATAAAT
55200212 AAAATAATAAGATAAAAT
1 AAAATAATAAGAT-AAAT
* *
55200230 AAAATAA-AACAAAAAT
1 AAAATAATAAGATAAAT
55200246 AAAA
1 AAAA
55200250 ATTAGGTTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
15 10 0.30
16 10 0.30
17 3 0.09
18 10 0.30
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAATAATAAGATAAAT
Found at i:55203238 original size:17 final size:18
Alignment explanation
Indices: 55203218--55203251 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55203208 AAGTGAATTG
55203218 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
55203235 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
55203252 ATGGAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:55203990 original size:20 final size:20
Alignment explanation
Indices: 55203967--55204006 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
55203957 TGAAATTCTA
55203967 AAAGATAAAT-ATAAATAAAT
1 AAAGATAAATGA-AAATAAAT
55203987 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
55204007 CCTAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:55218595 original size:31 final size:31
Alignment explanation
Indices: 55218528--55218601 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
55218518 CACTCCCCAG
* * *
55218528 CCCTCCTCCCTTAGGTGCTGTCTGACAACAT
1 CCCTCCTCCCCTAGGTGCTGCCTAACAACAT
*
55218559 CCCTCCTCCCCTAGGTGCTGCCTAACGACAAT
1 CCCTCCTCCCCTAGGTGCTGCCTAACAAC-AT
55218591 -CCTCCTCCCCT
1 CCCTCCTCCCCT
55218602 TAAAATTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 36 0.95
32 2 0.05
ACGTcount: A:0.15, C:0.46, G:0.14, T:0.26
Consensus pattern (31 bp):
CCCTCCTCCCCTAGGTGCTGCCTAACAACAT
Found at i:55220747 original size:25 final size:24
Alignment explanation
Indices: 55220695--55220746 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
55220685 TTTAATTATG
*
55220695 AAAATATACTAACTACACCTTAAA
1 AAAATATACTAAATACACCTTAAA
*
55220719 AAAAGTATACTAAATACA-TTTAAA
1 AAAA-TATACTAAATACACCTTAAA
55220743 AAAA
1 AAAA
55220747 AAAGTAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAATATACTAAATACACCTTAAA
Found at i:55229052 original size:41 final size:41
Alignment explanation
Indices: 55228957--55229104 Score: 127
Period size: 41 Copynumber: 3.5 Consensus size: 41
55228947 TACTCTAGTA
* * * * *
55228957 CAACTTCAGGGAGATAAGACTTGCTTTAATCTACTCCACTG
1 CAACCTCAAGGAGATAAGACTTGCTTTGATCTGCTCCATTG
* * * *
55228998 CCACTTTAGGGAGATAAGACTTGCTTTGATCTGCTCCATTG
1 CAACCTCAAGGAGATAAGACTTGCTTTGATCTGCTCCATTG
** *
55229039 CAACCTCAAGGAGATAAGATCTACCATATTGAGTCTGCTTCATTG
1 CAACCTCAAGGAGATAAGA-CTTGC-T-TTGA-TCTGCTCCATTG
*
55229084 CTACCTC-AGGAGGATAAGACT
1 CAACCTCAAGGA-GATAAGACT
55229105 ACAATCTTCA
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 51 0.57
42 3 0.03
43 1 0.01
44 10 0.11
45 24 0.27
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
CAACCTCAAGGAGATAAGACTTGCTTTGATCTGCTCCATTG
Found at i:55229083 original size:45 final size:43
Alignment explanation
Indices: 55229023--55229106 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 43
55229013 AAGACTTGCT
55229023 TTGATCTGCTCCATTGCAACCTCAAGGA-GATAAGATCTACCATA
1 TTGATCTGCTCCATTGCAACCTC-AGGAGGATAAGA-CTACCATA
* *
55229067 TTGAGTCTGCTTCATTGCTACCTCAGGAGGATAAGACTAC
1 TTGA-TCTGCTCCATTGCAACCTCAGGAGGATAAGACTAC
55229107 AATCTTCAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
44 12 0.33
45 24 0.67
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
