Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 74 of 167
Found at i:23557244 original size:47 final size:47
Alignment explanation
Indices: 23557173--23557675 Score: 776
Period size: 47 Copynumber: 10.6 Consensus size: 47
23557163 CCCTTCGGGA
* * * * * *
23557173 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23557220 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23557267 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23557316 CTTATCACATATGTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23557363 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23557410 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23557457 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23557506 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23557553 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGG-
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23557601 -TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23557649 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
23557676 TATTCAAATA
Statistics
Matches: 422, Mismatches: 26, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
47 289 0.68
49 133 0.32
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23557348 original size:96 final size:96
Alignment explanation
Indices: 23557173--23557675 Score: 869
Period size: 96 Copynumber: 5.3 Consensus size: 96
23557163 CCCTTCGGGA
* * * *
23557173 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23557236 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
23557267 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATGTAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23557332 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
23557363 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23557426 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
23557457 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
23557522 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
23557553 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGG--TTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
23557616 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
23557649 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
23557676 TATTCAAATA
Statistics
Matches: 393, Mismatches: 10, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
94 127 0.32
95 1 0.00
96 265 0.67
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23557476 original size:143 final size:144
Alignment explanation
Indices: 23557173--23557675 Score: 822
Period size: 143 Copynumber: 3.5 Consensus size: 144
23557163 CCCTTCGGGA
* * * * * *
23557173 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
23557236 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
23557301 CATTGGCCATTCGGC
130 CATTGGCCATTCGGC
*
23557316 CTTATCAC--ATATGTACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
23557379 ACTTTCACATTCATCACATTGGCCATTAGGCCTTGTCAC-ATATATACACTTTCACATTCATCAC
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
* *
23557443 ATCGGCCATTAGGC
131 ATTGGCCATTCGGC
* *
23557457 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
23557522 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCA
23557587 CATTGGCCATTCGG-
130 CATTGGCCATTCGGC
23557601 -TTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
23557665 ACTTTCACATT
66 ACTTTCACATT
23557676 TATTCAAATA
Statistics
Matches: 334, Mismatches: 20, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
141 45 0.13
142 1 0.00
143 252 0.75
145 36 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (144 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCAC
ATTGGCCATTCGGC
Found at i:23564754 original size:40 final size:40
Alignment explanation
Indices: 23564670--23564883 Score: 247
Period size: 40 Copynumber: 5.4 Consensus size: 40
23564660 TTGAATGATG
* * * *
23564670 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
23564710 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23564750 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23564789 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23564829 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
23564870 -CAGGGCTATGTCCC
1 TCCGGGCTAAGTCCC
23564884 AGAATGTGCC
Statistics
Matches: 149, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 33 0.22
40 107 0.72
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23564811 original size:79 final size:80
Alignment explanation
Indices: 23564670--23564866 Score: 247
Period size: 79 Copynumber: 2.5 Consensus size: 80
23564660 TTGAATGATG
* * * *
23564670 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
23564734 TGTACGAGATACTAAT
65 TGTACGAGATACTAAA
* ** *
23564750 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGATGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
* *
23564813 TGTGCGAGTTACTAAA
65 TGTACGAGATACTAAA
*
23564829 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
23564867 TAACAGGGCT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 58 0.57
80 42 0.42
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTAAA
Found at i:23565017 original size:40 final size:40
Alignment explanation
Indices: 23564933--23565357 Score: 488
Period size: 40 Copynumber: 10.7 Consensus size: 40
23564923 TTGAATGATG
* * * *
23564933 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
23564973 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23565013 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23565052 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23565092 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * ** *
23565133 -CCGGGCTACGTCCCAAAGGCATTTGAACGAG-GAGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTA-AA
* * * *
23565173 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23565213 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23565252 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23565292 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
23565333 -CAGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23565358 AACGAGGAGC
Statistics
Matches: 332, Mismatches: 41, Indels: 24
0.84 0.10 0.06
Matches are distributed among these distances:
39 67 0.20
40 224 0.67
41 39 0.12
42 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23565089 original size:263 final size:263
Alignment explanation
Indices: 23564622--23565147 Score: 1034
Period size: 263 Copynumber: 2.0 Consensus size: 263
23564612 AATGAAATAC
23564622 GAATGTGCCATGATTTATTGTTAAATGTGCGTGGTTATTTGAATGATGTCCGGGCTAAGTCCCGA
1 GAATGTGCCATGATTTATTGTTAAATGTGCGTGGTTATTTGAATGATGTCCGGGCTAAGTCCCGA
23564687 AGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTC
66 AGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTC
23564752 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTG
131 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTG
*
23564817 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTATGTC
196 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTACGTC
23564882 CCA
261 CCA
23564885 GAATGTGCCATGATTTATTGTTAAATGTGCGTGGTTATTTGAATGATGTCCGGGCTAAGTCCCGA
1 GAATGTGCCATGATTTATTGTTAAATGTGCGTGGTTATTTGAATGATGTCCGGGCTAAGTCCCGA
23564950 AGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTC
66 AGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTC
23565015 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTG
131 CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTG
*
23565080 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTACGTC
196 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTACGTC
23565145 CCA
261 CCA
23565148 AAGGCATTTG
Statistics
Matches: 261, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
263 261 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (263 bp):
GAATGTGCCATGATTTATTGTTAAATGTGCGTGGTTATTTGAATGATGTCCGGGCTAAGTCCCGA
AGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTC
CGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTG
CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTACGTC
CCA
Found at i:23565315 original size:200 final size:199
Alignment explanation
Indices: 23564970--23565376 Score: 778
Period size: 200 Copynumber: 2.0 Consensus size: 199
23564960 CTAAGTGACC
23564970 ATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCAT
23565035 TGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTT
66 TGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTT
*
23565100 AAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTACGTCCCAAAGGCATTTGAACGAGG
131 AAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTACGTCCCAAAGGCATTTGAACGAGG
23565165 AGCT
196 AGCT
23565169 ATAATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCA
1 AT-ATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCA
23565234 TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGT
65 TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGT
* *
23565299 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTATGTCCCGAAGGCATTTGAACGAG
130 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTACGTCCCAAAGGCATTTGAACGAG
23565364 GAGCT
195 GAGCT
23565369 ATATCCGG
1 ATATCCGG
23565377 TTAAATTCCG
Statistics
Matches: 204, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
199 8 0.04
200 196 0.96
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (199 bp):
ATATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCAT
TGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTT
AAGTCCCGAAGGCATTTGTGCGAGTTACTATAACAGGGCTACGTCCCAAAGGCATTTGAACGAGG
AGCT
Found at i:23571373 original size:40 final size:40
Alignment explanation
Indices: 23571322--23571674 Score: 528
Period size: 40 Copynumber: 8.8 Consensus size: 40
23571312 ATTTGAATTT
* * * *
23571322 TATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATTT
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TA
23571362 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
23571402 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
23571442 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
23571482 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
*
23571522 TATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTGATA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
* *
23571562 TATCCGGGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATA
1 TATCC--GGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
