Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1224
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: 474570
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
File 3 of 3
Found at i:318443 original size:132 final size:132
Alignment explanation
Indices: 318286--318575 Score: 298
Period size: 132 Copynumber: 2.2 Consensus size: 132
318276 TTTGCCTTAG
* ** *
318286 TCACCTTTTATTGGTTTTTATGGTTTCATCCTAGCCAACTTCTTTTCAACTGAAG-TTTCACCTT
1 TCACCCTTTATTGGTTCATATGGTTTCATCCTAGCCAACTCCTTTTCAACT-AAGATTTCACCTT
* * * * * **
318350 AGTCACCCTTTGTT-GGTTTGTATGGTTTTTTCCCGGCCAACTCCTTTTTAACTTAGGTTCTACC
65 AGTCACCCCTAGTTAGG-TTGCATGGTGTTATCCCAACCAACTCCTTTTTAACTTAGGTTCTACC
318414 CTAA
129 CTAA
** * * ** * **
318418 TCACCC-TTAGTTGGTTCATATGGTTTTGTCCTTGTCAACTCCTTTTTGACTTAGATTTTGCCTT
1 TCACCCTTTA-TTGGTTCATATGGTTTCATCCTAGCCAACTCCTTTTCAACTAAGATTTCACCTT
* * * * *
318482 AGTCACCCCTAGTTAGGTTGCATGGTGTTATCCCAACCAATTCTTTTTTTACTTAGGTTCTGCCT
65 AGTCACCCCTAGTTAGGTTGCATGGTGTTATCCCAACCAACTCCTTTTTAACTTAGGTTCTACCC
*
318547 TAT
130 TAA
318550 TCACCCTTTATTGGTTCATATGGTTT
1 TCACCCTTTATTGGTTCATATGGTTT
318576 TATTTTGACT
Statistics
Matches: 128, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
131 5 0.04
132 118 0.92
133 5 0.04
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (132 bp):
TCACCCTTTATTGGTTCATATGGTTTCATCCTAGCCAACTCCTTTTCAACTAAGATTTCACCTTA
GTCACCCCTAGTTAGGTTGCATGGTGTTATCCCAACCAACTCCTTTTTAACTTAGGTTCTACCCT
AA
Found at i:318470 original size:66 final size:66
Alignment explanation
Indices: 318346--318678 Score: 221
Period size: 66 Copynumber: 5.1 Consensus size: 66
318336 TGAAGTTTCA
* * ** * * *
318346 CCTTAGTCACCCTTTGTTGGTTTGTATGGTTTTTTCCCGGCCAACTCCTTTTTAACTTAGGTTCT
1 CCTTAATCACCCTTAGTTGGTTCATATGGTTTTATCCCTGCCAACTCCTTTTTGACTTAGGTTCT
*
318411 A
66 G
* * * * * *
318412 CCCTAATCACCCTTAGTTGGTTCATATGGTTTTGTCCTTGTCAACTCCTTTTTGACTTAGATTTT
1 CCTTAATCACCCTTAGTTGGTTCATATGGTTTTATCCCTGCCAACTCCTTTTTGACTTAGGTTCT
318477 G
66 G
* * * ** * * *
318478 CCTTAGTCACCCCTAGTTAGGTTGC--ATGGTGTTATCCCAACCAATTCTTTTTTTACTTAGGTT
1 CCTTAATCACCCTTAGTT-GGTT-CATATGGTTTTATCCCTGCCAACTCCTTTTTGACTTAGGTT
318541 CTG
64 CTG
* ** * * *
318544 CCTTATTCACCCTTTA-TTGGTTCATATGGTTTTAT-TTTGACTAACTCATTTTTGACTTAGATT
1 CCTTAATCACCC-TTAGTTGGTTCATATGGTTTTATCCCTG-CCAACTCCTTTTTGACTTAGGTT
**
318607 CCA
64 CTG
** * * * ** *
318610 CCTT-GGCACTCTTTA-TTAGTTCATATGGTTTTAT-CTTGGCCAACTTATTTTTGGCTTAGGTT
1 CCTTAATCAC-CCTTAGTTGGTTCATATGGTTTTATCCCT-GCCAACTCCTTTTTGACTTAGGTT
318672 CTG
64 CTG
318675 CCTT
1 CCTT
318679 TGTTACTCTT
Statistics
Matches: 207, Mismatches: 52, Indels: 17
0.75 0.19 0.06
Matches are distributed among these distances:
64 1 0.00
65 54 0.26
66 145 0.70
67 6 0.03
68 1 0.00
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (66 bp):
CCTTAATCACCCTTAGTTGGTTCATATGGTTTTATCCCTGCCAACTCCTTTTTGACTTAGGTTCT
G
Found at i:319441 original size:66 final size:66
Alignment explanation
Indices: 319371--319771 Score: 272
Period size: 66 Copynumber: 6.1 Consensus size: 66
319361 CTCCCTTTCC
* * * * * *
319371 ACTTAGGTTCTACCATGGTCACCCTTTATTGGTTTGTATGGTTTCATCCCGGCTAACTCTTTTCT
1 ACTTAAGTTCTACCTTAGTCACACTTTATTGGTTCGTATGGTTTCATCTCGGCTAACTCTTTTCT
*
319436 A
66 G
* * ** * ** * * * *
319437 ACTTAAGTTTTGCCTTAGTCACGTTTTGTTGGTTCGTATGGTTTTGTCTCGACCAA-TTTTGTTT
1 ACTTAAGTTCTACCTTAGTCACACTTTATTGGTTCGTATGGTTTCATCTCGGCTAACTCTT-TTC
319501 TG
65 TG
* * * * *
319503 ACTT-AGTTTCTACCCTAGTCACATTTTATTTTGTTCATATGGTTTCATCTTGGCTAACTCTTTT
1 ACTTAAG-TTCTACCTTAGTCACACTTTA-TTGGTTCGTATGGTTTCATCTCGGCTAACTCTTTT
*
319567 ATG
64 CTG
* * ** * ** *
319570 ACTTAAGTTCTACCTTTGTCACACTTTATTGGTTCATAT-GTTTTGTCTTGGCTATTTTTTTTC-
1 ACTTAAGTTCTACCTTAGTCACACTTTATTGGTTCGTATGGTTTCATCTCGGCTAACTCTTTTCT
319633 G
66 G
** * * ** * * * *
319634 ACTTTGGTTCTACCTAAATTGCTCTTTATTGGTTTGTATAGTTTCATCTCGGTTAACTCCTTTTC
1 ACTTAAGTTCTACCTTAGTCACACTTTATTGGTTCGTATGGTTTCATCTCGGCTAACT-CTTTTC
*
319699 -A
65 TG
* * ** * * *
319700 ACTTAAGTTCTACCTTAGTGACCCTTTATTACTTCGTATGGTTTCCTCTCGGCCAACTCTTTTTT
1 ACTTAAGTTCTACCTTAGTCACACTTTATTGGTTCGTATGGTTTCATCTCGGCTAACTCTTTTCT
*
319765 T
66 G
319766 ACTTAA
1 ACTTAA
319772 ACTCCCCTTC
Statistics
Matches: 252, Mismatches: 75, Indels: 16
0.73 0.22 0.05
Matches are distributed among these distances:
64 30 0.12
65 40 0.16
66 130 0.52
67 47 0.19
68 5 0.02
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (66 bp):
ACTTAAGTTCTACCTTAGTCACACTTTATTGGTTCGTATGGTTTCATCTCGGCTAACTCTTTTCT
G
Found at i:319885 original size:66 final size:65
Alignment explanation
Indices: 319815--319968 Score: 150
Period size: 66 Copynumber: 2.3 Consensus size: 65
319805 GAATCGTCCC
* ** * *
319815 AGCCAACTTTTTTTCTAC-TGAGGTTTTGCCTTAGTCACCCTTTCTTGGTTCCTATGATTTTATC
1 AGCCAACTTTTTTT-AACTTG-GGTTTCACCTTAGCCACCCTTTCTTGGTTCCTATAATTTTATC
319879 CT
64 CT
* * * * *
319881 AGCCAA-TTCTTATTTAACTTGGGTTTCACCTTGGCCACCTTTTGTTGGTTCGTATAATTTTGTC
1 AGCCAACTT-TT-TTTAACTTGGGTTTCACCTTAGCCACCCTTTCTTGGTTCCTATAATTTTATC
319945 CT
64 CT
*
319947 AGCCAACTCTTTTTTGACTTGG
1 AGCCAACT-TTTTTTAACTTGG
319969 ATTCTACCTT
Statistics
Matches: 72, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
65 2 0.03
66 61 0.85
67 8 0.11
68 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.16, T:0.45
Consensus pattern (65 bp):
AGCCAACTTTTTTTAACTTGGGTTTCACCTTAGCCACCCTTTCTTGGTTCCTATAATTTTATCCT
Found at i:320012 original size:66 final size:66
Alignment explanation
Indices: 319850--320013 Score: 177
Period size: 66 Copynumber: 2.5 Consensus size: 66
319840 TTGCCTTAGT
* * * * * *
319850 CACCCTTTCTTGGTTCCTATGATTTTATCCTAGCCAATTCTTATTTAACTTGGGTTTCACCTTGG