TTGATCTGCTCCATTGCAACCTCAGGAGGATAAGACTACCATA
Found at i:55229253 original size:177 final size:177
Alignment explanation
Indices: 55229070--55229597 Score: 788
Period size: 177 Copynumber: 3.0 Consensus size: 177
55229060 TACCATATTG
* * * *
55229070 AGTCTGCTTCATTGCTACCTCAGGAGGATAAGACTACAATCTTCAACTTACCCTCTTGCTACCTT
1 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACTTACTCTCTTGCTACCTC
* *
55229135 AGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTACTGCCTCGGGAAGATAAAATTTGCCATC
66 AGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTTGCCATC
*
55229200 TTTGATCCGCTCCACTACTACTTAGGGAGATAGGATCTACAATCCTC
131 TTCGATCCGCTCCACTACTACTTAGGGAGATAGGATCTACAATCCTC
*
55229247 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTTAA-TCTACTCTCTTGCTACCT
1 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACT-TACTCTCTTGCTACCT
* *
55229311 CAGAGAGATAAGGCTGGTGGCTAAGATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTCGCCAT
65 CAGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTTGCCAT
55229376 CTTCGATCCGCTCCACTACTACTTAGGGAGATAGGATCTACAATCCTC
130 CTTCGATCCGCTCCACTACTACTTAGGGAGATAGGATCTACAATCCTC
* * * * *
55229424 AGTCTGCATCCTTGCTACCTCAGGAAGATAAGACTTCAATCTTCAACCTGCTCTATTGCTACCTC
1 AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACTTACTCTCTTGCTACCTC
* * * * * * * *
55229489 AGATAGATAATGCTTGTGGCTAAAATCTGCTCCCCCGCTATCTCGGGAAGATAAGATTTGCCATC
66 AGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTTGCCATC
* * * * *
55229554 TGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTCAATC
131 TTCGATCCGCTCCACTACTACTTAGGGAGATAGGATCTACAATC
55229598 TTCAATCTAA
Statistics
Matches: 318, Mismatches: 31, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
176 1 0.00
177 317 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (177 bp):
AGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACTTACTCTCTTGCTACCTC
AGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTTGCCATC
TTCGATCCGCTCCACTACTACTTAGGGAGATAGGATCTACAATCCTC
Found at i:55229407 original size:88 final size:87
Alignment explanation
Indices: 55229132--55229408 Score: 229
Period size: 88 Copynumber: 3.1 Consensus size: 87
55229122 CTCTTGCTAC
* * *
55229132 CTTAGAGAGATAAGGCTGGTGGCTAAAATTTTCTCCCCTACTGCCTCGGGAAGATAAAATTTGCC
1 CTTAGAGAGATAAGGCTGGTGGCTAAGATTTTCTCCCCTGCTACCTCGGGAAGATAAAA-TTGCC
55229197 ATCTTTGATCCGCTCCACTACTA
65 ATCTTTGATCCGCTCCACTACTA
* ** * * * * * * * * *
55229220 CTTAGGGAGAT-AGGATCTACAAT-CCTCAG-TCTGCTTCCTTGCTACCTCAGGAAGATAAGACT
1 CTTAGAGAGATAAGG--CT--GGTGGCTAAGATTTTCTCCCCTGCTACCTCGGGAAGATAAAATT
* * * ** * *
55229282 ACAATCTTTAATCTACTCTC-TTGCTA
62 GCCATCTTTGATCCGCTC-CACTACTA
*
55229308 CCTCAGAGAGATAAGGCTGGTGGCTAAGATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTCGC
1 -CTTAGAGAGATAAGGCTGGTGGCTAAGATTTTCTCCCCTGCTACCTCGGGAAGATAAAATT-GC
*
55229373 CATCTTCGATCCGCTCCACTACTA
64 CATCTTTGATCCGCTCCACTACTA
*
55229397 CTTAGGGAGATA
1 CTTAGAGAGATA
55229409 GGATCTACAA
Statistics
Matches: 133, Mismatches: 45, Indels: 22
0.67 0.22 0.11
Matches are distributed among these distances:
86 1 0.01
87 7 0.05
88 67 0.50
89 51 0.38
90 6 0.05
91 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (87 bp):
CTTAGAGAGATAAGGCTGGTGGCTAAGATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTGCCA
TCTTTGATCCGCTCCACTACTA
Found at i:55243226 original size:13 final size:13
Alignment explanation