* *
23571604 TATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTA
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
** * *
23571644 TGCCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
23571675 TTGTGGTAAT
Statistics
Matches: 293, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
40 253 0.86
41 3 0.01
42 37 0.13
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATA
Found at i:23576431 original size:39 final size:40
Alignment explanation
Indices: 23576274--23576498 Score: 244
Period size: 40 Copynumber: 5.7 Consensus size: 40
23576264 GCTACTCGTT
* * *
23576274 CAAATGCCTTTGGGACGTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
23576314 CAAATGCCTTCGGGACTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23576354 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
23576394 TC-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 -CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
23576433 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
23576474 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23576499 CATCATTCGA
Statistics
Matches: 160, Mismatches: 18, Indels: 14
0.83 0.09 0.07
Matches are distributed among these distances:
38 3 0.02
39 31 0.19
40 112 0.70
41 14 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23577699 original size:56 final size:56
Alignment explanation
Indices: 23577627--23577802 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
23577617 TATTAGTTTA
*
23577627 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
23577683 TTGCCCATGCTACTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
*
23577739 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAAAATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
23577795 TTGCCCAT
1 TTGCCCAT
23577803 CATCCCTTGT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 116 1.00
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:23578419 original size:39 final size:38
Alignment explanation
Indices: 23578361--23578493 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 38
23578351 ACCCAATTAT
* * *
23578361 CTTCGGGAT-TTAGCCGGATATAACCACTCGCACAAGGC
1 CTTCGGG-TCTTAGCCGGATATAATCACTAGCACAATGC
**
23578399 CTTCGGGTCTTAGTCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGTCTTAG-CCGGATATAATCACTAGCACA-ATGC
* * *
23578439 CTTCGGGACTTAGCCCGGATATAATAACTTGCACAAATGC
1 CTTCGGGTCTTAG-CCGGATATAATCACTAGCAC-AATGC
*
23578479 CTTCGGGGCTTAGCC
1 CTTCGGGTCTTAGCC
23578494 CAGAATTTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
37 1 0.01
38 11 0.14
39 19 0.24
40 47 0.59
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (38 bp):
CTTCGGGTCTTAGCCGGATATAATCACTAGCACAATGC
Found at i:23578451 original size:40 final size:40
Alignment explanation
Indices: 23578386--23578690 Score: 337
Period size: 40 Copynumber: 7.7 Consensus size: 40
23578376 GGATATAACC
* * * * *
23578386 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * *
23578425 ACTAGCACAGATGCCTTCGGGACTTAGCCCGG-ATATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTA
* * * *
23578465 ACTTGCACAAATGCCTTCGGGGCTTAGCCCAGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
23578505 ACTCGCACAAAAGCCTTCGGGGCTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * *
23578545 ACTTGCACAAAAGCCTTCGGGACTTAGCCCAGAATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
23578585 ACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* * * *
23578625 ACTCGCACAAATGCCTTTGGGACTTAGCTCGGAATTAATT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
* *
23578665 ACTAGCACAAATGTCTTCGGGACTTA
1 ACTCGCACAAATGCCTTCGGGACTTA
23578691 ACCCCGTTAG
Statistics
Matches: 229, Mismatches: 35, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
39 7 0.03
40 220 0.96
41 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTA
Found at i:23578611 original size:120 final size:120
Alignment explanation
Indices: 23578386--23578690 Score: 373
Period size: 120 Copynumber: 2.5 Consensus size: 120
23578376 GGATATAACC
* * * * * *
23578386 ACTCGCAC-AAGGCCTTCGGGTCTTAGTCCGG-ATATGGTCACTAGCACAGATGCCTTCGGGACT
1 ACTCGCACAAAAGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTAGCACAAATGCCTTCGGGACT
* * * *
23578449 TAGCCCGGATATAATAACTTGCACAAATGCCTTCGGGGCTTAGCCCAGAATTTGTA
65 TAGCCCGAATATAATAACTCGCAAAAATGCCTTCGGGACTTAGCCCAGAATTTGTA
* * * *
23578505 ACTCGCACAAAAGCCTTCGGGGCTTAGCCCGGAATTTGTAACTTGCACAAAAGCCTTCGGGACTT
1 ACTCGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTT
* *
23578570 AGCCCAGAAT-TAGTAACTCGCAAAAATGCCTTCGGGACTTAGCCCGGAATTTGTA
66 AGCCC-GAATATAATAACTCGCAAAAATGCCTTCGGGACTTAGCCCAGAATTTGTA
* * * * * *
23578625 ACTCGCACAAATGCCTTTGGGACTTAGCTCGGAATTAATTACTAGCACAAATGTCTTCGGGACTT
1 ACTCGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTT
23578690 A
66 A
23578691 ACCCCGTTAG
Statistics
Matches: 159, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
119 8 0.05
120 146 0.92
121 5 0.03
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (120 bp):
ACTCGCACAAAAGCCTTCGGGACTTAGCCCGGAATTAGTAACTAGCACAAATGCCTTCGGGACTT
AGCCCGAATATAATAACTCGCAAAAATGCCTTCGGGACTTAGCCCAGAATTTGTA
Found at i:23583316 original size:43 final size:41
Alignment explanation
Indices: 23583246--23583367 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 41
23583236 GAAAAGCTCA
*
23583246 TACAATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAC
1 TACAATGCCAACGT-CCAGACAGGGTCTTACATGTAATCAAC
* * * *
23583288 TATCGATGCC-ACTGTTCCAGACAGGGTCTTACACGAAATCAAG
1 TA-CAATGCCAAC-G-TCCAGACAGGGTCTTACATGTAATCAAC
23583331 TACAATGCCAACGTCCTAGAC-GTGGTCTTACATGTAA
1 TACAATGCCAACGTCC-AGACAG-GGTCTTACATGTAA
23583368 ATTATAAGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
41 4 0.06
42 27 0.41
43 34 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
TACAATGCCAACGTCCAGACAGGGTCTTACATGTAATCAAC
Found at i:23588456 original size:33 final size:34
Alignment explanation
Indices: 23588414--23588487 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
23588404 AGTGACAGCC
23588414 CAGTATCAGTGT-GGCCTTAGCCCATTACAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
* *
23588447 CAGTATCAGTGTGGGCCTTAGCCTATTATAGTAA
1 CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
*
23588481 CATTATC
1 CAGTATC
23588488 CATAAATGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 12 0.32
34 25 0.68
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:23590110 original size:27 final size:27
Alignment explanation
Indices: 23590093--23590259 Score: 235
Period size: 27 Copynumber: 6.2 Consensus size: 27
23590083 TTACACTGCA
23590093 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * * *
23590120 GGGGTGTTTTGGTAATTTTACAAATCA
1 AGGGTATTTTGATAATTTTACAAATCG
* *
23590147 AAGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
23590174 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * *
23590201 AGGGTGTTTCGGTAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
*
23590228 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
*
23590255 GGGGT
1 AGGGT
23590260 CTTTCAGTAA
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 122 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGATAATTTTACAAATCG
Found at i:23590124 original size:54 final size:54
Alignment explanation
Indices: 23590066--23590253 Score: 180
Period size: 54 Copynumber: 3.5 Consensus size: 54
23590056 TTACACTACA
* * * *
23590066 GGGGTATGTCGGTCATTTTAC-ACTGCAAGGGTATTTTGATAATTTTACAAATCG
1 GGGGTATGTCGGTAATTTTACAAAT-CAAAGGTATTTCGATAATTTTACAAATCG
* * *
23590120 GGGGTGTTTTGGTAATTTTACAAATCAAAGGTATTTCGATAATTTTACAAATCG
1 GGGGTATGTCGGTAATTTTACAAATCAAAGGTATTTCGATAATTTTACAAATCG
* * * * * * * *
23590174 AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCG
1 GGGGTATGTCGGTAATTTTACAAATCAAAGGTATTTCGATAATTTTACAAATCG
* * * * *
23590228 AGGGTGTTTTGATAATTTTACAAATC
1 GGGGTATGTCGGTAATTTTACAAATC
23590254 GGGGGTCTTT
Statistics
Matches: 118, Mismatches: 15, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
54 116 0.98
55 2 0.02
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGGTATGTCGGTAATTTTACAAATCAAAGGTATTTCGATAATTTTACAAATCG
Found at i:23590188 original size:81 final size:81
Alignment explanation
Indices: 23590093--23590259 Score: 271
Period size: 81 Copynumber: 2.1 Consensus size: 81
23590083 TTACACTGCA
* *
23590093 AGGGTATTTTGATAATTTTACAAATCGGGGGTGTTTTGGTAATTTTACAAATCAAAGGTATTTCG
1 AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCAAAGGTATTTCG
23590158 ATAATTTTACAAATCG
66 ATAATTTTACAAATCG
* * * *
23590174 AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCGAGGGTGTTTTG
1 AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCAAAGGTATTTCG
23590239 ATAATTTTACAAATCG
66 ATAATTTTACAAATCG
*
23590255 GGGGT
1 AGGGT
23590260 CTTTCAGTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (81 bp):
AGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCAAAGGTATTTCG
ATAATTTTACAAATCG
Found at i:23590624 original size:28 final size:28
Alignment explanation
Indices: 23590588--23590651 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
23590578 TGGCCCCTTT
* * *
23590588 AGGCCCAATCTCGTTCACATGGCCTATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
23590616 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
23590644 AGGCCCAA
1 AGGCCCAA
23590652 CTACTTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:23596400 original size:44 final size:43
Alignment explanation
Indices: 23596258--23596416 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
23596248 AGCTCGTACA
* * * *
23596258 ATGCCAACGTCCTAGACGTGGTCTTACATGT-AATCAAATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAA-GTCG
*
23596301 ATGCC-ACTGTCCTAGACAG-GGTCTTACACG-AAATC-AAGTACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAAGT-CG
* *
23596343 ATGCGAACATCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AAGTCG
*
23596387 ATGCCAATGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
23596417 ATAACACATA
Statistics
Matches: 98, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.28
43 35 0.36
44 30 0.31
45 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAAGTCG
Found at i:23596415 original size:86 final size:85
Alignment explanation
Indices: 23596253--23596417 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 85
23596243 CAGAAAGCTC
* * * * *
23596253 GTACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCTAGAC
1 GTACAATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATCAATGCCAATGTCCCAGAC
23596318 AGGGTCTTACACGAAATCAA
66 AGGGTCTTACACGAAATCAA
* * * *
23596338 GTACGATGCGAACATCCCAGACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAATGTCCCAG
1 GTACAATGCCAACATCCCAGACGTGGTCTTACACGT-AATCA-AATATCAATGCCAATGTCCCAG
23596402 AC-GTGGTCTTACACGA
64 ACAG-GGTCTTACACGA
23596418 TAACACATAT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
85 32 0.47
86 34 0.50
87 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (85 bp):
GTACAATGCCAACATCCCAGACGTGGTCTTACACGTAATCAAATATCAATGCCAATGTCCCAGAC
AGGGTCTTACACGAAATCAA
Found at i:23598847 original size:43 final size:43
Alignment explanation
Indices: 23598727--23598883 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
23598717 AGCTCTTACA
*
23598727 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATAG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATA-AG
* * *
23598770 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAATAAG
* * *
23598812 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCA-AA-TAAG
* *
23598856 ATGCCAACGTCCCAGACGTGCTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
23598884 CGATAACACA
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.28
43 40 0.42
44 27 0.28
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATAAG
Found at i:23598881 original size:86 final size:85
Alignment explanation
Indices: 23598727--23598886 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
23598717 AGCTCTTACA
* *
23598727 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATAGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCACTGTCCCAGACAGGCT
23598792 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* *
23598812 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCATAAGT-T-GATGCCAAC-GTCCCAGAC-
1 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATCA-AA-TATAGATGCC-ACTGTCCCAGACA
23598873 GTGCTCTTACACGA
62 G-GCTCTTACACGA
23598887 TAACACATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
85 29 0.44
86 31 0.47
87 5 0.08
88 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCACTGTCCCAGACAGGCT
CTTACACGAAATCAAATACG
Found at i:23604266 original size:20 final size:20
Alignment explanation
Indices: 23604241--23604279 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23604231 ACGATTAAAA
23604241 TAGTAA-AAAAGTAAAATAAT
1 TAGTAATAAAA-TAAAATAAT
23604261 TAGTAATAAAATAAAATAA
1 TAGTAATAAAATAAAATAA
23604280 ACATGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
TAGTAATAAAATAAAATAAT
Found at i:23605306 original size:43 final size:43
Alignment explanation
Indices: 23605135--23605307 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
23605125 ACATAGGATT
* * *
23605135 TCGATATGTGATTTCATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGAGTTCATGTAAGACCACGTCTGGGACTTTGGCA
* * * * * * * *
23605178 TCGATTTGTGATTTGCGTGTCAGACCATGTTTGGGACATCGGCA
1 TCGATATGTGAGTT-CATGTAAGACCACGTCTGGGACTTTGGCA
* * * *
23605222 TCG-TATATGAGTTCGTGTAAAACC-CTGTCTGGGA-TAGTGGCA
1 TCGATATGTGAGTTCATGTAAGACCAC-GTCTGGGACT-TTGGCA
23605264 TCGATATGTGA-TTACATGTAAGACCACGTCTGGGACTTTGGCA
1 TCGATATGTGAGTT-CATGTAAGACCACGTCTGGGACTTTGGCA
23605307 T
1 T
23605308 TGTACAAGCT
Statistics
Matches: 101, Mismatches: 22, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
42 25 0.25
43 49 0.49
44 27 0.27
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGTGAGTTCATGTAAGACCACGTCTGGGACTTTGGCA
Found at i:23612106 original size:49 final size:48
Alignment explanation
Indices: 23612007--23612226 Score: 205
Period size: 49 Copynumber: 4.5 Consensus size: 48
23611997 AAGTCAATGT
* * * * *
23612007 CATGTCCCAGACAGGTCTTACACTGACT-TCCAAATATCAAG-GCCGGTGC
1 CATGTCCCAGATAGGTCTTACACTGGCTCT-C-ATTATC-CGTGCCGATGC
*
23612056 CATGTCCCAGATAGGTCTTACACTGGCTCTCACTTATCCGTGCAGATGC
1 CATGTCCCAGATAGGTCTTACACTGGCTCTCA-TTATCCGTGCCGATGC
* * * * *
23612105 CATGTCCTAGATAGGTCTTACACTAGCT-TGCA-TATCTTGAAGCCGATGT
1 CATGTCCCAGATAGGTCTTACACTGGCTCT-CATTATC-CG-TGCCGATGC
* * * *
23612154 CGTGTCCCAGACATGTCTTACACTGGCTCTCATCTATCGGTGCCGATGC
1 CATGTCCCAGATAGGTCTTACACTGGCTCTCAT-TATCCGTGCCGATGC
23612203 CATGTCCCAGATAGGTCTTACACT
1 CATGTCCCAGATAGGTCTTACACT
23612227 AGCGCACACA
Statistics
Matches: 139, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
47 4 0.03
48 4 0.03
49 124 0.89
50 3 0.02
51 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGATAGGTCTTACACTGGCTCTCATTATCCGTGCCGATGC
Found at i:23616594 original size:18 final size:18
Alignment explanation
Indices: 23616552--23616595 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23616542 AAGAAGCATT
23616552 ATCAGAA-CTAGAATCAAA
1 ATCAGAATC-AGAATCAAA
*
23616570 ATGAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAAA
*
23616588 TTCAGAAT
1 ATCAGAAT
23616596 GAAGCCCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:23616827 original size:27 final size:27
Alignment explanation
Indices: 23616757--23616837 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
23616747 AGCATGGCTG
* * *
23616757 CCAGAA-CTGATATTGTGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
*
23616783 CCAG-ATACAGGTATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
* *
23616810 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
23616837 C
1 C
23616838 TTAACAGAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.02
26 4 0.09
27 38 0.84
28 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:23617100 original size:27 final size:26
Alignment explanation
Indices: 23617050--23617131 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
23617040 TCGATCGGTC
* * *
23617050 AACAAATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGGCAAAGCCACCAG
*
23617076 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAAAGCCACCAG
*
23617103 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAAAGCCACCAG
23617130 AA
1 AA
23617132 TGCTACCTCC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGGCAAAGCCACCAG
Found at i:23617386 original size:27 final size:27
Alignment explanation
Indices: 23617357--23617578 Score: 295
Period size: 27 Copynumber: 8.2 Consensus size: 27
23617347 GGGTAAAATG
* * * * *
23617357 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
23617384 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
23617411 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
23617438 GTAATT-TAACCTTACAGGGGTATTTTA
1 GTAATTCT-ACCCTACAGGGGTATTTCA
* *
23617465 GTAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
23617492 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
23617519 GTAATTCTACCTTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
23617545 GATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
23617573 ATAATT
1 GTAATT
23617579 TTGTCAATCG
Statistics
Matches: 173, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 170 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:23617841 original size:54 final size:54
Alignment explanation
Indices: 23617671--23617859 Score: 261
Period size: 54 Copynumber: 3.5 Consensus size: 54
23617661 TACAAGTCGA
** * * * * *
23617671 GGGTATTTCAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
* * * *
23617725 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTCGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
23617779 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
* *
23617833 GGGTATTTTGGTGATTTGGTAAACTAA
1 GGGTATTTTGGTAATTTTGTAAACTAA
23617860 AGTATTCTAA
Statistics
Matches: 118, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTGGTAATTTTACAAACCAG
Found at i:23617842 original size:27 final size:27
Alignment explanation
Indices: 23617623--23617849 Score: 199
Period size: 27 Copynumber: 8.4 Consensus size: 27
23617613 TCGGGAGTAC
**
23617623 TTTGGTAATTTTACAAGTC-GAGGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTAT
*** **
23617650 TTCAATAATTTTACAAGTC-GAGGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTAT
** * *
23617677 TTCAGTAATTTTGCAAA-CTGAGGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTAT
* * *
23617704 TTCGGTAATTTCACAAATCAGGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
* *
23617731 TTTGGTAATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
* *
23617758 TTTCGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
** * *
23617785 TTTGGTAATTTTGTAAACTAAGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
23617812 TTTGGTAATTTTACAAACCAGGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
*
23617839 TTTGGTGATTT
1 TTTGGTAATTT
23617850 GGTAAACTAA
Statistics
Matches: 170, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 167 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACCAGGGGTAT
Found at i:23638908 original size:19 final size:20
Alignment explanation
Indices: 23638884--23638921 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23638874 GGTACCACCA
23638884 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
23638903 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
23638922 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:23639246 original size:93 final size:93
Alignment explanation
Indices: 23639139--23639309 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23639129 GCCCCTAAGT
* *
23639139 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23639204 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
23639232 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23639297 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23639310 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23639306 original size:46 final size:46
Alignment explanation
Indices: 23639134--23639306 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
23639124 AACCCGCCCC
* * *
23639134 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
23639180 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
23639228 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
23639273 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23639307 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:23639763 original size:30 final size:30
Alignment explanation
Indices: 23639729--23639788 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23639719 ATTTAATACG
23639729 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
23639759 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
23639789 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:23642146 original size:16 final size:16
Alignment explanation
