Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 169 of 356
Found at i:54694757 original size:40 final size:40
Alignment explanation
Indices: 54694703--54694927 Score: 342
Period size: 40 Copynumber: 5.6 Consensus size: 40
54694693 CAATCGAGGA
* * * *
54694703 TTATATCCAGGTTAAGTCCCGAAGGCATTCATGCTGGTTA
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
54694743 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
54694783 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
*
54694823 TTATTTCCGGGTTAAGTCCCGAAGGCATTCATGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
* * *
54694863 CTATTTTCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTG
1 TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
** * *
54694903 TTACATCCGGGCTAAATCCCGAAGG
1 TTATTTCCGGGTTAAGTCCCGAAGG
54694928 TAATTGGGTT
Statistics
Matches: 170, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 170 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (40 bp):
TTATTTCCGGGTTAAGTCCCGAAGGCATTCGTGCTGGTTG
Found at i:54696567 original size:14 final size:15
Alignment explanation
Indices: 54696548--54696580 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
54696538 TACAAGAAAC
54696548 AAAAATAAAATA-AT
1 AAAAATAAAATATAT
*
54696562 AAAAATCAAATATAT
1 AAAAATAAAATATAT
54696577 AAAA
1 AAAA
54696581 TAATAATGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAATAAAATATAT
Found at i:54699606 original size:29 final size:29
Alignment explanation
Indices: 54699519--54699611 Score: 132
Period size: 29 Copynumber: 3.2 Consensus size: 29
54699509 GTATCAACGC
*
54699519 CCATCGAATATGAAAAGAGATGGTGAAGA
1 CCATCGAATATGAAAAGAGATGGTGACGA
* *
54699548 CCATGGAATATGAAAAGGGATGGTGACGA
1 CCATCGAATATGAAAAGAGATGGTGACGA
* **
54699577 CCATTGAATATGAAAAGAGATGGTTTCGA
1 CCATCGAATATGAAAAGAGATGGTGACGA
54699606 CCATCG
1 CCATCG
54699612 TTTAGTATAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (29 bp):
CCATCGAATATGAAAAGAGATGGTGACGA
Found at i:54704013 original size:12 final size:12
Alignment explanation
Indices: 54703998--54704027 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
54703988 AATTATTCAC
54703998 ATATTTATATAT
1 ATATTTATATAT
54704010 ATATTTATATAT
1 ATATTTATATAT
54704022 ATATTT
1 ATATTT
54704028 GTTGTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATTTATATAT
Found at i:54706667 original size:40 final size:40
Alignment explanation
Indices: 54706610--54706834 Score: 294
Period size: 40 Copynumber: 5.7 Consensus size: 40
54706600 CTAACGGGGT
* * * *
54706610 TAAGTCCCGAAGACATTTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
54706650 TAAGTCCCGAACGCATTTGTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
*
54706690 TAAGTCCCGAAGGCATTTCTGCGAGTTACTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
54706730 TAAGTCCCGAAGGCATTTGTGCGAGTTACTACA-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
* * * *
54706770 TAAGTCCCAAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
* * *
54706810 TAAGACCCGACGGC-CTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGT
54706835 GGTTATATCC
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 9 0.05
40 154 0.93
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGC
Found at i:54708693 original size:130 final size:131
Alignment explanation
Indices: 54708541--54708784 Score: 355
Period size: 131 Copynumber: 1.9 Consensus size: 131
54708531 AAAATTCTCT
* **
54708541 AAAACGAAGGCAATACTCGATGTTTGGAAATTC-GAGAATCGTACCCTATCGTGCTGGGTTGCAA
1 AAAACAAAGGCAATACAAGATGTTTGGAAATTCGGAGAATCGTACCCTATCGTGCTGGGTTGCAA
* *
54708605 TTTCCCATTTGTTCAAAACAATCAAATATTCCTTTGGAATTTCGCTCATATCTTTAAAAACCTTT
66 TTTCCCATTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACTCATATCTTTAAAAACCTTT
54708670 C
131 C
* * * * *
54708671 AAAACAAAGGTAATACAAGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGA
1 AAAACAAAGGCAATACAAGATGTTTGGAAATTCGGAGAATCGTACCCTATCGTGCTGGGTTGCAA
** * *
54708736 TTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCAT
66 TTTCCCATTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACTCAT
54708785 GATTCTCTAA
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
130 28 0.28
131 71 0.72
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (131 bp):
AAAACAAAGGCAATACAAGATGTTTGGAAATTCGGAGAATCGTACCCTATCGTGCTGGGTTGCAA
TTTCCCATTTGTTCAAAACAATCAAATATTCCTTTAGAATTTCACTCATATCTTTAAAAACCTTT
C
Found at i:54716383 original size:21 final size:23
Alignment explanation
Indices: 54716329--54716383 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
54716319 ATGATGCTAG
*
54716329 ATGTTAGAATTGGCTTGGTTATA
1 ATGTTTGAATTGGCTTGGTTATA
54716352 ATGTTTGAATTGGC-TGG-TAT-
1 ATGTTTGAATTGGCTTGGTTATA
54716372 ATGTTTGCAATT
1 ATGTTTG-AATT
54716384 ATTGGTATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.23
21 7 0.23
22 3 0.10
23 13 0.43
ACGTcount: A:0.24, C:0.05, G:0.25, T:0.45
Consensus pattern (23 bp):
ATGTTTGAATTGGCTTGGTTATA
Found at i:54719732 original size:206 final size:207
Alignment explanation
Indices: 54719096--54720330 Score: 1499
Period size: 206 Copynumber: 6.0 Consensus size: 207
54719086 GAATCCTTTC
* * * *
54719096 GAATTGAAAACATAGTTGTTTTGGATACTAAAGTATCTAAGTCTAAGATTCAGTCAGTGCC-GAT
1 GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCTGGT
* * *
54719160 TATTTGTGAATTTCTTAATGCATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGG
66 TGTTTGTGAATTTCCTAATGTATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGG
* ** * * * * * *
54719225 AGTTCTCTATAAACCTTGTTCCGAGGACAACAGTGATATCCATAACACCTTATAGACTAGCTTCT
131 AGTTCTCTATAGACCTTGTTCCGAGGACAACACCGATATCCATAGCACCCTACAGAATGGCTCCT
54719290 ACCGAATTGAAA
196 ACCGAATTGAAA
** *
54719302 GAATTGAAAGCACGGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTTAGTCAGTG-CTGGT
1 GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCTGGT
* *
54719366 TGTTTGTGAATTTCCTAATGTATTT-CTGAAAAATTA-TCTGGTTTACCACCAGTTAGAGAAGTG
66 TGTTTGTGAATTTCCTAATGTATTTCCAGAAGAATTACT-TGGTTTACCACCAGTTAGAGAAGTG
* * * * *
54719429 AAGTTTTCTATAGACCTTGTTCCGGGGACAACACCGATATCTATAGCAACCTACAGAATGGCTCC
130 GAGTTCTCTATAGACCTTGTTCCGAGGACAACACCGATATCCATAGCACCCTACAGAATGGCTCC
*
54719494 TCCCGAATTGAAA
195 TACCGAATTGAAA
* * * * *
54719507 TAATTGAAAGCACAGTTGTTTTGGATACTAAAGTATCTGAGCCGAAGATTCAGTCATTGTC-GGT
1 GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCTGGT
* * * * * *
54719571 TGTTTGTAAATTTCCTGATGTATTTCCGGAAGAATTACTTGATTTGCCACTAGTTAGAGAAGTGG
66 TGTTTGTGAATTTCCTAATGTATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGG
* * *
54719636 AGTTCTCTATAGACCTTGTTTCGAGGACAACATCGATA-CTTATAGCACCCTACAGAATGGAC-C
131 AGTTCTCTATAGACCTTGTTCCGAGGACAACACCGATATC-CATAGCACCCTACAGAATGG-CTC
*
54719699 CTACAGAATTGAAA
194 CTACCGAATTGAAA
* * * *
54719713 GAATTGGAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCAAAAATTCAGTCAGTGCC-AGT
1 GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCTGGT
* * * * * *
54719777 TGTTTGTGAATTTCTTGATGTATTTCCGGAAGAATTACCTGGTTTGCCACCAGTTAGAGAAGTAG
66 TGTTTGTGAATTTCCTAATGTATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGG
* * * *
54719842 AGTTCTCTATAGACCTTATTCCGGGGACAACACCGATATCCATAGCACCGTACAAAATGGCT-CT
131 AGTTCTCTATAGACCTTGTTCCGAGGACAACACCGATATCCATAGCACCCTACAGAATGGCTCCT
* *
54719906 ----TA-T--CA
196 ACCGAATTGAAA
* * * * * *
54719911 G-ATTGAAAGAATAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGTTTCAGTCA--ACACAGA
1 GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGC-CTGG
* * * *
54719973 TTGTTTGTGAATTTCCTAATGTACTTCCATAAGAATTAGC-TAGTTTACCAGCAGTTAGAGAAGT
65 TTGTTTGTGAATTTCCTAATGTATTTCCAGAAGAATTA-CTTGGTTTACCACCAGTTAGAGAAGT
* * *
54720037 GGAGTTCTCTATAGACCTTGTTCCGGGGACAACACCGATATCCATAGCACCCTATAGAATGGTTC
129 GGAGTTCTCTATAGACCTTGTTCCGAGGACAACACCGATATCCATAGCACCCTACAGAATGGCTC
*
54720102 CTACTGAATTGAAA
194 CTACCGAATTGAAA
* *
54720116 GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGT-ACTGGT
1 GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCTGGT
* * * * * *
54720180 TGTTTGTGAATTTCCTAATGTATTTTCAGAAAAATT-TTCTGGCTTACTACCAGTTAGAGAAGTA
66 TGTTTGTGAATTTCCTAATGTATTTCCAGAAGAATTACT-TGGTTTACCACCAGTTAGAGAAGTG
* * *
54720244 GAGTTCTCTATAGACCTTGTT-CTAGGGACAACACCGATATCTATAGCAACCTACAGAATGGCTC
130 GAGTTCTCTATAGACCTTGTTCCGA-GGACAACACCGATATCCATAGCACCCTACAGAATGGCTC
54720308 CTACCGAATTGAAA
194 CTACCGAATTGAAA
54720322 GAATTGAAA
1 GAATTGAAA
54720331 ACACAATTGC
Statistics
Matches: 883, Mismatches: 120, Indels: 52
0.84 0.11 0.05
Matches are distributed among these distances:
195 1 0.00
196 1 0.00
197 160 0.18
198 5 0.01
200 1 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 1 0.00
205 185 0.21
206 523 0.59
207 3 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (207 bp):
GAATTGAAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTCAGTCAGTGCCTGGT
TGTTTGTGAATTTCCTAATGTATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGG
AGTTCTCTATAGACCTTGTTCCGAGGACAACACCGATATCCATAGCACCCTACAGAATGGCTCCT
ACCGAATTGAAA
Found at i:54720057 original size:403 final size:401
Alignment explanation
Indices: 54718916--54720325 Score: 1689
Period size: 403 Copynumber: 3.5 Consensus size: 401
54718906 ATCTTGCATA
* * *
54718916 TGTTTTGGATACTAAATTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAACTTCCTG
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* * * * * * *
54718981 ATGTATTTCTGGAAGAATTACCTAGTTTACCACCGGCTAGAAAAGTGGAGTTCTCTATAGACCTT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
* * * **
54719046 GTTCTGAGGACAACACTGATATCCATAGC-ACCTACAAAATGAATCCTT-TC-GAATTGAAA-AC
131 GTTCCGGGGACAACACCGATATCCATAGCAACCTACAAAATGGCTCCTTATCAGAATTGAAAGA-
* * *
54719107 ATAGTTGTTTTGGATACTAAAGTATCTAAGTCT-AAGATTCAGTCAGTGC-CGATTATTTGTGAA
195 ATAGTTGTTTTGGATACTAAAGTATCTGAGT-TGAAGATTCAGTCA--ACACGATTGTTTGTGAA
* * *
54719170 TTTCTTAATGCATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCTAT
257 TTTCCTAATGTATTTCCAGAAGAATTAC-TAGTTTACCA-CAGTTAGAGAAGTGGAGTTCTCTAT
* * * * * * *
54719235 AAACCTTGTTCCGAGGACAACAGT-GATATCCATAACACCTTATAGACTAGCTTCTACCGAATTG
320 AGACCTTGTTCCGAGGACAACA-TCGATATCCATAGCACCCTATAGAATGGC-CCTACAGAATTG
**
54719299 AAAGAATTGAAAGCACGGT
383 AAAGAATTGAAAGCATAGT
* * **
54719318 TGTTTTGGATACTAAAGTATCTGAGTCGAAGATTTAGTCAGTGCTGGTTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* * *
54719383 ATGTATTT-CTGAAAAATTATCTGGTTTACCACCAGTTAGAGAAGT-GAAGTTTTCTATAGACCT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAG-AGTTCTCTATAGACCT
* * * * *
54719446 TGTTCCGGGGACAACACCGATATCTATAGCAACCTACAGAATGGCTCCTCCCGAATTGAAATAAT
130 TGTTCCGGGGACAACACCGATATCCATAGCAACCTACAAAATGGCTCCT----TA-T--CAGAAT
* * ** *** *
54719511 TGAAAGCACAGTTGTTTTGGATACTAAAGTATCTGAGCCGAAGATTCAGTCATTGTCGGTTGTTT
188 TGAAAGAATAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGATTCAGTCA-ACACGATTGTTT
* * * * *
54719576 GTAAATTTCCTGATGTATTTCCGGAAGAATTACTTGATTTGCCACTAGTTAGAGAAGTGGAGTTC
252 GTGAATTTCCTAATGTATTTCCAGAAGAATTACTAG-TTTACCAC-AGTTAGAGAAGTGGAGTTC
* * *
54719641 TCTATAGACCTTGTTTCGAGGACAACATCGATA-CTTATAGCACCCTACAGAATGGACCCTACAG
315 TCTATAGACCTTGTTCCGAGGACAACATCGATATC-CATAGCACCCTATAGAATGG-CCCTACAG
*
54719705 AATTGAAAGAATTGGAAGCATAGT
378 AATTGAAAGAATTGAAAGCATAGT
* * * * *
54719729 TGTTTTGGATACTAAAGTATCTGAGTCAAAAATTCAGTCAGTGCCAGTTGTTTGTGAATTTCTTG
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* *
54719794 ATGTATTTCCGGAAGAATTACCTGGTTTGCCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
*
54719859 ATTCCGGGGACAACACCGATATCCATAGC-ACCGTACAAAATGGCT-CTTATCAG-ATTGAAAGA
131 GTTCCGGGGACAACACCGATATCCATAGCAACC-TACAAAATGGCTCCTTATCAGAATTGAAAGA
*
54719921 ATAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGTTTCAGTCAACACAGATTGTTTGTGAATT
195 ATAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGATTCAGTCAACAC-GATTGTTTGTGAATT
* *
54719986 TCCTAATGTACTTCCATAAGAATTAGCTAGTTTACCAGCAGTTAGAGAAGTGGAGTTCTCTATAG
259 TCCTAATGTATTTCCAGAAGAATTA-CTAGTTTACCA-CAGTTAGAGAAGTGGAGTTCTCTATAG
* * * *
54720051 ACCTTGTTCCGGGGACAACACCGATATCCATAGCACCCTATAGAATGGTTCCTACTGAATTGAAA
322 ACCTTGTTCCGAGGACAACATCGATATCCATAGCACCCTATAGAATGG-CCCTACAGAATTGAAA
54720116 GAATTGAAAGCATAGT
386 GAATTGAAAGCATAGT
* **
54720132 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTACTGGTTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
* * ** * *
54720197 ATGTATTTTCAGAAAAATTTTCTGGCTTACTACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
66 ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
** * * *
54720262 GTTCTAGGGACAACACCGATATCTATAGCAACCTACAGAATGGCTCC-TA-CCGAATTGAAAGAA
131 GTTCCGGGGACAACACCGATATCCATAGCAACCTACAAAATGGCTCCTTATCAGAATTGAAAGAA
54720325 T
196 T
54720326 TGAAAACACA
Statistics
Matches: 859, Mismatches: 120, Indels: 57
0.83 0.12 0.06
Matches are distributed among these distances:
400 1 0.00
401 70 0.08
402 84 0.10
403 348 0.41
404 10 0.01
406 1 0.00
407 1 0.00
408 1 0.00
410 6 0.01
411 248 0.29
412 88 0.10
413 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (401 bp):
TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAATTTCCTA
ATGTATTTCCGGAAAAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAGACCTT
GTTCCGGGGACAACACCGATATCCATAGCAACCTACAAAATGGCTCCTTATCAGAATTGAAAGAA
TAGTTGTTTTGGATACTAAAGTATCTGAGTTGAAGATTCAGTCAACACGATTGTTTGTGAATTTC