Indices: 55243208--55243234 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55243198 CTGTCCGTTG
55243208 GCATTTATCGCAA
1 GCATTTATCGCAA
55243221 GCATTTATCGCAA
1 GCATTTATCGCAA
55243234 G
1 G
55243235 TAGCAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (13 bp):
GCATTTATCGCAA
Found at i:55246668 original size:30 final size:30
Alignment explanation
Indices: 55246632--55246691 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
55246622 CCTCATCACT
55246632 GGATGTACCAGAGTAGAACCATATAAACTA
1 GGATGTACCAGAGTAGAACCATATAAACTA
*
55246662 GGATGTACCTGAGTAGAACCATATAAACTA
1 GGATGTACCAGAGTAGAACCATATAAACTA
55246692 TCGGTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (30 bp):
GGATGTACCAGAGTAGAACCATATAAACTA
Found at i:55253273 original size:41 final size:41
Alignment explanation
Indices: 55253226--55253338 Score: 163
Period size: 41 Copynumber: 2.8 Consensus size: 41
55253216 CAATCTTCAG
55253226 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTAA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTAA
* * * *
55253267 TCTACTCCACTGCCACTTTAGGGAGATAAGGCTTGCTTTGA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTAA
* * *
55253308 TCTGCTCCATTGCAACTTCAAGGAGATAAGA
1 TCTACTCCACTGCAACTTCAGGGAGATAAGA
55253339 TCTACCATAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (41 bp):
TCTACTCCACTGCAACTTCAGGGAGATAAGACTTGCTTTAA
Found at i:55253555 original size:177 final size:177
Alignment explanation
Indices: 55253364--55253687 Score: 459
Period size: 177 Copynumber: 1.8 Consensus size: 177
55253354 CTGTTTCATT
* * *
55253364 GCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCTTAGAGAGATAAGGC
1 GCTACCTCAGGAAGATAAAACTACAATCTTCAACCTACTCTCTTACTACCTTAGAGAGATAAGAC
* ** * ** * *
55253429 TGGTGGCTAAAATTTTCTCCCCTGCTACCTCGGGAAGATAAAATTTTCCATCTTCGATCCGCTCT
66 TGGTGGCTAAAATCTGATCCCCCGCTACCTCGGGAAGATAAAATTCGCCATCTGCGATCCGCTCC
*
55253494 AGTACTACTTAGGGAGATAGGATCTACAATCCTCAGTCTGCTTCCTA
131 ACTACTACTTAGGGAGATAGGATCTACAATCCTCAGTCTGCTTCCTA
* * * *
55253541 GCTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCTTACTACCTTAGAGAGATAAGAT
1 GCTACCTCAGGAAGATAAAACTACAATCTTCAACCTACTCTCTTACTACCTTAGAGAGATAAGAC
* * *
55253606 TGGTGGCTAAAATCTGATCCCCCGCTATCTCGGGAAGATAAGATTCGCCATCTGCGATCTGCTCC
66 TGGTGGCTAAAATCTGATCCCCCGCTACCTCGGGAAGATAAAATTCGCCATCTGCGATCCGCTCC
* *
55253671 ACTATTGCTTAGGGAGA
131 ACTACTACTTAGGGAGA
55253688 CAAGATCTTC
Statistics
Matches: 126, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
177 126 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (177 bp):
GCTACCTCAGGAAGATAAAACTACAATCTTCAACCTACTCTCTTACTACCTTAGAGAGATAAGAC
TGGTGGCTAAAATCTGATCCCCCGCTACCTCGGGAAGATAAAATTCGCCATCTGCGATCCGCTCC
ACTACTACTTAGGGAGATAGGATCTACAATCCTCAGTCTGCTTCCTA
Found at i:55253590 original size:44 final size:44
Alignment explanation
Indices: 55253453--55253591 Score: 102
Period size: 44 Copynumber: 3.1 Consensus size: 44
55253443 TTCTCCCCTG
* * * * * **
55253453 CTACCTCGGGAAGATAAAATTTTCCATCTTCGATCCGCTCTAGTA
1 CTACCTCAGGAAGATAAAA-CTTCAATCTTCAATCTGCTCTCCTA
* * * * * * *
55253498 CTA-CTTAGGGAGATAGGATCTACAATCCTCAGTCTGCT-TCCTA
1 CTACCTCAGGAAGATA-AAACTTCAATCTTCAATCTGCTCTCCTA
*
55253541 GCTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCTTA
1 -CTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCCTA
55253586 CTACCT
1 CTACCT
55253592 TAGAGAGATA
Statistics
Matches: 68, Mismatches: 22, Indels: 9