Indices: 23642125--23642183 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
23642115 GTAGATTGGC
*
23642125 AAAAGCCGAAATGCCG
1 AAAAGCTGAAATGCCG
23642141 AAAAGCTGAAATGCC-
1 AAAAGCTGAAATGCCG
*
23642156 AAAATACTGAAATGCCG
1 AAAA-GCTGAAATGCCG
*
23642173 AAAAGCAGAAA
1 AAAAGCTGAAA
23642184 GTTTGGCTAC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 4 0.11
16 29 0.78
17 4 0.11
ACGTcount: A:0.51, C:0.19, G:0.20, T:0.10
Consensus pattern (16 bp):
AAAAGCTGAAATGCCG
Found at i:23642426 original size:28 final size:28
Alignment explanation
Indices: 23642395--23642527 Score: 126
Period size: 29 Copynumber: 4.7 Consensus size: 28
23642385 GTGAGCATGA
23642395 ATAT-AATGTGATTTGGGCCAGATGGGCC
1 ATATAAATGTGA-TTGGGCCAGATGGGCC
*
23642423 ATATAAATGAGATTGGGCCTA-ATGGGCC
1 ATATAAATGTGATTGGGCC-AGATGGGCC
* * **
23642451 ATATGAATGTGAATTAGGCTTGATGGGCC
1 ATATAAATGTG-ATTGGGCCAGATGGGCC
* * * *
23642480 ATATGAACGTGAATTGGGTCGGATGGGCC
1 ATATAAATGTG-ATTGGGCCAGATGGGCC
*
23642509 ATATAAATGAGATTGGGCC
1 ATATAAATGTGATTGGGCC
23642528 TAGAAGGTCA
Statistics
Matches: 86, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
28 34 0.40
29 52 0.60
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCAGATGGGCC
Found at i:23646256 original size:49 final size:49
Alignment explanation
Indices: 23646184--23646371 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
23646174 TGAGGTCACG
*
23646184 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * *
23646233 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCGCA
* * *
23646284 TGTGTAGTACTAAGTGTAAGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
23646333 TGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
23646372 GTTTCGACTA
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 74 0.65
50 2 0.02
51 38 0.33
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:23646352 original size:100 final size:100
Alignment explanation
Indices: 23646179--23646366 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
23646169 TATTGTGAGG
* *
23646179 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
23646244 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* * *
23646279 TCACGTGTGTAGTACTAAGTGTAAGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTGCT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
23646344 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
23646367 AGATAGTTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:23647289 original size:220 final size:220
Alignment explanation
Indices: 23646907--23647347 Score: 882
Period size: 220 Copynumber: 2.0 Consensus size: 220
23646897 TGGGAAATAA
23646907 ACTAAATGGTCGTTGAAATTCTGTACAGGGAGAAATTTGGTTCGTAGTGCACAGGGGTCAGAGTA
1 ACTAAATGGTCGTTGAAATTCTGTACAGGGAGAAATTTGGTTCGTAGTGCACAGGGGTCAGAGTA
23646972 GTCGTACTCTGAAACAGGGGAAACTTTAATGAATAAACTGTACTAATTGATTTACCAAAAATTAT
66 GTCGTACTCTGAAACAGGGGAAACTTTAATGAATAAACTGTACTAATTGATTTACCAAAAATTAT
23647037 GGAAATTTTATGGGAGAAATGTATATGAATCTAGTTTCAAGGAAAATTAACAAAACTAAATTTGG
131 GGAAATTTTATGGGAGAAATGTATATGAATCTAGTTTCAAGGAAAATTAACAAAACTAAATTTGG
23647102 AGTTTTGTATCTTCAGATATGATTG
196 AGTTTTGTATCTTCAGATATGATTG
23647127 ACTAAATGGTCGTTGAAATTCTGTACAGGGAGAAATTTGGTTCGTAGTGCACAGGGGTCAGAGTA
1 ACTAAATGGTCGTTGAAATTCTGTACAGGGAGAAATTTGGTTCGTAGTGCACAGGGGTCAGAGTA
23647192 GTCGTACTCTGAAACAGGGGAAACTTTAATGAATAAACTGTACTAATTGATTTACCAAAAATTAT
66 GTCGTACTCTGAAACAGGGGAAACTTTAATGAATAAACTGTACTAATTGATTTACCAAAAATTAT
23647257 GGAAATTTTATGGGAGAAATGTATATGAATCTAGTTTCAAGGAAAATTAACAAAACTAAATTTGG
131 GGAAATTTTATGGGAGAAATGTATATGAATCTAGTTTCAAGGAAAATTAACAAAACTAAATTTGG
23647322 AGTTTTGTATCTTCAGATATGATTG
196 AGTTTTGTATCTTCAGATATGATTG
23647347 A
1 A
23647348 TTTAGTAACT
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
220 221 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.32
Consensus pattern (220 bp):
ACTAAATGGTCGTTGAAATTCTGTACAGGGAGAAATTTGGTTCGTAGTGCACAGGGGTCAGAGTA
GTCGTACTCTGAAACAGGGGAAACTTTAATGAATAAACTGTACTAATTGATTTACCAAAAATTAT
GGAAATTTTATGGGAGAAATGTATATGAATCTAGTTTCAAGGAAAATTAACAAAACTAAATTTGG
AGTTTTGTATCTTCAGATATGATTG
Found at i:23649302 original size:22 final size:22
Alignment explanation
Indices: 23649271--23649326 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
23649261 ATAGGGCTCA
23649271 CACGCCCGTGTGGTCCAATGGC
1 CACGCCCGTGTGGTCCAATGGC
* *
23649293 CACGCTCGTGTGGTCTAATGGC
1 CACGCCCGTGTGGTCCAATGGC
*
23649315 CACGCCCTTGTG
1 CACGCCCGTGTG
23649327 ACCTGGGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.12, C:0.34, G:0.30, T:0.23
Consensus pattern (22 bp):
CACGCCCGTGTGGTCCAATGGC
Found at i:23650201 original size:19 final size:19
Alignment explanation
Indices: 23650177--23650214 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23650167 GTACTTAACT
23650177 TACCATTCATTCTATTTTA
1 TACCATTCATTCTATTTTA
23650196 TACCATTCATTCTATTTTA
1 TACCATTCATTCTATTTTA
23650215 AGGTAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (19 bp):
TACCATTCATTCTATTTTA
Found at i:23657777 original size:33 final size:33
Alignment explanation
Indices: 23657718--23657806 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
23657708 GCATCCATAG
* * * *
23657718 AGATAATCCACTGGGATAGTAAACACAAAACAG
1 AGATAGTCCATTGGGACAGTAAACACAAAACAA
* * *
23657751 AGTTAGTCCATTGGGACAGTAGACACAGAACAA
1 AGATAGTCCATTGGGACAGTAAACACAAAACAA
**
23657784 AGATAGTCTGTTGGGACAGTAAA
1 AGATAGTCCATTGGGACAGTAAA
23657807 TAAAGAATGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.19
Consensus pattern (33 bp):
AGATAGTCCATTGGGACAGTAAACACAAAACAA
Found at i:23660160 original size:3 final size:3
Alignment explanation
Indices: 23660152--23660182 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23660142 ATTCCACCAA
23660152 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23660183 TAAAGTATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23664836 original size:47 final size:47
Alignment explanation
Indices: 23664773--23664877 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
23664763 CCCTTCGGGA
* *
23664773 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
23664820 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
23664867 CTTATCACATA
1 CTTATCACATA
23664878 ATTAATACTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
Found at i:23678861 original size:15 final size:15
Alignment explanation
Indices: 23678828--23678868 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
23678818 TATTTATTAC
*
23678828 TTTATTCTATTTCTG
1 TTTATTCTATTTCTA
23678843 TTTATGTCTATTTC-A
1 TTTAT-TCTATTTCTA
23678858 TTTATT-TATTT
1 TTTATTCTATTT
23678869 ATCTCATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.21
14 1 0.04
15 10 0.42
16 8 0.33
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTATTCTATTTCTA
Found at i:23687119 original size:16 final size:16
Alignment explanation
Indices: 23687100--23687130 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23687090 CTTCTTCACT
23687100 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
23687116 TACTTACTTACTTAA
1 TACTCACTTACTTAA
23687131 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:23687136 original size:20 final size:20
Alignment explanation
Indices: 23687097--23687136 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
23687087 AAACTTCTTC
* *
23687097 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
23687117 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
23687137 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:23687512 original size:55 final size:53
Alignment explanation
Indices: 23687369--23687576 Score: 240
Period size: 55 Copynumber: 3.8 Consensus size: 53
23687359 ATCCTTTTGA
* *
23687369 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATAG
* * *
23687422 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTATAG
* * * * *
23687476 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGA-
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATAG
*
23687530 AACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 AA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
23687577 AAACCCTAAT
Statistics
Matches: 130, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 46 0.35
54 9 0.07
55 71 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATAG
Found at i:23687521 original size:108 final size:110
Alignment explanation
Indices: 23687369--23687569 Score: 327
Period size: 108 Copynumber: 1.8 Consensus size: 110
23687359 ATCCTTTTGA
* *
23687369 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
23687432 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
23687477 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
23687542 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
23687570 TATCCTTAAA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:23688201 original size:19 final size:19
Alignment explanation
Indices: 23688177--23688213 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
23688167 TCACATTTTA
23688177 CCATAAAACATCAAAATAG
1 CCATAAAACATCAAAATAG
23688196 CCATAAAACATCAAAATA
1 CCATAAAACATCAAAATA
23688214 AACACATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.22, G:0.03, T:0.16
Consensus pattern (19 bp):
CCATAAAACATCAAAATAG
Found at i:23689355 original size:40 final size:39
Alignment explanation
Indices: 23689296--23689377 Score: 137
Period size: 40 Copynumber: 2.1 Consensus size: 39
23689286 CTATGTTGTT
23689296 TATTTCTAATAAAACTAGACTAAATAAGGAATCTGTAAA
1 TATTTCTAATAAAACTAGACTAAATAAGGAATCTGTAAA
* *
23689335 TATTCTCTAATAAAACTAGACTCAATAAGGAATCTGTACA
1 TATT-TCTAATAAAACTAGACTAAATAAGGAATCTGTAAA
23689375 TAT
1 TAT
23689378 AAAGCATGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 4 0.10
40 36 0.90
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (39 bp):
TATTTCTAATAAAACTAGACTAAATAAGGAATCTGTAAA
Found at i:23690397 original size:93 final size:93
Alignment explanation
Indices: 23690285--23690455 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
23690275 GCCCATAAGT
* *
23690285 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23690350 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
23690378 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
23690443 CGAGTTCGGATGC
66 CGAGTTCGGATGC
23690456 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:23690452 original size:46 final size:46
Alignment explanation
Indices: 23690277--23690452 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
