Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 201 of 313
Found at i:61743310 original size:22 final size:19
Alignment explanation
Indices: 61743271--61743312 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
61743261 TGCAAAGTTG
61743271 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
61743290 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
61743312 A
1 A
61743313 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:61743433 original size:30 final size:30
Alignment explanation
Indices: 61743375--61743433 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
61743365 CTTTTGAAAA
* * *
61743375 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAAATTTTAG
61743405 TATTTACAAAAAGAG-CAACCAAAATTTTA
1 TATTTACAAAAAGAGAC-ACCAAAATTTTA
61743434 AAATAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAAATTTTAG
Found at i:61744056 original size:22 final size:19
Alignment explanation
Indices: 61744017--61744058 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
61744007 TGCAAAGTTG
61744017 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
61744036 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
61744058 A
1 A
61744059 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:61744179 original size:30 final size:30
Alignment explanation
Indices: 61744121--61744179 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
61744111 CTTTTGAAAA
* * *
61744121 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAAATTTTAG
61744151 TATTTACAAAAAGAG-CAACCAAAATTTTA
1 TATTTACAAAAAGAGAC-ACCAAAATTTTA
61744180 AAATAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAAATTTTAG
Found at i:61744528 original size:746 final size:746
Alignment explanation
Indices: 61743097--61744589 Score: 2986
Period size: 746 Copynumber: 2.0 Consensus size: 746
61743087 TAGAATTCTT
61743097 ATAACAAATTAATAATTAAGATATTCCAAGTTCTACTTCTACATAGAGTTAGCAACAATTAATAA
1 ATAACAAATTAATAATTAAGATATTCCAAGTTCTACTTCTACATAGAGTTAGCAACAATTAATAA
61743162 TTAATATAATGCATATTAAATTATTATTTGCTATTAATTTATTAAAAATAAATACTTATTAAATA
66 TTAATATAATGCATATTAAATTATTATTTGCTATTAATTTATTAAAAATAAATACTTATTAAATA
61743227 AAATATGATCAAATTTAAACTAATCCTAATTCTATGCAAAGTTGATAATAATTAATATATATTAT
131 AAATATGATCAAATTTAAACTAATCCTAATTCTATGCAAAGTTGATAATAATTAATATATATTAT
61743292 AATAGATATAATTATATATTAATGATTATCATCTTATTTATTAAATTAAATTAAAAACATTTACT
196 AATAGATATAATTATATATTAATGATTATCATCTTATTTATTAAATTAAATTAAAAACATTTACT
61743357 CTAGATGCCTTTTGAAAATATTTACAAAAAGAGACATCTAATTTTTAGTATTTACAAAAAGAGCA
261 CTAGATGCCTTTTGAAAATATTTACAAAAAGAGACATCTAATTTTTAGTATTTACAAAAAGAGCA
61743422 ACCAAAATTTTAAAATAGTTCAATTAATTACCTAGACTTAAAGAAAATTTGAAATTGAGTTGCAA
326 ACCAAAATTTTAAAATAGTTCAATTAATTACCTAGACTTAAAGAAAATTTGAAATTGAGTTGCAA
61743487 TTAAAACTTGGATCAAAATTGACCTTTTTATTTGAAACACTAAAAAATTATTTTGCCATTTAGAG
391 TTAAAACTTGGATCAAAATTGACCTTTTTATTTGAAACACTAAAAAATTATTTTGCCATTTAGAG
61743552 AATAATTTCTCAGAAGATTCTGTTAAAATCAATTTCAAGGAAAGATTTGATGGGTCACAAGCGGT
456 AATAATTTCTCAGAAGATTCTGTTAAAATCAATTTCAAGGAAAGATTTGATGGGTCACAAGCGGT
61743617 CTCGCTTAAGTTCCAATCTTCTAGACAGAATTTATTTAAACATACTAATCCTGAAAATATACCCT
521 CTCGCTTAAGTTCCAATCTTCTAGACAGAATTTATTTAAACATACTAATCCTGAAAATATACCCT
61743682 AAATCATTAATTTAAAATGAAAAACAAAAAATTAAATATCTGATAAAATGAACGAGAGTTGATCC
586 AAATCATTAATTTAAAATGAAAAACAAAAAATTAAATATCTGATAAAATGAACGAGAGTTGATCC
61743747 CGTTCAATTTTATCCCCATAGTAATGCTTTACGCGCTGAGCATTAACTCGAAAATTACCTCCCTT
651 CGTTCAATTTTATCCCCATAGTAATGCTTTACGCGCTGAGCATTAACTCGAAAATTACCTCCCTT
61743812 ACTTTGATGTTCGACAACTCCATATGGATAA
716 ACTTTGATGTTCGACAACTCCATATGGATAA
61743843 ATAACAAATTAATAATTAAGATATTCCAAGTTCTACTTCTACATAGAGTTAGCAACAATTAATAA
1 ATAACAAATTAATAATTAAGATATTCCAAGTTCTACTTCTACATAGAGTTAGCAACAATTAATAA
61743908 TTAATATAATGCATATTAAATTATTATTTGCTATTAATTTATTAAAAATAAATACTTATTAAATA
66 TTAATATAATGCATATTAAATTATTATTTGCTATTAATTTATTAAAAATAAATACTTATTAAATA
61743973 AAATATGATCAAATTTAAACTAATCCTAATTCTATGCAAAGTTGATAATAATTAATATATATTAT
131 AAATATGATCAAATTTAAACTAATCCTAATTCTATGCAAAGTTGATAATAATTAATATATATTAT
61744038 AATAGATATAATTATATATTAATGATTATCATCTTATTTATTAAATTAAATTAAAAACATTTACT
196 AATAGATATAATTATATATTAATGATTATCATCTTATTTATTAAATTAAATTAAAAACATTTACT
61744103 CTAGATGCCTTTTGAAAATATTTACAAAAAGAGACATCTAATTTTTAGTATTTACAAAAAGAGCA
261 CTAGATGCCTTTTGAAAATATTTACAAAAAGAGACATCTAATTTTTAGTATTTACAAAAAGAGCA
61744168 ACCAAAATTTTAAAATAGTTCAATTAATTACCTAGACTTAAAGAAAATTTGAAATTGAGTTGCAA
326 ACCAAAATTTTAAAATAGTTCAATTAATTACCTAGACTTAAAGAAAATTTGAAATTGAGTTGCAA
61744233 TTAAAACTTGGATCAAAATTGACCTTTTTATTTGAAACACTAAAAAATTATTTTGCCATTTAGAG
391 TTAAAACTTGGATCAAAATTGACCTTTTTATTTGAAACACTAAAAAATTATTTTGCCATTTAGAG
61744298 AATAATTTCTCAGAAGATTCTGTTAAAATCAATTTCAAGGAAAGATTTGATGGGTCACAAGCGGT
456 AATAATTTCTCAGAAGATTCTGTTAAAATCAATTTCAAGGAAAGATTTGATGGGTCACAAGCGGT
61744363 CTCGCTTAAGTTCCAATCTTCTAGACAGAATTTATTTAAACATACTAATCCTGAAAATATACCCT
521 CTCGCTTAAGTTCCAATCTTCTAGACAGAATTTATTTAAACATACTAATCCTGAAAATATACCCT
61744428 AAATCATTAATTTAAAATGAAAAACAAAAAATTAAATATCTGATAAAATGAACGAGAGTTGATCC
586 AAATCATTAATTTAAAATGAAAAACAAAAAATTAAATATCTGATAAAATGAACGAGAGTTGATCC
61744493 CGTTCAATTTTATCCCCATAGTAATGCTTTACGCGCTGAGCATTAACTCGAAAATTACCTCCCTT
651 CGTTCAATTTTATCCCCATAGTAATGCTTTACGCGCTGAGCATTAACTCGAAAATTACCTCCCTT
61744558 ACTTTGATGTTCGACAACTCCATATGGATAA
716 ACTTTGATGTTCGACAACTCCATATGGATAA
61744589 A
1 A
61744590 CTTGGTGAAT
Statistics
Matches: 747, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
746 747 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (746 bp):
ATAACAAATTAATAATTAAGATATTCCAAGTTCTACTTCTACATAGAGTTAGCAACAATTAATAA
TTAATATAATGCATATTAAATTATTATTTGCTATTAATTTATTAAAAATAAATACTTATTAAATA
AAATATGATCAAATTTAAACTAATCCTAATTCTATGCAAAGTTGATAATAATTAATATATATTAT
AATAGATATAATTATATATTAATGATTATCATCTTATTTATTAAATTAAATTAAAAACATTTACT
CTAGATGCCTTTTGAAAATATTTACAAAAAGAGACATCTAATTTTTAGTATTTACAAAAAGAGCA
ACCAAAATTTTAAAATAGTTCAATTAATTACCTAGACTTAAAGAAAATTTGAAATTGAGTTGCAA
TTAAAACTTGGATCAAAATTGACCTTTTTATTTGAAACACTAAAAAATTATTTTGCCATTTAGAG
AATAATTTCTCAGAAGATTCTGTTAAAATCAATTTCAAGGAAAGATTTGATGGGTCACAAGCGGT
CTCGCTTAAGTTCCAATCTTCTAGACAGAATTTATTTAAACATACTAATCCTGAAAATATACCCT
AAATCATTAATTTAAAATGAAAAACAAAAAATTAAATATCTGATAAAATGAACGAGAGTTGATCC
CGTTCAATTTTATCCCCATAGTAATGCTTTACGCGCTGAGCATTAACTCGAAAATTACCTCCCTT
ACTTTGATGTTCGACAACTCCATATGGATAA
Found at i:61752247 original size:11 final size:11
Alignment explanation
Indices: 61752228--61752265 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
61752218 AAGAGAGAAT
*
61752228 GATGATTGATG
1 GATGATTGAGG
*
61752239 GATGCTTGAGG
1 GATGATTGAGG
61752250 GATGATTGAGG
1 GATGATTGAGG
61752261 GATGA
1 GATGA
61752266 GAGGGTCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.26, C:0.03, G:0.42, T:0.29
Consensus pattern (11 bp):
GATGATTGAGG
Found at i:61752938 original size:118 final size:118
Alignment explanation
Indices: 61752800--61753035 Score: 463
Period size: 118 Copynumber: 2.0 Consensus size: 118
61752790 TAAAATAAGT
61752800 CATTTATTGCATGAAAACTATATAATAAAGCATAAAATCACATTTTAATAATTTCTATGTCCTAA
1 CATTTATTGCATGAAAACTATATAATAAAGCATAAAATCACATTTTAATAATTTCTATGTCCTAA
61752865 TTTCATATTTTCACATATTTATTAATTTATTAAACAATTACTTAGTTTTAACA
66 TTTCATATTTTCACATATTTATTAATTTATTAAACAATTACTTAGTTTTAACA
61752918 CATTTATTGCATGAAAACTATATAATAAAGCATAAAATCACATTTTAATAATTTCTATGTCCTAA
1 CATTTATTGCATGAAAACTATATAATAAAGCATAAAATCACATTTTAATAATTTCTATGTCCTAA
*
61752983 TTTCATATTTTCACATATTTATTAATTTATTAAACAATTATTTAGTTTTAACA
66 TTTCATATTTTCACATATTTATTAATTTATTAAACAATTACTTAGTTTTAACA
61753036 ATGGTTTTAT
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 117 1.00
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (118 bp):
CATTTATTGCATGAAAACTATATAATAAAGCATAAAATCACATTTTAATAATTTCTATGTCCTAA
TTTCATATTTTCACATATTTATTAATTTATTAAACAATTACTTAGTTTTAACA
Found at i:61759379 original size:25 final size:25
Alignment explanation
Indices: 61759347--61759405 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
61759337 ATGAACGATA
*
61759347 AACGGTAAGTTCCTCCAAGTTGAAT
1 AACGGTAAGTTCCTCCAAGCTGAAT
*
61759372 AACGGTAAGTTTCTCCAAGCTGAAT
1 AACGGTAAGTTCCTCCAAGCTGAAT
*
61759397 AACGATAAG
1 AACGGTAAG
61759406 CTCATACAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (25 bp):
AACGGTAAGTTCCTCCAAGCTGAAT
Found at i:61761318 original size:21 final size:22
Alignment explanation
Indices: 61761277--61761318 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
61761267 GATTTTTATG
*
61761277 ATTTTCTTTCTTTGTTGTTTTA
1 ATTTTCTTTCTTTGTTATTTTA
61761299 ATTTT-TTTCTTT-TTAATTTT
1 ATTTTCTTTCTTTGTT-ATTTT
61761319 TCTTTTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (22 bp):
ATTTTCTTTCTTTGTTATTTTA
Found at i:61764144 original size:50 final size:50
Alignment explanation
Indices: 61763963--61764155 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
61763953 GATAATAACA
* ** * *
61763963 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTCCTCTTGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCT-CTCATCTCGG
* *** * *
61764014 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGGCCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
61764064 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
61764114 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
61764156 TATCCCAAAT
Statistics
Matches: 121, Mismatches: 21, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
50 89 0.74
51 32 0.26
ACGTcount: A:0.19, C:0.31, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:61764155 original size:100 final size:101
Alignment explanation
Indices: 61763962--61764155 Score: 300
Period size: 100 Copynumber: 1.9 Consensus size: 101
61763952 TGATAATAAC
* * * *
61763962 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTCCTCTTGTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCCTCATCTCGGTGCCAATGCCATG
** *
61764027 TCCCAGACATGGTCTTATGGGGGGCCTCTCATCTCG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
*
61764063 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCT-CTCATCTCGGTGCCAATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCCTCATCTCGGTGCCAATGCCATG
*
61764127 TCCCAGACATGGTCTTACATGGGACCTCT
66 TCCCAGACATGGTCTTACAGGGGACCTCT
61764156 TATCCCAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 45 0.54
101 39 0.46
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (101 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCCTCATCTCGGTGCCAATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCG
Found at i:61764271 original size:13 final size:13
Alignment explanation
Indices: 61764250--61764281 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
61764240 GCTTGGATCA
*
61764250 TCATCAAATAAAT
1 TCATAAAATAAAT
61764263 TCATAAAATAAAT
1 TCATAAAATAAAT