0.69 0.22 0.09
Matches are distributed among these distances:
43 3 0.04
44 47 0.69
45 18 0.26
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (44 bp):
CTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCCTA
Found at i:55253642 original size:88 final size:88
Alignment explanation
Indices: 55253364--55253646 Score: 239
Period size: 88 Copynumber: 3.2 Consensus size: 88
55253354 CTGTTTCATT
* * * * * **
55253364 GCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTGCTACCTTAGAGAGATAAGGC
1 GCTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCTTACTACCTTAGAGAGATAAGAT
* * *
55253429 TGGTGGCTAAAATTTTCTCCCCT
66 TGGTGGCTAAAATCTGCTCCCCA
* * * * * ** * *
55253452 GCTACCTCGGGAAGATAAAATTTTCCATCTTCGATCCGCTCTAGTACTA-CTTAGGGAGATAGGA
1 GCTACCTCAGGAAGATAAAA-CTTCAATCTTCAATCTGCTCTCTTACTACCTTAGAGAGATAAGA
** * * * * *
55253516 TCTACAAT-CCT-CAGTCTGCTTCCTA
65 T-T--GGTGGCTAAAATCTGCTCCCCA
55253541 GCTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCTTACTACCTTAGAGAGATAAGAT
1 GCTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCTTACTACCTTAGAGAGATAAGAT
* *
55253606 TGGTGGCTAAAATCTGATCCCCC
66 TGGTGGCTAAAATCTGCTCCCCA
* *
55253629 GCTATCTCGGGAAGATAA
1 GCTACCTCAGGAAGATAA
55253647 GATTCGCCAT
Statistics
Matches: 142, Mismatches: 46, Indels: 14
0.70 0.23 0.07
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 77 0.54
89 59 0.42
90 2 0.01
91 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (88 bp):
GCTACCTCAGGAAGATAAAACTTCAATCTTCAATCTGCTCTCTTACTACCTTAGAGAGATAAGAT
TGGTGGCTAAAATCTGCTCCCCA
Found at i:55276174 original size:41 final size:41
Alignment explanation
Indices: 55276116--55276215 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
55276106 GTTCTGTTGT
55276116 AACTTCAGGGAGATAAGACTTACTTTAATCTGCTCCACTGC
1 AACTTCAGGGAGATAAGACTTACTTTAATCTGCTCCACTGC
* * * *
55276157 CACTTCAGGGAGATAAGACTTGCTTTGATCTGCTCCATTGC
1 AACTTCAGGGAGATAAGACTTACTTTAATCTGCTCCACTGC
* *
55276198 AACCTCAAGGAGATAAGA
1 AACTTCAGGGAGATAAGA
55276216 TCTACCATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (41 bp):
AACTTCAGGGAGATAAGACTTACTTTAATCTGCTCCACTGC
Found at i:55276409 original size:177 final size:177
Alignment explanation
Indices: 55276226--55276572 Score: 516
Period size: 177 Copynumber: 2.0 Consensus size: 177
55276216 TCTACCATAT
* * *
55276226 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC-TACAATCTTTAACCTACTCTCTTGTTAC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTA-AATCTTCAACCGACTCTCTTGCTAC
* * * *
55276290 CTTAGAGAGATAAGGTTGGTGGCTAAAATTTGCTCCCCTGCTACCCCGGGAAGATAAAATTCGCC
65 CTTAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCCCGGGAAGATAAAATTCGCC
** *
55276355 ATCTTTGATCCGCTCCACTACTACTTAGGGAGATAGAATCTACAGTCC
130 ATCTGCGATCCGCTCCACTACTACTTAAGGAGATAGAATCTACAGTCC
* *
55276403 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTAAATCTTCAACCGGCTCTCTTGCTATC
1 TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTAAATCTTCAACCGACTCTCTTGCTACC
* * *
55276468 TTAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCCCTACTATCTCGGGAAGATAAGATTCGCCA
66 TTAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCCCGGGAAGATAAAATTCGCCA
* * *
55276533 TCTGCGATCTGCTCCACTACTGCTTAAGGAGATAGGATCT
131 TCTGCGATCCGCTCCACTACTACTTAAGGAGATAGAATCT
55276573 TCAATCTTCA
Statistics
Matches: 151, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
177 149 0.99