1 CACCGTTTGTTGGTTCATATGATTTTGTCCTAGCCAACTCTTATTTAACTTGGATTTCACCTTGG
319915 C
66 C
* * * * *
319916 CACCTTTTGTTGGTTCGTATAATTTTGTCCTAGCCAACTCTTTTTTGACTTGGA-TTCTACCTTG
1 CACCGTTTGTTGGTTCATATGATTTTGTCCTAGCCAACTCTTATTTAACTTGGATTTC-ACCTTG
*
319980 GT
65 GC
* * *
319982 TACCGTTTGTTGGTTCATATGGTTTCGTCCTA
1 CACCGTTTGTTGGTTCATATGATTTTGTCCTA
320014 ACTAGCTATT
Statistics
Matches: 81, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
65 3 0.04
66 78 0.96
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (66 bp):
CACCGTTTGTTGGTTCATATGATTTTGTCCTAGCCAACTCTTATTTAACTTGGATTTCACCTTGG
C
Found at i:320519 original size:65 final size:65
Alignment explanation
Indices: 320414--320568 Score: 150
Period size: 65 Copynumber: 2.4 Consensus size: 65
320404 GTGGTTACTT
* * * * * *
320414 TTTGTTGATTTGTATGGTTTTATTCCAACCAACTCATTTTCAACTTAAG-TTCCTCCTTGGTCAC
1 TTTGTTGGTTCGTATAGTTTT-GTCCAACCAACTCATTTTCAACTTAAGTTTCAT-CTCGGTCAC
320478 CC
64 CC
* * *** *
320480 TTTGTTGGTTCGTATAGTTTTGTCCAACCATCTCCTTTTCGGTTTAAGTTTCATCTCGGTCACCT
1 TTTGTTGGTTCGTATAGTTTTGTCCAACCAACTCATTTTCAACTTAAGTTTCATCTCGGTCACCC
* **
320545 TTTGTTGGCTCCAATAGTTTTGTC
1 TTTGTTGGTTCGTATAGTTTTGTC
320569 TTGGCTAACT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
65 51 0.70
66 22 0.30
ACGTcount: A:0.16, C:0.23, G:0.15, T:0.46
Consensus pattern (65 bp):
TTTGTTGGTTCGTATAGTTTTGTCCAACCAACTCATTTTCAACTTAAGTTTCATCTCGGTCACCC
Found at i:320931 original size:65 final size:65
Alignment explanation
Indices: 320862--321075 Score: 198
Period size: 65 Copynumber: 3.3 Consensus size: 65
320852 TATAGTTTCA
** * *
320862 TCTTGGCCAACTCCTTTTGGATTTAAGTTCCATCTAGTCACACATTCTTGGTTTGAATGGTTTTG
1 TCTTGGCCAACTCCTTTTCAACTTAAGTTCCACCTAGTCACACATTCTTGGTTTGAATGGTTTTG
* * * * *
320927 TCTTGGCTAACTTCTTTTCAACTTATGTTCCACCTAGTCACACATTCTTTGTTTGAATGGTTTTA
1 TCTTGGCCAACTCCTTTTCAACTTAAGTTCCACCTAGTCACACATTCTTGGTTTGAATGGTTTTG
* * * * * ** * * *
320992 TCCTAGCTAACTTCTTTTCAACTTATATTTCGC-CCTAGTCACATTTTTTTGG-TTCATATGGCT
1 TCTTGGCCAACTCCTTTTCAACTTA-AGTTC-CACCTAGTCACACATTCTTGGTTTGA-ATGGTT
321055 TTG
63 TTG
**
321058 TCCCGGCCAACTCCTTTT
1 TCTTGGCCAACTCCTTTT
321076 TCACTTAGGT
Statistics
Matches: 122, Mismatches: 24, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
65 82 0.67
66 39 0.32
67 1 0.01
ACGTcount: A:0.18, C:0.23, G:0.14, T:0.44
Consensus pattern (65 bp):
TCTTGGCCAACTCCTTTTCAACTTAAGTTCCACCTAGTCACACATTCTTGGTTTGAATGGTTTTG
Found at i:321684 original size:66 final size:66
Alignment explanation
Indices: 321528--321844 Score: 205
Period size: 66 Copynumber: 4.8 Consensus size: 66
321518 CCAACCAACA
* * * *
321528 TTTTACTTAGGTTCTGCCTTAGTCACCCTAT-TTGGTTCGTATGGTTTTATCTTAGTCAACTCCT
1 TTTTACTTAGGTTCTGTCTTAGTCACCCTTTGTTCGTTCGTATGGTTTCATCTTAGTCAACTCCT
321592 T
66 T
* * ** * * **
321593 TTTGACTTAAGTTCCATCCTAGTCACCCTTTGTTCGTTCGTATGGTTTCATTTTAGTCAACTTTT
1 TTTTACTTAGGTTCTGTCTTAGTCACCCTTTGTTCGTTCGTATGGTTTCATCTTAGTCAACTCCT
321658 T
66 T
* * * * * ** * *
321659 TTTTACTTAGGTTTTGTCTTGGTCACCTTTTGTT-G--CAGTATGGTGTCGTCACAGCCAA-TTC
1 TTTTACTTAGGTTCTGTCTTAGTCACCCTTTGTTCGTTC-GTATGGTTTCATCTTAGTCAACTCC
*
321720 AT
65 TT
* * * ** * * ** * *
321722 TTTTAGCTTAGGTTTTATCCTAGTCATGCTCTGTTGGTTTATGTGGTTTCATCCTAG-CTAACTC
1 TTTTA-CTTAGGTTCTGTCTTAGTCACCCTTTGTTCGTTCGTATGGTTTCATCTTAGTC-AACTC
321786 CTT
64 CTT
** * * * * *
321789 TTCGACTTAGGTTCTGCCTTAGTCATCCTTTGTTGGTTTGTATGGTTTTATCTTAG
1 TTTTACTTAGGTTCTGTCTTAGTCACCCTTTGTTCGTTCGTATGGTTTCATCTTAG
321845 CAAAATCCTT
Statistics
Matches: 188, Mismatches: 56, Indels: 15
0.73 0.22 0.06
Matches are distributed among these distances:
63 9 0.05
64 37 0.20
65 27 0.14
66 109 0.58
67 6 0.03
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.48
Consensus pattern (66 bp):
TTTTACTTAGGTTCTGTCTTAGTCACCCTTTGTTCGTTCGTATGGTTTCATCTTAGTCAACTCCT
T
Found at i:321974 original size:65 final size:65
Alignment explanation
Indices: 321861--321988 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 65
321851 CCTTCATCCT
* * ** * *
321861 AGTCACCCTTTATTGGTTCACATGGTTTCTTCTTAGTTAACACTTTTTTTACTTAGGTTTTGCTC
1 AGTCACCATTTATTGGTTCACATGGTTTCTTCTCACCTAACACCTTTTTGACTTAGGTTTTGCTC
* * *
321926 AGTCACCATTTGTTGGTTCATATGGTTT-TATCTCACCTAACTCCTTTTTGACTTAGGTTTTGC
1 AGTCACCATTTATTGGTTCACATGGTTTCT-TCTCACCTAACACCTTTTTGACTTAGGTTTTGC
321989 CTTCATCATT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
64 1 0.02
65 52 0.98
ACGTcount: A:0.17, C:0.20, G:0.15, T:0.48
Consensus pattern (65 bp):
AGTCACCATTTATTGGTTCACATGGTTTCTTCTCACCTAACACCTTTTTGACTTAGGTTTTGCTC
Found at i:322102 original size:64 final size:64
Alignment explanation
Indices: 321905--322175 Score: 239
Period size: 65 Copynumber: 4.2 Consensus size: 64
321895 AGTTAACACT
* **
321905 TTTTTTACTTAGGTTTTG-CTCAGTC-ACCATTTGTTGGTTCATATGGTTTTAT-CTCA-CCTAA
1 TTTTTGACTTAGGTTTTGCCT-AGTCAACC-TTTGTTGGTTTGTAT-GTTTTATCCT-AGCC-AA
321966 CTCC
61 CTCC
** * * *
321970 TTTTTGACTTAGGTTTTGCCTTCA-TCATTCTTTGTTGGTTTGTACGGTTTAATTCTAG-CAACT
1 TTTTTGACTTAGGTTTTGCC-T-AGTCAACCTTTGTTGGTTTGTA-TGTTTTATCCTAGCCAACT
*
322033 TC
63 CC
* * * *
322035 TTTTTAACTTAGGTTTTGCCTAGTCAACCTTTGTTTGTTTGTATATTTTATCCTGGCCAACTCC
1 TTTTTGACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATGTTTTATCCTAGCCAACTCC
* * * * *
322099 TTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAGCCAACTC
1 TTTTTGACTTAGGTTTTG-CCTAGTCAACCTTTGTTGGTTTGTATGTTTT-ATCCTAGCCAACTC
322164 C
64 C
*
322165 TTTTCGACTTA
1 TTTTTGACTTA
322176 AGTTCCACCC
Statistics
Matches: 168, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
63 9 0.05
64 39 0.23
65 67 0.40
66 47 0.28
67 6 0.04
ACGTcount: A:0.16, C:0.21, G:0.14, T:0.48