23690267 TGTAACCCGC
* * *
23690277 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
23690323 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
23690373 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
23690416 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
23690453 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:23692186 original size:22 final size:22
Alignment explanation
Indices: 23692161--23692231 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
23692151 GTAGTACATG
23692161 AATGTTGTAATTTGAGTTGTTA
1 AATGTTGTAATTTGAGTTGTTA
* * * *
23692183 AATGCTGCAAATT-ATTATGTTTA
1 AATGTTGTAATTTGAGT-TG-TTA
*
23692206 AATGTTGTAATTTGAGGTGTTA
1 AATGTTGTAATTTGAGTTGTTA
23692228 AATG
1 AATG
23692232 CTACCAACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
21 2 0.05
22 19 0.51
23 15 0.41
24 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (22 bp):
AATGTTGTAATTTGAGTTGTTA
Found at i:23692195 original size:23 final size:22
Alignment explanation
Indices: 23692169--23692233 Score: 53
Period size: 23 Copynumber: 2.9 Consensus size: 22
23692159 TGAATGTTGT
23692169 AATTTGAGTTGTTAAATGCTGCA
1 AATTTGAGTTGTTAAATGCTG-A
* * *
23692192 AA-TT-ATTATGTTTAAATGTTGT
1 AATTTGAGT-TG-TTAAATGCTGA
*
23692214 AATTTGAGGTGTTAAATGCT
1 AATTTGAGTTGTTAAATGCT
23692234 ACCAACTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
21 2 0.06
22 14 0.44
23 15 0.47
24 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (22 bp):
AATTTGAGTTGTTAAATGCTGA
Found at i:23692253 original size:45 final size:45
Alignment explanation
Indices: 23692161--23692257 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
23692151 GTAGTACATG
* * * *
23692161 AATGTTGTAATTTGAGTTGTTAAATGCTGCAAATTATTATGTTTA
1 AATGTTGTAATTTGAGGTGTTAAATGCTACAAACTATTATGTCTA
*
23692206 AATGTTGTAATTTGAGGTGTTAAATGCTACCAACTA-TAGTGTCTA
1 AATGTTGTAATTTGAGGTGTTAAATGCTACAAACTATTA-TGTCTA
23692251 AATGTTG
1 AATGTTG
23692258 CGCTTTATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 2 0.04
45 44 0.96
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (45 bp):
AATGTTGTAATTTGAGGTGTTAAATGCTACAAACTATTATGTCTA
Found at i:23694438 original size:40 final size:40
Alignment explanation
Indices: 23694376--23694673 Score: 476
Period size: 40 Copynumber: 7.5 Consensus size: 40
23694366 AAGCCAAGTA
* * * *
23694376 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
23694415 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23694455 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23694495 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23694535 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23694575 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
23694615 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
23694655 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
23694674 TTATCATCCA
Statistics
Matches: 246, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 13 0.05
40 233 0.95
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23699678 original size:20 final size:20
Alignment explanation
Indices: 23699653--23699707 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
23699643 CATTCAATGT
23699653 TAAGTGTGATCGTTAGTTTC
1 TAAGTGTGATCGTTAGTTTC
23699673 TAAGTGTGATCGTTAGTTTC
1 TAAGTGTGATCGTTAGTTTC
*
23699693 TAAGTGTGGTCGTTA
1 TAAGTGTGATCGTTA
23699708 TTTTAGGACA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.44
Consensus pattern (20 bp):
TAAGTGTGATCGTTAGTTTC
Found at i:23701065 original size:26 final size:26
Alignment explanation
Indices: 23701029--23701084 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
23701019 GTTCTAGCTT
* *
23701029 GATAATACTATTCGTGTGTTTGATGA
1 GATAATACTATCCGTATGTTTGATGA
23701055 GATAATACTATCCGTATGTTTGATGA
1 GATAATACTATCCGTATGTTTGATGA
23701081 GATA
1 GATA
23701085 TCCTGTACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
GATAATACTATCCGTATGTTTGATGA
Found at i:23703166 original size:121 final size:121
Alignment explanation
Indices: 23702952--23703194 Score: 441
Period size: 121 Copynumber: 2.0 Consensus size: 121
23702942 AGCCAAGCTG
* *
23702952 AAACTGGGGATCTGACTATGGAGACCATCAGAACTGTTAGGGAATTCCGGGATATTTTTTCAGAA
1 AAACTGAGGATCTGACTATGGAGACCATCAGAACTGTTAGGGAATTCCGGGATATTTTTCCAGAA
23703017 GAGCTTCCTAGATTACCTCCGAATCGGGAAGTTGAGTTTGGAATCGATTTGTTGCC
66 GAGCTTCCTAGATTACCTCCGAATCGGGAAGTTGAGTTTGGAATCGATTTGTTGCC
* * *
23703073 AAACTGAGGATTTGACTGTGGAGACCATCAGAACTGTTAGGGAATTCCGGGATGTTTTTCCAGAA
1 AAACTGAGGATCTGACTATGGAGACCATCAGAACTGTTAGGGAATTCCGGGATATTTTTCCAGAA
23703138 GAGCTTCCTAGATTACCTCCGAATCGGGAAGTTGAGTTTGGAATCGATTTGTTGCC
66 GAGCTTCCTAGATTACCTCCGAATCGGGAAGTTGAGTTTGGAATCGATTTGTTGCC
23703194 A
1 A
23703195 GGAACGGCTC
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (121 bp):
AAACTGAGGATCTGACTATGGAGACCATCAGAACTGTTAGGGAATTCCGGGATATTTTTCCAGAA
GAGCTTCCTAGATTACCTCCGAATCGGGAAGTTGAGTTTGGAATCGATTTGTTGCC
Found at i:23710773 original size:20 final size:20
Alignment explanation
Indices: 23710748--23710787 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23710738 GCATTCAATG
23710748 CTAAGTGTGATCGTTATTTT
1 CTAAGTGTGATCGTTATTTT
23710768 CTAAGTGTGATCGTTATTTT
1 CTAAGTGTGATCGTTATTTT
23710788 AGGATAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.50
Consensus pattern (20 bp):
CTAAGTGTGATCGTTATTTT
Found at i:23712993 original size:23 final size:22
Alignment explanation
Indices: 23712950--23713007 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
23712940 AAAAGGTATC
* *
23712950 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
23712971 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
23712994 TGCATATCATATCT
1 TACAAATCATATCT
23713008 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:23713021 original size:22 final size:19
Alignment explanation
Indices: 23712977--23713024 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
23712967 AGATTACAAA
23712977 ATCATATCTTCTAAGATTG
1 ATCATATCTTCTAAGATTG
23712996 --CATATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
23713015 TATCATATCT
1 -ATCATATCT
23713025 AAGATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (19 bp):
ATCATATCTTCTAAGATTG
Found at i:23713047 original size:17 final size:19
Alignment explanation
Indices: 23712986--23713039 Score: 94
Period size: 17 Copynumber: 2.9 Consensus size: 19
23712976 AATCATATCT
23712986 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
23713005 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
23713022 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
23713040 TGAAGATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 17 0.52
19 16 0.48
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23713195 original size:21 final size:20
Alignment explanation
Indices: 23713158--23713196 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23713148 TTAGACTCCG
**
23713158 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
23713178 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
23713197 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:23713444 original size:45 final size:45
Alignment explanation
Indices: 23713389--23713500 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
23713379 GGAAGGCGAT
* * *
23713389 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGCTATCTTCGATCTACTCCCCGTATAATACAGAGACACCAA
* *
23713434 ATCTGTTATCTTCGATCTACTCCCCGTATAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTACTCCCCGTATAATACAGAGACACCAA
* * *
23713479 ATCTACT-TCTTCAATCTGCTCC
1 ATCTGCTATCTTCGATCTACTCC
23713501 TCATATTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
44 13 0.22
45 45 0.78
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTCCCCGTATAATACAGAGACACCAA
Found at i:23713701 original size:78 final size:78
Alignment explanation
Indices: 23713587--23713811 Score: 396
Period size: 78 Copynumber: 2.9 Consensus size: 78
23713577 TCAGATCTGC
* * * *
23713587 TATGTCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATCTTGGATCTGCTTCAGTGA
1 TATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGA
23713652 AGGTCCAATTTGT
66 AGGTCCAATTTGT
23713665 TATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGA
1 TATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGA
23713730 AGGTCCAATTTGT
66 AGGTCCAATTTGT
* *
23713743 TATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATTTGCTTCAATGA
1 TATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGA
23713808 AGGT
66 AGGT
23713812 TAGATCTGCT
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 141 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (78 bp):
TATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAGTGA
AGGTCCAATTTGT
Found at i:23713825 original size:78 final size:78
Alignment explanation
Indices: 23713570--23713828 Score: 378
Period size: 78 Copynumber: 3.3 Consensus size: 78
23713560 ATGTAAACAC
* * * *
23713570 ATGAAGGT-CAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAAAGATGCCAAATCATC
1 ATGAAGGTCCA-ATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATC
23713634 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * *
23713648 GTGAAGGTCCAATTTGTTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCT
23713713 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
23713726 GTGAAGGTCCAATTTGTTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCT
*
23713791 TGGATTTGCTTCA
66 TGGATCTGCTTCA
*
23713804 ATGAAGGT-TAGATCTGCTATGTCTT
1 ATGAAGGTCCA-ATCTGCTATGTCTT
23713829 TGATGTGGTC
Statistics
Matches: 167, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 1 0.01
78 164 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCCAATCTGCTATGTCTTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:23715971 original size:29 final size:29
Alignment explanation
Indices: 23715936--23716009 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
23715926 GTTGTGAGAT
* *
23715936 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
23715965 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
23715994 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23716010 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:23731480 original size:17 final size:18
Alignment explanation
Indices: 23731448--23731481 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23731438 GATATGATAC
*
23731448 TAAAATTATTAAAAAAAT
1 TAAAATTATAAAAAAAAT
23731466 TAAAA-TATAAAAAAAA
1 TAAAATTATAAAAAAAA