178 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (177 bp):
TCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTAAATCTTCAACCGACTCTCTTGCTACC
TTAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCCCGGGAAGATAAAATTCGCCA
TCTGCGATCCGCTCCACTACTACTTAAGGAGATAGAATCTACAGTCC
Found at i:55276613 original size:177 final size:178
Alignment explanation
Indices: 55276234--55276617 Score: 470
Period size: 177 Copynumber: 2.2 Consensus size: 178
55276224 ATTCAGTCTG
* * * * *
55276234 CTTCCTTGCTACCTCAGGAAGATAAGAC-TACAATCTTTAACCTACTCTCTTGTTACCTTAGAGA
1 CTTCCTTACAACCTCAGGAAGATAAGACTTACAATCTTCAACCGACTCTCTTGCTACCTTAGAGA
* * * * **
55276298 GATAAGGTTGGTGGCTAAAATTTGCTCCCCTGCTACCCCGGGAAGATAAAATTCGCCATCTTTGA
66 GATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCCCGGGAAGATAAAATTCGCCATCTGCGA
* * * *
55276363 TCCGCTCCACTACTACTTAGGGAGATAGAATCTACAGTCCTCAGTCTG
131 TCCGCTCCACTACTACTTAAGGAGATAGAATCTACAATCCTCAATCTA
* * * *
55276411 CTTCCTTGCTACCTCAGGAAGATAAGACTTA-AATCTTCAACCGGCTCTCTTGCTATCTTAGAGA
1 CTTCCTTACAACCTCAGGAAGATAAGACTTACAATCTTCAACCGACTCTCTTGCTACCTTAGAGA
* * *
55276475 GATAAGGCTGGTGGCTAAAATCTACTCCCCTACTATCTCGGGAAGATAAGATTCGCCATCTGCGA
66 GATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCCCGGGAAGATAAAATTCGCCATCTGCGA
* * * * *
55276540 TCTGCTCCACTACTGCTTAAGGAGATAGGATCTTCAATCTTCAATCTA
131 TCCGCTCCACTACTACTTAAGGAGATAGAATCTACAATCCTCAATCTA
*
55276588 CTT-CTCTACAACTTCAAGG-AGATAAGACTT
1 CTTCCT-TACAACCTC-AGGAAGATAAGACTT
55276618 GCTTTGATCT
Statistics
Matches: 178, Mismatches: 26, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
176 2 0.01
177 171 0.96
178 5 0.03
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (178 bp):
CTTCCTTACAACCTCAGGAAGATAAGACTTACAATCTTCAACCGACTCTCTTGCTACCTTAGAGA
GATAAGGCTGGTGGCTAAAATCTACTCCCCTACTACCCCGGGAAGATAAAATTCGCCATCTGCGA
TCCGCTCCACTACTACTTAAGGAGATAGAATCTACAATCCTCAATCTA
Found at i:55280986 original size:28 final size:28
Alignment explanation
Indices: 55280954--55281012 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
55280944 AGAACTAAAA
*
55280954 GATTATTGAATTCAAAGATTTCTCTTGT
1 GATTAATGAATTCAAAGATTTCTCTTGT
55280982 GATTAATGAATTCAAAGATTTCTCTTGT
1 GATTAATGAATTCAAAGATTTCTCTTGT
55281010 GAT
1 GAT
55281013 GCTCGTTCTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (28 bp):
GATTAATGAATTCAAAGATTTCTCTTGT
Found at i:55283313 original size:50 final size:49
Alignment explanation
Indices: 55283136--55283380 Score: 303
Period size: 49 Copynumber: 4.9 Consensus size: 49
55283126 TCTATTGTGA
*
55283136 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAAAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
*** *
55283185 GGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CCAGATAA--TT
* ** * **
55283236 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
55283285 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTAACGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
55283335 GGTCACATATGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
55283381 GCCTTGTCTA
Statistics
Matches: 164, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 81 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:55289389 original size:14 final size:13
Alignment explanation
Indices: 55289370--55289401 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
55289360 AATTTGTGTA
55289370 TTTTTTATTTTTAT
1 TTTTTTA-TTTTAT
55289384 TTTTTTATTTTAT