Consensus pattern (64 bp):
TTTTTGACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATGTTTTATCCTAGCCAACTCC
Found at i:322209 original size:66 final size:66
Alignment explanation
Indices: 322074--322215 Score: 164
Period size: 66 Copynumber: 2.2 Consensus size: 66
322064 TTTGTTTGTT
* * * * * * *
322074 TGTATATTTT-ATCCTGGCCAACTCCTTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGT
1 TGTATGTTTTCATCCTAGCCAACTCCTTTTCGACTTAAGTTCCACCCTTGTCACCATTTATTGCT
*
322138 T
66 A
322139 TGTATGTTTTCATCCTAGCCAACTCCTTTTCGACTTAAGTTCCACCCTTGTCA-CATTT-TTGCA
1 TGTATGTTTTCATCCTAGCCAACTCCTTTTCGACTTAAGTTCCACCCTTGTCACCATTTATTG--
322202 CTA
64 CTA
*
322205 TGTATGGTTTC
1 TGTATGTTTTC
322216 CTCTTAGCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
64 3 0.05
65 13 0.20
66 49 0.75
ACGTcount: A:0.17, C:0.25, G:0.13, T:0.44
Consensus pattern (66 bp):
TGTATGTTTTCATCCTAGCCAACTCCTTTTCGACTTAAGTTCCACCCTTGTCACCATTTATTGCT
A
Found at i:322333 original size:65 final size:64
Alignment explanation
Indices: 322258--322450 Score: 190
Period size: 64 Copynumber: 3.0 Consensus size: 64
322248 CTCATTTTCG
* ** *
322258 ACTTAGGTTTTGCCTGCGTCATTCTTTGTTGGTTTGTACGGTTTAATCCTAG-CAACTTCTTTTT
1 ACTTAGGTTTTGCCT-AGTCAACCTTTGTTGGTTTGTA-GATTTAATCCTAGCCAACTTCTTTTT
322322 A
64 A
* * * *
322323 ACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATATTTTATCCTGGCCAACTTCTTTTTG
1 ACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTAGATTTAATCCTAGCCAACTTCTTTTTA
* * * * * * * * *
322387 ACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAACCAACTCCTTTT
1 ACTTAGGTTTTG-CCTAGTCAACCTTTGTTGGTTTGTA-GATTTAATCCTAGCCAACTTCTTTT
322451 CGACTCAAGT
Statistics
Matches: 106, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
63 9 0.08
64 41 0.39
65 37 0.35
66 19 0.18
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (64 bp):
ACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTAGATTTAATCCTAGCCAACTTCTTTTTA
Found at i:322378 original size:64 final size:64
Alignment explanation
Indices: 322258--322450 Score: 208
Period size: 65 Copynumber: 3.0 Consensus size: 64
322248 CTCATTTTCG
* ** * *
322258 ACTTAGGTTTTGCCTGCGTCATTCTTTGTTGGTTTGTACGGTTTAATCCTAG-CAACTTCTTTTT
1 ACTTAGGTTTTGCCT-AGTCAACCTTTGTTGGTTTGTA-TGTTTTATCCTAGCCAACTTCTTTTT
322322 A
64 A
* * *
322323 ACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATATTTTATCCTGGCCAACTTCTTTTTG
1 ACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATGTTTTATCCTAGCCAACTTCTTTTTA
* * * * * * *
322387 ACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAACCAACTCCTTTT
1 ACTTAGGTTTTG-CCTAGTCAACCTTTGTTGGTTTGTATGTTTT-ATCCTAGCCAACTTCTTTT
322451 CGACTCAAGT
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
63 9 0.08
64 41 0.38
65 42 0.39
66 16 0.15
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (64 bp):
ACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATGTTTTATCCTAGCCAACTTCTTTTTA
Found at i:322450 original size:66 final size:64
Alignment explanation
Indices: 322281--322474 Score: 201
Period size: 64 Copynumber: 3.0 Consensus size: 64
322271 CTGCGTCATT
* * * * * * * *
322281 CTTTGTTGGTTTGTACGGTTTAATCCTAGCAACTTCTTTTTAACTTAGGTTTTG-CCTAGTCAAC
1 CTTTGTTGGTTTGTA-TGTTTTATCCTACCAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACC
* *
322345 CTTTGTTGGTTTGTATATTTTATCCTGGCCAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACC
1 CTTTGTTGGTTTGTATGTTTTATCCT-ACCAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACC
* * * * * *
322410 CTTTATTGGTTTGTATGTTTTCATCCTAACCAACTCCTTTTCGACTCAAGTTCCACCCTTGTCAC
1 CTTTGTTGGTTTGTATGTTTT-ATCCT-ACCAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCAC
322475 TTTTTTTCAC
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
63 8 0.07
64 37 0.34
65 27 0.25
66 36 0.33
ACGTcount: A:0.17, C:0.24, G:0.14, T:0.45
Consensus pattern (64 bp):
CTTTGTTGGTTTGTATGTTTTATCCTACCAACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACC
Found at i:322511 original size:282 final size:282
Alignment explanation
Indices: 321964--322514 Score: 958
Period size: 282 Copynumber: 2.0 Consensus size: 282
321954 TATCTCACCT
* * * *
321964 AACTCCTTTTTGACTTAGGTTTTGCCTTCATCATTCTTTGTTGGTTTGTACGGTTTAATTCTAGC
1 AACTCATTTTCGACTTAGGTTTTGCCTGCATCATTCTTTGTTGGTTTGTACGGTTTAATCCTAGC
*
322029 AACTTCTTTTTAACTTAGGTTTTGCCTAGTCAACCTTTGTTTGTTTGTATATTTTATCCTGGCCA
66 AACTTCTTTTTAACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATATTTTATCCTGGCCA
*
322094 ACTCCTTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAGCC
131 ACTCCTTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAACC
* * * *
322159 AACTCCTTTTCGACTTAAGTTCCACCCTTGTCACATTTTTGCACTATGTATGGTTTCCTCTTAGC
196 AACTCCTTTTCGACTCAAGTTCCACCCTTGTCACATTTTTGCACTACGTATGGTTTCCTCTCAAC
322224 TAATTTTTTGTTTTTTACTATC
261 TAATTTTTTGTTTTTTACTATC
*
322246 AACTCATTTTCGACTTAGGTTTTGCCTGCGTCATTCTTTGTTGGTTTGTACGGTTTAATCCTAGC
1 AACTCATTTTCGACTTAGGTTTTGCCTGCATCATTCTTTGTTGGTTTGTACGGTTTAATCCTAGC
322311 AACTTCTTTTTAACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATATTTTATCCTGGCCA
66 AACTTCTTTTTAACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATATTTTATCCTGGCCA
*
322376 ACTTCTTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAACC
131 ACTCCTTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAACC
* * * *
322441 AACTCCTTTTCGACTCAAGTTCCACCCTTGTCACTTTTTTTCACTACGTATGTTTTTCTCTCAAC
196 AACTCCTTTTCGACTCAAGTTCCACCCTTGTCACATTTTTGCACTACGTATGGTTTCCTCTCAAC
322506 TAATTTTTT
261 TAATTTTTT
322515 TTTCTTTGGT
Statistics
Matches: 253, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
282 253 1.00