61764276 TCATAA
1 TCATAA
61764282 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:61770787 original size:20 final size:20
Alignment explanation
Indices: 61770762--61770802 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
61770752 TTAAAAACAC
61770762 TAATTACCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
*
61770782 TAATTATCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
61770802 T
1 T
61770803 GCAGATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTACCAACCTCTTTATT
Found at i:61773817 original size:39 final size:39
Alignment explanation
Indices: 61773750--61773829 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
61773740 TGAAACTGCT
* * *
61773750 ATCAGGAGTACCGAAGTACAAAAAGGGCACGTAATTGCG
1 ATCACGAGTACCGAAGCACAAAAAGGGCACGTAAGTGCG
* * *
61773789 ATCACGAGTATCGAAGCACAACAGGGGCACGTAAGTGCG
1 ATCACGAGTACCGAAGCACAAAAAGGGCACGTAAGTGCG
61773828 AT
1 AT
61773830 TAGGGGAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.36, C:0.20, G:0.29, T:0.15
Consensus pattern (39 bp):
ATCACGAGTACCGAAGCACAAAAAGGGCACGTAAGTGCG
Found at i:61773884 original size:39 final size:39
Alignment explanation
Indices: 61773806--61773887 Score: 110
Period size: 39 Copynumber: 2.1 Consensus size: 39
61773796 GTATCGAAGC
**
61773806 ACAACAGGGGCACGTAAGTGCGATTAGGGGAACTGAAGT
1 ACAACAGGGGCACGTAAGTGCGATTAGGGGAACCAAAGT
* * * *
61773845 ACAACAGGGGCATGTATGTGTGATTAGGGGTACCAAAGT
1 ACAACAGGGGCACGTAAGTGCGATTAGGGGAACCAAAGT
61773884 ACAA
1 ACAA
61773888 TAGTTGTCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.18
Consensus pattern (39 bp):
ACAACAGGGGCACGTAAGTGCGATTAGGGGAACCAAAGT
Found at i:61778201 original size:37 final size:37
Alignment explanation
Indices: 61778131--61778222 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
61778121 ATATGTGTGG
* *
61778131 AATTGAAATGAATAT-TGACTTGAAAATGGAAAAGTGA
1 AATTGAATTGAAT-TGTGACTTGAAAATGAAAAAGTGA
*
61778168 AATTTGAATTGAATTGTGA-TTGAAAGTGAAAAAGTGA
1 AA-TTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
* *
61778205 AATTAAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
61778223 ATTTGGAGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 14 0.29
37 21 0.44
38 13 0.27
ACGTcount: A:0.47, C:0.01, G:0.22, T:0.30
Consensus pattern (37 bp):
AATTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
Found at i:61783032 original size:39 final size:39
Alignment explanation
Indices: 61782975--61783083 Score: 137
Period size: 39 Copynumber: 2.8 Consensus size: 39
61782965 CATGGCATGA
* * *
61782975 AAGTGCTATCAAGAGTACCGAAGTACAACAGGGGCACGT
1 AAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGT
* * * *
61783014 AAGTGCAATTAGTGGTACCGAAGTACAATAGGGGCACTT
1 AAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGT
* *
61783053 AAGTGCGATCAGGGGTACCTAAGTACAACAG
1 AAGTGCAATCAGGGGTACCGAAGTACAACAG
61783084 TTATATACTA
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.18
Consensus pattern (39 bp):
AAGTGCAATCAGGGGTACCGAAGTACAACAGGGGCACGT
Found at i:61783075 original size:20 final size:20
Alignment explanation
Indices: 61783003--61783076 Score: 60
Period size: 20 Copynumber: 3.8 Consensus size: 20
61782993 CGAAGTACAA
*
61783003 CAGGGGCACGTAAGTGCAAT
1 CAGGGGCACCTAAGTGCAAT
* * * * *
61783023 TAGTGGTACCGAAGTACAAT
1 CAGGGGCACCTAAGTGCAAT
* *
61783043 -AGGGGCACTTAAGTGCGAT
1 CAGGGGCACCTAAGTGCAAT
*
61783062 CAGGGGTACCTAAGT
1 CAGGGGCACCTAAGT
61783077 ACAACAGTTA
Statistics
Matches: 39, Mismatches: 14, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
19 13 0.33
20 26 0.67
ACGTcount: A:0.30, C:0.18, G:0.32, T:0.20
Consensus pattern (20 bp):
CAGGGGCACCTAAGTGCAAT
Found at i:61785909 original size:24 final size:24
Alignment explanation
Indices: 61785880--61785928 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61785870 ATGAAATGAA
61785880 TGTTTTAATGTTCTGTTTGTACGG
1 TGTTTTAATGTTCTGTTTGTACGG
61785904 TGTTTTAATGTTCTGTTTGTACGG
1 TGTTTTAATGTTCTGTTTGTACGG
61785928 T
1 T
61785929 AATGCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.08, G:0.24, T:0.55
Consensus pattern (24 bp):
TGTTTTAATGTTCTGTTTGTACGG
Found at i:61798168 original size:9 final size:10
Alignment explanation
Indices: 61798154--61798191 Score: 55
Period size: 9 Copynumber: 4.1 Consensus size: 10
61798144 TGGGACGATT
61798154 CCCTAT-TTA
1 CCCTATATTA
61798163 CCCTATATTA
1 CCCTATATTA
61798173 -CCTAT-TTA
1 CCCTATATTA
61798181 CCCTATATTA
1 CCCTATATTA
61798191 C
1 C
61798192 AGCTACCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.12
9 16 0.62
10 7 0.27
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (10 bp):
CCCTATATTA
Found at i:61798178 original size:18 final size:18
Alignment explanation
Indices: 61798155--61798191 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
61798145 GGGACGATTC
61798155 CCTATTTACCCTATATTA
1 CCTATTTACCCTATATTA
61798173 CCTATTTACCCTATATTA
1 CCTATTTACCCTATATTA
61798191 C
1 C
61798192 AGCTACCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (18 bp):
CCTATTTACCCTATATTA
Found at i:61808642 original size:27 final size:27
Alignment explanation
Indices: 61808612--61808735 Score: 144
Period size: 27 Copynumber: 4.6 Consensus size: 27
61808602 CCAAAAATAA
* *
61808612 GGTAAGATGACTAAAATACCCTCGAAG
1 GGTAAAATGACTAAAATACCCTCAAAG
*
61808639 GGTAAAATGACCAAAATACCC-CTAAAG
1 GGTAAAATGACTAAAATACCCTC-AAAG
*
61808666 GGTAAAATGA-TCGAAATACCCTCAAAG
1 GGTAAAATGACT-AAAATACCCTCAAAG
** *
61808693 GGTAAAATGACCGAAATACCCCCAAAG
1 GGTAAAATGACTAAAATACCCTCAAAG
61808720 GGTAAAATGACATAAA
1 GGTAAAATGAC-TAAA
61808736 CACCTCCGAA
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.01
27 79 0.95
28 3 0.04
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.16
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCTCAAAG
Found at i:61808694 original size:54 final size:54
Alignment explanation
Indices: 61808625--61808729 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
61808615 AAGATGACTA
* *
61808625 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGATCG
1 AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGATCG
*
61808679 AAATACCCTCAAAGGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGA
1 AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGA
61808730 CATAAACACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (54 bp):
AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGATCG
Found at i:61808750 original size:27 final size:27
Alignment explanation
Indices: 61808636--61808767 Score: 119
Period size: 27 Copynumber: 4.9 Consensus size: 27
61808626 AATACCCTCG
* *
61808636 AAGGGTAAAATGACCA-AAATACCCCTA
1 AAGGGTAAAATGA-CAGAAACACCCCCA
* *
61808663 AAGGGTAAAATGATC-GAAATACCCTCA
1 AAGGGTAAAATGA-CAGAAACACCCCCA
* *
61808690 AAGGGTAAAATGACCGAAATACCCCCA
1 AAGGGTAAAATGACAGAAACACCCCCA
* *
61808717 AAGGGTAAAATGACATAAACACCTCCGA
1 AAGGGTAAAATGACAGAAACACC-CCCA
* *
61808745 AA-GGT-AAATCACAGAAATACCCC
1 AAGGGTAAAATGACAGAAACACCCC
61808768 TGTAAGGTAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 70 0.77
28 5 0.05
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (27 bp):
AAGGGTAAAATGACAGAAACACCCCCA
Found at i:61808751 original size:54 final size:54
Alignment explanation
Indices: 61808625--61808767 Score: 170
Period size: 54 Copynumber: 2.7 Consensus size: 54
61808615 AAGATGACTA
* * *
61808625 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGATCG
1 AAATACCCTCGAAAGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCG
61808679 AAATACCCTC-AAAGGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGA-C-
1 AAATACCCTCGAAA-GGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCG
* *
61808731 ATAA-ACACCTCCGAAAGGT-AAATCACAGAAATACCCC
1 A-AATAC-CCT-CGAAAGGTAAAATGACCGAAATACCCC
61808768 TGTAAGGTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
52 3 0.04
53 24 0.30
54 49 0.62
55 3 0.04
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (54 bp):
AAATACCCTCGAAAGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCG
Found at i:61808803 original size:27 final size:27
Alignment explanation
Indices: 61808773--61808832 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
61808763 ACCCCTGTAA
**
61808773 GGTAAAACGACTTTAATGCCCCTAGAG
1 GGTAAAACGACCGTAATGCCCCTAGAG
* *
61808800 GGTAAAATGACCGTAATGCCCCTGGAG
1 GGTAAAACGACCGTAATGCCCCTAGAG
61808827 GGTAAA
1 GGTAAA
61808833 TGACTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
GGTAAAACGACCGTAATGCCCCTAGAG
Found at i:61808845 original size:26 final size:26
Alignment explanation
Indices: 61808786--61808861 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
61808776 AAAACGACTT
*
61808786 TAATGCCCCTAGAGGGTAAAATGACCG
1 TAATGCCCCTAGAGGGT-AAATGACCA
* *
61808813 TAATGCCCCTGGAGGGTAAATGACTA
1 TAATGCCCCTAGAGGGTAAATGACCA
** * *
61808839 TTTTGCCCCTCGAGGTTAAATGA
1 TAATGCCCCTAGAGGGTAAATGA
61808862 TTGATTTGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 26 0.62
27 16 0.38
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
TAATGCCCCTAGAGGGTAAATGACCA
Found at i:61808901 original size:24 final size:24
Alignment explanation
Indices: 61808856--61808924 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 24
61808846 CCTCGAGGTT
* **
61808856 AAATGATTGATTTGTCCATGATGA
1 AAATGACTGATTTGTCTGTGATGA
* **
61808880 AAATGACTGATTTGACTGTGATTT
1 AAATGACTGATTTGTCTGTGATGA
*
61808904 AAATGACTGTTTTGTCTGTGA
1 AAATGACTGATTTGTCTGTGA
61808925 ATTGTATGAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.41
Consensus pattern (24 bp):
AAATGACTGATTTGTCTGTGATGA
Found at i:61808933 original size:24 final size:24
Alignment explanation
Indices: 61808880--61808939 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
61808870 TCCATGATGA
*
61808880 AAATGACTGATTTGACTGTGATTT
1 AAATGACTGATTTGACTGTGAATT
* *
61808904 AAATGACTGTTTTGTCTGTGAATT
1 AAATGACTGATTTGACTGTGAATT
**
61808928 GTATGACTGATT
1 AAATGACTGATT
61808940 CTGAGCATGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (24 bp):
AAATGACTGATTTGACTGTGAATT
Found at i:61809166 original size:32 final size:33
Alignment explanation
Indices: 61809115--61809268 Score: 156
Period size: 32 Copynumber: 4.8 Consensus size: 33
61809105 GCGATGATGT
*
61809115 TGATGGCTTTGTGCTGATCATATTACCGTC-AC
1 TGATGGCTTTGTGCCGATCATATTACCGTCTAC
* * * *
61809147 TGATGGCTGTGTACCGATCATATCACTG-CTAC
1 TGATGGCTTTGTGCCGATCATATTACCGTCTAC
* *
61809179 TGATGGCTTTCTGCCTATCATATTACCGT-TAC
1 TGATGGCTTTGTGCCGATCATATTACCGTCTAC
* * * *
61809211 TGATGGATGTGTGCCGGTCATATCA-C-TACTAC
1 TGATGGCTTTGTGCCGATCATATTACCGT-CTAC
*
61809243 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCGATCATATTAC
61809269 TATATTTATG
Statistics
Matches: 95, Mismatches: 22, Indels: 9
0.75 0.17 0.07