1 TTTTTTATTTTAT
55289397 TTTTT
1 TTTTT
55289402 CACACTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:55292870 original size:40 final size:39
Alignment explanation
Indices: 55292680--55292863 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
55292670 CGAATGATGT
* * * *
55292680 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
55292720 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
55292760 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55292798 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55292839 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55292864 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55292885 original size:79 final size:79
Alignment explanation
Indices: 55292732--55292896 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
55292722 GGACTAAGAT
* **
55292732 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
* *
55292797 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* *
55292811 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
55292874 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
55292890 CCGAAGG
1 CCGAAGG
55292897 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 51 0.69
80 21 0.28
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:55294785 original size:20 final size:19
Alignment explanation
Indices: 55294750--55294787 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
55294740 AACATAAATA
55294750 ATATAATAGATAATATAAG
1 ATATAATAGATAATATAAG
55294769 ATATACATAGCAT-ATATAA
1 ATATA-ATAG-ATAATATAA
55294788 AAAAAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 10 0.59
21 2 0.12
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (19 bp):
ATATAATAGATAATATAAG
Found at i:55294948 original size:19 final size:18
Alignment explanation
Indices: 55294926--55294985 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
55294916 TAAAAACAAT
55294926 ATATAAAAATAATTAATAA
1 ATATAAAAATAATTAA-AA
* * *
55294945 ATATATAATACAAGTAAAA
1 ATATA-AAAATAATTAAAA
*
55294964 ATATAATAATAATATAAAA
1 ATATAAAAATAAT-TAAAA
55294983 ATA
1 ATA
55294986 ATGACGTAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
18 4 0.12
19 20 0.62
20 8 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATATAAAAATAATTAAAA
Found at i:55294979 original size:11 final size:11
Alignment explanation
Indices: 55294933--55295012 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 11
55294923 AATATATAAA
55294933 AATAATTAATA-
1 AATAA-TAATAT
*
55294944 AATATATAATAC
1 AATA-ATAATAT
*
55294956 AAGTAAAAATAT
1 AA-TAATAATAT
55294968 AATAATAATAT
1 AATAATAATAT
*
55294979 AAAAATAATGACGT
1 AATAATAAT-A--T
55294993 AA-AATAATAAT
1 AATAATAAT-AT
55295004 AATAATAAT
1 AATAATAAT
55295013 TTGTGAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
11 28 0.49
12 17 0.30
13 9 0.16
14 3 0.05
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.30
Consensus pattern (11 bp):
AATAATAATAT
Found at i:55295345 original size:21 final size:21
Alignment explanation
Indices: 55295319--55295361 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
55295309 AACCGTTGGG
55295319 ACTAAATTGAAACAATTGTAA
1 ACTAAATTGAAACAATTGTAA
55295340 ACTAAATTGAAACAATTGTAA
1 ACTAAATTGAAACAATTGTAA
55295361 A
1 A
55295362 ATATTAGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.28
Consensus pattern (21 bp):
ACTAAATTGAAACAATTGTAA
Found at i:55297079 original size:200 final size:202