ACGTcount: A:0.17, C:0.22, G:0.13, T:0.48
Consensus pattern (282 bp):
AACTCATTTTCGACTTAGGTTTTGCCTGCATCATTCTTTGTTGGTTTGTACGGTTTAATCCTAGC
AACTTCTTTTTAACTTAGGTTTTGCCTAGTCAACCTTTGTTGGTTTGTATATTTTATCCTGGCCA
ACTCCTTTTTGACTTAAGTTTCGCCCTTGTCACCCTTTATTGGTTTGTATGTTTTCATCCTAACC
AACTCCTTTTCGACTCAAGTTCCACCCTTGTCACATTTTTGCACTACGTATGGTTTCCTCTCAAC
TAATTTTTTGTTTTTTACTATC
Found at i:323004 original size:66 final size:66
Alignment explanation
Indices: 322742--323125 Score: 214
Period size: 66 Copynumber: 5.9 Consensus size: 66
322732 ACATTTTTTG
* * * * * * * ** *
322742 TTGGTTCATATGATTTCATCCTAGTCAACTCCTTTTCTACTTATGTATAGTACTCGTC-ACTCTT
1 TTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTCAACTTAAGTTTTGCCCTAGTCAAC-CTT
322806 TA
65 TA
* * ** * * * * * * **
322808 TTAGTTCATATGGTTTCAT-AAAGGCTAACTCTTTTTCAACTTAGGTTTTACCTTCGTCATTCTT
1 TTGGTTCGTATGGTTTCATCCTA-GCCAACTCCTTTTCAACTTAAGTTTTGCCCTAGTCAACCTT
*
322872 TT
65 TA
* * ** ** * *
322874 TTGGTTCATATGGTTTCA--C-A---AACTCCATTTT-GACTTAAGTTTCACAATAGTCACCCAT
1 TTGGTTCGTATGGTTTCATCCTAGCCAACTCC-TTTTCAACTTAAGTTTTGCCCTAGTCAACCTT
*
322932 TG
65 TA
* * *
322934 TTGGTTCGCATGGTTTCATCCTAGCTAACTCCTTTTCAA-TCTAAGTTTTGCCTTAGTCAACCTT
1 TTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTCAACT-TAAGTTTTGCCCTAGTCAACCTT
322998 TA
65 TA
** * * * * *
323000 TTGGTTTTTATGGTTTCATCCTAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTGGTCATCTTTT
1 TTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTCAACTTAAGTTTTGCCCTAGTCAACCTTT
*
323065 G
66 A
* * ** *
323066 TTGGTTCGTATGGTTTCATCCTAGCCAATTCTTTTTTTACTT-AGCTTTTGCCCTAATCAA
1 TTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTCAACTTAAG-TTTTGCCCTAGTCAA
323126 TTTTTGTTGG
Statistics
Matches: 244, Mismatches: 61, Indels: 26
0.74 0.18 0.08
Matches are distributed among these distances:
60 40 0.16
61 4 0.02
62 1 0.00
63 1 0.00
64 1 0.00
65 7 0.03
66 189 0.77
67 1 0.00
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.45
Consensus pattern (66 bp):
TTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTCAACTTAAGTTTTGCCCTAGTCAACCTTT
A
Found at i:323131 original size:66 final size:65
Alignment explanation
Indices: 322931--323138 Score: 238
Period size: 66 Copynumber: 3.2 Consensus size: 65
322921 TAGTCACCCA
* * * * * **
322931 TTGTTGGTTCGCATGGTTTCATCCTAGCTAACTCCTTTTCAATCTAAGTTTTGCCTTAGTCAACC
1 TTGTTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTTAA-CTTAGTTTTGCCCTAGTCAATT
322996 T
65 T
* ** *
322997 TTATTGGTTTTTATGGTTTCATCCTAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTGGTC-ATC
1 TTGTTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTTAACTTA-GTTTTGCCCTAGTCAAT-
323061 TT
64 TT
* * * *
323063 TTGTTGGTTCGTATGGTTTCATCCTAGCCAATTCTTTTTTTACTTAGCTTTTGCCCTAATCAATT
1 TTGTTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTTAACTTAG-TTTTGCCCTAGTCAATT
323128 T
65 T
323129 TTGTTGGTTC
1 TTGTTGGTTC
323139 ATAGCTAACT
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
65 5 0.04
66 112 0.94
67 2 0.02
ACGTcount: A:0.16, C:0.21, G:0.15, T:0.48
Consensus pattern (65 bp):
TTGTTGGTTCGTATGGTTTCATCCTAGCCAACTCCTTTTTAACTTAGTTTTGCCCTAGTCAATTT
Found at i:323253 original size:185 final size:183
Alignment explanation
Indices: 322955--323286 Score: 429
Period size: 185 Copynumber: 1.8 Consensus size: 183
322945 GGTTTCATCC
* * *
322955 TAGCTAACTCCTTTTCAATCTAAGTTTTGCCTTAGTCAACCTTTATTGGTTTTTATGGTTTCATC
1 TAGCTAACTCCTTTTCAATCTAAGTTTTGCCCTAGTCAACCTTTATTGGTTTGTATGGTTCCATC
**
323020 CTAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTGGTCATCTTTTGTTGGTTCGTATGGTTTCAT
66 CTAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTGGTCATCTTTTGTTGGTTCGTATGGCATCAT
323085 CCTAGCCAATTCTTTTTTTACTTAGCTTTTGCCCTAATCAATTTTTGTTGGTTCA
131 CCTAGCCAA--CTTTTTTTACTTAGCTTTTGCCCTAATCAATTTTTGTTGGTTCA
* * * * * *
323140 TAGCTAACTCCTTTTTAA-CTTAGTTTTGCCCTAGTGACCCTTTGTTGGTTTGTATGGTTCCTTC
1 TAGCTAACTCCTTTTCAATCTAAGTTTTGCCCTAGTCAACCTTTATTGGTTTGTATGGTTCCATC
* * ** * *
323204 C-CGCCCAA-TCCCTTTTTGGACTTAGGTTTTGCTTTTGTCA-CTCTTTGTTGGTTTGTATGGCA
66 CTAG-CCAACT-CCTTTTT-AACTTAGGTTTTGCCCTGGTCATCT-TTTGTTGGTTCGTATGGCA
323266 TCATCCTAGCCAACTTTTTTT
127 TCATCCTAGCCAACTTTTTTT
323287 CAACTTTTGC
Statistics
Matches: 126, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
183 10 0.08
184 52 0.41
185 64 0.51
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (183 bp):
TAGCTAACTCCTTTTCAATCTAAGTTTTGCCCTAGTCAACCTTTATTGGTTTGTATGGTTCCATC
CTAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTGGTCATCTTTTGTTGGTTCGTATGGCATCAT
CCTAGCCAACTTTTTTTACTTAGCTTTTGCCCTAATCAATTTTTGTTGGTTCA
Found at i:323256 original size:119 final size:119
Alignment explanation
Indices: 323021--323235 Score: 272
Period size: 118 Copynumber: 1.8 Consensus size: 119
323011 GGTTTCATCC
* * * *
323021 TAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTGGTCATCTTTTGTTGGTTCGTATGGTTTCATC
1 TAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTAGTCACCCTTTGTTGGTTCGTATGGTTCCATC
* ** *
323086 CTAGCCAATTCTTTTTTTACTTAGCTTTTGCCCTAATCAATTTTTGTTGGTTCA
66 CTAGCCAATCCTTTTTGGACTTAGCTTTTGCCCTAATCAATCTTTGTTGGTTCA
* * * *
323140 TAGCTAACTCCTTTTTAACTTA-GTTTTGCCCTAGTGACCCTTTGTTGGTTTGTATGGTTCCTTC
1 TAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTAGTCACCCTTTGTTGGTTCGTATGGTTCCATC
* *
323204 C-CGCCCAATCCCTTTTTGGACTTAGGTTTTGC
66 CTAG-CCAAT-CCTTTTTGGACTTAGCTTTTGC
323236 TTTTGTCACT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
117 1 0.01
118 41 0.51
119 39 0.48
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (119 bp):
TAGCCAACTCCTTTTTAACTTAGGTTTTGCCCTAGTCACCCTTTGTTGGTTCGTATGGTTCCATC