Matches are distributed among these distances:
30 1 0.01
31 2 0.02
32 92 0.97
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (33 bp):
TGATGGCTTTGTGCCGATCATATTACCGTCTAC
Found at i:61809216 original size:64 final size:64
Alignment explanation
Indices: 61809115--61809268 Score: 229
Period size: 64 Copynumber: 2.4 Consensus size: 64
61809105 GCGATGATGT
* *
61809115 TGATGGCTTTGTG-CTGATCATATTACCGTCACTGATGGCTGTGTACCGATCATATCACTGCTAC
1 TGATGGCTTTGTGCCT-ATCATATTACCGTCACTGATGGATGTGTACCGATCATATCACTACTAC
* * * *
61809179 TGATGGCTTTCTGCCTATCATATTACCGTTACTGATGGATGTGTGCCGGTCATATCACTACTAC
1 TGATGGCTTTGTGCCTATCATATTACCGTCACTGATGGATGTGTACCGATCATATCACTACTAC
*
61809243 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCCTATCATATTAC
61809269 TATATTTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 79 0.98
65 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (64 bp):
TGATGGCTTTGTGCCTATCATATTACCGTCACTGATGGATGTGTACCGATCATATCACTACTAC
Found at i:61813606 original size:40 final size:40
Alignment explanation
Indices: 61813558--61813985 Score: 838
Period size: 40 Copynumber: 10.7 Consensus size: 40
61813548 GCAAACACAT
* *
61813558 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813598 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813638 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813678 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813718 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813758 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813798 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813838 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813878 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813918 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
61813958 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
61813986 TCCAATGCTC
Statistics
Matches: 386, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 386 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:61836033 original size:15 final size:16
Alignment explanation
Indices: 61836007--61836036 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61835997 TAGAAAATGC
61836007 TTCTTCTTTTTTTCTT
1 TTCTTCTTTTTTTCTT
61836023 TTCTT-TTTTTTTCT
1 TTCTTCTTTTTTTCT
61836037 AAAGTAGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTCTTCTTTTTTTCTT
Found at i:61838536 original size:30 final size:30
Alignment explanation
Indices: 61838500--61838590 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
61838490 GCTCGAACGG
* *
61838500 GTAACCTTGATATAATTTCATCTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
*
61838530 GTAACCTTGATATAATGTCAGCTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
* * *
61838560 GCAACCCTAATATAATGTCAACTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
61838590 G
1 G
61838591 CAACTTAGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (30 bp):
GTAACCTTGATATAATGTCAACTTGTGTGA
Found at i:61838723 original size:7 final size:7
Alignment explanation
Indices: 61838711--61838735 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
61838701 GCTTATTACT
61838711 TGATATG
1 TGATATG
61838718 TGATATG
1 TGATATG
61838725 TGATATG
1 TGATATG
61838732 TGAT
1 TGAT
61838736 TACATTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (7 bp):
TGATATG
Found at i:61841521 original size:22 final size:22
Alignment explanation
Indices: 61841467--61841521 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
61841457 AATTTAAAAC
* * *
61841467 AATATCTTATATATGAAATAAT
1 AATATATTATAAATAAAATAAT
* *
61841489 AATGTACTATAAATAAAATAAT
1 AATATATTATAAATAAAATAAT
*
61841511 AATATTTTATA
1 AATATATTATA
61841522 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
AATATATTATAAATAAAATAAT
Found at i:61843000 original size:24 final size:22
Alignment explanation
Indices: 61842973--61843026 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 22
61842963 ATTAAAAATA
61842973 TTAAAAACATTT-TTTATAAACTTT
1 TTAAAAACATTTCTTT-T-AA-TTT
* *
61842997 TTAATAATATTTCTTTTAATTT
1 TTAAAAACATTTCTTTTAATTT
61843019 TTAAAAAC
1 TTAAAAAC
61843027 TAATTAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 9 0.36
23 2 0.08
24 11 0.44
25 3 0.12
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAAAAACATTTCTTTTAATTT
Found at i:61846714 original size:14 final size:15
Alignment explanation
Indices: 61846697--61846730 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
61846687 AAATATTATT
61846697 AAATTTTAAT-TAAA
1 AAATTTTAATATAAA
*
61846711 AAATTTTAATATTAA
1 AAATTTTAATATAAA
61846726 AAATT
1 AAATT
61846731 AGAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTTAATATAAA
Found at i:61846765 original size:10 final size:9
Alignment explanation
Indices: 61846723--61846802 Score: 54
Period size: 10 Copynumber: 8.6 Consensus size: 9
61846713 ATTTTAATAT
61846723 TAAAAATTA
1 TAAAAATTA
* *
61846732 GAAAAAAATA
1 -TAAAAATTA
**
61846742 TAAAAATCG
1 TAAAAATTA
61846751 T-AAAATATA
1 TAAAAAT-TA
*
61846760 TAAAAATTT
1 TAAAAATTA
*
61846769 TAAAATTTTA
1 TAAAA-ATTA
*
61846779 TAAAAATCA
1 TAAAAATTA
61846788 TAAAAAATTA
1 T-AAAAATTA
61846798 TAAAA
1 TAAAA
61846803 CATACAGAAT
Statistics
Matches: 52, Mismatches: 14, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
8 5 0.10
9 20 0.38
10 27 0.52
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:61846784 original size:46 final size:47
Alignment explanation
Indices: 61846734--61846828 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 47
61846724 AAAAATTAGA
* * *
61846734 AAAAAAT-AT-AAAAATCGTAAAATATATAAAAATTTTAAAATTTTAT
1 AAAAAATCATAAAAAATCATAAAACATA-AAAAATTATAAAATTTTAT
* * *
61846780 -AAAAATCATAAAAAATTATAAAACATACAGAATTATAAAATTTTAT
1 AAAAAATCATAAAAAATCATAAAACATAAAAAATTATAAAATTTTAT
61846826 AAA
1 AAA
61846829 GTCGTAAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
45 6 0.15
46 18 0.45
47 16 0.40
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (47 bp):
AAAAAATCATAAAAAATCATAAAACATAAAAAATTATAAAATTTTAT
Found at i:61846791 original size:19 final size:18
Alignment explanation
Indices: 61846740--61846802 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
61846730 TAGAAAAAAA
* *
61846740 TATAAAAATCGTAAAATA
1 TATAAAAATCATAAAATT
**
61846758 TATAAAAATTTTAAAATTT
1 TATAAAAATCATAAAA-TT
*
61846777 TATAAAAATCATAAAAAAT
1 TATAAAAATCAT-AAAATT
61846796 TATAAAA
1 TATAAAA
61846803 CATACAGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 14 0.38
19 19 0.51
20 4 0.11
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (18 bp):
TATAAAAATCATAAAATT
Found at i:61847095 original size:39 final size:38
Alignment explanation
Indices: 61847025--61847105 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
61847015 GGTCGTTAAA
** *
61847025 TTTTGTATGATTTTTATAAAATTTTACAATTTTTTTTAT
1 TTTTGTATGATTTTTATAAAAAATTACAA-TTTTTATAT
*
61847064 TTTTTTATGATTTTTATAAAAAATT-CTAATTTTTATAT
1 TTTTGTATGATTTTTATAAAAAATTAC-AATTTTTATAT
61847102 TTTT
1 TTTT
61847106 ATTAAAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 13 0.35
39 24 0.65
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (38 bp):
TTTTGTATGATTTTTATAAAAAATTACAATTTTTATAT
Found at i:61847121 original size:28 final size:28
Alignment explanation
Indices: 61847065--61847125 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
61847055 TTTTTTTATT
*
61847065 TTTTTATGATTTTTATAAAAAATTCTAA
1 TTTTTATGATTTTTATAAAAAATTATAA
* *
61847093 TTTTTAT-ATTTTTATTAAAATTTAATAA
1 TTTTTATGATTTTTATAAAAAATT-ATAA
61847121 TTTTT
1 TTTTT
61847126 TCTTTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.48
28 15 0.52
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTTATGATTTTTATAAAAAATTATAA
Found at i:61856236 original size:74 final size:74
Alignment explanation
Indices: 61856115--61856268 Score: 263
Period size: 74 Copynumber: 2.1 Consensus size: 74
61856105 AATCAGATAA
* *
61856115 TGAAAGATGAACTTGATATGTTATGTCGTAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
61856180 ATAGCTTAG
66 ATAGCTTAG
* *
61856189 TGAAAGTTGAACTTGATATGCTATGTCATAAGAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
*
61856254 GTAGCTTAG
66 ATAGCTTAG
61856263 TGAAAG
1 TGAAAG
61856269 GAAATTAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (74 bp):
TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
ATAGCTTAG
Found at i:61857265 original size:74 final size:74
Alignment explanation
Indices: 61857144--61857297 Score: 263
Period size: 74 Copynumber: 2.1 Consensus size: 74
61857134 AATCAGATAA
* *
61857144 TGAAAGATGAACTTGATATGTTATGTCGTAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
61857209 ATAGCTTAG
66 ATAGCTTAG
* *
61857218 TGAAAGTTGAACTTGATATGCTATGTCATAAGAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
*
61857283 GTAGCTTAG
66 ATAGCTTAG
61857292 TGAAAG
1 TGAAAG
61857298 GAAATTAAAT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (74 bp):
TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
ATAGCTTAG
Found at i:61859588 original size:45 final size:45
Alignment explanation
Indices: 61859461--61859591 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
61859451 CTATATGGCT
* * * * * *
61859461 AAAATTAGTCAGACCATAGCTAAAAGATGTTATGGCACCATGTTA
1 AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCATGATA
* * * *
61859506 AAAATGATTAAAACAATAGCTGAAATATATTATGGCATCATGATA
1 AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCATGATA
* * *
61859551 GAAATGAGTAAGACCATAGCTGAAAGACACTATGGCATCAT
1 AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCAT
61859592 ATGAAAGCAC
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.25
Consensus pattern (45 bp):
AAAATGAGTAAGACCATAGCTGAAAGATATTATGGCATCATGATA
Found at i:61860910 original size:17 final size:17
Alignment explanation
Indices: 61860888--61860922 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
61860878 CCTTATATAC
61860888 GTGTTATAGTAAGTTTG
1 GTGTTATAGTAAGTTTG
61860905 GTGTTATAGTAAGTTTG
1 GTGTTATAGTAAGTTTG
61860922 G
1 G
61860923 CATAGTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (17 bp):
GTGTTATAGTAAGTTTG
Found at i:61872817 original size:23 final size:23
Alignment explanation
Indices: 61872769--61872820 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
61872759 CGCATACAGT
* * *
61872769 GTTCGCATGCTAAACACATGAGG
1 GTTCGCATACTAAACACATCAAG
61872792 GTTCGCATACTAAATCACA-CAAG
1 GTTCGCATACTAAA-CACATCAAG
61872815 GTTCGC
1 GTTCGC
61872821 TTAATAGTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
GTTCGCATACTAAACACATCAAG
Found at i:61872842 original size:23 final size:23
Alignment explanation
Indices: 61872816--61872879 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
61872806 TCACACAAGG