CTAATGTATTTCCAGAAGAATTACTAGTTTACCACAGTTAGAGAAGTGGAGTTCTCTATAGACCT
TGTTCCGAGGACAACATCGATATCCATAGCACCCTATAGAATGGCCCTACAGAATTGAAAGAATT
GAAAGCATAGT
Found at i:54720183 original size:609 final size:603
Alignment explanation
Indices: 54718916--54720329 Score: 1741
Period size: 609 Copynumber: 2.3 Consensus size: 603
54718906 ATCTTGCATA
* * *
54718916 TGTTTTGGATACTAAATTATCTAAGTCGAAGATTCAGTCAGTGCCAGTTGTTTGTGAACTTCCTG
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGT--CGGTTGTTTGTGAATTTCCTG
* * * * *
54718981 ATGTATTTCTGGAAGAATTACCT-AGTTTACCACCGGCTAGAAAAGTGGAGTTCTCTATAGACCT
64 ATGTATTTCCGGAAGAATTACTTGA-TTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCT
* * * * *
54719045 TGTTCTGAGGACAACACTGATATCCATAGCACCTACAAAATGAATCCTTTCGAATT----GAA--
128 TGTTC-GAGGACAACAC-GATATCTATAGCACCTACAGAATGGA-CCCTACGAATTGAAAGAATT
* *
54719104 -AACATAGTTGTTTTGGATACTAAAGTATCTAAGTCTAAGATTCAGTCAGTGCCGATTATTTGTG
190 GAACATAGTTGTTTTGGATACTAAAGTATCTAAGTCAAAAATTCAGTCAGTGCCGATTATTTGTG
* *
54719168 AATTTCTTAATGCATTTCCAGAAGAATTACTTGGTTTACCACCAGTTAGAGAAGTGGAGTTCTCT
255 AATTTCTTAATGCATTTCCAGAAGAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCT
* ** * * * * *
54719233 ATAAACCTTGTTCCGAGGACAACAGTGATATCCATAACACCTTATAGACTAGCTTCTACCGAATT
320 ATAAACCTTATTCCGAGGACAACACCGATATCCATAACACCGTACAAAATAGCTTCTACAGAATT
*** *
54719298 GAAAGAATTGAAAGCACGGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTTAGTCAGTGCT
385 GAAAGAATT---A--AC-GTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTTAGTCAACACA
* * * *
54719363 GGTTGTTTGTGAATTTCCTAATGTATTTCTGAAAAATTATCTGGTTTACCACCAGTTAGAGAAGT
444 GATTGTTTGTGAATTTCCTAATGTATTCCTGAAAAATTAGCTAGTTTACCACCAGTTAGAGAAGT
* *
54719428 GAAGTTTTCTATAGACCTTGTTCCGGGGACAACACCGATATCTATAGCAACCTACAGAATGGCTC
509 GAAGTTCTCTATAGACCTTGTTCCGGGGACAACACCGATATCCATAGCAACCTACAGAATGGCTC
* *
54719493 CTCCCGAATTGAAATAATTGAAAGCACAGT
574 CTACCGAATTGAAAGAATTGAAAGCACAGT
* * *
54719523 TGTTTTGGATACTAAAGTATCTGAGCCGAAGATTCAGTCATTGTCGGTTGTTTGTAAATTTCCTG
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCA--GTCGGTTGTTTGTGAATTTCCTG
* *
54719588 ATGTATTTCCGGAAGAATTACTTGATTTGCCACTAGTTAGAGAAGTGGAGTTCTCTATAGACCTT
64 ATGTATTTCCGGAAGAATTACTTGATTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCTT
54719653 GTTTCGAGGACAACATCGATA-CTTATAGCACCCTACAGAATGGACCCTACAGAATTGAAAGAAT
129 G-TTCGAGGACAACA-CGATATC-TATAGCA-CCTACAGAATGGACCCTAC-GAATTGAAAGAAT
* *
54719717 TGGAAGCATAGTTGTTTTGGATACTAAAGTATCTGAGTCAAAAATTCAGTCAGTGCC-AGTTGTT
189 T-GAA-CATAGTTGTTTTGGATACTAAAGTATCTAAGTCAAAAATTCAGTCAGTGCCGA-TTATT
* * * *
54719781 TGTGAATTTCTTGATGTATTTCCGGAAGAATTACCTGGTTTGCCACCAGTTAGAGAAGTAGAGTT
251 TGTGAATTTCTTAATGCATTTCCAGAAGAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTT
* * * *
54719846 CTCTATAGACCTTATTCCGGGGACAACACCGATATCCATAGCACCGTACAAAATGGC-TCTTATC
316 CTCTATAAACCTTATTCCGAGGACAACACCGATATCCATAACACCGTACAAAATAGCTTC-TA-C
*
54719910 AG-ATTGAAAGAA-T-A-GTTGTTTTGGATACTAAAGTATCTGAGTTGAAG-TTTCAGTCAACAC
379 AGAATTGAAAGAATTAACGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTT-AGTCAACAC
* *
54719970 AGATTGTTTGTGAATTTCCTAATGTACTTCCAT-AAGAATTAGCTAGTTTACCAGCAGTTAGAGA
443 AGATTGTTTGTGAATTTCCTAATGTA-TTCC-TGAAAAATTAGCTAGTTTACCACCAGTTAGAGA
* * *
54720034 AGTGGAGTTCTCTATAGACCTTGTTCCGGGGACAACACCGATATCCATAGCACCCTATAGAATGG
506 AGTGAAGTTCTCTATAGACCTTGTTCCGGGGACAACACCGATATCCATAGCAACCTACAGAATGG
* * *
54720099 TTCCTACTGAATTGAAAGAATTGAAAGCATAGT
571 CTCCTACCGAATTGAAAGAATTGAAAGCACAGT
*
54720132 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTACTGGTTGTTTGTGAATTTCCTA
1 TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGT-C-GGTTGTTTGTGAATTTCCTG
* * * * ** * *
54720197 ATGTATTTTCAGAAAAATT-TTCTGGCTTACTACCAGTTAGAGAAGTAGAGTTCTCTATAGACCT
64 ATGTATTTCCGGAAGAATTACT-TGATTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCT
*
54720261 TGTTCTAGGGACAACACCGATATCTATAGCAACCTACAGAATGG-CTCCTACCGAATTGAAAGAA
128 TGTTCGA-GGACAACA-CGATATCTATAGC-ACCTACAGAATGGAC-CCTA-CGAATTGAAAGAA
54720325 TTGAA
188 TTGAA
54720330 AACACAATTG
Statistics
Matches: 699, Mismatches: 77, Indels: 61
0.84 0.09 0.07
Matches are distributed among these distances:
606 1 0.00
607 141 0.20
608 93 0.13
609 279 0.40
610 5 0.01
612 3 0.00
616 6 0.01
617 169 0.24
618 2 0.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (603 bp):
TGTTTTGGATACTAAAGTATCTAAGTCGAAGATTCAGTCAGTCGGTTGTTTGTGAATTTCCTGAT
GTATTTCCGGAAGAATTACTTGATTTACCACCAGTTAGAGAAGTGGAGTTCTCTATAGACCTTGT
TCGAGGACAACACGATATCTATAGCACCTACAGAATGGACCCTACGAATTGAAAGAATTGAACAT
AGTTGTTTTGGATACTAAAGTATCTAAGTCAAAAATTCAGTCAGTGCCGATTATTTGTGAATTTC
TTAATGCATTTCCAGAAGAATTACCTGGTTTACCACCAGTTAGAGAAGTAGAGTTCTCTATAAAC
CTTATTCCGAGGACAACACCGATATCCATAACACCGTACAAAATAGCTTCTACAGAATTGAAAGA
ATTAACGTTGTTTTGGATACTAAAGTATCTGAGTCGAAGATTTAGTCAACACAGATTGTTTGTGA
ATTTCCTAATGTATTCCTGAAAAATTAGCTAGTTTACCACCAGTTAGAGAAGTGAAGTTCTCTAT
AGACCTTGTTCCGGGGACAACACCGATATCCATAGCAACCTACAGAATGGCTCCTACCGAATTGA
AAGAATTGAAAGCACAGT
Found at i:54728411 original size:4 final size:4
Alignment explanation
Indices: 54728389--54728433 Score: 63
Period size: 4 Copynumber: 10.8 Consensus size: 4
54728379 TTTAATAATA
*
54728389 AAAT AAAG AAAT GAAAT AAAT AAAT AAAT AAAT AAAT GAAAT AAA
1 AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
54728434 AGAAATGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 29 0.78
5 8 0.22
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:54728432 original size:9 final size:9
Alignment explanation
Indices: 54728397--54728439 Score: 63
Period size: 8 Copynumber: 5.0 Consensus size: 9
54728387 TAAAATAAAG
54728397 AAATGAAAT
1 AAATGAAAT
54728406 AAAT-AAAT
1 AAATGAAAT
54728414 AAAT-AAAT
1 AAATGAAAT
54728422 AAATGAAAT
1 AAATGAAAT
*
54728431 AAAAGAAAT
1 AAATGAAAT
54728440 GAAAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 16 0.50
9 16 0.50
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (9 bp):
AAATGAAAT
Found at i:54745467 original size:19 final size:19
Alignment explanation
Indices: 54745443--54745482 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
54745433 GCACTACTCG
54745443 AAATTGCCTCAACAATTCT
1 AAATTGCCTCAACAATTCT
54745462 AAATTGCCTCAACAATTCT
1 AAATTGCCTCAACAATTCT
54745481 AA
1 AA
54745483 TATTATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATTGCCTCAACAATTCT
Found at i:54748430 original size:11 final size:11
Alignment explanation
Indices: 54748414--54748444 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
54748404 AGGTATGAGT
54748414 AGGTATGGGAA
1 AGGTATGGGAA
*
54748425 AGGTATGGGCA
1 AGGTATGGGAA
54748436 AGGTATGGG
1 AGGTATGGG
54748445 GTATATTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:54752539 original size:18 final size:18
Alignment explanation
Indices: 54752516--54752554 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
54752506 CCCAACTACT
54752516 GTATACGTGAACAGTACC
1 GTATACGTGAACAGTACC
*
54752534 GTATACGTGAATAGTACC
1 GTATACGTGAACAGTACC
54752552 GTA
1 GTA
54752555 AACGGTCGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAACAGTACC
Found at i:54754322 original size:3 final size:3
Alignment explanation
Indices: 54754314--54754338 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
54754304 TGTATTATAG
54754314 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
54754339 CATTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:54777833 original size:27 final size:27
Alignment explanation
Indices: 54777793--54777846 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
54777783 TGTCATGTGA
* *
54777793 AATTGAATGGTAAATTATTGTTACATG
1 AATTGAATGGTAAATTACTATTACATG
*
54777820 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGTAAATTACTATTACATG
54777847 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGGTAAATTACTATTACATG
Found at i:54782555 original size:37 final size:37
Alignment explanation
Indices: 54782500--54782609 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
54782490 CGAAGTGTTG
* * * *
54782500 CCCGGACATAATCTCCACACGAAGTTATCGGGTCTTA
1 CCCGGACAAAATCCCCACACGTAGTCATCGGGTCTTA
*
54782537 CCCGGACAAAATCCCCACACGTAGTCATTGGGTCTTA
1 CCCGGACAAAATCCCCACACGTAGTCATCGGGTCTTA
54782574 CCCGGACAAAATCCCCACACGTAGTCATCGGGTCTT
1 CCCGGACAAAATCCCCACACGTAGTCATCGGGTCTT
54782610 TAGAGCTTGG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
CCCGGACAAAATCCCCACACGTAGTCATCGGGTCTTA
Found at i:54782806 original size:47 final size:47
Alignment explanation
Indices: 54782728--54783240 Score: 823
Period size: 47 Copynumber: 10.7 Consensus size: 47
54782718 CCCTTCGGGA
* * * * * *
54782728 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54782774 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54782822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54782869 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54782918 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54782967 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54783014 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTATGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54783063 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54783110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54783157 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54783206 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
54783241 AGAATCCTAA
Statistics
Matches: 444, Mismatches: 14, Indels: 17
0.93 0.03 0.04
Matches are distributed among these distances:
46 3 0.01
47 251 0.57
48 2 0.00
49 188 0.42
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54782925 original size:96 final size:96
Alignment explanation
Indices: 54782728--54783240 Score: 826
Period size: 96 Copynumber: 5.4 Consensus size: 96
54782718 CCCTTCGGGA
* * * * * * *
54782728 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCAC--ATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATATA
54782790 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
54782822 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54782887 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
54782918 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
54782981 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
54783014 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTATGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
54783077 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
54783110 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
54783175 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
54783206 CTTATCACATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
54783241 AGAATCCTAA
Statistics
Matches: 398, Mismatches: 11, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
94 91 0.23
95 3 0.01
96 259 0.65
98 45 0.11
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54787310 original size:47 final size:44
Alignment explanation
Indices: 54787163--54787372 Score: 172
Period size: 47 Copynumber: 4.5 Consensus size: 44
54787153 TGATGCCATA
* * **
54787163 TCCCAGACATGGTCTTACACTGGCTCTCATATACACGTGCTGATGCATG
1 TCCCAGACAT-GTCTTACACTGG--CTCATCT-C-TGTGCCAATGCATG
* * * * * *
54787212 TCCCAGACATGTCTTACACTAGCACAACTCT-TAGTCGATGCGTG
1 TCCCAGACATGTCTTACACTGGCTCATCTCTGT-GCCAATGCATG
*
54787256 TCCCAGACACGTCTTACACTGGCT-ATCTCTGTCGAGGCCAATGCATG
1 TCCCAGACATGTCTTACACTGGCTCATCTCTGT----GCCAATGCATG
* *
54787303 TCCCAGACATGTCTTACACTGGCACTCATCTCTGTGTCGATGCCATG
1 TCCCAGACATGTCTTACACTGG--CTCATCTCTGTGCCAATG-CATG
54787350 TCCCAGACATGTCTTACACTGGC
1 TCCCAGACATGTCTTACACTGGC
54787373 GCACAAATCA
Statistics
Matches: 133, Mismatches: 19, Indels: 22
0.76 0.11 0.13
Matches are distributed among these distances:
43 6 0.05
44 30 0.23
45 2 0.02
46 9 0.07
47 55 0.41
48 11 0.08
49 12 0.09
50 8 0.06
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.28
Consensus pattern (44 bp):
TCCCAGACATGTCTTACACTGGCTCATCTCTGTGCCAATGCATG
Found at i:54787388 original size:91 final size:88
Alignment explanation
Indices: 54787154--54787390 Score: 217
Period size: 91 Copynumber: 2.6 Consensus size: 88
54787144 ATATATTGCT
* * **
54787154 GATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATATACACGTGCTGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGC-CACATAT-CAC---CCAATGCATGTCCCAGA
54787219 CATGTCTTACACTAGCACAACTCTTAGTC
60 CATGTCTTACACTAGCACAACTCTTAGTC
* * * * * *
54787248 GATG-CGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCAATGCATGTCCCAGACA
1 GATGCCATGTCCCAGACATGTCTTACACTGGCCA-C-ATATC-A-CCCAATGCATGTCCCAGACA
* *
54787312 TGTCTTACACTGGCACTCATCTCTGT-GTC
62 TGTCTTACACTAGCA--CAACTCT-TAGTC
*
54787341 GATGCCATGTCCCAGACATGTCTTACACTGGCGCACAAATCACCCAATGC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-CACATATCACCCAATGC
54787391 CTTGGCATGA
Statistics
Matches: 115, Mismatches: 19, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
91 38 0.33
92 16 0.14
93 29 0.25
94 31 0.27
95 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (88 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCCACATATCACCCAATGCATGTCCCAGACATGTC
TTACACTAGCACAACTCTTAGTC
Found at i:54792760 original size:18 final size:18
Alignment explanation
Indices: 54792708--54792761 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