CTAGCCAATCCTTTTTGGACTTAGCTTTTGCCCTAATCAATCTTTGTTGGTTCA
Found at i:323410 original size:66 final size:66
Alignment explanation
Indices: 323296--323490 Score: 167
Period size: 66 Copynumber: 2.9 Consensus size: 66
323286 TCAACTTTTG
* * * * * * *
323296 CCCTAGTCACCCGTTGTTGGTTTGTATGTTTTTGCCCTGGCCAACTCCTTTTTGACTTAAATTCC
1 CCCT-GTCACCCTTTATTGGTTTGTATGTTTTCGTCCTAGTCAACTCCTTTTTAACTTAAATT-C
323361 T-C
64 TAC
* * * *
323363 CCCTGTCACCCTTTATTGGTTTGTATGTTTTCGTCCTAGTGAGCTCCTATTCAACTTAAATTCTA
1 CCCTGTCACCCTTTATTGGTTTGTATGTTTTCGTCCTAGTCAACTCCTTTTTAACTTAAATTCTA
323428 C
66 C
*** * * * * * * * *
323429 TATTGTCACCTTTTTTTGGTTTGTATGGTTTCATCCCAGTTAACTTCTTTTTTACTTAAATT
1 CCCTGTCACCCTTTATTGGTTTGTATGTTTTCGTCCTAGTCAACTCCTTTTTAACTTAAATT
323491 TATTTAGGAT
Statistics
Matches: 102, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
65 2 0.02
66 96 0.94
67 4 0.04
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (66 bp):
CCCTGTCACCCTTTATTGGTTTGTATGTTTTCGTCCTAGTCAACTCCTTTTTAACTTAAATTCTA
C
Found at i:323696 original size:17 final size:17
Alignment explanation
Indices: 323655--323702 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
323645 ATTCTTGTCT
* *
323655 TAAATAAATATTTA-CT
1 TAAATAAATATATATCA
323671 TAAATTAAATATATATCA
1 TAAA-TAAATATATATCA
323689 TAAATAAATA-ATAT
1 TAAATAAATATATAT
323703 AAAAAATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 8 0.29
17 15 0.54
18 5 0.18
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATAAATATATATCA
Found at i:324344 original size:22 final size:20
Alignment explanation
Indices: 324314--324357 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
324304 AATTCAAAAT
324314 TTTCACAATTTGTATCGATACA
1 TTTCACAA--TGTATCGATACA
* *
324336 TTTCTCAATGTATCTATACA
1 TTTCACAATGTATCGATACA
324356 TT
1 TT
324358 CAGTCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
22 7 0.35
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (20 bp):
TTTCACAATGTATCGATACA
Found at i:326786 original size:49 final size:50
Alignment explanation
Indices: 326640--326797 Score: 187
Period size: 51 Copynumber: 3.1 Consensus size: 50
326630 ATTTTTGAAG
326640 GGATACTCCAACCCTAGCTTTATTTCTAAAACATTAATTTTTCACAATTGA
1 GGATACTCCAACCC-AGCTTTATTTCTAAAACATTAATTTTTCACAATTGA
* **
326691 GGATACTCCAAACCCAGTTTTATTT-TCAAAACACCAATTTTTCACAATTG-
1 GGATACTCC-AACCCAGCTTTATTTCT-AAAACATTAATTTTTCACAATTGA
* * ** *
326741 GG-TACTCCAATCCCGGCTTTATTTCTAAAACATTGATTTACCACAATCGA
1 GGATACTCCAA-CCCAGCTTTATTTCTAAAACATTAATTTTTCACAATTGA
326791 GGATACT
1 GGATACT
326798 TTAACCTTGT
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
48 2 0.02
49 34 0.38
50 6 0.07
51 43 0.48
52 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (50 bp):
GGATACTCCAACCCAGCTTTATTTCTAAAACATTAATTTTTCACAATTGA
Found at i:326874 original size:79 final size:79
Alignment explanation
Indices: 326743--326987 Score: 276
Period size: 79 Copynumber: 3.1 Consensus size: 79
326733 CACAATTGGG
* ** * * * * *
326743 TACTCCAATCCCGGCTTTATTTCTAAAACATTGATTTACCACAATCGAGGATACTTTAACCTTGT
1 TACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACCATCGAGGATACTCTAACCCTGT
326808 TATTTTCAAAGGGA
66 TATTTTCAAAGGGA
* * * * * * **
326822 TACTCCAACCCCGATTTTATTTCGAAAATAATAATTTTCCACCATCGCGGATACCCTAACCCCAT
1 TACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACCATCGAGGATACTCTAACCCTGT
* *
326887 TATTTTCGAGGGGA
66 TATTTTCAAAGGGA
* *
326901 TACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACCATCGGGGATACTCCAACCCTGT
1 TACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACCATCGAGGATACTCTAACCCTGT
**
326966 TA-TTTCTGAGGAGA
66 TATTTTCAAAGG-GA
326980 TACTCCAA
1 TACTCCAA
326988 TCTCATTTTT
Statistics
Matches: 136, Mismatches: 29, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
78 6 0.04
79 130 0.96
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (79 bp):
TACTCCAACCCCGATTTTATTTCCAAAACATTGATTTTCCACCATCGAGGATACTCTAACCCTGT
TATTTTCAAAGGGA
Found at i:331804 original size:32 final size:31
Alignment explanation
Indices: 331753--331812 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
331743 GGGTAAAAGC
* *
331753 AAAAAAATGAGAAACACAAGAGAAACAAAAATG
1 AAAAAAATGAAAAAAACAAG-GAAA-AAAAATG
331786 AAAAAAAT-AAAAAAACAAGGAAAAAAA
1 AAAAAAATGAAAAAAACAAGGAAAAAAA
331813 CAAAAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 4 0.16
31 4 0.16
32 9 0.36
33 8 0.32
ACGTcount: A:0.77, C:0.07, G:0.12, T:0.05
Consensus pattern (31 bp):
AAAAAAATGAAAAAAACAAGGAAAAAAAATG
Found at i:333202 original size:62 final size:62
Alignment explanation
Indices: 333111--334876 Score: 2230
Period size: 62 Copynumber: 28.9 Consensus size: 62
333101 GACGCTTTTT
* * * * *
333111 TTTTTCTTTTTAAAGCTCACACGAGTTGGTGACACCATTTAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333173 TTTTTCTTTTCAAAGTCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
333235 TTTTTCTTTCCAAAGCCCACACGAGTTGGTGGCACCCATTAGTCCTCAAAGAGCATGACGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * **
333297 TTTTTCTTTTCAAAGCCCACACAACTTGGTGGCACCCTTTAGTCCTCAAAGAACAGGACACC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * ** * * *
333359 TTTTTCTTTTTAGAGCCCACATGAGTTGGTGGCACCCTTTAGTTTTCAAAGAGTATGATGCA
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333421 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGACACCCTTTAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * **
333482 -TTTT-TTTTC-AAGCCCACACGAATTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGACACC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
333541 TTTTTCTTTTC-AAGCCTACACGAATTGGTGGCACCCTTTAGTCTTCAAAGAGCAGGAGGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