*
61872816 TTCGCTTAATAGTTCATACAGGA
1 TTCGCATAATAGTTCATACAGGA
* * *
61872839 TTCGCATAATAGTTCACATAGGG
1 TTCGCATAATAGTTCATACAGGA
*
61872862 TTCACATAATAGTTCATA
1 TTCGCATAATAGTTCATA
61872880 TATGTTCACA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (23 bp):
TTCGCATAATAGTTCATACAGGA
Found at i:61872876 original size:12 final size:12
Alignment explanation
Indices: 61872843--61872891 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
61872833 ACAGGATTCG
61872843 CATAATAGTTCA
1 CATAATAGTTCA
**
61872855 CAT-AGGGTTCA
1 CATAATAGTTCA
61872866 CATAATAGTTCA
1 CATAATAGTTCA
*
61872878 TAT-AT-GTTCA
1 CATAATAGTTCA
61872888 CATA
1 CATA
61872892 CTAATTCATA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
10 7 0.24
11 11 0.38
12 11 0.38
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (12 bp):
CATAATAGTTCA
Found at i:61872963 original size:36 final size:36
Alignment explanation
Indices: 61872916--61872985 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
61872906 ATTCACACAT
* *
61872916 TAAATCACATACTAAATTTCATGAAGGTTCGCATAC
1 TAAATCACATACTAAAGTACATGAAGGTTCGCATAC
* * *
61872952 TAAATCTCATACTAACGTACATGAGGGTTCGCAT
1 TAAATCACATACTAAAGTACATGAAGGTTCGCAT
61872986 GCTCATATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (36 bp):
TAAATCACATACTAAAGTACATGAAGGTTCGCATAC
Found at i:61873162 original size:24 final size:24
Alignment explanation
Indices: 61873133--61873189 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
61873123 ATTTATTAAG
61873133 GGGTTCGCACAACAATT-CACATAA
1 GGGTTCGCACAACAATTAC-CATAA
**
61873157 GGGTTCGCAGTACAATTACCATAA
1 GGGTTCGCACAACAATTACCATAA
*
61873181 GAGTTCGCA
1 GGGTTCGCA
61873190 TAATAGCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 28 0.97
25 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (24 bp):
GGGTTCGCACAACAATTACCATAA
Found at i:61876571 original size:10 final size:11
Alignment explanation
Indices: 61876540--61876570 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
61876530 TTAAAAAAGA
61876540 ATTTTAAAAAT
1 ATTTTAAAAAT
61876551 ATTTTAAAAAT
1 ATTTTAAAAAT
61876562 ATTTTAAAA
1 ATTTTAAAA
61876571 TTAAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:61876604 original size:39 final size:40
Alignment explanation
Indices: 61876526--61876629 Score: 140
Period size: 39 Copynumber: 2.6 Consensus size: 40
61876516 AATTAAAACA
* *
61876526 AAAATTAAAAAAGAATTTTAAAA-ATATTTTAAAAATATTTT
1 AAAATTAAAAAATAA--TAAAAATATATTTTAAAAATATTTT
* *
61876567 AAAATTAAAAAATTA-AAAAATATATTTTAAAAGTATTTT
1 AAAATTAAAAAATAATAAAAATATATTTTAAAAATATTTT
61876606 AAAATTAAAAAATAATAAAAATAT
1 AAAATTAAAAAATAATAAAAATAT
61876630 TTATTATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
38 4 0.07
39 31 0.55
40 8 0.14
41 13 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (40 bp):
AAAATTAAAAAATAATAAAAATATATTTTAAAAATATTTT
Found at i:61877672 original size:32 final size:31
Alignment explanation
Indices: 61877614--61877673 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
61877604 TATATCATAA
*
61877614 TTTTTACTATATTAATAATTATTATATAATT
1 TTTTTACTATATTAATAAATATTATATAATT
*
61877645 TTTTTACTGATATT-ATAAATGTGTATATA
1 TTTTTACT-ATATTAATAAATAT-TATATA
61877674 TGTAGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (31 bp):
TTTTTACTATATTAATAAATATTATATAATT
Found at i:61887638 original size:16 final size:16
Alignment explanation
Indices: 61887613--61887655 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
61887603 AATCATGCAC
61887613 TAGA-AATTTTAAG-A
1 TAGAGAATTTTAAGTA
61887627 GTAGAGAATTTTAAGTTA
1 -TAGAGAATTTTAAG-TA
61887645 TAGAGAATTTT
1 TAGAGAATTTT
61887656 GGTTACGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 11 0.44
18 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.40
Consensus pattern (16 bp):
TAGAGAATTTTAAGTA
Found at i:61888197 original size:15 final size:15
Alignment explanation
Indices: 61888177--61888206 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61888167 AGGAGACAAC
*
61888177 CTAAAAAAATAATTT
1 CTAAAAAAAAAATTT
61888192 CTAAAAAAAAAATTT
1 CTAAAAAAAAAATTT
61888207 ATCATGCTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
CTAAAAAAAAAATTT
Found at i:61888617 original size:21 final size:20
Alignment explanation
Indices: 61888592--61888639 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 20
61888582 AGACAAAAAT
61888592 AACTAAGATAAAAAGATAACA
1 AACTAAGATAAAAAGA-AACA
61888613 AACT-AG--AAAAAGAAACA
1 AACTAAGATAAAAAGAAACA
61888630 AACTAA-ATAA
1 AACTAAGATAA
61888640 TAAAAAGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 2 0.08
20 2 0.08
21 4 0.17
ACGTcount: A:0.69, C:0.10, G:0.08, T:0.12
Consensus pattern (20 bp):
AACTAAGATAAAAAGAAACA
Found at i:61894734 original size:135 final size:134
Alignment explanation
Indices: 61894491--61894760 Score: 330
Period size: 135 Copynumber: 2.0 Consensus size: 134
61894481 TTCAGTAGGA
* * * *
61894491 TTATTAATATAGTGGAAGAGCGGTTTGTCTCCTCCATAGATATTCGGTGCACCCTTTTCAGCGTC
1 TTATTAATATAGTGGAAGAGCGGTTTGTCTCATCCATAGAAATTCGATGCACCCTTTTCAGCCTC
* * * * * * * *
61894556 TATTCAGTTGATTTTATCATGTAATTGTTGGTATATGTTATCTTTCTGGACAACCTTCACCATAT
66 TATTCAGTTGATTGTATCATATAATTGATGATATATGTCATCTTCCTAGACAACCTTCACCATAG
61894621 ATGG
131 ATGG
* *
61894625 TNTATTAATATAGTGGAAGATCGGTTTGTCTCATCCATAGAAATTCGATGCA-CCTTTATTAGCC
1 T-TATTAATATAGTGGAAGAGCGGTTTGTCTCATCCATAGAAATTCGATGCACCCTTT-TCAGCC
* * *
61894689 TCTACTT-GGTTGATTGTGTCCA-ATAATTGATGATATTTGTCATCTTCCTAGACAACCTTCACC
64 TCTA-TTCAGTTGATTGTAT-CATATAATTGATGATATATGTCATCTTCCTAGACAACCTTCACC
61894752 ATAGATGG
127 ATAGATGG
61894760 T
1 T
61894761 CTTTGGTCAT
Statistics
Matches: 115, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
134 6 0.05
135 105 0.91
136 4 0.03
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (134 bp):
TTATTAATATAGTGGAAGAGCGGTTTGTCTCATCCATAGAAATTCGATGCACCCTTTTCAGCCTC
TATTCAGTTGATTGTATCATATAATTGATGATATATGTCATCTTCCTAGACAACCTTCACCATAG
ATGG
Found at i:61896138 original size:17 final size:17
Alignment explanation
Indices: 61896107--61896139 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61896097 ATATCTTTAA
61896107 TTTTTAAAAGTGGATTG
1 TTTTTAAAAGTGGATTG
61896124 TTTTTCAAAAG-GGATT
1 TTTTT-AAAAGTGGATT
61896140 AAATTAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.45
Consensus pattern (17 bp):
TTTTTAAAAGTGGATTG
Found at i:61898918 original size:26 final size:26
Alignment explanation
Indices: 61898865--61898923 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
61898855 TATTTTCTTG
* *
61898865 AAATTTTAACATGGGCAAAATCATCA
1 AAATTTTAACAAGGGCAAAATCACCA
*
61898891 AAATTTTAACAAGGGTAAAAT-AGCCA
1 AAATTTTAACAAGGGCAAAATCA-CCA
61898917 AAATTTT
1 AAATTTT
61898924 GCTACAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (26 bp):
AAATTTTAACAAGGGCAAAATCACCA
Found at i:61917648 original size:13 final size:13
Alignment explanation
Indices: 61917630--61917662 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
61917620 CAATATTAGA
61917630 CACCATAATTCAT
1 CACCATAATTCAT
61917643 CACCATAATTCAT
1 CACCATAATTCAT
61917656 CACCATA
1 CACCATA
61917663 TAGCCCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.27
Consensus pattern (13 bp):
CACCATAATTCAT
Found at i:61919609 original size:44 final size:43
Alignment explanation
Indices: 61919545--61919656 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 43
61919535 GAAGATGGCG
61919545 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAG-ATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-AGAATTAAAG-CAAT
* * * **
61919589 AATCCTATCTCCCTGAAGTTGCGGTGGAGCGAATTAAAGTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGAGAATTAAAGCAAT
*
61919632 AGATCTTATCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCCCTGAAGTTGCAG
61919657 AGAACAGATC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 4 0.07
44 54 0.93
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGAGAATTAAAGCAAT
Found at i:61919784 original size:45 final size:45
Alignment explanation
Indices: 61919463--61920097 Score: 358
Period size: 45 Copynumber: 14.5 Consensus size: 45
61919453 CAAATCCTGA
* ** * * *
61919463 CTCCCTGAAGTTACAGTGGAGTGGA-TTAGAGTAAGTAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCA-AGAAAGCAAGTCTTAT
* **
61919508 C-CTCCTGAAGTTGCAGTGG-GACAGACTGAAGATGGCGAA-TCTTAT
1 CTC-CCTGAAGTTGCAGTGGAG-CAGACTCAAGAAAGC-AAGTCTTAT
* * * * * *
61919553 CTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAA-TAA-TCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCAAGTCTTAT
* * * **
61919597 CTCCCTGAAGTTGCGGTGGAGC-GAATTAA-AGTG-ATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* * * * * * *
61919641 CTCTCTGAAGTTGCAG-AGAACAGA-TC--G-CATCTATTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * *
61919681 CTCCTTGAAGTTGCAGTGAAGCAGACT-GAGTAAGC-AGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG-TCTTAT
* *
61919725 C-CCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
*
61919769 CTCCCTGAGGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* *
61919814 TTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * *
61919859 C-CCCTTGAAATTGCAGTTGG-GCAGACTGAATAAA-CAAATCCTAT
1 CTCCC-TGAAGTTGCAG-TGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * ** * * *
61919903 CTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAATG-ATGGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* * ** * * * *
61919947 CTCTCTGAAGTTGTAGTAAAGCAGA-TC---ATATCAAATCGTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
*
61919988 CTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * * *
61920033 C-CCCTTGAAATTGCAATGGGGCAGACTGAATAAA--AATATCTTAT
1 CTCCC-TGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA-GTCTTAT
*
61920077 CTCCCTAAAGTTGCAGTGGAG
1 CTCCCTGAAGTTGCAGTGGAG
61920098 TAGATTGAGA
Statistics
Matches: 451, Mismatches: 100, Indels: 79
0.72 0.16 0.13
Matches are distributed among these distances:
40 20 0.04
41 32 0.07
42 9 0.02
43 39 0.09
44 143 0.32
45 199 0.44
46 9 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
Found at i:61919921 original size:134 final size:133
Alignment explanation
Indices: 61919675--61920094 Score: 340
Period size: 133 Copynumber: 3.2 Consensus size: 133
61919665 TCGCATCTAT
* * * * **
61919675 TCTTATCTCCTTGAAGTTGCAGTGAAGCAGACTGAGTAAGCAGATCTTATCCCCTGAGGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAAAGCAAATCTTATCCCCTGAAATTGCAG
* * * *
61919740 TGGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTCAAGAAAGC
66 TGGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGC
61919805 AAG
131 AAG
* *
61919808 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTATCCCCTTGAAATTGC
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACT-AAGAAAGCAAATCTTATCCCC-TGAAATTGC
* * * * ** * *
61919873 AGTTGGGCAGACTGAATAAA-CAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAAT
64 AGTGGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAA
*
61919935 G-ATGG
129 GCA-AG
* * * * * * * * *
61919940 ATCTTATCTCTCTGAAGTTGTAGTAAAGCAGA-T--CATATCAAATCGTATCTCCCTGAAGTTAC
1 -TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAAAGCAAATCTTATC-CCCTGAAATTGC
* * * * * * *
61920002 AGTGGAGCAGACTCAAGAAAGCAAGTCTTATC-CCCTTGAAA-TTGCAATGGGGCAGACTGAATA
64 AGTGGGGCAGACTCAAGAAAGCAAATCCTATCTCCC-T-AAAGTTGCAGTGGAGCAGACTCAAGA
*
61920065 AA--AATA
127 AAGCAA-G
*
61920071 TCTTATCTCCCTAAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
61920095 GAGTAGATTG
Statistics
Matches: 224, Mismatches: 52, Indels: 25
0.74 0.17 0.08
Matches are distributed among these distances:
129 38 0.17
130 43 0.19
131 6 0.03
132 10 0.04
133 57 0.25
134 46 0.21
135 24 0.11
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAAAGCAAATCTTATCCCCTGAAATTGCAG
TGGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGC
AAG
Found at i:61920132 original size:174 final size:174
Alignment explanation
Indices: 61919815--61920132 Score: 480
Period size: 174 Copynumber: 1.8 Consensus size: 174
61919805 AAGTCTTATT
* * *
61919815 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTATCCCCTTGAAATTGCAGTTGGG
1 TCCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCAAATCTTATCCCCTTGAAATTGCAATGGGG
* * * *** *
61919880 CAGACTGAATAAACAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATGATGGATCTT
66 CAGACTGAATAAACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAGAATAACCAATCTA
61919945 ATCTCTCTGAAGTTGTAGTAAAGCAGATCATATCAAATCGTATC
131 ATCTCTCTGAAGTTGTAGTAAAGCAGATCATATCAAATCGTATC
*
61919989 TCCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCTTGAAATTGCAATGGGG
1 TCCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCAAATCTTATCCCCTTGAAATTGCAATGGGG
*
61920054 CAGACTGAATAAA-AATATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTGAGAA-AACCAATC
66 CAGACTGAATAAACAA-ATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATT-AGAATAACCAATC
61920117 TAATCTC-CTTGAAGTT
129 TAATCTCTC-TGAAGTT
61920133 ACAATGGAGT
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
173 3 0.02
174 122 0.95
175 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (174 bp):
TCCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCAAATCTTATCCCCTTGAAATTGCAATGGGG
CAGACTGAATAAACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAGAATAACCAATCTA
ATCTCTCTGAAGTTGTAGTAAAGCAGATCATATCAAATCGTATC
Found at i:61920147 original size:88 final size:89
Alignment explanation
Indices: 61919700--61920147 Score: 195
Period size: 89 Copynumber: 5.1 Consensus size: 89
61919690 GTTGCAGTGA
* ** * * * * * *
61919700 AGCAGACTGAGTAAGCAGATCTTATC-CCCTGAGGTTGCAGTGGGGCAGACTCAAGAAAGCAAGT
1 AGCAGACTGAATAAAAATATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAGAAACCAAGT
* ** * *
61919764 CTTATCTCCC-TGAGGTTGCAGTGG
66 CTAATC-CCCTTGAAATTACAATGG
* * * * * * *
61919788 AGCAGACTCAAGAAAGCAA-GTCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA
1 AGCAGACTGAATAAA--AATATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAGAAACCAA
* * * *
61919852 ATCTTATCCCCTTGAAATTGCAGTTGG
64 GTCTAATCCCCTTGAAATTACA-ATGG
* ** ** * ** *
61919879 -GCAGACTGAATAAACAA-ATCCTATCTCCCTAAAGTTGTAGTGGAGTGGA-T-TAG-AATGATG
1 AGCAGACTGAATAAA-AATATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAGAAACCA-A
* * * ** * **
61919939 GATCTTAT-CTCTCTGAAGTTGTAGTAA
64 G-TCTAATCCCCT-TGAAATTACAATGG
* ** * * *
61919966 AGCAGA-T-CATATCAA-ATCGTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAAGCAAGT
1 AGCAGACTGAATAAAAATATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAGAAACCAAGT
* *
61920028 CTTATCCCCTTGAAATTGCAATGG
66 CTAATCCCCTTGAAATTACAATGG
* * * **
61920052 GGCAGACTGAATAAAAATATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-TTGAGAAAACCAA-
1 AGCAGACTGAATAAAAATATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAG-AAACCAAG
* *
61920115 TCTAATCTCCTTGAAGTTACAATGG
65 TCTAATCCCCTTGAAATTACAATGG
*
61920140 AGTAGACT
1 AGCAGACT
61920148 AGAGCATTAC
Statistics
Matches: 274, Mismatches: 69, Indels: 34
0.73 0.18 0.09
Matches are distributed among these distances:
85 28 0.10
86 27 0.10
87 14 0.05
88 69 0.25
89 71 0.26
90 62 0.23
91 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
AGCAGACTGAATAAAAATATCTTATCTCCCTAAAGTTACAGTGGAGCAGACTCAAGAAACCAAGT
CTAATCCCCTTGAAATTACAATGG
Found at i:61921626 original size:26 final size:24
Alignment explanation
Indices: 61921597--61921665 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 24
61921587 TTATTATTTC
61921597 TATTTTTAACTTATATATGTAATCAT
1 TATTTTTAACTTATATATGTAAT--T
* * *
61921623 TA-TTTTCA-TAATATATAT-ATT
1 TATTTTTAACTTATATATGTAATT
61921644 TATTTTATAACTTATATATGTA
1 TATTTT-TAACTTATATATGTA
61921666 CATATATATA
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
21 3 0.09
22 3 0.09
23 4 0.12
24 16 0.48
25 5 0.15
26 2 0.06
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (24 bp):
TATTTTTAACTTATATATGTAATT
Found at i:61921659 original size:20 final size:21
Alignment explanation
Indices: 61921622--61921662 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
61921612 TATGTAATCA
61921622 TTATTTTCATAATATATATAT
1 TTATTTTCATAATATATATAT
61921643 TTATTTT-ATAACT-TATATAT
1 TTATTTTCATAA-TATATATAT
61921663 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATATATATAT
Found at i:61926145 original size:92 final size:92
Alignment explanation
Indices: 61925995--61926345 Score: 333
Period size: 92 Copynumber: 3.8 Consensus size: 92
61925985 AGTCACTAGA
* * * * * *
61925995 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCA
1 CTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T---CATAGCAAACCTTATCTCCCTGAAGTTGCA
61926060 GTGGAACAGATTAAAGCTATAAATTACAGAT
62 GTGGAACAGATTAAAGCTATAAATTACAGAT
* * * *
61926091 CTTATCTCTCTAAAGTTGCAGTAAAATAGATTATAGCAAACCTTATCTCCCTGAAGTTGCAGTGG
1 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGG
* *
61926156 AGCAGGTTCAAAG-T-T--A-TA-AG-T
66 AACAGATT-AAAGCTATAAATTACAGAT
* * * ** * *
61926177 CTTATCTC-CTTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGC
1 CTTATCTCTC-TGAAGTTGCAGTAGAGTAGA-T---CATAGCAAACCTTATCTCCCTGAAGTTGC
**
61926241 AGTAAAACAGATTAAAGCTATAAATTACAGAT
61 AGTGGAACAGATTAAAGCTATAAATTACAGAT
* *
61926273 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAACCTTATCTCCTTGAAGTTGCAGT-G
1 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGG
61926337 AAGCAGATT
66 AA-CAGATT
61926346 GAAGATACCA
Statistics
Matches: 205, Mismatches: 35, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
85 1 0.00
86 25 0.12
87 3 0.01
88 2 0.01
89 5 0.02
90 33 0.16
91 4 0.02
92 69 0.34
93 5 0.02
94 2 0.01
95 4 0.02
96 51 0.25
97 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (92 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATAGCAAACCTTATCTCCCTGAAGTTGCAGTGG
AACAGATTAAAGCTATAAATTACAGAT
Found at i:61926257 original size:182 final size:182
Alignment explanation
Indices: 61925951--61926393 Score: 649
Period size: 182 Copynumber: 2.4 Consensus size: 182
61925941 CATGGTGAAT
* * * *
61925951 CTTATCTCCTTAAAGTTGCAATGGAGCAGATTGAAGTCACT-AGACTTATCTCCCTGAAGTTGCA
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAAGTCTTATCTCCCTGAAGTTGCA
* * **
61926015 GTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTAT
66 GTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTGAAATTGCAGTAAAACAGATTAAAGCTAT
* *
61926080 AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAATAGATTATAGCAAAC
131 AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAACAGATCATAGCAAAC
* * * *
61926132 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAAGTTA-TAAGTCTTATCTCCTTGAAGTTGC
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-GAAGTTACTAAGTCTTATCTCCCTGAAGTTGC
* *
61926196 AGTGGAGTAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCAGTAAAACAGATTAAAGCTA
65 AGTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTGAAATTGCAGTAAAACAGATTAAAGCTA
* * *
61926261 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
130 TAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAACAGATCATAGCAAAC
* * *
61926314 CTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAA-TCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAAGTCTTATCTCCCTGAAGTTGCA
*
61926378 GTGGAGCAGATTGAAG
66 GTGGAGCAGACTGAAG
61926394 CTATTAATCC
Statistics
Matches: 231, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
181 68 0.29
182 163 0.71
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (182 bp):
CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTGAAATTGCAGTAAAACAGATTAAAGCTAT
AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAACAGATCATAGCAAAC
Found at i:61926330 original size:41 final size:41
Alignment explanation
Indices: 61926273--61926433 Score: 157
Period size: 44 Copynumber: 3.8 Consensus size: 41
61926263 AATTACAGAT
* *
61926273 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGA-AGCAAAC
* * *
61926314 CTTATCTCCTTGAAGTTGCAGT-GAAGCAGATTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTAG-AGCAGATTGAAG---CAAAC
*
61926358 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAATC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGC-A--AA-C
*
61926403 C-TATCTCCCTGAAGTTGTAGTAGAGCAGATT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATT
61926434 AAAACGATAA
Statistics
Matches: 100, Mismatches: 10, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
40 1 0.01
41 29 0.29
42 2 0.02
44 66 0.66
45 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (41 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCAAAC
Found at i:61926376 original size:44 final size:44
Alignment explanation
Indices: 61926314--61926743 Score: 193
Period size: 44 Copynumber: 9.5 Consensus size: 44
61926304 CATAGCAAAC
*
61926314 CTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
* * **
61926358 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
* * *
61926402 CCTATCTCCCTGAAGTTGTAGT-AGAGCAGATTAAAACGATA--AAT
1 CTTATCTCCCTGAAGTTGCAGTGA-AGCAGATT-GAA-GATACCAAT
** * * * * * * *
61926446 CCAATAC-CTCT-AAGGTTGCAGT-AGGTCGGATTAAATCTATATAGCAAAC
1 CTTAT-CTCCCTGAA-GTTGCAGTGAAG-CAGATT-GA---AGATA-CCAAT
* **
61926495 CTTATCTCCCTGAAGTTGCAGTGGAA-CAGACTGAAGATAGTGAAT
1 CTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAGATA-CCAAT
* * * *
61926540 CTTATTTCCCTGAAGTTGTAGTGGAA-CAGATTAAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAG--AT--A--CCA-AT
* * * * * *
61926591 CTTATCTCTCTGAAGTTGCAAT-AGAGCAGA-T-CATAT-CTAAC