54792698 AGATTAAGAG
*
54792708 AGAAAAATAAATAAATAG
1 AGAAAAATAAATAAATAA
* **
54792726 TG-AAAGGAAATAAATAA
1 AGAAAAATAAATAAATAA
*
54792743 AGAAAAATAAATTAATAA
1 AGAAAAATAAATAAATAA
54792761 A
1 A
54792762 TCAATCAAGA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.19
Consensus pattern (18 bp):
AGAAAAATAAATAAATAA
Found at i:54799744 original size:46 final size:46
Alignment explanation
Indices: 54799612--54799924 Score: 195
Period size: 46 Copynumber: 6.7 Consensus size: 46
54799602 ATATGTGTGT
* * ** *
54799612 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGAGC
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATAAGAGC
* * * ** *
54799658 CAGTGTAAGACATGTCTAGGACATGCATCAGCATTGAGATAAGAGA
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATAAGAGC
* *
54799704 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGC
1 TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATA-A-GAGC
* * * * * *
54799752 TAGTGTAAGACTTGTCTAGGACATGGCATCAG-CT--TGTTATGTG-
1 TAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCAAGATAAGAGC
* * * * *
54799795 TCAGTGTAAGACCTGTCTCGGACATGGCATCGACACTGATAGATGAGAGC
1 T-AGTGTAAGACATGTCTAGGACAT-GCATCGGC-CTCA-AGATAAGAGC
* * * * * * *
54799845 CAGTGTAAGACCTATCTGGGACATGGCATCAGCCTCATTATATAAAAG-
1 TAGTGTAAGACATGTCTAGGACAT-GCATCGGCCTCA--AGATAAGAGC
*
54799893 TCAGTGTAAGACCTGTCTAGGACATGGCATCG
1 T-AGTGTAAGACATGTCTAGGACAT-GCATCG
54799925 CCTTGATGTG
Statistics
Matches: 206, Mismatches: 49, Indels: 21
0.75 0.18 0.08
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
46 75 0.36
47 1 0.00
48 29 0.14
49 72 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTAGGACATGCATCGGCCTCAAGATAAGAGC
Found at i:54799801 original size:92 final size:90
Alignment explanation
Indices: 54799607--54799877 Score: 251
Period size: 92 Copynumber: 2.9 Consensus size: 90
54799597 GGGTGATATG
* *
54799607 TGTGTTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATCATGAGAGCCAGTGTAAGACATG
1 TGTG-TAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAAAGCCAGTGTAAGACATG
54799672 TCTAGGACATGCATCAGCATTGAGATA
65 TCTAGGACATGCATCAGCATT-AGATA
* * * * * * *
54799699 AGAGATAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACT
1 TGTG-TAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACAT-GA-AAGCCAGTGTAAGACA
*
54799764 TGTCTAGGACATGGCATCAGC-TT-GTTA
63 TGTCTAGGACAT-GCATCAGCATTAGATA
* * * * *
54799791 TGTGTCAGTGTAAGACCTGTCTCGGACATGGCATC-GACACTGATAGATGAGAGCCAGTGTAAGA
1 TGTGT-AGTGTAAGACATGTCTGGGACAT-GCATCGGCCAC--A-ACATGAAAGCCAGTGTAAGA
* * *
54799855 CCTATCTGGGACATGGCATCAGC
61 CATGTCTAGGACAT-GCATCAGC
54799878 CTCATTATAT
Statistics
Matches: 148, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
91 1 0.01
92 68 0.46
93 38 0.26
94 29 0.20
95 12 0.08
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (90 bp):
TGTGTAGTGTAAGACATGTCTGGGACATGCATCGGCCACAACATGAAAGCCAGTGTAAGACATGT
CTAGGACATGCATCAGCATTAGATA
Found at i:54799856 original size:49 final size:48
Alignment explanation
Indices: 54799613--54799966 Score: 186
Period size: 46 Copynumber: 7.5 Consensus size: 48
54799603 TATGTGTGTT
* * ** * *
54799613 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCACAT-CATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTGATAGATGAAAGCC
* * * **
54799659 AGTGTAAGACATGTCTAGGACAT-GCATC-AGC--ATTGAGAT-AAGAGAT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTGA-T-AGATGAA-AGCC
* * * * *
54799705 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCA-AGATATACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTGATAGAT-GA-AAGCC
* * * * * *
54799753 AGTGTAAGACTTGTCTAGGACATGGCATC-AGCTTG-T-TATG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTGATAGATGAAAGCC
* *
54799797 AGTGTAAGACCTGTCTCGGACATGGCATCGACACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTGATAGATGAAAGCC
* * * * *
54799846 AGTGTAAGACCTATCTGGGACATGGCATC-AGCCTCATTATATAAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGA-CCTGA-TAGATGAAAGCC
* ** *
54799895 AGTGTAAGACCTGTCTAGGACATGGCATCG-CCTTGAT-G-TGTTAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACC-TGATAGATGAAAGCC
54799941 AGTGTAAGACCATGTCTGGGACATGG
1 AGTGTAAGACC-TGTCTGGGACATGG
54799967 TATCAGCATC
Statistics
Matches: 240, Mismatches: 44, Indels: 47
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.00
44 30 0.12
45 5 0.02
46 77 0.32
47 17 0.07
48 34 0.14
49 76 0.32
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTGATAGATGAAAGCC
Found at i:54799904 original size:142 final size:139
Alignment explanation
Indices: 54799658--54799974 Score: 358
Period size: 142 Copynumber: 2.2 Consensus size: 139
54799648 TCATGAGAGC
* * * *
54799658 CAGTGTAAGACATGTCTAGGACAT-GCATCAGCATTGAGATAAGAGATAGTGTAAGACATGTCTG
1 CAGTGTAAGACCTGTCTAGGACATGGCATCAGCACTGAGATAAGAGACAGTGTAAGACATATCTG
* * *
54799722 GGACATGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACTTGTCTAGGACATGGCATCAG-CT
66 GGACATGCATCAGCCTCAAGATATAAAAGCTAGTGTAAGACCTGTCTAGGACATGGCATC-GCCT
54799786 TGTTATGTG-T-
130 TG--ATGTGTTA
* * * *
54799796 CAGTGTAAGACCTGTCTCGGACATGGCATC-GACACTGATAGATGAGAGCCAGTGTAAGACCTAT
1 CAGTGTAAGACCTGTCTAGGACATGGCATCAG-CACTG--AGATAAGAGACAGTGTAAGACATAT
**
54799860 CTGGGACATGGCATCAGCCTCATTATATAAAAG-TCAGTGTAAGACCTGTCTAGGACATGGCATC
63 CTGGGACAT-GCATCAGCCTCAAGATATAAAAGCT-AGTGTAAGACCTGTCTAGGACATGGCATC
54799924 GCCTTGATGTGTTA
126 GCCTTGATGTGTTA
* *
54799938 GCTAGTGTAAGACCATGTCTGGGACATGGTATCAGCA
1 -C-AGTGTAAGACC-TGTCTAGGACATGGCATCAGCA
54799975 TCTTATCCCA
Statistics
Matches: 151, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
138 23 0.15
139 9 0.06
140 5 0.03
141 32 0.21
142 51 0.34
143 1 0.01
144 11 0.07
145 18 0.12
146 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (139 bp):
CAGTGTAAGACCTGTCTAGGACATGGCATCAGCACTGAGATAAGAGACAGTGTAAGACATATCTG
GGACATGCATCAGCCTCAAGATATAAAAGCTAGTGTAAGACCTGTCTAGGACATGGCATCGCCTT
GATGTGTTA
Found at i:54804360 original size:50 final size:50
Alignment explanation
Indices: 54804285--54804414 Score: 197
Period size: 50 Copynumber: 2.6 Consensus size: 50
54804275 AAGGGTGGGA
*
54804285 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAG
1 TGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCAG
* * * *
54804335 TGCCGATACGATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGG
1 TGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCAG
* *
54804385 TGTCAATGCCATGTTCCAGACATGGTCTTA
1 TGCCGATGCCATGTTCCAGACATGGTCTTA
54804415 ACCGATGCCA
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
TGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCAG
Found at i:54804468 original size:79 final size:79
Alignment explanation
Indices: 54804345--54804493 Score: 289
Period size: 79 Copynumber: 1.9 Consensus size: 79
54804335 TGCCGATACG
*
54804345 ATGTTCCAGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCAGACATGG
1 ATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGTCAATGCCATGTTCCAGACATGG
54804410 TCTTAACCGATGCC
66 TCTTAACCGATGCC
54804424 ATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGTCAATGCCATGTTCCAGACATGG
1 ATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGTCAATGCCATGTTCCAGACATGG
54804489 TCTTA
66 TCTTA
54804494 CACCAGCTCT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 69 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (79 bp):
ATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGTCAATGCCATGTTCCAGACATGG
TCTTAACCGATGCC
Found at i:54804523 original size:129 final size:129
Alignment explanation
Indices: 54804287--54804543 Score: 415
Period size: 129 Copynumber: 2.0 Consensus size: 129
54804277 GGGTGGGATG
* *
54804287 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCGATACGATGTTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATACCATGTTCC
** * *
54804352 AGACATGGTCTTACACTGGCTCTCATATATCGGTGTCAATGCCATGTTCCAGACATGGTCTTAA
66 AGACATGGTCTTACACCAGCTCTCATATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTAA
* * * *
54804416 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTGTCAATGCCATGTTCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATACCATGTTCC
*
54804481 AGACATGGTCTTACACCAGCTCTCATATATCGGTGCCGATGCCATGTCCCAGACATGGTCTTA
66 AGACATGGTCTTACACCAGCTCTCATATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTA
54804544 CACTAGCTCT
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
129 117 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.29
Consensus pattern (129 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCAGTGCCAATACCATGTTCC
AGACATGGTCTTACACCAGCTCTCATATATCGGTGCCAATGCCATGTCCCAGACATGGTCTTAA
Found at i:54804585 original size:48 final size:50
Alignment explanation
Indices: 54804416--54804606 Score: 287
Period size: 50 Copynumber: 3.9 Consensus size: 50
54804406 ATGGTCTTAA
54804416 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
* * *
54804466 TCAATGCCATGTTCCAGACATGGTCTTACACCAGCTCTCATATATCGGTG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
* *
54804516 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TAT-GATG
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
* * * *
54804564 CCGATGCCATGTTCCAAACATGGTCTTGCACTGGCTCACATAT
1 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATAT
54804607 TACCCTAGTA
Statistics
Matches: 127, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
48 39 0.31
49 4 0.03
50 84 0.66
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (50 bp):
CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATATATCGGTG
Found at i:54815350 original size:20 final size:20
Alignment explanation
Indices: 54815312--54815351 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
54815302 CTATGTATTT
*
54815312 CATAAAATTCAAAATTTTTC
1 CATAAAATTCAAAACTTTTC
* *
54815332 CATAAAATTTACAACTTTTC
1 CATAAAATTCAAAACTTTTC
54815352 AATTTAGTCT
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:0.42, C:0.17, G:0.00, T:0.40
Consensus pattern (20 bp):
CATAAAATTCAAAACTTTTC
Found at i:54817117 original size:48 final size:45
Alignment explanation
Indices: 54816946--54817157 Score: 171
Period size: 46 Copynumber: 4.6 Consensus size: 45
54816936 ACATCGACAC
* *
54816946 CATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCATA-CCGATG
* * * * ** *
54816991 CATGTCCCAGGCGTGTCTTACACTAGC-TTACGTCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCACT-CATCTC-ATACCGATG
*
54817037 CATGTCTCAGACATGTCTTACACTAGCACTCATCTCAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTC-ATACCGATG
* * * * *
54817083 CCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGGCCGATA
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCAT-CTCAT-ACCGATG
*
54817131 CATGTCCAAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
54817158 TTACACAAGT
Statistics
Matches: 133, Mismatches: 25, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
44 10 0.08
45 13 0.10
46 58 0.44
47 28 0.21
48 23 0.17
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCATACCGATG
Found at i:54817135 original size:94 final size:91
Alignment explanation
Indices: 54816946--54817157 Score: 227
Period size: 94 Copynumber: 2.3 Consensus size: 91
54816936 ACATCGACAC
* * *
54816946 CATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATGCATGTCCCAGGCGTGTCT
1 CATGT-CCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCT
* * *
54817009 TACACTAGCTTACGTCTCGAGGCCAATG
64 TACACTAGCTTACATATCGAGGCCAATA
*
54817037 CATGTCTCAGACATGTCTTACACTAGCACTCATCTCAATA-CCGATGCCATGTCCCAGACATGGT
1 CATGTC-CAGACATGTCTTACACTAGCACACATCTC-ATAGCCGATG-CATGTCCCAGACAT-GT
* *
54817101 CTTACACTAGCTCT-CATAAT-GTGGCCGATA
62 CTTACACTAGCT-TACAT-ATCGAGGCCAATA
54817131 CATGTCCAAGACATGTCTTACACTAGC
1 CATGTCC-AGACATGTCTTACACTAGC
54817158 TTACACAAGT
Statistics
Matches: 103, Mismatches: 9, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
90 11 0.11
91 13 0.13
92 14 0.14
93 15 0.15
94 48 0.47
95 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (91 bp):
CATGTCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCTTA
CACTAGCTTACATATCGAGGCCAATA
Found at i:54826867 original size:29 final size:28
Alignment explanation
Indices: 54826826--54826881 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
54826816 TTTAAATTTA
54826826 AAAAATAAAAAGACTAAATTCTTAAAAAT
1 AAAAATAAAAAGACTAAATTC-TAAAAAT
** *
54826855 AAAAATATGAAGATTAAATTCTAAAAA
1 AAAAATAAAAAGACTAAATTCTAAAAA
54826882 GGCAAAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.25
Consensus pattern (28 bp):
AAAAATAAAAAGACTAAATTCTAAAAAT
Found at i:54840549 original size:36 final size:36
Alignment explanation
Indices: 54840505--54840581 Score: 120
Period size: 36 Copynumber: 2.2 Consensus size: 36
54840495 TATTAATGCA
* *
54840505 TTAT-TAGTTTGTATTGTAACTGTGTTTGTCTGTTC
1 TTATCTAGTTTGTACTGTAACTATGTTTGTCTGTTC
*
54840540 TTATCTAGTTTGTACTGTAACTATGTTTGTCTTTTC
1 TTATCTAGTTTGTACTGTAACTATGTTTGTCTGTTC
54840576 TTATCT
1 TTATCT
54840582 TCTTTGCCTA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
35 4 0.11
36 34 0.89
ACGTcount: A:0.16, C:0.12, G:0.16, T:0.57
Consensus pattern (36 bp):
TTATCTAGTTTGTACTGTAACTATGTTTGTCTGTTC
Found at i:54845552 original size:689 final size:689
Alignment explanation
Indices: 54844279--54846346 Score: 4129