23731482 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAAATTATAAAAAAAAT
Found at i:23731772 original size:22 final size:21
Alignment explanation
Indices: 23731737--23731812 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
23731727 AAAAGGTATC
* *
23731737 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
23731758 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
23731781 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
23731800 TGC-AATCATATCT
1 TACAAATCATATCT
23731813 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:23731829 original size:35 final size:37
Alignment explanation
Indices: 23731766--23731844 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
23731756 ATTACAAAAT
23731766 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
23731802 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
23731837 CATATCAT
1 CATATCAT
23731845 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:23731842 original size:14 final size:15
Alignment explanation
Indices: 23731787--23731842 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
23731777 AGATTGCATA
23731787 TCATATCTAAGATTG
1 TCATATCTAAGATTG
23731802 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
23731820 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
23731837 -CATATC
1 TCATATC
23731843 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:23731852 original size:17 final size:19
Alignment explanation
Indices: 23731773--23731844 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
23731763 AATCATATCT
23731773 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
23731792 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
23731810 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
23731827 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
23731845 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23735144 original size:44 final size:42
Alignment explanation
Indices: 23735085--23735233 Score: 137
Period size: 44 Copynumber: 3.5 Consensus size: 42
23735075 TGTGTTATCA
* *
23735085 TGTAACACCATGTTTGGGACATTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTTTGGGACATTGGCATCGA-TT-TGATTTACG
23735129 TGTAAGACCACGTTTGGGACATTGGCAGT-GTATTTGATTT-CG
1 TGTAAGACCACGTTTGGGACATTGGCA-TCG-ATTTGATTTACG
* * *
23735171 TGTAAGACC-C-TATCTGGGACAGTGGCATCAATATTTGA-TTACA
1 TGTAAGACCACGT-T-TGGGACATTGGCATC--GATTTGATTTACG
*
23735214 TGTAAGACCACGTCTGGGAC
1 TGTAAGACCACGTTTGGGAC
23735234 GTTTGCATTG
Statistics
Matches: 89, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 25 0.28
43 28 0.31
44 29 0.33
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTTTGGGACATTGGCATCGATTTGATTTACG
Found at i:23735230 original size:43 final size:43
Alignment explanation
Indices: 23735083--23735233 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 43
23735073 TATGTGTTAT
* * * * *
23735083 CATGTAACACCATGTTTGGGACATTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTCTGGGACATTGGCATC-AATATTTGA-TTA
* * * *
23735127 CGTGTAAGACCACGTTTGGGACATTGGCAGT--GTATTTGATTT
1 CATGTAAGACCACGTCTGGGACATTGGCA-TCAATATTTGATTA
* * *
23735169 CGTGTAAGACC-CTATCTGGGACAGTGGCATCAATATTTGATTA
1 CATGTAAGACCAC-GTCTGGGACATTGGCATCAATATTTGATTA
23735212 CATGTAAGACCACGTCTGGGAC
1 CATGTAAGACCACGTCTGGGAC
23735234 GTTTGCATTG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 27 0.31
43 31 0.35
44 27 0.31
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACATTGGCATCAATATTTGATTA
Found at i:23741038 original size:13 final size:13
Alignment explanation
Indices: 23741020--23741044 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23741010 AGACCATGTG
23741020 AAGGACACGGGTT
1 AAGGACACGGGTT
23741033 AAGGACACGGGT
1 AAGGACACGGGT
23741045 GTCTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.40, T:0.12
Consensus pattern (13 bp):
AAGGACACGGGTT
Found at i:23748587 original size:6 final size:6
Alignment explanation
Indices: 23748557--23748747 Score: 97
Period size: 6 Copynumber: 31.0 Consensus size: 6
23748547 AAGAAACATT
* * * *
23748557 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATGAAA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
23748604 GTGACAAA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGTTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG--A ATCAGA ATCAGA
* * * * * *
23748655 ATAAGT ATCAGGTA A-CAGA ATCAGA ATTAGA ACCAGA ATCAAA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
23748706 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGC ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
23748748 CTGTGAATGC
Statistics
Matches: 138, Mismatches: 30, Indels: 34
0.68 0.15 0.17
Matches are distributed among these distances:
5 10 0.07
6 109 0.79
7 12 0.09
8 7 0.05
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:23748648 original size:25 final size:25
Alignment explanation
Indices: 23748620--23748686 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
23748610 AAATCAAAAT
* * *
23748620 CAGAATCAGAATCAGAATTAGTTAA
1 CAGAATCAGAATAAGAATCAGGTAA
*
23748645 CAGAATCAGAATAAGTATCAGGTAA
1 CAGAATCAGAATAAGAATCAGGTAA
*
23748670 CAGAATCAGAATTAGAA
1 CAGAATCAGAATAAGAA
23748687 CCAGAATCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATAAGAATCAGGTAA
Found at i:23748652 original size:37 final size:37
Alignment explanation
Indices: 23748571--23748652 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
23748561 GAACTAGAAT
* * * *
23748571 CAAAATGAGAATCAGAATCAGAATGAAAATCAGGTGA
1 CAAAATCAAAATCAGAATCAGAATCAAAATCAGGTAA
* * *
23748608 CAAAATCAAAATCAGAATCAGAATCAGAATTAGTTAA
1 CAAAATCAAAATCAGAATCAGAATCAAAATCAGGTAA
*
23748645 CAGAATCA
1 CAAAATCA
23748653 GAATAAGTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.18
Consensus pattern (37 bp):
CAAAATCAAAATCAGAATCAGAATCAAAATCAGGTAA
Found at i:23748693 original size:18 final size:19
Alignment explanation
Indices: 23748626--23748718 Score: 91
Period size: 19 Copynumber: 4.6 Consensus size: 19
23748616 AAATCAGAAT
*
23748626 CAGAATCAGAATTAGTTAA
1 CAGAATCAGAATTAGGTAA
23748645 CAGAATCAGAATAAGTATCAGGTAA
1 CAGAATCAG---AA-T-T-AGGTAA
23748670 CAGAATCAGAATTA-G-AA
1 CAGAATCAGAATTAGGTAA
*
23748687 CCAGAATCAAAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
23748707 CAGAATCAGAAT
1 CAGAATCAGAAT
23748719 CAGTATCAGG
Statistics
Matches: 62, Mismatches: 3, Indels: 18
0.75 0.04 0.22
Matches are distributed among these distances:
17 2 0.03
18 14 0.23
19 22 0.35
20 3 0.05
21 1 0.02
22 4 0.06
23 1 0.02
24 1 0.02
25 14 0.23
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.20
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:23748717 original size:25 final size:25
Alignment explanation
Indices: 23748683--23748745 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
23748673 AATCAGAATT
* *
23748683 AGAACCAGAATCAAAATTAGGTAAC
1 AGAATCAGAATCAAAATCAGGTAAC
**
23748708 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAAAATCAGGTAAC
*
23748733 AGAATCAGCATCA
1 AGAATCAGAATCA
23748746 GACTGTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.48, C:0.17, G:0.17, T:0.17
Consensus pattern (25 bp):
AGAATCAGAATCAAAATCAGGTAAC
Found at i:23748740 original size:62 final size:62
Alignment explanation
Indices: 23748557--23748747 Score: 235
Period size: 62 Copynumber: 3.1 Consensus size: 62
23748547 AAGAAACATT
* * * * * *
23748557 ATCAGAACTAGAATCAAAATGA-G-AATCAGAATCAGAATGAA-AATCAGGTGACAAAATCAAA
1 ATCAGAACCAGAATCAAAATTAGGTAA-CAGAATCAGAAT-AAGTATCAGGTAACAGAATCAGA
* * *
23748618 ATCAGAATCAGAATCAGAATTAGTTAACAGAATCAGAATAAGTATCAGGTAACAGAATCAGA
1 ATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATAAGTATCAGGTAACAGAATCAGA
* * *
23748680 ATTAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGC
1 ATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATAAGTATCAGGTAACAGAATCAGA
23748742 ATCAGA
1 ATCAGA
23748748 CTGTGAATGC
Statistics
Matches: 111, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
61 20 0.18
62 89 0.80
63 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (62 bp):
ATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATAAGTATCAGGTAACAGAATCAGA
Found at i:23749030 original size:27 final size:26
Alignment explanation
Indices: 23748983--23749033 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
23748973 CGAGGCTGCC
*
23748983 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
23749009 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
23749034 TTACAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:23749307 original size:27 final size:27
Alignment explanation
Indices: 23749277--23749447 Score: 213
Period size: 27 Copynumber: 6.3 Consensus size: 27
23749267 AAGGGAAAAT
* * *
23749277 GGTAATTTTACCATACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
23749304 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
23749331 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
23749358 AGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
23749385 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
*
23749412 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
23749439 GGTAATTTT
1 GGTAATTTT
23749448 GTAAATCAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.02
27 125 0.95
28 4 0.03
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:23749353 original size:54 final size:54
Alignment explanation
Indices: 23749278--23749445 Score: 237
Period size: 54 Copynumber: 3.1 Consensus size: 54
23749268 AGGGAAAATG
* * * * * *
23749278 GTAATTTTACCATACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
* *
23749332 GTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
* * *
23749386 GTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
23749440 GTAATT
1 GTAATT
23749446 TTGTAAATCA
Statistics
Matches: 102, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCA
Found at i:23749434 original size:81 final size:80
Alignment explanation
Indices: 23749281--23749447 Score: 235
Period size: 81 Copynumber: 2.1 Consensus size: 80
23749271 GAAAATGGTA
*
23749281 ATTTTACCATACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTA
1 ATTTTACCATACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
*
23749346 CAGGGGTATTTCAGT
66 CAAGGGTATTTCAGT
* * * * * *
23749361 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCT
1 ATTT-TACCATACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
*
23749426 ACAAGGGTATTTCGGT
65 ACAAGGGTATTTCAGT
23749442 AATTTT
1 -ATTTT