1 CTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGATACCAAT
* * * * *
61926632 CTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAA-T
* * *
61926676 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATA-CCAAT
* *
61926721 CTTATTTCCCTAAAGTTGCAGTG
1 CTTATCTCCCTGAAGTTGCAGTG
61926744 GAATAGATTA
Statistics
Matches: 292, Mismatches: 63, Indels: 61
0.70 0.15 0.15
Matches are distributed among these distances:
41 24 0.08
42 2 0.01
43 7 0.02
44 127 0.43
45 64 0.22
46 8 0.03
47 5 0.02
48 2 0.01
49 23 0.08
50 5 0.02
51 25 0.09
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
Found at i:61926655 original size:92 final size:92
Alignment explanation
Indices: 61926540--61926837 Score: 306
Period size: 92 Copynumber: 3.3 Consensus size: 92
61926530 GATAGTGAAT
* *
61926540 CTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
* *
61926605 GTTGCAATAGAGCAGATCATATCTAAC
66 GTTGCAGTAGAGCAGATCATATCAAAC
* * * * * * *
61926632 CTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAG-T-T--A-CA-AG-TCTTATCTCCCTGAA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
* * * * *
61926690 GTTGCAGTGGAGCAGACTGAAGATAGCGAAT
66 GTTGCAGTAGAGCAGA-T---CATATCAAAC
* * * *
61926721 CTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAAGCTATAAATTACAAATCTTAT-TCCTCTGA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCT-CTCTGA
61926785 AGTTGCAGTAGAGCAGATCATATCAAAC
65 AGTTGCAGTAGAGCAGATCATATCAAAC
*
61926813 CTTATCTCTCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
61926838 GCAGTTGTAG
Statistics
Matches: 162, Mismatches: 32, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
85 28 0.17
86 3 0.02
87 1 0.01
88 1 0.01
89 34 0.21
90 2 0.01
91 2 0.01
92 59 0.36
93 1 0.01
94 1 0.01
95 3 0.02
96 27 0.17
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (92 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAA
GTTGCAGTAGAGCAGATCATATCAAAC
Found at i:61926682 original size:181 final size:181
Alignment explanation
Indices: 61926495--61926841 Score: 581
Period size: 181 Copynumber: 1.9 Consensus size: 181
61926485 TATAGCAAAC
* * *
61926495 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
*
61926560 GTGGAACAGATTAAAGCTATAAATTACAGATCTTA-TCTCTCTGAAGTTGCAATAGAGCAGATCA
66 GTGGAACAGATTAAAGCTATAAATTACAAATCTTATTC-CTCTGAAGTTGCAATAGAGCAGATCA
* *
61926624 TATCTAACCTTATCTC-CTTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGT
130 TATCAAACCTTATCTCTC-TGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
*
61926676 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
* *
61926741 GTGGAATAGATTAAAGCTATAAATTACAAATCTTATTCCTCTGAAGTTGCAGTAGAGCAGATCAT
66 GTGGAACAGATTAAAGCTATAAATTACAAATCTTATTCCTCTGAAGTTGCAATAGAGCAGATCAT
61926806 ATCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAG
131 ATCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAG
61926842 TTGTAGTAGA
Statistics
Matches: 155, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
181 152 0.98
182 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (181 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
GTGGAACAGATTAAAGCTATAAATTACAAATCTTATTCCTCTGAAGTTGCAATAGAGCAGATCAT
ATCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
Found at i:61926789 original size:96 final size:96
Alignment explanation
Indices: 61926309--61926801 Score: 344
Period size: 96 Copynumber: 5.4 Consensus size: 96
61926299 CAGATCATAG
* * * * *
61926309 CAAACCTTATCTCCTTGAAGTTGCAGT-GAAGCAGATTGAAGATA-CCAATCTTATCTCCCTGAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTAG-AGCAGACTGAAGATAGCGAATCTTATTTCCCTGAA
* * *
61926372 GTTGCAGTGGAGCAGATTGAAGC--T--ATT-
65 GTTGTAGTGGAACAGATTAAAGCTATAAATTA
* * * * * * *
61926399 --AATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAAACGATA---AATC-CAATACCTCT-
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACT-GAA-GATAGCGAATCTTATTTCC-CTG
* * * *
61926457 AAGGTTGCAGTAGG-TCGGATTAAATCTAT--A-TA
63 AA-GTTGTAGT-GGAACAGATTAAAGCTATAAATTA
* * * *
61926489 GCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGTGAATCTTATTTCCCTGAA
1 -CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAA
61926554 GTTGTAGTGGAACAGATTAAAGCTATAAATTA
65 GTTGTAGTGGAACAGATTAAAGCTATAAATTA
* * * * * * * * *
61926586 CAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGA-T---CATATCTAACCTTATCTCCTTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* * *
61926647 TTGTAGTGGAGCAGGTT---G----AAGTTA
66 TTGTAGTGGAACAGATTAAAGCTATAAATTA
* * *
61926671 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
* *
61926736 TTGCAGTGGAATAGATTAAAGCTATAAATTA
66 TTGTAGTGGAACAGATTAAAGCTATAAATTA
61926767 CAAATCTTAT-TCCTCTGAAGTTGCAGTAGAGCAGA
1 CAAATCTTATCTCC-CTGAAGTTGCAGTAGAGCAGA
61926802 TCATATCAAA
Statistics
Matches: 308, Mismatches: 62, Indels: 60
0.72 0.14 0.14
Matches are distributed among these distances:
85 35 0.11
86 1 0.00
87 5 0.02
88 51 0.17
89 38 0.12
90 6 0.02
91 4 0.01
92 36 0.12
93 31 0.10
94 25 0.08
95 10 0.03
96 64 0.21
97 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (96 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAG
TTGTAGTGGAACAGATTAAAGCTATAAATTA
Found at i:61926814 original size:318 final size:313
Alignment explanation
Indices: 61926177--61926837 Score: 848
Period size: 318 Copynumber: 2.1 Consensus size: 313
61926167 AGTTATAAGT
* **
61926177 CTTATCTCCTTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
*
61926242 GTAAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAT
66 GTAAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
61926307 AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAATCTTATCTCCCTGAA
131 AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAATCTTATCTCCCTGAA
* * ** * * *
61926372 GTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAA
196 GTTGCAGTGGAGCAGACTGAAGATACGAATCCTATCTCCCTAAAGTTGCAGTAGAACAGATTAAA
*
61926437 ACGATAAATCCAATACCTCTAAGGTTGCAGTAGGTCGGATTAAATCTATATAGCAAAC
261 ACGATAAATCAAATACCTCTAAGGTTGCAGTAGGTC-G---AAATCTATATA-CAAAC
* * * *
61926495 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGTGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
**
61926560 GTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
66 GTAAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
* * * * * *
61926625 ATCTAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAGTCTTATCTCCCTGA
131 AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAA-TCTTATCTCCCTGA
* * * *
61926689 AGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTA
195 AGTTGCAGTGGAGCAGACTGAAGATA-CGAATCCTATCTCCCTAAAGTTGCAGTAGAACAGATTA
* * *
61926754 AAGCTATAAATTACAAATCTTATTCCTCTGAA-GTTGCAGTAGAG-C-AGATC-ATAT-CAAAC
259 AAACGATAAA-T-CAAA---TA--CCTCT-AAGGTTGCAGTAG-GTCGAAATCTATATACAAAC
*
61926813 CTTATCTCTCTGAAGTTGCAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
61926838 GCAGTTGTAG
Statistics
Matches: 300, Mismatches: 32, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
317 3 0.01
318 227 0.76
319 37 0.12
320 5 0.02
321 7 0.02
324 2 0.01
326 16 0.05
327 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (313 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
GTAAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGACTGAAGATACGAATCCTATCTCCCTAAAGTTGCAGTAGAACAGATTAAA
ACGATAAATCAAATACCTCTAAGGTTGCAGTAGGTCGAAATCTATATACAAAC
Found at i:61928500 original size:5 final size:5
Alignment explanation
Indices: 61928490--61928518 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
61928480 TATTGTCGTT
61928490 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
61928519 TGGTTTGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:61939652 original size:3 final size:3
Alignment explanation
Indices: 61939646--61939679 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
61939636 GATAATAATG
* *
61939646 ACA ACA ACA ACA ACA ACA ACA ATA AAA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
61939680 AACTAAGCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.71, C:0.26, G:0.00, T:0.03
Consensus pattern (3 bp):
ACA
Found at i:61941969 original size:45 final size:45
Alignment explanation
Indices: 61941918--61942006 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
61941908 TAAAGATATT
*
61941918 TTATTAAGAGTTTAATTAAT-TTTTGACTTATCTTTATTTAGTTAG
1 TTATTAAGAGTTTAACTAATATTTT-ACTTATCTTTATTTAGTTAG
* *
61941963 TTATTAAGAGTTTAACTAATATTTTATTTATTTTTATTTAGTTA
1 TTATTAAGAGTTTAACTAATATTTTACTTATCTTTATTTAGTTA
61942007 AATAAATGGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 36 0.90
46 4 0.10
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.57
Consensus pattern (45 bp):
TTATTAAGAGTTTAACTAATATTTTACTTATCTTTATTTAGTTAG
Found at i:61942492 original size:38 final size:41
Alignment explanation
Indices: 61942450--61942538 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 41
61942440 TAAACTCTGT
* *
61942450 TTTTAATT-TCT-C-ACTTAAACTCTTATTAGTGTAGGTTA
1 TTTTAATTATCTCCTACCTAAACTCTGATTAGTGTAGGTTA
*
61942488 TTTTAATATTAGTTTCCTACCTAAACTCTGATTAGTGTAGGTTA
1 TTTT-A-ATTA-TCTCCTACCTAAACTCTGATTAGTGTAGGTTA
61942532 TTTTAAT
1 TTTTAAT
61942539 ATTAGTTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
38 4 0.10
39 1 0.02
40 3 0.07
42 4 0.10
43 2 0.05
44 28 0.67
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.49
Consensus pattern (41 bp):
TTTTAATTATCTCCTACCTAAACTCTGATTAGTGTAGGTTA
Found at i:61942515 original size:44 final size:44
Alignment explanation
Indices: 61942465--61942554 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
61942455 ATTTCTCACT
*
61942465 TAAACTCTTATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
1 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
61942509 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
1 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
61942553 TA
1 TA
61942555 GTGTGTTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (44 bp):
TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
Found at i:61947812 original size:26 final size:26
Alignment explanation
Indices: 61947737--61947812 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
61947727 ATTTTTTTCC
* *
61947737 CAATTTTACCCTTAGAAAAATTTTGA
1 CAATTTTACCCCTAGTAAAATTTTGA
* * *
61947763 CAATTTTATCCC-AATAAATTTTTTGA
1 CAATTTTACCCCTAGTAAA-ATTTTGA
**
61947789 TGATTTTACCCCTAGTAAAATTTT
1 CAATTTTACCCCTAGTAAAATTTT
61947813 AAGAAAATAT
Statistics
Matches: 38, Mismatches: 10, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
25 4 0.11
26 29 0.76
27 5 0.13
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (26 bp):
CAATTTTACCCCTAGTAAAATTTTGA
Found at i:61947982 original size:19 final size:18
Alignment explanation