Period size: 689 Copynumber: 3.0 Consensus size: 689
54844269 ATGACTAATC
54844279 GTAATTTTGTTTTTTCCTCAAATATCCTTTGACTAGTTTAATTTTTGATCTATATAATCATTCAT
1 GTAATTTTGTTTTTTCCTCAAATATCCTTTGACTAGTTTAATTTTTGATCTATATAATCATTCAT
54844344 TTTAATTTATCAATGTCAAACATTTAAATGAAAATCCATGATATGCATGAACCTATTTAATTTCA
66 TTTAATTTATCAATGTCAAACATTTAAATGAAAATCCATGATATGCATGAACCTATTTAATTTCA
54844409 TTTTTACAAAACCCCTAAAATTTTACACTTTATTCAATTTAGTCCCTGAAATTAAAATTATCATA
131 TTTTTACAAAACCCCTAAAATTTTACACTTTATTCAATTTAGTCCCTGAAATTAAAATTATCATA
54844474 ACTTACACATTTGAGCTTCATTTTACAATTTGATTTCAATTACGACCTTATACTACTCTCCACTC
196 ACTTACACATTTGAGCTTCATTTTACAATTTGATTTCAATTACGACCTTATACTACTCTCCACTC
54844539 TCTATTTTTATCAAAATCTCATGGCAGTTTTGTAACTTATTCAGTTTAGCCTTATGTTAAAAAAT
261 TCTATTTTTATCAAAATCTCATGGCAGTTTTGTAACTTATTCAGTTTAGCCTTATGTTAAAAAAT
54844604 TAACACTTAAACTTTACAAACTAGTCATTTTTTTCATTTCTAAGCTTAAAAACTAATATTTTAAC
326 TAACACTTAAACTTTACAAACTAGTCATTTTTTTCATTTCTAAGCTTAAAAACTAATATTTTAAC
54844669 ACCAAAACTTCAAGAATTCATTAATGGAAACATTTTGAAACTTTAAAAGTTTTGAAAAATAAAAC
391 ACCAAAACTTCAAGAATTCATTAATGGAAACATTTTGAAACTTTAAAAGTTTTGAAAAATAAAAC
54844734 ATGGATTAGCTAAATTGAGCTATCACGATCTCAAAAACACAAAATTTATGAAAAATGACTTCAAA
456 ATGGATTAGCTAAATTGAGCTATCACGATCTCAAAAACACAAAATTTATGAAAAATGACTTCAAA
54844799 CGACTTACCATGAGAGGATGAGAAGCTTGGCCGAATGATGAAGCTTCCAAAAATGGTTTATCGGG
521 CGACTTACCATGAGAGGATGAGAAGCTTGGCCGAATGATGAAGCTTCCAAAAATGGTTTATCGGG
54844864 TGTGTTTGTTTGAAATTTCAGTGGAAGTAAATTAAAGGTGGGTTTGGATAGGCGGTACGTTTACC
586 TGTGTTTGTTTGAAATTTCAGTGGAAGTAAATTAAAGGTGGGTTTGGATAGGCGGTACGTTTACC
54844929 TGTGGTTAGTGTAAACAGCGGTGACAGTGATATTAGATA
651 TGTGGTTAGTGTAAACAGCGGTGACAGTGATATTAGATA
54844968 GTAATTTTGTTTTTTCCTCAAATATCCTTTGACTAGTTTAATTTTTGATCTATATAATCATTCAT
1 GTAATTTTGTTTTTTCCTCAAATATCCTTTGACTAGTTTAATTTTTGATCTATATAATCATTCAT
54845033 TTTAATTTATCAATGTCAAACATTTAAATGAAAATCCATGATATGCATGAACCTATTTAATTTCA
66 TTTAATTTATCAATGTCAAACATTTAAATGAAAATCCATGATATGCATGAACCTATTTAATTTCA
54845098 TTTTTACAAAACCCCTAAAATTTTACACTTTATTCAATTTAGTCCCTGAAATTAAAATTATCATA
131 TTTTTACAAAACCCCTAAAATTTTACACTTTATTCAATTTAGTCCCTGAAATTAAAATTATCATA
54845163 ACTTACACATTTGAGCTTCATTTTACAATTTGATTTCAATTACGACCTTATACTACTCTCCACTC
196 ACTTACACATTTGAGCTTCATTTTACAATTTGATTTCAATTACGACCTTATACTACTCTCCACTC
54845228 TCTATTTTTATCAAAATCTCATGGCAGTTTTGTAACTTATTCAGTTTAGCCTTATGTTAAAAAAT
261 TCTATTTTTATCAAAATCTCATGGCAGTTTTGTAACTTATTCAGTTTAGCCTTATGTTAAAAAAT
54845293 TAACACTTAAACTTTACAAACTAGTCATTTTTTTCATTTCTAAGCTTAAAAACTAATATTTTAAC
326 TAACACTTAAACTTTACAAACTAGTCATTTTTTTCATTTCTAAGCTTAAAAACTAATATTTTAAC
54845358 ACCAAAACTTCAAGAATTCATTAATGGAAACATTTTGAAACTTTAAAAGTTTTGAAAAATAAAAC
391 ACCAAAACTTCAAGAATTCATTAATGGAAACATTTTGAAACTTTAAAAGTTTTGAAAAATAAAAC
54845423 ATGGATTAGCTAAATTGAGCTATCACGATCTCAAAAACACAAAATTTATGAAAAATGACTTCAAA
456 ATGGATTAGCTAAATTGAGCTATCACGATCTCAAAAACACAAAATTTATGAAAAATGACTTCAAA
54845488 CGACTTACCATGAGAGGATGAGAAGCTTGGCCGAATGATGAAGCTTCCAAAAATGGTTTATCGGG
521 CGACTTACCATGAGAGGATGAGAAGCTTGGCCGAATGATGAAGCTTCCAAAAATGGTTTATCGGG
54845553 TGTGTTTGTTTGAAATTTCAGTGGAAGTAAATTAAAGGTGGGTTTGGATAGGCGGTACGTTTACC
586 TGTGTTTGTTTGAAATTTCAGTGGAAGTAAATTAAAGGTGGGTTTGGATAGGCGGTACGTTTACC
54845618 TGTGGTTAGTGTAAACAGCGGTGACAGTGATATTAGATA
651 TGTGGTTAGTGTAAACAGCGGTGACAGTGATATTAGATA
54845657 GTAATTTTGTTTTTTCCTCAAATATCCTTTGACTAGTTTAATTTTTGATCTATATAATCATTCAT
1 GTAATTTTGTTTTTTCCTCAAATATCCTTTGACTAGTTTAATTTTTGATCTATATAATCATTCAT
54845722 TTTAATTTATCAATGTCAAACATTTAAATGAAAATCCATGATATGCATGAACCTATTTAATTTCA
66 TTTAATTTATCAATGTCAAACATTTAAATGAAAATCCATGATATGCATGAACCTATTTAATTTCA
54845787 TTTTTACAAAACCCCTAAAATTTTACACTTTATTCAATTTAGTCCCTGAAATTAAAATTATCATA
131 TTTTTACAAAACCCCTAAAATTTTACACTTTATTCAATTTAGTCCCTGAAATTAAAATTATCATA
54845852 ACTTACACATTTGAGCTTCATTTTACAATTTGATTTCAATTACGACCTTATACTACTCTCCACTC
196 ACTTACACATTTGAGCTTCATTTTACAATTTGATTTCAATTACGACCTTATACTACTCTCCACTC
54845917 TCTATTTTTATCAAAATCTCATGGCAGTTTTGTAACTTATTCAGTTTAGCCTTATGTT-AAAAAT
261 TCTATTTTTATCAAAATCTCATGGCAGTTTTGTAACTTATTCAGTTTAGCCTTATGTTAAAAAAT
54845981 TAACACTTAAACTTTACAAACTAGTCATTTTTTTCATTTCTAAGCTTAAAAACTAATATTTTAAC
326 TAACACTTAAACTTTACAAACTAGTCATTTTTTTCATTTCTAAGCTTAAAAACTAATATTTTAAC
54846046 ACCAAAACTTCAAGAATTCATTAATGGAAACATTTTGAAACTTTAAAAGTTTTGAAAAATAAAAC
391 ACCAAAACTTCAAGAATTCATTAATGGAAACATTTTGAAACTTTAAAAGTTTTGAAAAATAAAAC
54846111 ATGGATTAGCTAAATTGAGCTATCACGATCTCAAAAACACAAAATTTATGAAAAATGACTTCAAA
456 ATGGATTAGCTAAATTGAGCTATCACGATCTCAAAAACACAAAATTTATGAAAAATGACTTCAAA
54846176 CGACTTACCATGAGAGGATGAGAAGCTTGGCCGAATGATGAAGCTTCCAAAAATGGTTTATCGGG
521 CGACTTACCATGAGAGGATGAGAAGCTTGGCCGAATGATGAAGCTTCCAAAAATGGTTTATCGGG
54846241 TGTGTTTGTTTGAAATTTCAGTGGAAGTAAATTAAAGGTGGGTTTGGATAGGCGGTACGTTTACC
586 TGTGTTTGTTTGAAATTTCAGTGGAAGTAAATTAAAGGTGGGTTTGGATAGGCGGTACGTTTACC
54846306 TGTGGTTAGTGTAAACAGCGGTGACAGTGATATTAGATA
651 TGTGGTTAGTGTAAACAGCGGTGACAGTGATATTAGATA
54846345 GT
1 GT
54846347 GTAGCGATGT
Statistics
Matches: 1379, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
688 372 0.27
689 1007 0.73
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (689 bp):
GTAATTTTGTTTTTTCCTCAAATATCCTTTGACTAGTTTAATTTTTGATCTATATAATCATTCAT
TTTAATTTATCAATGTCAAACATTTAAATGAAAATCCATGATATGCATGAACCTATTTAATTTCA
TTTTTACAAAACCCCTAAAATTTTACACTTTATTCAATTTAGTCCCTGAAATTAAAATTATCATA
ACTTACACATTTGAGCTTCATTTTACAATTTGATTTCAATTACGACCTTATACTACTCTCCACTC
TCTATTTTTATCAAAATCTCATGGCAGTTTTGTAACTTATTCAGTTTAGCCTTATGTTAAAAAAT
TAACACTTAAACTTTACAAACTAGTCATTTTTTTCATTTCTAAGCTTAAAAACTAATATTTTAAC
ACCAAAACTTCAAGAATTCATTAATGGAAACATTTTGAAACTTTAAAAGTTTTGAAAAATAAAAC
ATGGATTAGCTAAATTGAGCTATCACGATCTCAAAAACACAAAATTTATGAAAAATGACTTCAAA
CGACTTACCATGAGAGGATGAGAAGCTTGGCCGAATGATGAAGCTTCCAAAAATGGTTTATCGGG
TGTGTTTGTTTGAAATTTCAGTGGAAGTAAATTAAAGGTGGGTTTGGATAGGCGGTACGTTTACC
TGTGGTTAGTGTAAACAGCGGTGACAGTGATATTAGATA
Found at i:54846834 original size:12 final size:12
Alignment explanation
Indices: 54846817--54846841 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54846807 AAATGGGCTA
54846817 TTACAATTAAAT
1 TTACAATTAAAT
54846829 TTACAATTAAAT
1 TTACAATTAAAT
54846841 T
1 T
54846842 CAAGATAGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTACAATTAAAT
Found at i:54847199 original size:19 final size:19
Alignment explanation
Indices: 54847163--54847201 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
54847153 CCTATATCTC
* * *
54847163 AAATATATACAAATCTCAT
1 AAATAAATAAAAAACTCAT
54847182 AAATAAATAAAAAACTCAT
1 AAATAAATAAAAAACTCAT
54847201 A
1 A
54847202 TATTAAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATAAAAAACTCAT
Found at i:54848007 original size:322 final size:319
Alignment explanation
Indices: 54847392--54848026 Score: 837
Period size: 322 Copynumber: 2.0 Consensus size: 319
54847382 TCGACTTGAG
* *
54847392 TCATATCTTTAAAAAATTTAGATATGAAAATTTCATAAAAAAAAAATCTTAAAATCTATAGAGGA
1 TCATATCTTTAAAAAATTAAGATATGAAAATTTCAT--AAAAAAAATCTTAAAATCTACAGAGGA
*
54847457 AGTAACCTTCGACATTGAGGAGGACTGCAATTTCGAGAGCTACCGCTACGAGAAAGAGAGGAAGA
64 AGTAACCTTCGACATTGA-GAGGACTACAATTTCGAGAGCTACCGCTACGAGAAAGAGAGGAAGA
* * ** *
54847522 AGAGAAAGATCTGGAGCAAGAATGAGAGCTAGACAAGGAAGCAAATCTAGAGTAGGACACGGAGT
128 AGAGAAAGATCTGGAGCAAGAACGAGAGCTAGACAAGGAAGCAAATCTAGAGCAGGACACAAAGC
* * *
54847587 GAGAGCGAGAATTGGACTTAGAGTTTGAACCGGAATAAGAGTAGGAACAAGACCTAGACCGTAAA
193 GAGAGCGAGAATTGGACTTAGAGTCTGAACCGAAATAAGAGGAGGAACAAGACCTAGACCGTAAA
* *
54847652 CAAGAACAGGAAGAGGAACCGGAGTTGGAGACAAAACGAGAACGACGACCTCTCAGCTAGAT
258 CAAGAACAGGAAAAGGAACCAGAGTTGGAGACAAAACGAGAACGACGACCTCTCAGCTAGAT
*
54847714 TCATATCTTTAAAAAATTAAGATATGAAAATTTCAT-TAAAAAATCTTAAAATCTACAGAGGAAG
1 TCATATCTTTAAAAAATTAAGATATGAAAATTTCATAAAAAAAATCTTAAAATCTACAGAGGAAG
* ** * * * * *
54847778 TAACCTTTGATGTT-A-AGGATTACGATTTCGAGAGCTACCGCTACTAGAAGGAGAGGAAGAGGA
66 TAACCTTCGACATTGAGAGGACTACAATTTCGAGAGCTACCGCTACGAGAAAGAGAGGAAGAAGA
* ** * * *
54847841 GAAAGATCTGGAGCGAGAACGAGAGCTAGACGGGGAAGCAGATCTGGAGCGGGACACAAAGCGAG
131 GAAAGATCTGGAGCAAGAACGAGAGCTAGACAAGGAAGCAAATCTAGAGCAGGACACAAAGCGAG
* * * * *
54847906 AGCGAGAATTGGATTTGGATTTGGAGTCTGAATCGAAATAAGAGCGA-GAGCTAGACCTAGACTG
196 AGCGAGAATTGGACTT--A----GAGTCTGAACCGAAATAAGAG-GAGGAACAAGACCTAGACCG
* *
54847970 TGAACAAGAACAGGAAAAGGAACCAGAGTTGGAGACAAAACGAGAACGACGATCTCT
254 TAAACAAGAACAGGAAAAGGAACCAGAGTTGGAGACAAAACGAGAACGACGACCTCT
54848027 TGTTGGCTTT
Statistics
Matches: 271, Mismatches: 35, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
316 111 0.41
318 2 0.01
319 37 0.14
322 120 0.44
323 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (319 bp):
TCATATCTTTAAAAAATTAAGATATGAAAATTTCATAAAAAAAATCTTAAAATCTACAGAGGAAG
TAACCTTCGACATTGAGAGGACTACAATTTCGAGAGCTACCGCTACGAGAAAGAGAGGAAGAAGA
GAAAGATCTGGAGCAAGAACGAGAGCTAGACAAGGAAGCAAATCTAGAGCAGGACACAAAGCGAG
AGCGAGAATTGGACTTAGAGTCTGAACCGAAATAAGAGGAGGAACAAGACCTAGACCGTAAACAA
GAACAGGAAAAGGAACCAGAGTTGGAGACAAAACGAGAACGACGACCTCTCAGCTAGAT
Found at i:54854916 original size:26 final size:26
Alignment explanation
Indices: 54854883--54854934 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
54854873 AGTAATAACA
54854883 TTTTTTGAA-ATAATATGTTGACTTTT
1 TTTTTTGAACA-AATATGTTGACTTTT
*
54854909 TTTTTTGAACGAAATATGTTGGCTTT
1 TTTTTTGAAC-AAATATGTTGACTTT
54854935 ATTAATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 9 0.39
27 13 0.57
28 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (26 bp):
TTTTTTGAACAAATATGTTGACTTTT
Found at i:54856022 original size:15 final size:15
Alignment explanation
Indices: 54856002--54856034 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
54855992 TAATCTTTTA
54856002 AAATTA-TAAAAATAT
1 AAATTATTAAAAAT-T
54856017 AAATTATTAAAAATT
1 AAATTATTAAAAATT
54856032 AAA
1 AAA
54856035 ATTCAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTATTAAAAATT
Found at i:54856036 original size:16 final size:15
Alignment explanation
Indices: 54855999--54856037 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
54855989 ATTTAATCTT
54855999 TTAAAATTATAAAAA
1 TTAAAATTATAAAAA
54856014 -TATAAATTATTAAAAA
1 TTA-AAATTA-TAAAAA
54856030 TTAAAATT
1 TTAAAATT
54856038 CAATTTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.10
15 6 0.29
16 11 0.52
17 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAAAATTATAAAAA
Found at i:54866328 original size:38 final size:38
Alignment explanation
Indices: 54866286--54866365 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
54866276 TGGACTAGAC
*
54866286 TTGACAGTATATCAGATGGGAACCAAGAAAAATAGATA
1 TTGACAGTATATCAGATAGGAACCAAGAAAAATAGATA
*
54866324 TTGACAGTATATCAGATAGGAACCAAGAAAAATAGATC
1 TTGACAGTATATCAGATAGGAACCAAGAAAAATAGATA
54866362 TTGA
1 TTGA
54866366 ATCTGTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (38 bp):
TTGACAGTATATCAGATAGGAACCAAGAAAAATAGATA
Found at i:54866414 original size:29 final size:29
Alignment explanation
Indices: 54866381--54866440 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
54866371 TTTATGGATT
54866381 TATTCACTTGTGATGTTCATAATGTGGCA
1 TATTCACTTGTGATGTTCATAATGTGGCA
54866410 TATTCACTTGTGATGTTCATAATGTGGCA
1 TATTCACTTGTGATGTTCATAATGTGGCA
54866439 TA
1 TA
54866441 CATAAATCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (29 bp):
TATTCACTTGTGATGTTCATAATGTGGCA
Found at i:54867137 original size:58 final size:57
Alignment explanation
Indices: 54867072--54867189 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 57
54867062 AAAGAAGGTG
* * * *
54867072 AAATGGAGAAATAAGAAA-CATTTGGAAATGATTAAGGTTTTATCCAAAATGAAAATGA
1 AAATGGAGAAAT--GAAATCATTTGAAAATAAATAAGATTTTATCCAAAATGAAAATGA
** *
54867130 AAATGGAGAAATGAAATCATTTGAAAATAAATGTGATTTTCTCCAAAATGAAAATGA
1 AAATGGAGAAATGAAATCATTTGAAAATAAATAAGATTTTATCCAAAATGAAAATGA
54867187 AAA
1 AAA
54867190 ATGAAATTAT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 4 0.08
57 36 0.69
58 12 0.23
ACGTcount: A:0.51, C:0.06, G:0.17, T:0.26
Consensus pattern (57 bp):
AAATGGAGAAATGAAATCATTTGAAAATAAATAAGATTTTATCCAAAATGAAAATGA
Found at i:54868110 original size:28 final size:28
Alignment explanation
Indices: 54868054--54868106 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
54868044 ATTTTTCCAA
* *
54868054 CCCCTCCCCCATCCCTCCCCTCTCCTCC
1 CCCCACCCCCATCCATCCCCTCTCCTCC
*
54868082 CCCCACCCCCAT-CATCCCCTTTCCT
1 CCCCACCCCCATCCATCCCCTCTCCT
54868107 TCCCTCTCTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.08, C:0.70, G:0.00, T:0.23
Consensus pattern (28 bp):
CCCCACCCCCATCCATCCCCTCTCCTCC
Found at i:54869301 original size:22 final size:22
Alignment explanation
Indices: 54869289--54869330 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
54869279 AAATATATAT
*
54869289 TTTCTTTTTTAAATATATAAGC
1 TTTCCTTTTTAAATATATAAGC
54869311 TTTCCTTTTTAAATATATAA
1 TTTCCTTTTTAAATATATAA
54869331 TATGACCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTCCTTTTTAAATATATAAGC
Found at i:54869304 original size:20 final size:21
Alignment explanation
Indices: 54869279--54869329 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
54869269 AGAAAGTTAA
* *
54869279 AAATATATA-TTTTCTTTTTT
1 AAATATATAGCTTTCCTTTTT
54869299 AAATATATAAGCTTTCCTTTTT
1 AAATATAT-AGCTTTCCTTTTT
54869321 AAATATATA
1 AAATATATA
54869330 ATATGACCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 8 0.30
21 2 0.07
22 17 0.63