23749448 GTAAATCAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
80 4 0.05
81 68 0.89
82 4 0.05
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.37
Consensus pattern (80 bp):
ATTTTACCATACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTA
CAAGGGTATTTCAGT
Found at i:23749779 original size:27 final size:27
Alignment explanation
Indices: 23749481--23749770 Score: 307
Period size: 27 Copynumber: 10.7 Consensus size: 27
23749471 TTCTGTAAAT
* *
23749481 TAGGGGTACTTTGGTAATTTTAC-AAG
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *** **
23749507 TCGAGGGTATTTCAATAATTTTAC-AGG
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* ** *
23749534 TCAAGGGTATTTCAGTAATTTCACAAA-
1 T-AGGGGTATTTTGGTAATTTTACAAAC
*
23749561 TCAGGGGTATTTTGGTAATTTCACAAAC
1 T-AGGGGTATTTTGGTAATTTTACAAAC
23749589 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
23749616 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
23749643 CAGGGGTATTTTCGTAATTTTATAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
23749670 CAAGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
23749697 CAAGGGTATTTTGGTGATTTTATAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
23749724 TAAGGGTATTTTAGTAATTTTAAAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
23749751 TAGGGGTATTTTGGTAATTT
1 TAGGGGTATTTTGGTAATTT
23749771 GGTAAACTAA
Statistics
Matches: 231, Mismatches: 29, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
26 2 0.01
27 227 0.98
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:23751089 original size:6 final size:6
Alignment explanation
Indices: 23751059--23751313 Score: 175
Period size: 6 Copynumber: 41.3 Consensus size: 6
23751049 AAGAAACATT
* * * *
23751059 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAAA ATCAAA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
23751106 GTGACAGA ATCAAA ATCAAA ATCAAA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
23751157 ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
23751208 A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
* *
23751256 ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA AT-AGA ATCAGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
23751306 ATCAGA AT
1 ATCAGA AT
23751314 GTGAATGCAA
Statistics
Matches: 200, Mismatches: 26, Indels: 46
0.74 0.10 0.17
Matches are distributed among these distances:
5 15 0.08
6 156 0.78
7 18 0.09
8 11 0.05
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:23751132 original size:37 final size:37
Alignment explanation
Indices: 23751082--23751160 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
23751072 TCAAAATGAG
* *
23751082 AATCAGAATCAAAATCAAAATCAGGTGACAGAATCAA
1 AATCAAAATCAAAATCAAAATCAGGTAACAGAATCAA
* * *
23751119 AATCAAAATCAAAATCAGAATTAGGTAACAGAATCAG
1 AATCAAAATCAAAATCAAAATCAGGTAACAGAATCAA
23751156 AATCA
1 AATCA
23751161 GTATCAGGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.15, G:0.13, T:0.18
Consensus pattern (37 bp):
AATCAAAATCAAAATCAAAATCAGGTAACAGAATCAA
Found at i:23751153 original size:25 final size:25
Alignment explanation
Indices: 23751125--23751313 Score: 169
Period size: 25 Copynumber: 7.6 Consensus size: 25
23751115 TCAAAATCAA
* *
23751125 AATCAAAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
23751150 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
23751175 AATCAGAATCAGAACCA-G-AATCAG
1 AATCAGAATCAGAATCAGGTAA-CAG
*
23751199 AATTAGGTAA-CAGAATCA-G-AATCAG
1 AATCA-G-AATCAGAATCAGGTAA-CAG
*
23751224 TATCAGGTAA-CAGAATCA-G-AATCAG
1 AATCA-G-AATCAGAATCAGGTAA-CAG
* *
23751249 AACCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
* *
23751274 AATCAGAATCAGTATCAGGTAATAG
1 AATCAGAATCAGAATCAGGTAACAG
23751299 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
23751314 GTGAATGCAA
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.03
24 16 0.11
25 117 0.83
26 4 0.03
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:23751160 original size:62 final size:62
Alignment explanation
Indices: 23751125--23751285 Score: 91
Period size: 62 Copynumber: 2.6 Consensus size: 62
23751115 TCAAAATCAA
* * * * * *
23751125 AATCAAAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATCAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCA-G-AATCAGAATTAGGTAA-CAG
* * * * * *
23751187 AACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATCAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCA-G-AATCAGAATTAGGTAA-CAG
* * *
23751249 AACCAGAATCAGAATTAGGTAACAGAATCAGAATCAG
1 AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAG
23751286 TATCAGGTAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 97 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.18
Consensus pattern (62 bp):
AATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAG
Found at i:23751269 original size:37 final size:37
Alignment explanation
Indices: 23751209--23751285 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
23751199 AATTAGGTAA
* *
23751209 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
*
23751246 CAGAACCAGAATCAGAATTAGGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
23751283 CAG
1 CAG
23751286 TATCAGGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:23751286 original size:62 final size:62
Alignment explanation
Indices: 23751148--23751310 Score: 86
Period size: 62 Copynumber: 2.6 Consensus size: 62
23751138 ATTAGGTAAC
* * * * * *
23751148 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCA-G-AATCAGAATTAGGTAA-C
1 AGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
* * * * * *
23751210 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCA-G-AATCAGAATTAGGTAA-C
1 AGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
* * * *
23751272 AGAATCAGAATCAGTATCAGGTAATAGAATCAGAATCAG
1 AGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAG
23751311 AATGTGAATG
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 100 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (62 bp):
AGAACCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATC
Found at i:23751455 original size:21 final size:21
Alignment explanation
Indices: 23751431--23751479 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
23751421 AGCGAGGCTG
23751431 CCAGATATTGTGACGAAGTCA
1 CCAGATATTGTGACGAAGTCA
23751452 CCAGATATTGTGACGAAGTCA
1 CCAGATATTGTGACGAAGTCA
23751473 CCAGATA
1 CCAGATA
23751480 CAGATATTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (21 bp):
CCAGATATTGTGACGAAGTCA
Found at i:23751501 original size:27 final size:26
Alignment explanation
Indices: 23751453--23751512 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
23751443 ACGAAGTCAC
*
23751453 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
23751480 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
23751506 CAAATAT
1 CAGATAT
23751513 ATATACATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:23751889 original size:27 final size:27
Alignment explanation
Indices: 23751859--23752107 Score: 238
Period size: 27 Copynumber: 9.2 Consensus size: 27
23751849 GGGGTAAAAT
* *
23751859 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
23751886 GGTAATTCTACCCTA-AAGGGGTATTTT
1 GGTAATTTTACCCTACAA-GGGTATTTC
* * * *
23751913 AGTAATTCTACCCCACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
23751940 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
23751967 GTTAATTCTACCCTATAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
23751994 AGTAATTCTACCCTACTAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
23752021 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
23752048 AGT-ATTTCTACCCTGCAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
23752075 GGT-ATTTCTACCCTACAAGAGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
23752102 GGTAAT
1 GGTAAT
23752108 ATTGTAAATT
Statistics
Matches: 185, Mismatches: 31, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
26 8 0.04
27 171 0.92
28 6 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:23752069 original size:54 final size:54
Alignment explanation
Indices: 23751863--23752107 Score: 296
Period size: 54 Copynumber: 4.6 Consensus size: 54
23751853 TAAAATGGTA
* * * **
23751863 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTA-AAGGGGTATTTTAGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAA-GGGTATTTCGGT
* * * * *
23751916 AATTCTACCCCACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGTT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGT
* * * *
23751970 AATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCTACTAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGT
* * *
23752024 ATTTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTGCAAGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGT
* *
23752078 ATTTCTACCCTACAAGAGTATTTCGGTAAT
1 ATTTCTACCCTACAAGGGTATTTCAGTAAT
23752108 ATTGTAAATT
Statistics
Matches: 164, Mismatches: 26, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
53 3 0.02
54 159 0.97
55 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGT
Found at i:23752102 original size:81 final size:79
Alignment explanation
Indices: 23751863--23752105 Score: 308
Period size: 81 Copynumber: 3.0 Consensus size: 79
23751853 TAAAATGGTA
* * *
23751863 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTAAAGGGGTATTTTAGTAATTCTACCCC
1 ATTTCTACCCTACAAGGGTATTTC-GTAATTCTACCCTAAA-GGGTATTTTAGTAATTCTACCCT
* *
23751927 ACAGGGGTATTTCAGT
64 ACAAGGGTATTTCGGT
23751943 ATTTCTACCCTACAAGGGTATTTCGTTAATTCTACCCTATAAGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCG-TAATTCTACCCTA-AAGGGTATTTTAGTAATTCTACCCT
*
23752008 ACTAGGGTATTTCGGT
64 ACAAGGGTATTTCGGT
* * * ** *
23752024 ATTTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTGCAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTC-GTAATTCTACCCT-AAAGGGTATTTTAGTAATTCTACCCT
*
23752089 ACAAGAGTATTTCGGT
64 ACAAGGGTATTTCGGT
23752105 A
1 A
23752106 ATATTGTAAA
Statistics
Matches: 144, Mismatches: 14, Indels: 9
0.86 0.08 0.05
Matches are distributed among these distances:
80 5 0.03
81 136 0.94
82 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (79 bp):
ATTTCTACCCTACAAGGGTATTTCGTAATTCTACCCTAAAGGGTATTTTAGTAATTCTACCCTAC
AAGGGTATTTCGGT
Found at i:23752177 original size:27 final size:27
Alignment explanation
Indices: 23752147--23752406 Score: 231
Period size: 27 Copynumber: 9.6 Consensus size: 27
23752137 TGTAAATTAG
* **