Alignment explanation
Indices: 55296736--55297234 Score: 799
Period size: 205 Copynumber: 2.5 Consensus size: 202
55296726 AAATCTGCTT
*
55296736 CTTCGATTTGTTCTCTAACAATACAGAGATGA-CAAATCATCTTAGATTTGCTTCAGCGTAAGCA
1 CTTCGATTTGTTCTCTAACAATACAGAGAT-ACCAAATCATCTTAGATTTGCTTCAACGTAAGCA
* *
55296800 CGCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
*
55296865 TGGATCTACTTCAG-T-CATCTGAAGGTTACATCTTCTATGTATCTGCTCT-TCGTCGAAATAGA
130 TGGATCTACTTCAGATACATCTGAAGGTTACATCTGCTATGTATCTGCTCTCT-GTCGAAATAGA
*
55296927 GATGCCAGA
194 GATGCCAAA
*
55296936 CTTCGATTTGTTCTCTAACAATACAGAGATACCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
55297001 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
55297066 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCTGTCGAAATGG
131 GGATCTACTTCAG-AT--ACATCTGAAGGTTACATCTGCTATGTATCTGCTCTCTGTCGAAATAG
55297131 AGATGCCAAA
193 AGATGCCAAA
* * * *
55297141 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
55297206 GTGAAAGTCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
55297235 CTGCTCTCTG
Statistics
Matches: 278, Mismatches: 14, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
199 1 0.00
200 137 0.49
202 1 0.00
205 138 0.50
206 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (202 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGATACATCTGAAGGTTACATCTGCTATGTATCTGCTCTCTGTCGAAATAGAGA
TGCCAAA
Found at i:55297263 original size:205 final size:200
Alignment explanation
Indices: 55296736--55297234 Score: 802
Period size: 200 Copynumber: 2.5 Consensus size: 200
55296726 AAATCTGCTT
* *
55296736 CTTCGATTTGTTCTCTAACAATACAGAGATGACAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
55296801 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
*
55296866 GGATCTACTTCAGTCATCTGAAGGTTACATCTTCTATGTATCTGCTCTTCGTCGAAATAGAGATG
131 GGATCTACTTCAGTCATCTGAAGGTTACATCTGCTATGTATCTGCTCTTCGTCGAAATAGAGATG
*
55296931 CCAGA
196 CCAAA
* *
55296936 CTTCGATTTGTTCTCTAACAATACAGAGATACCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
55297001 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
55297066 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTC-TCTGTCGAAATG
131 GGATCTACTTCAG--T---CATCTGAAGGTTACATCTGCTATGTATCTGCTCTTC-GTCGAAATA
55297130 GAGATGCCAAA
190 GAGATGCCAAA
* * *
55297141 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
*
55297206 GTGAAAGTCAAATCAGCTATGTCTTCGAT
66 GTGAAAGCCAAATCAGCTATGTCTTCGAT
55297235 CTGCTCTCTG
Statistics
Matches: 277, Mismatches: 16, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
200 137 0.49
202 1 0.00
204 2 0.01
205 137 0.49
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.31
Consensus pattern (200 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTCATCTGAAGGTTACATCTGCTATGTATCTGCTCTTCGTCGAAATAGAGATG
CCAAA
Found at i:55304488 original size:19 final size:19
Alignment explanation
Indices: 55304429--55304488 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
55304419 AAAAGAATTT
* *
55304429 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
55304448 A-AAAAT-AT-CATTTTAA
1 ATAAAATAATACATAATAA
55304464 AGTAAAATAATACATAATAA
1 A-TAAAATAATACATAATAA
55304484 ATAAA
1 ATAAA
55304489 TTATTAATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
16 6 0.19
17 1 0.03
18 10 0.32
19 7 0.23
20 7 0.23
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Done.