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.53
Consensus pattern (21 bp):
AAATATATAGCTTTCCTTTTT
Found at i:54871279 original size:21 final size:21
Alignment explanation
Indices: 54871255--54871295 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
54871245 TTATGTTTAA
*
54871255 TAGATATGTGTAAAAAAAATT
1 TAGATATGTCTAAAAAAAATT
* *
54871276 TAGATTTTTCTAAAAAAAAT
1 TAGATATGTCTAAAAAAAAT
54871296 ACTATTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (21 bp):
TAGATATGTCTAAAAAAAATT
Found at i:54872386 original size:12 final size:12
Alignment explanation
Indices: 54872369--54872402 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
54872359 TATTCAACAA
54872369 GTTCACCTCTGG
1 GTTCACCTCTGG
54872381 GTTCACCTCTGG
1 GTTCACCTCTGG
54872393 GTTCACCTCT
1 GTTCACCTCT
54872403 TTGTCACAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.09, C:0.35, G:0.21, T:0.35
Consensus pattern (12 bp):
GTTCACCTCTGG
Found at i:54877630 original size:14 final size:14
Alignment explanation
Indices: 54877607--54877645 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
54877597 TGTTACTATG
*
54877607 TTTTAGTTTTAGAC
1 TTTTACTTTTAGAC
*
54877621 TTTTACTTTTAGAT
1 TTTTACTTTTAGAC
*
54877635 TTTTATTTTTA
1 TTTTACTTTTA
54877646 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (14 bp):
TTTTACTTTTAGAC
Found at i:54877697 original size:18 final size:18
Alignment explanation
Indices: 54877674--54877711 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
54877664 ATTTTTATGA
*
54877674 TTGGGTTGGTTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
54877692 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
54877710 TT
1 TT
54877712 TGTATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.03, G:0.45, T:0.45
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:54878983 original size:30 final size:30
Alignment explanation
Indices: 54878949--54879007 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
54878939 TTTACGAGCC
* *
54878949 TAGGGGCCAAAATGTAAATATGTGAAAGTT
1 TAGGGGCCAAAATATAAATATGTAAAAGTT
* *
54878979 TAGGGGTCAAAATATAAATTTGTAAAAGT
1 TAGGGGCCAAAATATAAATATGTAAAAGT
54879008 ATGATTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCCAAAATATAAATATGTAAAAGTT
Found at i:54879704 original size:50 final size:50
Alignment explanation
Indices: 54879623--54880006 Score: 353
Period size: 50 Copynumber: 7.6 Consensus size: 50
54879613 TTTGTTGTGA
*
54879623 GTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * ** * *
54879673 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATAGCC-G-TTAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTGA--TAG
* ** * * * *
54879724 ATCACGTGTGTAGTACTAAGTATAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
54879774 GTCACGTGTGTAGTACTAAGTGC-GGACTACTACGTGTACCAGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGG-CTACTACGTGTACCAGATTGATAG
* * * * * * * * *
54879824 TTCGCATGTGTAGTACTAAGTACAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * * *
54879875 ATCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* *
54879925 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGGTAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
*** *
54879975 GTCGTATGTGTAGTACTAAGTCCAGGCTACTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTA
54880007 TGCATACCAG
Statistics
Matches: 260, Mismatches: 64, Indels: 20
0.76 0.19 0.06
Matches are distributed among these distances:
49 8 0.03
50 179 0.69
51 71 0.27
52 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:54879804 original size:101 final size:101
Alignment explanation
Indices: 54879624--54880012 Score: 270
Period size: 101 Copynumber: 3.9 Consensus size: 101
54879614 TTGTTGTGAG
* * * *
54879624 TCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGATGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
54879689 TAAGTGCAGGCTACTATGCATAGCCGTTAACTTCGA
66 TAAGTGCAGGCTACTATGCATAGCCGTTAACTTCGA
* * *
54879725 TCACGTGTGTAGTACTAAGT-ATAGGCTACTACGTGTATCAGATGGTTAAGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGAT-GGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTA
* ** *
54879789 CTAAGTGC-GGACTACTACGTGTA-CCAGATTGATAGTTCG-
65 CTAAGTGCAGG-CTACTATGCATAGCC-G-TT-A-ACTTCGA
* * * * ** ** *
54879828 -CA--TGTGTAGTACTAAGT-ACAGGCTACTATGCGTACCCG-TTAACTTCGATCACGTGTGTAG
1 TCACGTGTGTAGTACTAAGTGA-TGGCTACTACGTGTACCAGATGGA-TAAG-TCACATGTGTAG
* * ***
54879888 TACTAAGTGTAGGCTACTACGTGTATCAAATGGTTAA----G-
63 TACTAAGTGCAGGCTACTA--TGCAT--AGCCGTTAACTTCGA
* **
54879926 TCACGTGTGTAGTACTAAGTG-TAGGCTACTACGTGTACCAGATTGG-TAGGTCGTATGTGTAGT
1 TCACGTGTGTAGTACTAAGTGAT-GGCTACTACGTGTACCAGA-TGGATAAGTCACATGTGTAGT
*
54879989 ACTAAGTCCAGGCTACTATGCATA
64 ACTAAGTGCAGGCTACTATGCATA
54880013 CCAGAGAGCT
Statistics
Matches: 226, Mismatches: 40, Indels: 49
0.72 0.13 0.16
Matches are distributed among these distances:
96 1 0.00
98 5 0.02
99 3 0.01
100 63 0.28
101 132 0.58
102 7 0.03
103 6 0.03
104 7 0.03
105 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGATGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATAGCCGTTAACTTCGA
Found at i:54879901 original size:151 final size:150
Alignment explanation
Indices: 54879622--54880014 Score: 669
Period size: 151 Copynumber: 2.6 Consensus size: 150
54879612 ATTTGTTGTG
54879622 AGTCACGTGTGTAGTACTAAGTGCTGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGC-GGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
54879687 ACTAAGTGCAGGCTACTATGCATAGCCGTTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCT
65 ACTAAGTACAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCT
*
54879752 ACTACGTGTATCAGATGGTTA
130 ACTACGTGTATCAAATGGTTA
*
54879773 AGTCACGTGTGTAGTACTAAGTGCGGACTACTACGTGTACCAGATTGATAGTTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCGG-CTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* *
54879838 ACTAAGTACAGGCTACTATGCGTACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTGTAGGCT
65 ACTAAGTACAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCT
54879903 ACTACGTGTATCAAATGGTTA
130 ACTACGTGTATCAAATGGTTA
* * *
54879924 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGGTAGGTCGTATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTG-CGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
54879989 ACTAAGTCCAGGCTACTATGCATACC
65 ACTAAGTACAGGCTACTATGCATACC
54880015 AGAGAGCTTC
Statistics
Matches: 228, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
150 2 0.01
151 224 0.98
152 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (150 bp):
AGTCACGTGTGTAGTACTAAGTGCGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
CTAAGTACAGGCTACTATGCATACCCGTTAACTTCGATCACGTGTGTAGTACTAAGTATAGGCTA
CTACGTGTATCAAATGGTTA
Found at i:54883155 original size:20 final size:20
Alignment explanation
Indices: 54883130--54883173 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
54883120 GAGGCAAAGC
*
54883130 ACACGCCTGTGTGCTTGGGG
1 ACACGCCTGTGTGCTTAGGG
54883150 ACACGCCTGTGTGCTTAGGG
1 ACACGCCTGTGTGCTTAGGG
54883170 ACAC
1 ACAC
54883174 ACCCGTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.16, C:0.27, G:0.34, T:0.23
Consensus pattern (20 bp):
ACACGCCTGTGTGCTTAGGG
Found at i:54883181 original size:20 final size:20
Alignment explanation
Indices: 54883138--54883181 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
54883128 GCACACGCCT
* * *
54883138 GTGTGCTTGGGGACACGCCT
1 GTGTGCTTAGGGACACACCC
54883158 GTGTGCTTAGGGACACACCC
1 GTGTGCTTAGGGACACACCC
54883178 GTGT
1 GTGT
54883182 CCTTCACCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.25, G:0.36, T:0.25
Consensus pattern (20 bp):
GTGTGCTTAGGGACACACCC
Found at i:54883292 original size:28 final size:29
Alignment explanation
Indices: 54883238--54883293 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
54883228 TACAGGGGTT
54883238 TTCACACGGCCAAGCACACGCCCGTGTCC
1 TTCACACGGCCAAGCACACGCCCGTGTCC
* *
54883267 TTCACACGGCCTAG-ACACGCTCGTGTC
1 TTCACACGGCCAAGCACACGCCCGTGTC
54883294 GTCGCTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.20, C:0.41, G:0.21, T:0.18
Consensus pattern (29 bp):
TTCACACGGCCAAGCACACGCCCGTGTCC
Found at i:54902729 original size:92 final size:88
Alignment explanation
Indices: 54902616--54902789 Score: 240
Period size: 92 Copynumber: 1.9 Consensus size: 88
54902606 AAAAATTAAG
* * * *
54902616 TCTCTTTTTTTTCACTCAATTGAGCACTTGAACTTTTAAAATGTATCAAAAGGACCCTCAAAATT
1 TCTCTTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAA-AACACTCAAAATT
54902681 CTTCAAAAAAAGCAATTAAGCCCTT
65 CTTC-AAAAAAGCAATTAAGCCCTT
* *
54902706 TCTCTTTTTTTTTCCACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAACACTCAAAAT
1 TCTC-TTTTTTTT-CACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAACACTCAAAAT
* *
54902771 TTTTCATAAAAGCAATTAA
64 TCTTCAAAAAAGCAATTAA
54902790 ACCCCTGCTC
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 17 0.23
91 22 0.30
92 35 0.47
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (88 bp):
TCTCTTTTTTTTCACTCAATTGAGCACTTGAACTTTCAAAATGCATCAAAAAACACTCAAAATTC
TTCAAAAAAGCAATTAAGCCCTT
Found at i:54902832 original size:6 final size:7
Alignment explanation
Indices: 54902815--54902843 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
54902805 AAAACTTTAA
54902815 AAAAATT
1 AAAAATT
54902822 AAAAATT
1 AAAAATT
54902829 AAAAATT
1 AAAAATT
54902836 AAAAATT
1 AAAAATT
54902843 A
1 A
54902844 TTAAATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAAATT
Found at i:54902880 original size:28 final size:29
Alignment explanation
Indices: 54902829--54902889 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
54902819 ATTAAAAATT
*
54902829 AAAAATTAAAAATTATTAA-ATTTTAATA
1 AAAAATTAAAAAATATTAATATTTTAATA
* *
54902857 AAAAATATAAAAAATA-TAATTTTTTTATA
1 AAAAAT-TAAAAAATATTAATATTTTAATA
54902886 AAAA
1 AAAA
54902890 TCGTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAAATTAAAAAATATTAATATTTTAATA
Found at i:54902903 original size:36 final size:36
Alignment explanation
Indices: 54902854--54902935 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 36
54902844 TTAAATTTTA
* **
54902854 ATAAAAAATATAAAAAATATAATTTTTTTATAAAAATC
1 ATAAAAAATA-AAAAATTATAA-AATTTTATAAAAATC
* *
54902892 GTAAAAAATAAAAAATTGTAAAATTTTATAAAAATC
1 ATAAAAAATAAAAAATTATAAAATTTTATAAAAATC
54902928 ATAAAAAA
1 ATAAAAAA
54902936 ATTAATGACC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 20 0.53
37 9 0.24
38 9 0.24
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (36 bp):
ATAAAAAATAAAAAATTATAAAATTTTATAAAAATC
Found at i:54903157 original size:10 final size:10
Alignment explanation
Indices: 54903144--54903208 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
54903134 TTTATAAAAA
54903144 TTTTATAATT
1 TTTTATAATT
54903154 TTTTAT-A-T
1 TTTTATAATT
* *
54903162 TTCTAT-ATA
1 TTTTATAATT
54903171 TTTTATAATT
1 TTTTATAATT
54903181 TTTTACGATAATT
1 TTTT---ATAATT
*
54903194 TTTTCTAATT
1 TTTTATAATT
54903204 TTTTA
1 TTTTA
54903209 ATTTTTGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 7 0.16
9 6 0.14
10 21 0.48
13 10 0.23
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTTATAATT
Found at i:54903163 original size:27 final size:27
Alignment explanation
Indices: 54903133--54903185 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
54903123 TTTCTTAAGA
54903133 ATTTATAAAAATTTTATAATTTTTTAT
1 ATTTATAAAAATTTTATAATTTTTTAT
* * *
54903160 ATTTCTATATATTTTATAATTTTTTA
1 ATTTATAAAAATTTTATAATTTTTTA
54903186 CGATAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTATAAAAATTTTATAATTTTTTAT
Found at i:54907263 original size:4 final size:4
Alignment explanation
Indices: 54907254--54907290 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
54907244 TGTTTTCTTT
*
54907254 TTTA TTTA TTTA TTTA TTTA TTTA -TTA TTTC TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
54907291 CTTTCTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 27 0.90
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:54907295 original size:11 final size:11
Alignment explanation
Indices: 54907247--54907296 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
54907237 ATTAAACTGT
*
54907247 TTTCTTTTTTA
1 TTTCTTTATTA
*
54907258 TTTATTTATTTA
1 TTTCTTTA-TTA
*
54907270 TTTATTTATTA
1 TTTCTTTATTA
*
54907281 TTTCTTTATTC
1 TTTCTTTATTA
54907292 TTTCT
1 TTTCT
54907297 CATGTATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
11 23 0.68
12 11 0.32
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTTTATTA
Found at i:54907420 original size:4 final size:4
Alignment explanation
Indices: 54907411--54907436 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
54907401 TATTACTTAT
54907411 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
54907437 CTTTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:54907552 original size:63 final size:62
Alignment explanation
Indices: 54907417--54907570 Score: 168
Period size: 62 Copynumber: 2.5 Consensus size: 62
54907407 TTATTTTATT
* * ** *
54907417 TATTTATTTATTTATTTATTCTTTTACTTTTAAAATACTTAAATTTAATATTATTTTTTTGCC
1 TATTCATTTATTTA-TTATTCTTTTATTTTTAAAATACTTAAATTTAATATTATTTACTTCCC
* * * *
54907480 TATTTATTTATTTATTATTCTTTTATTTTTTAAATATTTAAATTTGATATTACTTATACTTCCC