333602 TTTTTCTTTTCAAA-CCCACATGAGTTGGTGGCAACCTTTAGCCCTCAAAGAGCAGGA-GACC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATG-CC
* * * * *
333663 TTCTTCTTTTC-AAGCCCACGCGAATTGGTGGCACCCTTTAGTCTTCAAAGAGCAGGAGGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333724 TTTTTCTTTTCAAA-CCCACACGAGTTGGTGGCAACCTTTAGTCCTCAAAGAGCAGGACGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
333785 TTTTTCTTTTC-AAGCTCACACGAATTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
333846 TTTTT-TTTTC-AAGCCCACATGAGTTGGTGGCACCCTTGAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333906 TTTTTCTTTTC-AAGCCCACACAAGTTGGTGGCATCCTTTAGTCCTC----A--A--A-GCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
333958 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCCATTAGTCCTCAAAGAGCAAGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* ** * * * **
334020 TTTTTCTTTTCAAAGCCCAAAAAAGTTGGTGGCACCCCTTAGTCCTCAAAGTGCATGACACC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * **
334082 TTTTTCTTTTTAAAGCCTACACGAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGGCGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTT-TAGTCCTCAAAGAGCAGGATGCC
* * * * *
334144 TTTGTCTTTTCAAAGCCTACACGAGTTGGTGGCACCCTTTAGTACTCAAAGAGTAGGACGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334206 TTTTTCTTTTCGAAGCCTAGACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCCA-GATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAG-CAGGATGCC
* * * * **
334268 TTTTTCTTTT-TAAGCCCACATGAGTTGGTGGCAACCTCTAGTCCTCAAAGAGTGGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334329 CTTTTCTTTTC-AGGCCCACACGAGTTGGTGGCAACCTTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334390 TTCTTT-TTTTCAAAGCCCACATGAGTTGGTGTCACCCTTTAGTCCTCAAAGAGCAGGATGCT
1 TT-TTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334452 TTTTTCTTTTCAAAGCCCATATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
334514 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334576 TTTTTC-TTTCCAAGCCCACACGAGTTGGTGGCAACCTTTAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *
334637 TTTTACTTTTC-AAGCCAACACGAATTGGTGGCACCCTTTAGTCCTCAAAGATCAAGATGCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *
334698 TTTTTCTTTTCAAAGCCCATATGAGTTGTTAGCACCCTGTAGTCCTCAAAGAGCAGGA-GCC
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
334759 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAAGA--CA
1 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * ** * * *
334819 TTTTCTCCTTGCAAAGCCCACATAAGTTGGTAGC-GCCTTTAGTCCTCAAAGAACAGGA
1 TTTT-TCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGA
334877 CGCACTTCAT
Statistics
Matches: 1492, Mismatches: 181, Indels: 64
0.86 0.10 0.04
Matches are distributed among these distances:
52 13 0.01
53 33 0.02
55 1 0.00
57 2 0.00
59 50 0.03
60 94 0.06
61 636 0.43
62 658 0.44
63 5 0.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (62 bp):
TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
Found at i:333461 original size:61 final size:61
Alignment explanation
Indices: 333111--334876 Score: 2100
Period size: 61 Copynumber: 28.9 Consensus size: 61
333101 GACGCTTTTT
* * * *
333111 TTTTTCTTTTTAAAGCTCACACGAGTTGGTGACACCATTTAGTCCTCAAAGAGTAGGATGCC
1 TTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333173 TTTTTCTTTTCAAAGTCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
333235 TTTTTCTTTCCAAAGCCCACACGAGTTGGTGGCACCCATTAGTCCTCAAAGAGCATGACGCC
1 TTTTTCTTT-TAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * **
333297 TTTTTCTTTTCAAAGCCCACACAACTTGGTGGCACCCTTTAGTCCTCAAAGAACAGGACACC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * ** * * *
333359 TTTTTCTTTTTAGAGCCCACATGAGTTGGTGGCACCCTTTAGTTTTCAAAGAGTATGATGCA
1 TTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333421 TTTTTCTTTTAAAGCCCACACGAGTTGGTGACACCCTTTAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * **
333482 -TTTT-TTTTCAAGCCCACACGAATTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGACACC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *
333541 TTTTTCTTTTCAAGCCTACACGAATTGGTGGCACCCTTTAGTCTTCAAAGAGCAGGAGGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
333602 TTTTTCTTTTCAAA-CCCACATGAGTTGGTGGCAACCTTTAGCCCTCAAAGAGCAGGA-GACC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATG-CC
* * * * * *
333663 TTCTTCTTTTCAAGCCCACGCGAATTGGTGGCACCCTTTAGTCTTCAAAGAGCAGGAGGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333724 TTTTTCTTTTCAAA-CCCACACGAGTTGGTGGCAACCTTTAGTCCTCAAAGAGCAGGACGCC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *
333785 TTTTTCTTTTCAAGCTCACACGAATTGGTGGCACCCTTTAGTCCTTAAAGAGTAGGATGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
333846 TTTTT-TTTTCAAGCCCACATGAGTTGGTGGCACCCTTGAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
333906 TTTTTCTTTTCAAGCCCACACAAGTTGGTGGCATCCTTTAGTCCTC----A--A--A-GCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
333958 TTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCCATTAGTCCTCAAAGAGCAAGATGCC
1 TTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* ** * * * **
334020 TTTTTCTTTTCAAAGCCCAAAAAAGTTGGTGGCACCCCTTAGTCCTCAAAGTGCATGACACC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* **
334082 TTTTTCTTTTTAAAGCCTACACGAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGGCGCC
1 TTTTTC-TTTTAAAGCCCACACGAGTTGGTGGCACCCTT-TAGTCCTCAAAGAGCAGGATGCC
* * * * *
334144 TTTGTCTTTTCAAAGCCTACACGAGTTGGTGGCACCCTTTAGTACTCAAAGAGTAGGACGCC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334206 TTTTTCTTTTCGAAGCCTAGACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCCA-GATGCC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAG-CAGGATGCC