Indices: 61947958--61947995 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
61947948 TGCAAATGTA
61947958 TCATTTCTC-TTTCTCATTT
1 TCATTT-TCATTTC-CATTT
61947977 TCATTTTCATTTCCATTT
1 TCATTTTCATTTCCATTT
61947995 T
1 T
61947996 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (18 bp):
TCATTTTCATTTCCATTT
Found at i:61950646 original size:13 final size:13
Alignment explanation
Indices: 61950613--61950647 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
61950603 TTTAGGCTTA
61950613 TTACTATTTAGAC
1 TTACTATTTAGAC
**
61950626 TTGTTATTTAGAC
1 TTACTATTTAGAC
61950639 TTACTATTT
1 TTACTATTT
61950648 TACATATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (13 bp):
TTACTATTTAGAC
Found at i:61952343 original size:25 final size:24
Alignment explanation
Indices: 61952309--61952367 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
61952299 AGAAAGCAAC
* * *
61952309 AAAAATAAAATATATTCTAAAAAG
1 AAAAAGAAAACATAATCTAAAAAG
*
61952333 AAAAGAGAAAACCTAATCTAAAAAG
1 AAAA-AGAAAACATAATCTAAAAAG
61952358 AAAAAGAAAA
1 AAAAAGAAAA
61952368 GAAAATGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.15
Consensus pattern (24 bp):
AAAAAGAAAACATAATCTAAAAAG
Found at i:61955084 original size:9 final size:9
Alignment explanation
Indices: 61955070--61955094 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
61955060 GATCAAGTAA
61955070 AATTAAATT
1 AATTAAATT
61955079 AATTAAATT
1 AATTAAATT
61955088 AATTAAA
1 AATTAAA
61955095 ATAAATATGA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:61955520 original size:17 final size:18
Alignment explanation
Indices: 61955500--61955543 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
61955490 CCAAAAATAA
61955500 TAATATTAT-AATAAATT
1 TAATATTATAAATAAATT
*
61955517 TAATATT-TAAATTAATT
1 TAATATTATAAATAAATT
61955534 TAATACTTAT
1 TAATA-TTAT
61955544 TCTAATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 2 0.09
19 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTATAAATAAATT
Found at i:61960000 original size:29 final size:29
Alignment explanation
Indices: 61959968--61960026 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
61959958 CAAACAAAAT
61959968 TGAACCAGT-CATCAAAATACAAAC-ATCAA
1 TGAA-CAGTCCATCAAAATAC-AACTATCAA
**
61959997 TGAAGTGTCCATCAAAATACAACTATCAA
1 TGAACAGTCCATCAAAATACAACTATCAA
61960026 T
1 T
61960027 TAAATCGTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (29 bp):
TGAACAGTCCATCAAAATACAACTATCAA
Found at i:61960039 original size:30 final size:29
Alignment explanation
Indices: 61959977--61960040 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
61959967 TTGAACCAGT
*
61959977 CATCAAAATACAAACATCAATGAAGTGTC
1 CATCAAAATACAAACATCAATGAAATGTC
*
61960006 CATCAAAATAC-AACTATCAATTAAATCGTC
1 CATCAAAATACAAAC-ATCAATGAAAT-GTC
61960036 CATCA
1 CATCA
61960041 TTGAAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 3 0.10
29 20 0.65
30 8 0.26
ACGTcount: A:0.47, C:0.23, G:0.06, T:0.23
Consensus pattern (29 bp):
CATCAAAATACAAACATCAATGAAATGTC
Found at i:61961606 original size:22 final size:22
Alignment explanation
Indices: 61961573--61961998 Score: 557
Period size: 22 Copynumber: 19.4 Consensus size: 22
61961563 AGCAATTATC
*
61961573 CAAC-ATTCGGACAACATTTAAT
1 CAACAATT-GGACAGCATTTAAT
* *
61961595 CAACAATTGGACAGCAATCAAT
1 CAACAATTGGACAGCATTTAAT
*
61961617 CAACATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
61961639 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* * *
61961661 CAACATTTAGACAACATTTAAT
1 CAACAATTGGACAGCATTTAAT
* * *
61961683 CAATAATTGGACAACATTCAAT
1 CAACAATTGGACAGCATTTAAT
*
61961705 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* * *
61961727 CAACATTTAGACAGAATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
61961749 CAACAATTGGACAGCATTCAAT
1 CAACAATTGGACAGCATTTAAT
* *
61961771 CAATATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
61961793 CAACAATTGGACAGCATTCAAT
1 CAACAATTGGACAGCATTTAAT
* *
61961815 CAATATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
61961837 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
*
61961859 CAACAATTGGATAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
61961881 CAACAATTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
* * *
61961903 CAACAATTGAACAACATTAAAT
1 CAACAATTGGACAGCATTTAAT
*
61961925 CAACATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
* *
61961947 CAACAATTGGACAACATTCAAT
1 CAACAATTGGACAGCATTTAAT
* *
61961969 CAATATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
61961991 CAACAATT
1 CAACAATT
61961999 TTTACTTCAA
Statistics
Matches: 345, Mismatches: 58, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
22 342 0.99
23 3 0.01
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (22 bp):
CAACAATTGGACAGCATTTAAT
Found at i:61962955 original size:21 final size:18
Alignment explanation
Indices: 61962910--61962950 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
61962900 AATAATCTAA
61962910 CATCAAAAATTTATTTTT
1 CATCAAAAATTTATTTTT
61962928 CATCAAAAATTTATTTTT
1 CATCAAAAATTTATTTTT
61962946 CATCA
1 CATCA
61962951 TCAAACAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.46
Consensus pattern (18 bp):
CATCAAAAATTTATTTTT
Found at i:61968881 original size:13 final size:13
Alignment explanation
Indices: 61968863--61968899 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
61968853 ATAAACTACA
61968863 ATATACATACATG
1 ATATACATACATG
61968876 ATATACATACATG
1 ATATACATACATG
61968889 ATATACATACA
1 ATATACATACA
61968900 AATTTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (13 bp):
ATATACATACATG
Found at i:61972657 original size:34 final size:34
Alignment explanation
Indices: 61972610--61972737 Score: 134
Period size: 34 Copynumber: 3.8 Consensus size: 34
61972600 AGGAGAGGGA
* *
61972610 AAGAAGAAGAAAGAAAGAAAGAAAATAAAAGGAG
1 AAGAAGAAAAAAGAAAGAAAGAAAAGAAAAGGAG
* * *
61972644 AAGAAGAAAAAAGAATGAAAGACAAGGAAAGGAG
1 AAGAAGAAAAAAGAAAGAAAGAAAAGAAAAGGAG
* * *
61972678 AAG-AGAAAAAAAAGAAG-AAGAAGAAGAAGAGGGG
1 AAGAAGAAAAAAGA-AAGAAAGAA-AAGAAAAGGAG
* *
61972712 AGGAAGGAAAAAGAAAGAAAGAAAAG
1 AAGAAGAAAAAAGAAAGAAAGAAAAG
61972738 GTGATTTTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
33 13 0.17
34 50 0.66
35 13 0.17
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.02
Consensus pattern (34 bp):
AAGAAGAAAAAAGAAAGAAAGAAAAGAAAAGGAG
Found at i:61972875 original size:28 final size:27
Alignment explanation
Indices: 61972823--61972876 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
61972813 TTTTATTATG
* * *
61972823 TTATTTAGTATATAAATTTTATGAAAT
1 TTATTTAGCATACAAAATTTATGAAAT
61972850 TTATTTAGCATGACAAAATTTATGAAA
1 TTATTTAGCAT-ACAAAATTTATGAAA
61972877 AAATTCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (27 bp):
TTATTTAGCATACAAAATTTATGAAAT
Found at i:61976372 original size:16 final size:17
Alignment explanation
Indices: 61976343--61976376 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
61976333 TCAAAATTAT
61976343 ACTAACTAAAAATAATA
1 ACTAACTAAAAATAATA
*
61976360 ACTAAC-AATAATAATA
1 ACTAACTAAAAATAATA
61976376 A
1 A
61976377 TACTAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
ACTAACTAAAAATAATA
Found at i:61976716 original size:27 final size:27
Alignment explanation
Indices: 61976677--61976741 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
61976667 AACACGACTA
* *
61976677 GTGCCACCAATGGGAATGGCACCATCG
1 GTGCCGCCAATGGGAATGACACCATCG
* * *
61976704 GTGCCGCCCATGGGAATGACACCTTTG
1 GTGCCGCCAATGGGAATGACACCATCG
61976731 GTGCCGCCAAT
1 GTGCCGCCAAT
61976742 TAGATACTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.18
Consensus pattern (27 bp):
GTGCCGCCAATGGGAATGACACCATCG
Found at i:61981353 original size:21 final size:21
Alignment explanation
Indices: 61981315--61981354 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
61981305 CAAACTAATT
*
61981315 CTATTATTAATTTTAATCTAA
1 CTATTATTAATTTCAATCTAA
61981336 CTATTA-TAATATTCAATCT
1 CTATTATTAAT-TTCAATCT
61981355 CAGTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
CTATTATTAATTTCAATCTAA
Found at i:61981819 original size:27 final size:27
Alignment explanation
Indices: 61981781--61981871 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
61981771 GGAGGGTTTT
*
61981781 TGATTGGCGGCACCAAAGGTGCC-TAAC
1 TGATTGGCGGCACCAATGGTGCCAT-AC
*
61981808 TGATTGGCGGCACCGATGGTGCCATAC
1 TGATTGGCGGCACCAATGGTGCCATAC
* *
61981835 TGGTTGGCAGCACCAATGGTGCCATAC
1 TGATTGGCGGCACCAATGGTGCCATAC
61981862 TGATTGGCGG
1 TGATTGGCGG
61981872 GACTACTCGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.33, T:0.22
Consensus pattern (27 bp):
TGATTGGCGGCACCAATGGTGCCATAC
Found at i:61982117 original size:3 final size:3
Alignment explanation
Indices: 61982109--61982137 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
61982099 AGTTAGTTAG
61982109 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
61982138 AGGTATTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:61984778 original size:27 final size:27
Alignment explanation
Indices: 61984689--61984779 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
61984679 ATGAGTAGTC
*
61984689 CCGCTAATCAGTATGGCACCATTGGTG
1 CCGCCAATCAGTATGGCACCATTGGTG
* *
61984716 CCGCCAACCAGTATGGCACCATCGGTG
1 CCGCCAATCAGTATGGCACCATTGGTG
* *
61984743 CCGCTAATCAGT-TAGGCACCTTTGGTG
1 CCGCCAATCAGTAT-GGCACCATTGGTG
*
61984770 CTGCCAATCA
1 CCGCCAATCA
61984780 AAAACCCTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.23
Consensus pattern (27 bp):
CCGCCAATCAGTATGGCACCATTGGTG
Found at i:61985649 original size:19 final size:21
Alignment explanation
Indices: 61985625--61985675 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
61985615 TGTTTGTTTT
61985625 ACAGAAAATAGA-TT-GGTCA
1 ACAGAAAATAGACTTAGGTCA
61985644 ACAGAAAAT-GACTTACAGGTCA
1 ACAGAAAATAGACTT--AGGTCA
61985666 ACAGAAAATA
1 ACAGAAAATA
61985676 AGCCTTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 2 0.07
19 11 0.41
22 14 0.52
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.18
Consensus pattern (21 bp):
ACAGAAAATAGACTTAGGTCA
Found at i:61985844 original size:9 final size:9
Alignment explanation
Indices: 61985830--61985855 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61985820 TTTATTTTTA
61985830 AAAATATTT
1 AAAATATTT
61985839 AAAATATTT
1 AAAATATTT
61985848 AAAATATT
1 AAAATATT
61985856 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:61985983 original size:31 final size:30
Alignment explanation
Indices: 61985919--61985986 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 30
61985909 TATTTAGTCA
*
61985919 TTTAATAAATTATTAATATAATTTATTATT
1 TTTAATAAATTATTAATATAAATTATTATT
61985949 TTTAATAAATTATTTAATATTTAAATT-TTA-T