1 TATTCATTTATTTATTATTCTTTTATTTTTAAAATACTTAAATTTAATATTA-TT-TACTTCCC
*
54907544 T-TTCATTTAATTTTTTATT-TTTTATTT
1 TATTCATTT-ATTTATTATTCTTTTATTT
54907571 CAAAGTTACT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
62 34 0.43
63 30 0.38
64 15 0.19
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (62 bp):
TATTCATTTATTTATTATTCTTTTATTTTTAAAATACTTAAATTTAATATTATTTACTTCCC
Found at i:54911507 original size:18 final size:18
Alignment explanation
Indices: 54911484--54911541 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
54911474 TTTGTTTATT
54911484 GTTATTCAATAACAATCA
1 GTTATTCAATAACAATCA
* * * *
54911502 GTTATTTAGTATCAAAC-
1 GTTATTCAATAACAATCA
54911519 G--A-TCAATAACAATCA
1 GTTATTCAATAACAATCA
54911534 GTTATTCA
1 GTTATTCA
54911542 GTCCAGTAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
14 8 0.29
15 2 0.07
17 2 0.07
18 16 0.57
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (18 bp):
GTTATTCAATAACAATCA
Found at i:54912159 original size:21 final size:24
Alignment explanation
Indices: 54912135--54912187 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 24
54912125 TAGCTATAGA
*
54912135 AATTAAA-A-TAATTAT-ACCATT
1 AATTAAACACTAATTATAACAATT
*
54912156 AATTACAACACTCATTATAACAATT
1 AATTA-AACACTAATTATAACAATT
54912181 AATTAAA
1 AATTAAA
54912188 TTTCTATTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 5 0.19
22 2 0.08
23 1 0.04
24 8 0.31
25 10 0.38
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (24 bp):
AATTAAACACTAATTATAACAATT
Found at i:54912859 original size:5 final size:5
Alignment explanation
Indices: 54912851--54912900 Score: 82
Period size: 5 Copynumber: 9.6 Consensus size: 5
54912841 TTATTTTATA
54912851 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAATTT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA--T ATAAT ATA
54912901 CTTTTTATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
5 38 0.88
7 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:54912931 original size:16 final size:16
Alignment explanation
Indices: 54912912--54912952 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
54912902 TTTTTATCTA
*
54912912 ATTAATATAATATTTT
1 ATTAATATAATAATTT
*
54912928 ATTAAAATAATAATTT
1 ATTAATATAATAATTT
54912944 ATT-ATATAA
1 ATTAATATAA
54912953 AATATCTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAATATAATAATTT
Found at i:54913008 original size:221 final size:223
Alignment explanation
Indices: 54912692--54913102 Score: 492
Period size: 221 Copynumber: 1.9 Consensus size: 223
54912682 TATTTACTTT
* * *
54912692 ATATTATATTATATTTAATTAATAATTAATAATTATAAAATATCTTTATACTTAAATTATAAGTA
1 ATATAATATTATATTAAAATAATAATTAATAATTATAAAATATCTTTATACTTAAATTATAAGTA
* ** * * * * * * * * * *
54912757 AATTATGTATTTAAATTACAATTGTACAAATATGATTTTTTACGCATGTATATTTTTATTACCAT
66 AAATATACAATTAAATTACAAGTATACAAATA-CATATATTACACATGTACAATTTTATCACCAT
* *
54912822 ACATTTGT-TACAATTCAATTTATTTTATAATAAT-ATAATATAATATAATATAATATAATATAA
130 ACATTTGTCTACAATTCAATTTATTTAATAATAATAACAATATAAT-TAATATAATA-AATATAA
54912885 TATAATTTATAATATACTTTTTATCTAATTA
193 TATAATTTATAATATACTTTTTATCTAATTA
* * *
54912916 ATATAATATTTTATTAAAATAATAATTTATTA-TATAAAATATCTTT-TACTTAAAATT-TAAG-
1 ATATAATATTATATTAAAATAATAATTAATAATTATAAAATATCTTTATACTT-AAATTATAAGT
* *
54912977 AAAATATACAATTATATTACAAGTATACAAATACATATATTACACATGTACAATTTTATCATCAT
65 AAAATATACAATTAAATTACAAGTATACAAATACATATATTACACATGTACAATTTTATCACCAT
** * * *
54913042 ACATTTGTCTTTATTTTAATTTATTTAATAATAATAACAATATAATTAATCTAATAAATAT
130 ACATTTGTCTACAATTCAATTTATTTAATAATAATAACAATATAATTAATATAATAAATAT
54913103 CATGTAAAAA
Statistics
Matches: 156, Mismatches: 28, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
220 37 0.24
221 56 0.36
222 18 0.12
223 19 0.12
224 26 0.17
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (223 bp):
ATATAATATTATATTAAAATAATAATTAATAATTATAAAATATCTTTATACTTAAATTATAAGTA
AAATATACAATTAAATTACAAGTATACAAATACATATATTACACATGTACAATTTTATCACCATA
CATTTGTCTACAATTCAATTTATTTAATAATAATAACAATATAATTAATATAATAAATATAATAT
AATTTATAATATACTTTTTATCTAATTA
Found at i:54913898 original size:19 final size:19
Alignment explanation
Indices: 54913874--54913918 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
54913864 AATGCTTCTT
54913874 TTTGCATT-CATTCCATGCA
1 TTTGCATTACATTCCAT-CA
*
54913893 TTTGCATTACATTGCATCA
1 TTTGCATTACATTCCATCA
*
54913912 TATGCAT
1 TTTGCAT
54913919 CAAATTTCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.42
Consensus pattern (19 bp):
TTTGCATTACATTCCATCA
Found at i:54932497 original size:89 final size:89
Alignment explanation
Indices: 54932353--54932852 Score: 347
Period size: 89 Copynumber: 5.6 Consensus size: 89
54932343 ATGGAAGTCG
* * * * * *
54932353 TAGCGAATCTTATCT-TCCTGAAGTTG-TGTGGAGTAGATTAAAGCCACAAATCTTATCTTCTTG
1 TAGCAAATCTTATCTCT-CTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTCCTG
*
54932416 AATTTACAGTGGAGTAGATCGAAGA
65 AAGTTACAGTGGAGTAGATCGAAGA
* * * *
54932441 TAGCAAATCTTATCTCTCTAAAGTCGCAGTAGAGCAGATTAAAGCTATAAACCTTATC-TCTCTG
1 TAGCAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTC-CTG
* * *
54932505 AAGTTACAGTGGAGCATG-TTGAAGT
65 AAGTTACAGTGGAGTA-GATCGAAGA
* * * * **
54932530 TA-CAAATCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTAT-TTCCCT
1 TAGCAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCTTATCTT-CCT
* * * * *
54932593 -AAGGTTGCAGTGGAACAGATTAAAGCTACAAA
64 GAA-GTTACAGTGG---AG--TAGATCGA-AGA
* * * * ** *
54932625 TTA-CAAATCTTATCTC-CTTGAAGTTACAGTGGAGCAGATTGAAGTTACAGGTCTTAT-TGCCC
1 -TAGCAAATCTTATCTCTC-TAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT-TCC
** *
54932687 TGAAGTTGTAGTAGAGTAGATCGAAGA
63 TGAAGTTACAGTGGAGTAGATCGAAGA
* * * * *
54932714 TAGCAAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCTAAAAACCTTATCTCCCTGA
1 TAGCAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTCCTGA
* *
54932779 AGTTACAGTAGAGCAGA-CTGAAGA
66 AGTTACAGTGGAGTAGATC-GAAGA
* * * * * *
54932803 TAGCGAATCCTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGCTACAA
1 TAGCAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAA
54932853 GTTACAGATC
Statistics
Matches: 321, Mismatches: 68, Indels: 45
0.74 0.16 0.10
Matches are distributed among these distances:
88 64 0.20
89 179 0.56
90 9 0.03
92 4 0.01
94 2 0.01
95 22 0.07
96 41 0.13
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (89 bp):
TAGCAAATCTTATCTCTCTAAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTTCCTGA
AGTTACAGTGGAGTAGATCGAAGA
Found at i:54932600 original size:45 final size:44
Alignment explanation
Indices: 54932358--54933016 Score: 387
Period size: 44 Copynumber: 14.6 Consensus size: 44
54932348 AGTCGTAGCG
* * * * **
54932358 AATCTTATCTTCCTGAAGTTG-TGTGGAGTAGATTAAAGCCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * * *
54932401 AATCTTATCTTCTTGAATTTACAGTGGAGTAGATCGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * * *
54932446 AATCTTATCTCTCTAAAGTCGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * *
54932490 AACCTTATCTCTCTGAAGTTACAGTGGAGCATG-TTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAGATACA
** * *
54932534 AATCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAATATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * *
54932579 AATCTTATTTCCCT-AAGGTTGCAGTGGAACAGATTAAAGCTACAAATTACA
1 AATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATT---G--A-AGA-TACA
* * *
54932630 AATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
** * * * *
54932674 GGTCTTAT-TGCCCTGAAGTTGTAGTAGAGTAGATCGAAGATAGCA
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * * *
54932719 AATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAAAGCTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
54932763 AACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CA
* * * * * * *
54932808 AATCCTATTTCCCTAAAGTTGCAGTGGAACAAATTAAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* ** * * *
54932852 AGTTACAGATCCCATCTCTTGAAGTTGTAGTGGAGCAGATTGAAGTTACA
1 A-AT-CTTAT--C-TC-CCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
* * * * *
54932902 AATCTTATCTCTCTGAAGTTGCAATGGAGTAGATCGAA-ATTAAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* * *
54932946 AATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATTGAA-ATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACA
* * *
54932990 ATTCCTATAC-CCCTAAAGTTGCAGTGG
1 AATCTTAT-CTCCCTGAAGTTGCAGTGG
54933017 GTTGGAATGA
Statistics
Matches: 469, Mismatches: 121, Indels: 51
0.73 0.19 0.08
Matches are distributed among these distances:
43 20 0.04
44 239 0.51
45 132 0.28
46 6 0.01
48 5 0.01
49 3 0.01
50 28 0.06
51 32 0.07
52 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACA
Found at i:54932655 original size:51 final size:51
Alignment explanation
Indices: 54932577--54932673 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
54932567 CTGAATATAG
* *
54932577 CAAATCTTATTTCCCTAAGGTTGCAGTGGAACAGATTAAAGCTACAAATTA
1 CAAATCTTATCTCCCTAAGGTTACAGTGGAACAGATTAAAGCTACAAATTA
* * * *
54932628 CAAATCTTATCTCCTTGAA-GTTACAGTGGAGCAGATTGAAGTTACA
1 CAAATCTTATCTCCCT-AAGGTTACAGTGGAACAGATTAAAGCTACA
54932674 GGTCTTATTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 37 0.95
52 2 0.05
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.30
Consensus pattern (51 bp):
CAAATCTTATCTCCCTAAGGTTACAGTGGAACAGATTAAAGCTACAAATTA
Found at i:54932721 original size:96 final size:96
Alignment explanation
Indices: 54932529--54932721 Score: 205
Period size: 96 Copynumber: 2.0 Consensus size: 96
54932519 CATGTTGAAG
* * *
54932529 TTACAAATCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATTTCCCTA
1 TTACAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGACTGAATATAGCAAATCTTATTGCCCTA
* * *
54932594 AGGTTGCAGTGGAACAGATTAAAGCTACAAA
66 AGGTTGCAGTAGAACAGATCAAAGATACAAA
* **
54932625 TTACAAATCTTATCTC-CTTGAAGTTACAGTGGAGCAGATTGAAGT-TA-CAGGTCTTATTGCCC
1 TTACAAATCTTATCTCTC-TGAAGTTACAGTGGAGCAGACTGAA-TATAGCAAATCTTATTGCCC
* ** *
54932687 TGAA-GTTGTAGTAGAGTAGATCGAAGATAGCAAA
64 T-AAGGTTGCAGTAGAACAGATCAAAGATA-CAAA
54932721 T
1 T
54932722 CTTATCTCTC
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
95 32 0.40
96 47 0.59
97 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.31
Consensus pattern (96 bp):
TTACAAATCTTATCTCTCTGAAGTTACAGTGGAGCAGACTGAATATAGCAAATCTTATTGCCCTA
AGGTTGCAGTAGAACAGATCAAAGATACAAA
Found at i:54932728 original size:229 final size:227
Alignment explanation
Indices: 54932398--54932990 Score: 697
Period size: 229 Copynumber: 2.6 Consensus size: 227
54932388 GATTAAAGCC
* * * * *
54932398 ACAAATCTTATCTTCTTGAATTTACAGTGGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAA
1 ACAAATCTTATC-TCTTGAAGTTACAGTGGAGCAGATTGAAGTTA-CAAATCTTATCTCTCTGAA
* * ** * * * * **
54932463 GTCGCAGTAGAGCAGATTAAAGCTATAAACCTTATCTCTCTGAAGTTACAGTGGAGCATG-TTGA
64 GTTGCAGTAGAGTAGATCGAAGATAAAAATCTTATCTCTCTAAAGTTGTAGTGGAGCA-GATTGA
* ** * * * *
54932527 AGTTACAAATCTTATCTTTCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTTATTTCCC
128 AGTTACAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCAAATCCTATTTCCC
* *
54932592 TAAGGTTGCAGTGGAACAGATTAAAGCTACAAATT
193 TAAAGTTGCAGTGGAACAAATTAAAGCTACAAATT
** *
54932627 ACAAATCTTATCTCCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAGGTCTTAT-TGCCCTGAA
1 ACAAATCTTATCT-CTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCT-CTCTGAA
* * * *
54932691 GTTGTAGTAGAGTAGATCGAAGATAGCAAATCTTATCTCTCTAAAGTTGTAGTAGAGCAGATTAA
64 GTTGCAGTAGAGTAGATCGAAGATA-AAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGA
* * *
54932756 AGCTAAAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCGAATCCTATTTCCC
128 AGTTACAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCAAATCCTATTTCCC
*
54932821 TAAAGTTGCAGTGGAACAAATTAAAGCTACAAGTT
193 TAAAGTTGCAGTGGAACAAATTAAAGCTACAAATT
* ** **
54932856 ACAGATCCCATCTCTTGAAGTTGTAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGT
1 ACAAATCTTATCTCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGT
* * * * *
54932921 TGCAATGGAGTAGATCGAA-ATTAAAAATCTTGTCTCCCTAAAGTTGTAGTGGAGCAGATTGAAA
66 TGCAGTAGAGTAGATCGAAGA-TAAAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAG
54932985 TTACAA
130 TTACAA
54932991 TTCCTATACC
Statistics
Matches: 305, Mismatches: 53, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
227 41 0.13
228 97 0.32
229 167 0.55
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (227 bp):
ACAAATCTTATCTCTTGAAGTTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGT
TGCAGTAGAGTAGATCGAAGATAAAAATCTTATCTCTCTAAAGTTGTAGTGGAGCAGATTGAAGT
TACAAACCTTATCTCCCTGAAGTTACAGTAGAGCAGACTGAAGATAGCAAATCCTATTTCCCTAA
AGTTGCAGTGGAACAAATTAAAGCTACAAATT
Found at i:54934471 original size:12 final size:12
Alignment explanation
Indices: 54934454--54934486 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
54934444 TTTTCTTTTA
54934454 TATTTATTTACT
1 TATTTATTTACT
*
54934466 TATTTATTTAGT
1 TATTTATTTACT
54934478 TA-TTATTTA
1 TATTTATTTA
54934487 TCATGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (12 bp):
TATTTATTTACT
Found at i:54934651 original size:56 final size:60
Alignment explanation
Indices: 54934579--54934722 Score: 161
Period size: 64 Copynumber: 2.4 Consensus size: 60