* * * * **
334268 TTTTTCTTTTTAAGCCCACATGAGTTGGTGGCAACCTCTAGTCCTCAAAGAGTGGGATGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * *
334329 CTTTTCTTTTCAGGCCCACACGAGTTGGTGGCAACCTTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334390 TTCTTT-TTTTCAAAGCCCACATGAGTTGGTGTCACCCTTTAGTCCTCAAAGAGCAGGATGCT
1 TT-TTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * *
334452 TTTTTCTTTTCAAAGCCCATATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGACGCC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
334514 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
** * *
334576 TTTTTCTTTCCAAGCCCACACGAGTTGGTGGCAACCTTTAGTCCTCAAAGAGTAGGATGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * * *
334637 TTTTACTTTTCAAGCCAACACGAATTGGTGGCACCCTTTAGTCCTCAAAGATCAAGATGCC
1 TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* * * * *
334698 TTTTTCTTTTCAAAGCCCATATGAGTTGTTAGCACCCTGTAGTCCTCAAAGAGCAGGA-GCC
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
* *
334759 TTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAAGA--CA
1 TTTTTCTTTT-AAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
** ** * * *
334819 TTTTCTCCTTGCAAAGCCCACATAAGTTGGTAGC-GCCTTTAGTCCTCAAAGAACAGGA
1 TTTT-T-CTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGA
334877 CGCACTTCAT
Statistics
Matches: 1482, Mismatches: 186, Indels: 74
0.85 0.11 0.04
Matches are distributed among these distances:
52 9 0.01
53 37 0.02
55 1 0.00
57 2 0.00
59 50 0.03
60 94 0.06
61 642 0.43
62 634 0.43
63 13 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (61 bp):
TTTTTCTTTTAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCC
Found at i:334968 original size:41 final size:41
Alignment explanation
Indices: 334854--335070 Score: 195
Period size: 43 Copynumber: 5.1 Consensus size: 41
334844 GTTGGTAGCG
* * *
334854 CCTTTAGTCCTCAAAGAACAGGACGCACTTCATTTCCATCATTTC
1 CCTTT-GTCCTCAAAGAGCAGGACGCACTTTATTT-C-T-TTTTC
* * *
334899 CCTTTTGTCTTTAAAGAGTAGGACGCACTTTATTTCTTTTTC
1 CC-TTTGTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTC
*
334941 CCTTTGTCCTCAAAGAGCAGGATGCACTTTA-TT-TTTTTC
1 CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTC
* * * * *
334980 TCCTTTGTCCTCAAAGACCATGACACACTTAATTTCTTTCTTTT
1 -CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTC-TT-TTTC
* * * *
335024 TCTTTGTCCTCAAAGAGTAGGACGCATTTTATTTCCTTTTTT
1 CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTT-CTTTTTC
335066 CCTTT
1 CCTTT
335071 TTTCCTTTAT
Statistics
Matches: 141, Mismatches: 24, Indels: 17
0.77 0.13 0.09
Matches are distributed among these distances:
39 6 0.04
40 28 0.20
41 27 0.19
42 14 0.10
43 32 0.23
44 5 0.04
45 26 0.18
46 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (41 bp):
CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTCTTTTTC
Found at i:334996 original size:40 final size:39
Alignment explanation
Indices: 334854--335057 Score: 156
Period size: 41 Copynumber: 4.9 Consensus size: 39
334844 GTTGGTAGCG
* * *
334854 CCTTTAGTCCTCAAAGAACAGGACGCACTTCATTTCCATCATTTC
1 CCTTT-GTCCTCAAAGAGCAGGACGCACTTTATTT---T--TTTT
* * *
334899 CCTTTTGTCTTTAAAGAGTAGGACGCACTTTATTTCTTTTT
1 CC-TTTGTCCTCAAAGAGCAGGACGCACTTTATTT-TTTTT
*
334940 CCCTTTGTCCTCAAAGAGCAGGATGCACTTTATTTTTTTCT
1 -CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTTTT-T
* * * *
334981 CCTTTGTCCTCAAAGACCATGACACACTTAATTTCTTTCTTTT
1 CCTTTGTCCTCAAAGAGCAGGACGCACTT--TAT-TTT-TTTT
* * *
335024 TCTTTGTCCTCAAAGAGTAGGACGCATTTTATTT
1 CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTT
335058 CCTTTTTTCC
Statistics
Matches: 129, Mismatches: 23, Indels: 19
0.75 0.13 0.11
Matches are distributed among these distances:
40 31 0.24
41 34 0.26
42 4 0.03
43 28 0.22
44 3 0.02
45 26 0.20
46 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.41
Consensus pattern (39 bp):
CCTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTTTTT
Found at i:335036 original size:43 final size:41
Alignment explanation
Indices: 334931--335039 Score: 112
Period size: 40 Copynumber: 2.6 Consensus size: 41
334921 ACGCACTTTA
* ** *
334931 TTTCTTTTTCCCTTTGTCCTCAAAGAGCAGGATGCACTTTATT
1 TTTCTTTTT--CTTTGTCCTCAAAGACCAGGACACACTTAATT
* * *
334974 TTT-TTCTCCTTTGTCCTCAAAGACCATGACACACTTAATTT
1 TTTCTTTTTCTTTGTCCTCAAAGACCAGGACACACTTAA-TT
335015 CTTTCTTTTTCTTTGTCCTCAAAGA
1 -TTTCTTTTTCTTTGTCCTCAAAGA
335040 GTAGGACGCA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
40 25 0.46
41 2 0.04
42 6 0.11
43 21 0.39
ACGTcount: A:0.20, C:0.25, G:0.10, T:0.45
Consensus pattern (41 bp):
TTTCTTTTTCTTTGTCCTCAAAGACCAGGACACACTTAATT
Found at i:335831 original size:49 final size:50
Alignment explanation
Indices: 335737--335883 Score: 138
Period size: 49 Copynumber: 2.9 Consensus size: 50
335727 AAACTTTCAT
* * *
335737 AATTTATATCAATACATTCTTCATTGTATCGATACATTCTAGGTTTTA-C
1 AATTTGTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTACC
* * *
335786 AATTTGTATCGATACATTATTTATTGTATTGATACATT-TCGGGTTTTACC
1 AATTTGTATCGATACATTATTCATTGTATCGATACATTCT-AGGTTTTACC
* ** * * *
335836 CAGATGTATCGATACATT-TCTCAATGTATCGGTACATTCAAGCGTTTT
1 AATTTGTATCGATACATTAT-TCATTGTATCGATACATTCTAG-GTTTT
335884 TGAACATTTC
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 41 0.53
50 31 0.40
51 5 0.06
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (50 bp):
AATTTGTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTACC
Found at i:338212 original size:78 final size:79
Alignment explanation
Indices: 338111--338283 Score: 224