1 TTTAATAAATTA-TTAATA--TAAATTATTATT
61985980 TTTAATA
1 TTTAATA
61985987 GTAAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
30 12 0.35
31 14 0.41
32 3 0.09
33 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTAATAAATTATTAATATAAATTATTATT
Found at i:61986068 original size:15 final size:15
Alignment explanation
Indices: 61986050--61986106 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
61986040 TATCAATATT
61986050 AATATTTTAATTATA
1 AATATTTTAATTATA
61986065 AATATTTATTGAAATTATA
1 AATA-TT-TT--AATTATA
* *
61986084 AATATATTAATAATA
1 AATATTTTAATTATA
61986099 AATATTTT
1 AATATTTT
61986107 GTAGTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
15 17 0.49
16 2 0.06
17 4 0.11
18 1 0.03
19 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATTATA
Found at i:61986080 original size:19 final size:19
Alignment explanation
Indices: 61986030--61986088 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
61986020 TATTCACATA
* *
61986030 TTATTGAAAATATCAATAT
1 TTATTGAAATTATAAATAT
**
61986049 TAATATTTTAATTATAAATAT
1 T--TATTGAAATTATAAATAT
61986070 TTATTGAAATTATAAATAT
1 TTATTGAAATTATAAATAT
61986089 ATTAATAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 17 0.53
21 15 0.47
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (19 bp):
TTATTGAAATTATAAATAT
Found at i:62002693 original size:20 final size:20
Alignment explanation
Indices: 62002668--62002713 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
62002658 ATTTATTTTC
62002668 TAATTATTAAAAACTT-TAAA
1 TAATTATTAAAAA-TTGTAAA
62002688 TAATTATTAAAAATTGTAAA
1 TAATTATTAAAAATTGTAAA
62002708 TAATTA
1 TAATTA
62002714 ACAAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATTATTAAAAATTGTAAA
Found at i:62003011 original size:21 final size:20
Alignment explanation
Indices: 62002977--62003033 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
62002967 AATTAATTAC
* *
62002977 TATTTATAATTTTTTGATAAT
1 TATTTTTAAATTTTT-ATAAT
62002998 TATTTTTAAATTTTTA-AAT
1 TATTTTTAAATTTTTATAAT
* *
62003017 AATTTTCTCAATTTTTA
1 TATTTT-TAAATTTTTA
62003034 ATAACTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 8 0.26
20 10 0.32
21 13 0.42
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
TATTTTTAAATTTTTATAAT
Found at i:62003018 original size:22 final size:24
Alignment explanation
Indices: 62002958--62003020 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 24
62002948 AGTTTTAAAT
*
62002958 TAATTTTAAAATTAATTACTATTTA
1 TAATTTTTAAA-TAATTACTATTTA
** *
62002983 TAATTTTTTGATAATTA-TTTTTA
1 TAATTTTTAAATAATTACTATTTA
62003006 -AATTTTTAAATAATT
1 TAATTTTTAAATAATT
62003021 TTCTCAATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 13 0.41
23 5 0.16
24 6 0.19
25 8 0.25
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TAATTTTTAAATAATTACTATTTA
Found at i:62003042 original size:20 final size:19
Alignment explanation
Indices: 62003000--62003079 Score: 69
Period size: 19 Copynumber: 4.3 Consensus size: 19
62002990 TTGATAATTA
*
62003000 TTTTTAAATTTTTAAATAA-
1 TTTTTCAATTTTT-AATAAC
62003019 TTTTCTCAATTTTTAATAAC
1 TTTT-TCAATTTTTAATAAC
* *
62003039 TTTTACAAATTTTAAT---
1 TTTTTCAATTTTTAATAAC
*
62003055 TTTTTATAATTTTTAATAAC
1 TTTTT-CAATTTTTAATAAC
62003075 TTTTT
1 TTTTT
62003080 TACAATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.08
17 9 0.18
19 19 0.39
20 17 0.35
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTCAATTTTTAATAAC
Found at i:62003078 original size:11 final size:10
Alignment explanation
Indices: 62003026--62003149 Score: 59
Period size: 9 Copynumber: 12.9 Consensus size: 10
62003016 TAATTTTCTC
62003026 AATTTTTAAT
1 AATTTTTAAT
*
62003036 AACTTTTACA-
1 AATTTTTA-AT
62003046 AA-TTTTAAT
1 AATTTTTAAT
62003055 --TTTTT-AT
1 AATTTTTAAT
62003062 AATTTTTAAT
1 AATTTTTAAT
* *
62003072 AACTTTTTTAC
1 AA-TTTTTAAT
*
62003083 AA-TTTTAAA
1 AATTTTTAAT
*
62003092 ATATTTTTAAC
1 A-ATTTTTAAT
**
62003103 AATACTTAAT
1 AATTTTTAAT
62003113 AATTATTTAA-
1 AATT-TTTAAT
* *
62003123 AATATCTAA-
1 AATTTTTAAT
*
62003132 AATTTTT-AC
1 AATTTTTAAT
62003141 AATTTTTAA
1 AATTTTTAA
62003150 ATATATATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
7 2 0.02
8 6 0.07
9 32 0.37
10 27 0.31
11 20 0.23
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:62003088 original size:10 final size:10
Alignment explanation
Indices: 62002979--62003088 Score: 52
Period size: 10 Copynumber: 11.1 Consensus size: 10
62002969 TTAATTACTA
62002979 TTTATAATTT
1 TTTATAATTT
62002989 TTTGATAATTAT
1 TTT-ATAATT-T
62003001 TTT-TAAATTT
1 TTTAT-AATTT
*
62003011 TTAAATAATTT
1 TT-TATAATTT
* *
62003022 TCT-CAATTT
1 TTTATAATTT
* *
62003031 TTAATAA-CT
1 TTTATAATTT
* *
62003040 TTTACAA--A
1 TTTATAATTT
62003048 TTT-TAATTT
1 TTTATAATTT
62003057 TTTATAATTT
1 TTTATAATTT
*
62003067 TTAATAACTTT
1 TTTATAA-TTT
*
62003078 TTTACAATTT
1 TTTATAATTT
62003088 T
1 T
62003089 AAAATATTTT
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
7 2 0.03
8 3 0.04
9 15 0.20
10 25 0.34
11 24 0.32
12 5 0.07
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (10 bp):
TTTATAATTT
Found at i:62003088 original size:20 final size:20
Alignment explanation
Indices: 62003000--62003149 Score: 104
Period size: 20 Copynumber: 7.8 Consensus size: 20
62002990 TTGATAATTA
62003000 TTTTTA-AATTTTTAAATAAT
1 TTTTTACAATTTTT-AATAAT
*
62003020 TTTCT-CAATTTTTAATAA-
1 TTTTTACAATTTTTAATAAT
* *
62003038 CTTTTACAA-ATTT--TAAT
1 TTTTTACAATTTTTAATAAT
*
62003055 TTTTTATAATTTTTAATAACT
1 TTTTTACAATTTTTAATAA-T
62003076 TTTTTACAA-TTTTAA-AAT
1 TTTTTACAATTTTTAATAAT
**
62003094 ATTTTTAACAATACTTAATAAT
1 -TTTTT-ACAATTTTTAATAAT
* * * *
62003116 TATTTAAAATATCTAA-AA-
1 TTTTTACAATTTTTAATAAT
62003134 TTTTTACAATTTTTAA
1 TTTTTACAATTTTTAA
62003150 ATATATATTT
Statistics
Matches: 101, Mismatches: 18, Indels: 24
0.71 0.13 0.17
Matches are distributed among these distances:
16 3 0.03
17 7 0.07
18 22 0.22
19 17 0.17
20 32 0.32
21 17 0.17
22 3 0.03
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTACAATTTTTAATAAT
Found at i:62003112 original size:77 final size:79
Alignment explanation
Indices: 62002979--62003149 Score: 179
Period size: 77 Copynumber: 2.2 Consensus size: 79
62002969 TTAATTACTA
* * * ** **
62002979 TTTATAATTTTTTGATAATTATTTTTAAATTTTTAAATAATTTTCTCAATTTTTAATAACT-TTT
1 TTTATAA-TTTTTAATAACTATTTTTAAATTTTAAAATAATTTTAACAATACTTAATAACTATTT
* *
62003043 ACAAAT-T-TTAATTT
65 A-AAATATCTAAAATT
* *
62003057 TTTATAATTTTTAATAACT-TTTTTACAATTTTAAAATATTTTTAACAATACTTAATAATTATTT
1 TTTATAATTTTTAATAACTATTTTTA-AATTTTAAAATAATTTTAACAATACTTAATAACTATTT
62003121 AAAATATCTAAAATT
65 AAAATATCTAAAATT
*
62003136 TTTACAATTTTTAA
1 TTTATAATTTTTAA
62003150 ATATATATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
76 6 0.08
77 41 0.53
78 12 0.16
79 18 0.23
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.55
Consensus pattern (79 bp):
TTTATAATTTTTAATAACTATTTTTAAATTTTAAAATAATTTTAACAATACTTAATAACTATTTA
AAATATCTAAAATT
Found at i:62012396 original size:42 final size:42
Alignment explanation
Indices: 62012349--62012435 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
62012339 TATTAATTTA
* * * *
62012349 ATATTAATACGATATATTAAATTTAATTTAATATTTTTCTAG
1 ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
*
62012391 ATATTAATATGAAATATTAAATTAAATTAAATATTTATCTAG
1 ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
62012433 ATA
1 ATA
62012436 GTATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (42 bp):
ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
Found at i:62012442 original size:103 final size:103
Alignment explanation
Indices: 62012270--62012459 Score: 353
Period size: 103 Copynumber: 1.8 Consensus size: 103
62012260 ATTAAAAATA
62012270 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
1 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
62012335 ATTTTATTAATTTAATATTAATACGATATATTAAATTT
66 ATTTTATTAATTTAATATTAATACGATATATTAAATTT
* *
62012373 AATTTAATATTTTTCTAGATATTAATATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
1 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
*
62012438 ATTTTATTAATTTAATGTTAAT
66 ATTTTATTAATTTAATATTAAT
62012460 GTGATTAATT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (103 bp):
AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
ATTTTATTAATTTAATATTAATACGATATATTAAATTT
Found at i:62015301 original size:103 final size:104
Alignment explanation
Indices: 62015057--62015322 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
62015047 GTTGTACATA
** *
62015057 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
62015122 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
62015161 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
62015226 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
62015264 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
62015323 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:62022793 original size:103 final size:104
Alignment explanation
Indices: 62022549--62022814 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
62022539 GTTGTACATA
** *
62022549 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
62022614 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
62022653 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
62022717 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
62022756 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
62022815 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:62031229 original size:28 final size:27
Alignment explanation
Indices: 62031166--62031317 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
62031156 ATATTAAGTC
* *
62031166 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
62031193 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
62031221 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
62031248 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
62031276 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
62031303 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
62031318 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:62031250 original size:55 final size:55
Alignment explanation
Indices: 62031166--62031342 Score: 264
Period size: 55 Copynumber: 3.2 Consensus size: 55
62031156 ATATTAAGTC
* * *
62031166 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
62031221 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * *
62031276 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAACT
62031332 CGCACACTTAG
1 CGCACACTTAG
62031343 CGCCAATCTC
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
55 95 0.86
56 16 0.14
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Done.