54934569 TATTTCTCAT
* * *
54934579 ATACTTGAATCTAATATCACTTATTT-TATTTATTTA-T-TTATTCTTTTA-CTTTTAAA
1 ATACTTAAATTTAATATTACTTATTTCTATTTATTTATTATTATTCTTTTATCTTTTAAA
* * *
54934635 ATACTTAAATTTAATATTATTTGTTTTGCCTATTTATTTATTTATTATTCTTTTATTTTTTAAA
1 ATACTTAAATTTAATATTACTT-ATTT--CTATTTATTTA-TTATTATTCTTTTATCTTTTAAA
*
54934699 ATATTTAAATTTAATATTACTTAT
1 ATACTTAAATTTAATATTACTTAT
54934723 ACTTCCCTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
56 18 0.25
57 3 0.04
60 10 0.14
62 1 0.01
63 12 0.17
64 27 0.38
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (60 bp):
ATACTTAAATTTAATATTACTTATTTCTATTTATTTATTATTATTCTTTTATCTTTTAAA
Found at i:54947182 original size:16 final size:15
Alignment explanation
Indices: 54947161--54947191 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
54947151 ATTAACCATA
54947161 TATTTAGTTATTTTTT
1 TATTTAGTT-TTTTTT
54947177 TATTTAGTTTTTTTT
1 TATTTAGTTTTTTTT
54947192 ATATAATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (15 bp):
TATTTAGTTTTTTTT
Found at i:54947855 original size:35 final size:35
Alignment explanation
Indices: 54947784--54947857 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
54947774 TTTTTTCTTG
* *
54947784 TTATGTTATGCTTGAAAGTGTTGTTAAGGGATTAC
1 TTATGTTATGCTTGAAAGTGTTGTTAAGGAACTAC
54947819 TTATGTT-TGCTTGAAAGT-TTGTTAAGGAAAACTAC
1 TTATGTTATGCTTGAAAGTGTTGTTAAGG--AACTAC
54947854 TTAT
1 TTAT
54947858 ATTTATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 9 0.26
34 11 0.31
35 15 0.43
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (35 bp):
TTATGTTATGCTTGAAAGTGTTGTTAAGGAACTAC
Found at i:54947885 original size:11 final size:11
Alignment explanation
Indices: 54947854--54947887 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
54947844 GGAAAACTAC
54947854 TTATATTTATA
1 TTATATTTATA
*
54947865 TTAAATTTATA
1 TTATATTTATA
*
54947876 TTATAGTTATA
1 TTATATTTATA
54947887 T
1 T
54947888 CATCAATGCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (11 bp):
TTATATTTATA
Found at i:54964658 original size:16 final size:16
Alignment explanation
Indices: 54964637--54964672 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
54964627 CTTATTTATA
54964637 AAGTTTGTAAAATGGG
1 AAGTTTGTAAAATGGG
54964653 AAGTTTGTAAAATGGG
1 AAGTTTGTAAAATGGG
54964669 AAGT
1 AAGT
54964673 AAGATGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.31
Consensus pattern (16 bp):
AAGTTTGTAAAATGGG
Found at i:54965646 original size:19 final size:19
Alignment explanation
Indices: 54965622--54965659 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
54965612 TGAAAATGTG
54965622 TAAGTTATGCCTATAAATT
1 TAAGTTATGCCTATAAATT
*
54965641 TAAGTTATGCCTATGAATT
1 TAAGTTATGCCTATAAATT
54965660 CATGATGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (19 bp):
TAAGTTATGCCTATAAATT
Found at i:54971335 original size:30 final size:30
Alignment explanation
Indices: 54971301--54971361 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54971291 TTCCCGAGCC
54971301 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
54971331 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
54971361 T
1 T
54971362 GAGTTAAGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:54973761 original size:27 final size:27
Alignment explanation
Indices: 54973724--54973930 Score: 333
Period size: 27 Copynumber: 7.6 Consensus size: 27
54973714 TAAATTGTGC
*
54973724 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
54973751 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
54973779 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
54973806 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
54973834 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54973861 AGCACTAAGTGTGCGAGTCTGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
54973889 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
54973916 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
54973931 GACTTAATAT
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:54973789 original size:55 final size:55
Alignment explanation
Indices: 54973724--54973930 Score: 351
Period size: 55 Copynumber: 3.8 Consensus size: 55
54973714 TAAATTGTGC
54973724 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
54973779 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
54973834 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTCTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
54973889 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
54973931 GACTTAATAT
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 146 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:54981437 original size:46 final size:46
Alignment explanation
Indices: 54981387--54981561 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
54981377 TGATTGAGCA
54981387 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
54981433 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
54981478 CATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAACG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54981525 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCATTGAGTTGAGTCCGAGTTCACTTATGG
54981562 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 26 0.24
46 35 0.33
47 31 0.29
49 4 0.04
50 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54981549 original size:92 final size:93
Alignment explanation
Indices: 54981384--54981554 Score: 283
Period size: 92 Copynumber: 1.8 Consensus size: 93
54981374 GGATGATTGA
* *
54981384 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
54981449 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
54981477 GCATCCGAACTCGTTGAGTTGAGTCCGAGTT-ACTTATGGATGCGAACG-CCTGAGCTCATTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCATTGAG
54981540 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
54981555 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
91 2 0.03
92 41 0.56
93 30 0.41
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:54984737 original size:26 final size:26
Alignment explanation
Indices: 54984648--54984915 Score: 191
Period size: 26 Copynumber: 10.3 Consensus size: 26
54984638 GATAATAGTA
*
54984648 CCTGCT-AATAATTCACTGGCTTCAA-G
1 CCTGCTAAATAA-TCACCGGC-TCAAGG
* * * *
54984674 CCTACTAAAATAAACACCAGCTCATGG
1 CCTGCT-AAATAATCACCGGCTCAAGG
*** * *
54984701 CCTTAGAAATAACCATCGGCTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* *
54984727 CCTGCTTAATAGTCACCGGCTCATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* ** * *
54984753 CATGCTACTTAAGCACCGGTTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* **
54984779 CCTACTAAATAATCACCTACTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* *
54984805 CTTGCTAAATAATCACCGACTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* * *
54984831 ACTCCTAAATAAACACCGGCTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* *
54984857 CCTGCTAAATAACCACCGACTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* * * *
54984883 CCTCCTAAATAAACATCGGCTCATGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
54984909 CTTGCTA
1 CCTGCTA
54984916 GATATCATAT
Statistics
Matches: 184, Mismatches: 53, Indels: 10
0.74 0.21 0.04
Matches are distributed among these distances:
25 1 0.01
26 168 0.91
27 10 0.05
28 5 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.22
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAGG
Found at i:54984795 original size:52 final size:52
Alignment explanation
Indices: 54984681--54984915 Score: 215
Period size: 52 Copynumber: 4.5 Consensus size: 52
54984671 AAGCCTACTA
* * * * *
54984681 AAATAAACACCAGCTCATGGCCTTAG--AAATAACCATCGGCTCAAGGCCTGCT
1 AAATAAACACCGGCTCAAGG-CTT-GCTAAATAACCACCGACTCAAGGCCTCCT
* ** * ** * ** *
54984733 TAATAGTCACCGGCTCATA-GCATGCTACTTAAGCACCGGTTCAAGGCCTACT
1 AAATAAACACCGGCTCA-AGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
* ** * *
54984785 AAATAATCACCTACTCAAGGCTTGCTAAATAATCACCGACTCAAGGACTCCT
1 AAATAAACACCGGCTCAAGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
*
54984837 AAATAAACACCGGCTCAAGGCCTGCTAAATAACCACCGACTCAAGGCCTCCT
1 AAATAAACACCGGCTCAAGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
* *
54984889 AAATAAACATCGGCTCATGGCTTGCTA
1 AAATAAACACCGGCTCAAGGCTTGCTA
54984916 GATATCATAT
Statistics
Matches: 146, Mismatches: 33, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
50 1 0.01
51 3 0.02
52 142 0.97
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.21
Consensus pattern (52 bp):
AAATAAACACCGGCTCAAGGCTTGCTAAATAACCACCGACTCAAGGCCTCCT
Found at i:54984802 original size:78 final size:78
Alignment explanation
Indices: 54984681--54984894 Score: 225
Period size: 78 Copynumber: 2.7 Consensus size: 78
54984671 AAGCCTACTA
* * * * * * *
54984681 AAATAAACACCAGCTCATGGCCTTA-GAAATAACCATCGGCTCAAGGCCTGCTTAATAGTCACCG
1 AAATAAACACCGGCTCAAGGCC-TACTAAATAACCACCGACTCAAGGCCTGCTAAATAATCACCG
* *
54984745 GCTCATAGCA-TGCT
65 ACTCA-AGCACTCCT
** * * * * *
54984759 ACTTAAGCACCGGTTCAAGGCCTACTAAATAATCACCTACTCAAGGCTTGCTAAATAATCACCGA
1 AAATAAACACCGGCTCAAGGCCTACTAAATAACCACCGACTCAAGGCCTGCTAAATAATCACCGA
*
54984824 CTCAAGGACTCCT
66 CTCAAGCACTCCT
* *
54984837 AAATAAACACCGGCTCAAGGCCTGCTAAATAACCACCGACTCAAGGCCTCCTAAATAA
1 AAATAAACACCGGCTCAAGGCCTACTAAATAACCACCGACTCAAGGCCTGCTAAATAA
54984895 ACATCGGCTC
Statistics
Matches: 108, Mismatches: 26, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
77 5 0.05
78 103 0.95
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (78 bp):
AAATAAACACCGGCTCAAGGCCTACTAAATAACCACCGACTCAAGGCCTGCTAAATAATCACCGA
CTCAAGCACTCCT
Found at i:54989141 original size:43 final size:42
Alignment explanation
Indices: 54989076--54989237 Score: 177
Period size: 43 Copynumber: 3.8 Consensus size: 42
54989066 AGCTCGTACA
* * *
54989076 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCA-ATATCG
* * *
54989118 ATGCCACTGTCCCAGACAAGGTCTTACATATAATCAATTAAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAA-T-ATCG
* *
54989161 ATGCCAATGTCCCAAACATGGTCTTACATGTAATC-ATAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAAT-AT-CG
*
54989204 ATGCCAATGTCCCAGACATTGTCTTACATGTAAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAT
54989238 TTCATCTCAG
Statistics
Matches: 102, Mismatches: 13, Indels: 9
0.82 0.10 0.07
Matches are distributed among these distances:
41 4 0.04
42 7 0.07
43 89 0.87
44 2 0.02
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCAATATCG
Found at i:54991329 original size:49 final size:49
Alignment explanation
Indices: 54991265--54991476 Score: 183
Period size: 49 Copynumber: 4.4 Consensus size: 49
54991255 CAAAGTAGAA
*
54991265 GCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATC-AGTGCCGAT
* * * * *
54991314 GTCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTATCAGTGTCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGAT
* * * * * *
54991363 GCCATGTCCTAGACAGGTCTTACACT-A---ACATATAACA-AGCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGAT
* *
54991407 GCCATGTCCCAGATAGGTCTTACACT-AGCTCGT-ATATCTCGAG-GCCGAT
1 GCCATGTCCCAGACAGGTCTTACACTGA-CTC-TCATATATC-AGTGCCGAT
*
54991456 G-CATGTCCCAGACATGTCTTA
1 GCCATGTCCCAGACAGGTCTTA
54991477 TAGTAGCCCA
Statistics
Matches: 129, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
44 28 0.22
45 7 0.05
48 25 0.19
49 69 0.53
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGAT
Found at i:54991414 original size:98 final size:97
Alignment explanation
Indices: 54991221--54991414 Score: 214
Period size: 98 Copynumber: 2.0 Consensus size: 97
54991211 GTCGACGCCA
54991221 TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTAGAAGCCATGTCCCAGACAGGTCTT
1 TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTAGAAGCCATGTCCCAGACAGGTCTT
* * * * * *
54991286 ACACTGACTTTCATATATCGAGGCCGATGTCG
66 ACACTAACTATAACATAGCGACGCCGATGTCG
** ** * * *
54991318 TGTCCCAGACA-GGTCTTACACTGGCTCTCATCTATCAGTGTCGATGCCATGTCCTAGACAGGTC
1 TGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAGTAGAAGCCATGTCCCAGACAGGTC
54991382 TTACACTAACATATAACA-AGCTGACGCC-ATGTC
64 TTACACTAAC-TATAACATAGC-GACGCCGATGTC
54991415 CCAGATAGGT
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
96 17 0.21
97 12 0.15
98 42 0.52
99 9 0.11
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (97 bp):
TGTCCCAGACATGGTCTTACACTGGCTAGCACATCAAAGTAGAAGCCATGTCCCAGACAGGTCTT
ACACTAACTATAACATAGCGACGCCGATGTCG
Found at i:54999096 original size:50 final size:50
Alignment explanation
Indices: 54998961--54999158 Score: 195
Period size: 50 Copynumber: 4.0 Consensus size: 50
54998951 TGATCTATTG
* * * * * **
54998961 TGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAA
1 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA
* * * **
54999011 CTGTGATCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGA
1 -TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA
*
54999062 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGT
1 TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGA
* * * *
54999113 TG-GTTGCA--TGTATAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGAGGT-CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
54999159 AGCTTCGGCT
Statistics