23752147 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
*** ***
23752174 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACCGA
** * **
23752201 GGGTATTTCAGTAATTTCACAAA-TTA
1 GGGTATTTTGGTAATTTTACAAACCGA
* *
23752227 GGGGTATTTTGGTAATTTCACAAA-CTA
1 -GGGTATTTTGGTAATTTTACAAACCGA
23752254 GGGGTATTTTGGTAATTTTACAAACCTG-
1 -GGGTATTTTGGTAATTTTACAAACC-GA
* *
23752282 GGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTTGGTAATTTTACAAACCGA
*
23752309 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGA
* * * *
23752336 CGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCGA
*
23752363 GGGTATTTTAGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTACAAACCGA
*
23752389 GGGGTATTTTCGTAATTT
1 -GGGTATTTTGGTAATTT
23752407 GGTAAACTAA
Statistics
Matches: 200, Mismatches: 28, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
26 3 0.01
27 196 0.98
28 1 0.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCGA
Found at i:23752413 original size:27 final size:27
Alignment explanation
Indices: 23752201--23752406 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
23752191 TACAGGTCGA
** * **
23752201 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
23752228 GGGTATTTTGGTAATTTCACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23752255 GGGTATTTTGGTAATTTTACAAACCTG
1 GGGTATTTTGGTAATTTTACAAACCAG
**
23752282 GGGTATTTTGGTAATTTTACAAACTGG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23752309 GGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * * *
23752336 CGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23752363 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23752390 GGGTATTTTCGTAATTT
1 GGGTATTTTGGTAATTT
23752407 GGTAAACTAA
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 159 1.00
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:23752598 original size:17 final size:17
Alignment explanation
Indices: 23752578--23752620 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
23752568 AACTTATCCA
23752578 ATTGGGCCCGTAGGCCC
1 ATTGGGCCCGTAGGCCC
23752595 ATTGGGCCCGTAGGCCC
1 ATTGGGCCCGTAGGCCC
23752612 ATTGGGCCC
1 ATTGGGCCC
23752621 ATATGGCCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.12, C:0.35, G:0.35, T:0.19
Consensus pattern (17 bp):
ATTGGGCCCGTAGGCCC
Found at i:23765276 original size:35 final size:35
Alignment explanation
Indices: 23765230--23765299 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
23765220 GGAAAAGAGA
23765230 AAGTTTCTTATGTGGCGAGATTCCAGCCTCCAGTT
1 AAGTTTCTTATGTGGCGAGATTCCAGCCTCCAGTT
23765265 AAGTTTCTTATGTGGCGAGATTCCAGCCTCCAGTT
1 AAGTTTCTTATGTGGCGAGATTCCAGCCTCCAGTT
23765300 GTCTCGTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (35 bp):
AAGTTTCTTATGTGGCGAGATTCCAGCCTCCAGTT
Found at i:23765965 original size:10 final size:9
Alignment explanation
Indices: 23765950--23766005 Score: 58
Period size: 10 Copynumber: 5.7 Consensus size: 9
23765940 ATTCTAAAAG
23765950 ATAAATACAA
1 ATAAATA-AA
23765960 ATAAATAAA
1 ATAAATAAA
*
23765969 GATAATTAAAA
1 -ATAAAT-AAA
23765980 ATAAATAAA
1 ATAAATAAA
23765989 GATAAATGAAA
1 -ATAAAT-AAA
23766000 ATAAAT
1 ATAAAT
23766006 CCTAAAATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.12
10 29 0.73
11 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:23765969 original size:20 final size:19
Alignment explanation
Indices: 23765946--23766005 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
23765936 TGAAATTCTA
23765946 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
23765966 AAAGATAATTAAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
23765986 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
23766006 CCTAAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:23765984 original size:30 final size:31
Alignment explanation
Indices: 23765944--23766003 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
23765934 AATGAAATTC
23765944 TAAAAGATAAATACAA-ATAAAT-AAAGATAAT
1 TAAAAGATAAATA-AAGATAAATGAAA-ATAAT
23765975 TAAAA-ATAAATAAAGATAAATGAAAATAA
1 TAAAAGATAAATAAAGATAAATGAAAATAA
23766004 ATCCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 17 0.63
31 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (31 bp):
TAAAAGATAAATAAAGATAAATGAAAATAAT
Found at i:23766643 original size:9 final size:8
Alignment explanation
Indices: 23766626--23766659 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
23766616 TAATACCTCC
23766626 TTCTTTTT
1 TTCTTTTT
23766634 TTCTTTTT
1 TTCTTTTT
23766642 TTC-TTTT
1 TTCTTTTT
23766649 TTCATTTTT
1 TTC-TTTTT
23766658 TT
1 TT
23766660 AATTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 7 0.29
8 11 0.46
9 6 0.25
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (8 bp):
TTCTTTTT
Found at i:23766647 original size:16 final size:16
Alignment explanation
Indices: 23766630--23766659 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23766620 ACCTCCTTCT
23766630 TTTTTTC-TTTTTTTC
1 TTTTTTCATTTTTTTC
23766645 TTTTTTCATTTTTTT
1 TTTTTTCATTTTTTT
23766660 AATTTTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTCATTTTTTTC
Found at i:23766841 original size:96 final size:97
Alignment explanation
Indices: 23766671--23766857 Score: 288
Period size: 96 Copynumber: 1.9 Consensus size: 97
23766661 ATTTTATTTA
* *
23766671 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
*
23766736 CCCTAGTTACTCAGCCCAACACATTCCTAATT
66 CCCCAGTTACTCAGCCCAACACATTCCTAATT
*
23766768 TTTATTTTT-CTTAAGAACAT-TTCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAACATATT-GAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCC
* * *
23766831 ACCCCGGTTACTCAGTCTAACACATTC
65 ACCCCAGTTACTCAGCCCAACACATTC
23766858 TTAAAAATTA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 2 0.02
96 71 0.87
97 9 0.11
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
CCCCAGTTACTCAGCCCAACACATTCCTAATT
Found at i:23767677 original size:35 final size:30
Alignment explanation
Indices: 23767607--23767681 Score: 78
Period size: 30 Copynumber: 2.3 Consensus size: 30
23767597 CAACATCCAA
*
23767607 AAAAATAAAATAAAATAAAATATTAAATAT
1 AAAAATAAAATAAAATAAAAAATTAAATAT
* *
23767637 TAAAATAAAGTAAAATTAAATTAAATTAAATTAAT
1 AAAAATAAAATAAAA-TAAA--AAATTAAA-T-AT
23767672 AAAAATAAAA
1 AAAAATAAAA
23767682 AATTGGGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 13 0.37
31 4 0.11
33 7 0.20
34 1 0.03
35 10 0.29
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (30 bp):
AAAAATAAAATAAAATAAAAAATTAAATAT
Found at i:23771392 original size:10 final size:10
Alignment explanation
Indices: 23771373--23771432 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
23771363 TGAAATTCTA
23771373 AAAGATAAAT
1 AAAGATAAAT
23771383 ACAA-ATAAAT
1 A-AAGATAAAT
*
23771393 AAAGATAATT
1 AAAGATAAAT
23771403 AAAGATAAAT
1 AAAGATAAAT
23771413 AAAGATAAAT
1 AAAGATAAAT
23771423 GAAA-ATAAAT
1 -AAAGATAAAT
23771433 CCTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:23777665 original size:46 final size:46
Alignment explanation
Indices: 23777485--23777693 Score: 160
Period size: 46 Copynumber: 4.5 Consensus size: 46
23777475 TGTGTGAGCT
* * * * **
23777485 AGTGTAAGATATGTCTGGGACATGCATCGACCAC-ATTATGGGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGTAAGCC
* * * * *
23777531 AGTGTAAGACCATGTCTGGGACATGGCATTGGC-ATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGTA-AGCC
* * *
23777579 AGTGTAAGACATGTCCGGGACATGTATCGGCCT-CGGGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGTAAGCC
*
23777625 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCC
* *
23777669 AGTGTAAGACCATGTTTGAGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
23777694 GAATCAGCAT
Statistics
Matches: 130, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.08
45 15 0.12
46 55 0.42
47 29 0.22
48 19 0.15
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAAGCC
Found at i:23783818 original size:2 final size:2
Alignment explanation
Indices: 23783811--23783913 Score: 206
Period size: 2 Copynumber: 51.5 Consensus size: 2
23783801 TTAATTGAAA
23783811 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23783853 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
23783895 AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG A
23783914 AGGATATGGC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 101 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23787443 original size:25 final size:25
Alignment explanation
Indices: 23787413--23787463 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
23787403 ACCCTTATTC
23787413 CCCCAAATCCCAAACTTAATTTTTT
1 CCCCAAATCCCAAACTTAATTTTTT
* *
23787438 CCCCAATTCCCTAACTTAATTTTTT
1 CCCCAAATCCCAAACTTAATTTTTT
23787463 C
1 C
23787464 TTTTGTCCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.39
Consensus pattern (25 bp):
CCCCAAATCCCAAACTTAATTTTTT
Found at i:23791913 original size:20 final size:19
Alignment explanation
Indices: 23791872--23791918 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23791862 TTTACTATAC
*
23791872 TTAAATTTGATATTAATTT
1 TTAAATTTGATATTAATAT
*
23791891 TTAAATTTGATCTTTAATAT
1 TTAAATTTGAT-ATTAATAT
*
23791911 TTATATTT
1 TTAAATTT
23791919 TAATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTAAATTTGATATTAATAT
Found at i:23795197 original size:42 final size:42
Alignment explanation
Indices: 23795076--23795232 Score: 117
Period size: 42 Copynumber: 3.7 Consensus size: 42
23795066 ATGTGATATC
* * * *
23795076 GTGTAAGACCACGTCT-AGGACGTTGACATC-AATTTGGTATTTAC
1 GTGTAAGACCATGTCTGA-GACGTTGGCATCGTATTT-G-ATTT-T
23795120 GTGTAAGACCATGTCTGAGACGTTGGCATCGTATTTGATTTT
1 GTGTAAGACCATGTCTGAGACGTTGGCATCGTATTTGATTTT
* * **
23795162 GTGTAAGACCCTGT-TGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGAGAC-GTTGGCATCG-TATTTGATTTT
* * *
23795204 ATGTAAGACCACGTCT-AGGACATTGGCAT
1 GTGTAAGACCATGTCTGA-GACGTTGGCAT
23795233 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 13, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 13 0.14
42 34 0.37
43 14 0.15
44 27 0.29
45 5 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGAGACGTTGGCATCGTATTTGATTTT
Found at i:23800312 original size:16 final size:18
Alignment explanation
Indices: 23800293--23800325 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
23800283 CATACGAATT
23800293 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
23800309 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
23800326 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Done.