Matches: 123, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 34 0.28
50 44 0.36
51 44 0.36
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (50 bp):
TGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGA
Found at i:55002175 original size:15 final size:15
Alignment explanation
Indices: 55002155--55002208 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
55002145 TATCGCATCT
55002155 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
55002170 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
*
55002184 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
55002200 -GGTTTTCTT
1 TGGGTTTCTT
55002209 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.36
15 17 0.52
16 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:55004469 original size:49 final size:48
Alignment explanation
Indices: 55004339--55004482 Score: 198
Period size: 49 Copynumber: 2.9 Consensus size: 48
55004329 TCTATTGTGA
*
55004339 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CC--AGACTGT
* * * * *
55004390 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTG-T
55004439 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
55004483 TAGCTTCGGC
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 5 0.06
49 40 0.49
50 2 0.02
51 34 0.42
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (48 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGACTGT
Found at i:55010923 original size:26 final size:26
Alignment explanation
Indices: 55010843--55011066 Score: 125
Period size: 26 Copynumber: 8.6 Consensus size: 26
55010833 GATAATAGTA
* *
55010843 CCTGCT-AATAATTCACCGGCTTAAAG
1 CCTGCTAAATAA-TCACCGGCTCAAGG
* * * * *
55010869 CCTACTAAAATAAACACCGACTTATGG
1 CCTGCT-AAATAATCACCGGCTCAAGG
* *
55010896 CCTGCTAAATAACCACCAGCTCAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
* * *
55010922 CCTGTTAAATAATCATCGGCTCATA-T
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * *
55010948 CTTGCTAAATAATTACCTGCTTAAGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
55010974 CTTGCTAAATAATCACCGGCTCATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * * *
55011000 TCTACTAATTAATCATCGGCTTATA-G
1 CCTGCTAAATAATCACCGGCTCA-AGG
* * * *
55011026 CCTACTAATTAATCATCGGCTCATGG
1 CCTGCTAAATAATCACCGGCTCAAGG
*
55011052 CCTGCTAGAT-ATCAC
1 CCTGCTAAATAATCAC
55011067 ATCATATACT
Statistics
Matches: 153, Mismatches: 39, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
25 5 0.03
26 126 0.82
27 17 0.11
28 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (26 bp):
CCTGCTAAATAATCACCGGCTCAAGG
Found at i:55011022 original size:52 final size:52
Alignment explanation
Indices: 55010900--55011049 Score: 151
Period size: 52 Copynumber: 2.9 Consensus size: 52
55010890 TTATGGCCTG
* * * * *
55010900 CTAAATAACCACCAGCTCAAGGCCTGTTAAATAATCATCGGCTCATATCTTG
1 CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATATCTTA
* * * *
55010952 CTAAATAATTACCTGCTTAAGGCTTGCTAAATAATCACCGGCTCATAGTC-TA
1 CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATA-TCTTA
* * * *
55011004 CTAATTAATCATCGGCTTATA-GCCTACTAATTAATCATCGGCTCAT
1 CTAAATAATCACCGGCTTA-AGGCCTGCTAAATAATCATCGGCTCAT
55011050 GGCCTGCTAG
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
52 77 0.96
53 3 0.04
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.31
Consensus pattern (52 bp):
CTAAATAATCACCGGCTTAAGGCCTGCTAAATAATCATCGGCTCATATCTTA
Found at i:55011058 original size:78 final size:78
Alignment explanation
Indices: 55010849--55011066 Score: 197
Period size: 78 Copynumber: 2.8 Consensus size: 78
55010839 AGTACCTGCT
* * * * *
55010849 AATAATTCACCGGCTTAAAGCCTACTAAAATAAACACCGACTTATGGCCTGCTAAATAACCACCA
1 AATAA-TCATCGGCTTATAGCCTACT-AAATAATCACCGGCTTATGGCCTGCTAAATAATCACCA
**
55010914 GCTCAAGGCCTGTTA
64 GCTCAAGGCCTACTA
* * * * * * * * *
55010929 AATAATCATCGGCTCATATCTTGCTAAATAATTACCTGCTTAAGGCTTGCTAAATAATCACCGGC
1 AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTATGGCCTGCTAAATAATCACCAGC
*
55010994 TCATA-GTCTACTA
66 TCA-AGGCCTACTA
* * * * *
55011007 ATTAATCATCGGCTTATAGCCTACTAATTAATCATCGGCTCATGGCCTGCTAGAT-ATCAC
1 AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTATGGCCTGCTAAATAATCAC
55011067 ATCATATACT
Statistics
Matches: 107, Mismatches: 30, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
77 5 0.05
78 82 0.77
79 15 0.14
80 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.28
Consensus pattern (78 bp):
AATAATCATCGGCTTATAGCCTACTAAATAATCACCGGCTTATGGCCTGCTAAATAATCACCAGC
TCAAGGCCTACTA
Found at i:55014073 original size:13 final size:13
Alignment explanation
Indices: 55014055--55014080 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55014045 TTAACCTTAA
55014055 ACATTTCATCTTC
1 ACATTTCATCTTC
55014068 ACATTTCATCTTC
1 ACATTTCATCTTC
55014081 TTGTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (13 bp):
ACATTTCATCTTC
Found at i:55019167 original size:23 final size:25
Alignment explanation
Indices: 55019125--55019170 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
55019115 ATAAATAATT
55019125 AAATATGAATATTTAATAATATTAA
1 AAATATGAATATTTAATAATATTAA
*
55019150 AAATAT-AATATTT-TTAATATT
1 AAATATGAATATTTAATAATATT
55019171 TTTAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 7 0.35
25 6 0.30
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATATGAATATTTAATAATATTAA
Found at i:55022737 original size:27 final size:27
Alignment explanation
Indices: 55022706--55022761 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
55022696 TCATTGCACA
55022706 TAGAACATCTCATGGAGATCAACTAAT
1 TAGAACATCTCATGGAGATCAACTAAT
* *
55022733 TAGAACGTCTCATGGAGGTCAACTAAT
1 TAGAACATCTCATGGAGATCAACTAAT
55022760 TA
1 TA
55022762 AATGAGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
TAGAACATCTCATGGAGATCAACTAAT
Found at i:55044383 original size:39 final size:39
Alignment explanation
Indices: 55044287--55044391 Score: 133
Period size: 39 Copynumber: 2.7 Consensus size: 39
55044277 TCCCAGCACG
*
55044287 TAGCCTGCGGA-CCTCAAG-TCTGGATATATTTCAAGCATA
1 TAGCCTGCGGATCC-CATGTTC-GGATATATTTCAAGCATA
* * *
55044326 TAGCCTGCAGATCTCATGTTCGGATATATTTCTAGCATA
1 TAGCCTGCGGATCCCATGTTCGGATATATTTCAAGCATA
*
55044365 TAGCCTGCGGATCCCATGTCCGGATAT
1 TAGCCTGCGGATCCCATGTTCGGATAT
55044392 TTCCAATCTC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 54 0.95
40 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (39 bp):
TAGCCTGCGGATCCCATGTTCGGATATATTTCAAGCATA
Found at i:55056457 original size:50 final size:50
Alignment explanation
Indices: 55056376--55056670 Score: 446
Period size: 50 Copynumber: 5.9 Consensus size: 50
55056366 TACTAGGGTA
* * * *
55056376 ATATGTGAGCCAGTGTAAAACCATGTTTGGGACATGGCATCGGCTCCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
55056426 ATACGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
55056476 ATATGAGAGCCAGTATAAGACCATGTCTGGGACATGGCATCGACACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* * * **
55056526 ATATGAGAACCAGTATAAGACCATGTCTGGGACATGACATCGGCACTAAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
*
55056576 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCACCGAT
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
* *
55056626 ATATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATTGGCA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
55056671 TGTTACCCTT
Statistics
Matches: 223, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 223 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (50 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGAT
Found at i:55058676 original size:46 final size:45
Alignment explanation
Indices: 55058530--55058842 Score: 214
Period size: 47 Copynumber: 6.7 Consensus size: 45
55058520 ATTTGTGTGC
*
55058530 CAGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ATTATGAGAG
1 CAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GATGAGAG
* ** * *
55058575 CCAGTGTAAGATCATGTCTCGGACATGGCATCGGTATTGAGACGAGAG
1 -CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAG
55058623 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AG
1 C-AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAG
* * * * *
55058669 TCAGTGTAAGACATGTCT--GACATGCATCAG-TTGCAAGATGTG-T
1 -CAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAG
* *
55058712 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGATATGTGAGAG
1 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGAG
* * * *
55058761 CTAGTGTAAGACCATGTCTGAGACATGACATC-GACTTGATGGATGAG-C
1 C-AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGA--GATGAGAG
55058809 CAGTGTAAGACTATGTCTGGGACATGGCATCGGC
1 CAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
55058843 ATTATACCCT
Statistics
Matches: 212, Mismatches: 29, Indels: 50
0.73 0.10 0.17
Matches are distributed among these distances:
42 10 0.05
43 8 0.04
44 17 0.08
45 5 0.02
46 50 0.24
47 55 0.26
48 29 0.14
49 10 0.05
50 27 0.13
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAG
Found at i:55058708 original size:44 final size:42
Alignment explanation
Indices: 55058625--55058730 Score: 124
Period size: 44 Copynumber: 2.4 Consensus size: 42
55058615 GACGAGAGCT
* *
55058625 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTAAGTC
1 AGTGTAAGACATGTCT--GACATGCATCAGCCTCAAGATGT--GTC
*
55058671 AGTGTAAGACATGTCTGACATGCATCAG-TTGCAAGATGTGTC
1 AGTGTAAGACATGTCTGACATGCATCAGCCT-CAAGATGTGTC
55058713 AGTGTAAGACCATGTCTG
1 AGTGTAAGA-CATGTCTG
55058731 GGACATGGCA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
42 12 0.22
43 9 0.16
44 18 0.33
46 16 0.29
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.26
Consensus pattern (42 bp):
AGTGTAAGACATGTCTGACATGCATCAGCCTCAAGATGTGTC
Found at i:55075441 original size:14 final size:14
Alignment explanation
Indices: 55075422--55075458 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
55075412 GAATAGATCA
55075422 GATCCTTCACACGT
1 GATCCTTCACACGT
55075436 GATCCTTCACACGT
1 GATCCTTCACACGT
*
55075450 GATTCTTCA
1 GATCCTTCA
55075459 TACTGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (14 bp):
GATCCTTCACACGT
Found at i:55077116 original size:20 final size:20
Alignment explanation
Indices: 55077088--55077128 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
55077078 TTTCGTTTAG
55077088 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
* * *
55077108 CTCATATGAGTTTTAGTTAA
1 CTCACATGAGCTTCAGTTAA
55077128 C
1 C
55077129 CCTAATGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (20 bp):
CTCACATGAGCTTCAGTTAA
Found at i:55080637 original size:5 final size:5
Alignment explanation
Indices: 55080627--55080656 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
55080617 TATGTTATTA
55080627 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
55080657 CTTATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:55089983 original size:15 final size:15
Alignment explanation
Indices: 55089956--55089996 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
55089946 CTTGTATTTA
*
55089956 TTTT-ATTAATAATG
1 TTTTCATTATTAATG
55089970 TTTTCATTATTAATG
1 TTTTCATTATTAATG
55089985 -TTTCAATTATTA
1 TTTTC-ATTATTA
55089997 TCAATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (15 bp):
TTTTCATTATTAATG
Found at i:55092845 original size:40 final size:41
Alignment explanation
Indices: 55092710--55092895 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
55092700 TACTCGAATG
*
55092710 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
*
55092751 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
55092792 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
55092832 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
55092872 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
55092896 CTTGTGCGAG
Statistics
Matches: 133, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 62 0.47
41 69 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:55092852 original size:81 final size:82
Alignment explanation
Indices: 55092712--55092865 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
55092702 CTCGAATGAT
* * *
55092712 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
55092777 TTGTGCTAAGCGACTAC
66 TTATGCTAAGCGACTAC
55092794 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
55092857 TTTATGCTA
65 TTTATGCTA
55092866 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGACTAC
Found at i:55098755 original size:28 final size:28
Alignment explanation
Indices: 55098717--55098774 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
55098707 ACTAAGTTAC
55098717 AAAACTCGACTGTGGATTTGGGTTTTAA
1 AAAACTCGACTGTGGATTTGGGTTTTAA
*
55098745 AAAACTTGACTGTGGATTTGGGTTTTAA
1 AAAACTCGACTGTGGATTTGGGTTTTAA
55098773 AA
1 AA
55098775 CTTAGTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.24, T:0.36
Consensus pattern (28 bp):
AAAACTCGACTGTGGATTTGGGTTTTAA
Found at i:55112035 original size:18 final size:19
Alignment explanation
Indices: 55112001--55112037 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
55111991 ATACAACTAA
*
55112001 TTTAATTATTATTTTATTT
1 TTTAATAATTATTTTATTT
55112020 TTTAATAATT-TTTTATTT
1 TTTAATAATTATTTTATTT
55112038 GTAATTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTAATAATTATTTTATTT
Done.