Period size: 78 Copynumber: 2.2 Consensus size: 79
338101 TCCACCTCCG
* * * *
338111 GGGATACTCCAACCCCGTTATTTTCGAAGGGATACTTCAACCCCAATTTTATTTCTAAAACAT-T
1 GGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCAATTTTATTTCCAAAACATCA
*
338175 GATTTTTCACAATC-
66 G-TTTTCCACAATCA
* * * * *
338189 GGGATACTCCAGCCCCATTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACATCA
1 GGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCAATTTTATTTCCAAAACATCA
338254 GTTTTCCACAATCA
66 GTTTTCCACAATCA
*
338268 GGGATACTCTAACCCC
1 GGGATACTCCAACCCC
338284 GACTCTATTT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
78 66 0.81
79 15 0.19
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (79 bp):
GGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCAATTTTATTTCCAAAACATCA
GTTTTCCACAATCA
Found at i:338294 original size:51 final size:51
Alignment explanation
Indices: 338217--338332 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
338207 TATTTTTGAG
* * * *
338217 GGGATACTCCAACCTCGATTTTATTTCCAAAACATCAGTTTTCCACAATCA
1 GGGATACTCCAACCCCGACTCTATTTCCAAAACATCAATTTTCCACAATCA
* * * * *
338268 GGGATACTCTAACCCCGACTCTATTTCTAAAATATTAATTTTCCACAATCG
1 GGGATACTCCAACCCCGACTCTATTTCCAAAACATCAATTTTCCACAATCA
338319 GGGATACTCCAACC
1 GGGATACTCCAACC
338333 TCGTTATTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.30
Consensus pattern (51 bp):
GGGATACTCCAACCCCGACTCTATTTCCAAAACATCAATTTTCCACAATCA
Found at i:338354 original size:78 final size:79
Alignment explanation
Indices: 338267--338438 Score: 213
Period size: 78 Copynumber: 2.2 Consensus size: 79
338257 TTCCACAATC
* * *
338267 AGGGATACTCTAACCCCGACTCTATTTCTAAAATATTAATTTTCCACAATCGGGGATACTCCAAC
1 AGGGATACTCCAACCCCGACTCTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAAC
338332 -CTCGTTATTTTC-A
66 TC-CGTTATTTTCGA
** * * * * * *
338345 AGGGATACTCCAACCCCGGTTCTATTTCTAAAACATCGATTTTTCACCATTGTGGATACTCTAAC
1 AGGGATACTCCAACCCCGACTCTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAAC
338410 TCCGTTATTTTCGA
66 TCCGTTATTTTCGA
*
338424 AGAGATACTCCAACC
1 AGGGATACTCCAACC
338439 TCATTTTTAT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
78 64 0.80
79 16 0.20
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
AGGGATACTCCAACCCCGACTCTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCCAAC
TCCGTTATTTTCGA
Found at i:338409 original size:129 final size:129
Alignment explanation
Indices: 338138--338381 Score: 321
Period size: 129 Copynumber: 1.9 Consensus size: 129
338128 TTATTTTCGA
* * * * * *
338138 AGGGATACT-TCAACCCCAATTTTATTTCTAAAACATTGATTTTTCACAATCGGGATACTCCAGC
1 AGGGATACTCT-AACCCCGACTCTATTTCTAAAACATTAATTTTCCACAATCGGGATACTCCAAC
* * * *
338202 CCCATTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACATCAGTTTTCCACAATC
65 CCCATTATTTTTCAAGGGATACTCCAACCCCGATTCTATTTCCAAAACATCAGTTTTCCACAATC
*
338267 AGGGATACTCTAACCCCGACTCTATTTCTAAAATATTAATTTTCCACAATCGGGGATACTCCAAC
1 AGGGATACTCTAACCCCGACTCTATTTCTAAAACATTAATTTTCCACAATC-GGGATACTCCAAC
* * * *
338332 CTCGTTA-TTTTCAAGGGATACTCCAACCCCGGTTCTATTTCTAAAACATC
65 CCCATTATTTTTCAAGGGATACTCCAACCCCGATTCTATTTCCAAAACATC
338382 GATTTTTCAC
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
129 80 0.82
130 18 0.18
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (129 bp):
AGGGATACTCTAACCCCGACTCTATTTCTAAAACATTAATTTTCCACAATCGGGATACTCCAACC
CCATTATTTTTCAAGGGATACTCCAACCCCGATTCTATTTCCAAAACATCAGTTTTCCACAATC
Found at i:340475 original size:16 final size:17
Alignment explanation
Indices: 340450--340482 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
340440 TTAGCTAAAT
*
340450 TTAACTCTTCAT-TCAC
1 TTAACCCTTCATGTCAC
340466 TTAACCCTTCATGTCAC
1 TTAACCCTTCATGTCAC
340483 CCAAAGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.33, G:0.03, T:0.39
Consensus pattern (17 bp):
TTAACCCTTCATGTCAC
Found at i:349797 original size:8 final size:8
Alignment explanation
Indices: 349784--349809 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
349774 ACCAAACTTC
349784 AACTTGAA
1 AACTTGAA
349792 AACTTGAA
1 AACTTGAA
349800 AACTTGAA
1 AACTTGAA
349808 AA
1 AA
349810 GAAAGCTCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (8 bp):
AACTTGAA
Found at i:350657 original size:21 final size:20
Alignment explanation
Indices: 350632--350681 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
350622 TCTTTTCTCT
350632 TTTTATTTGATTATT-TGTTTA
1 TTTTATTT-ATTATTGTG-TTA
350653 TTTTAATTTATTATTGTGTTA
1 TTTT-ATTTATTATTGTGTTA
350674 TTTCTATT
1 TTT-TATT
350682 GGAAAAACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (20 bp):
TTTTATTTATTATTGTGTTA
Found at i:350693 original size:111 final size:107
Alignment explanation
Indices: 350503--350715 Score: 363
Period size: 111 Copynumber: 2.0 Consensus size: 107
350493 AAGGGATAAA
350503 TTTACCTTTTTCTCTTTTTTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTATTTCT
1 TTTACCTTTTTCTCTTTTTTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTATTTCT
*
350568 ATTGGAAAAACTAATCAAATATGTTGCAAAATTTTTTAAAAT
66 ATTGGAAAAACTAATCAAATATGTAGCAAAATTTTTTAAAAT
*
350610 TTTACCTTTTTCTCTTTTCTCTTTTTATTTGATTATTTGTTTATTTTAATTTATTATTGTGTTAT
1 TTTACCTTTTTCTC--TT-T-TTTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTAT
*
350675 TTCTATTGGAAAAACTAATGAAATATGTAGCAAAATTTTTT
62 TTCTATTGGAAAAACTAATCAAATATGTAGCAAAATTTTTT
350716 TAATTTGATC
Statistics
Matches: 99, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
107 14 0.14
109 2 0.02
110 1 0.01
111 82 0.83
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (107 bp):
TTTACCTTTTTCTCTTTTTTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTATTTCT
ATTGGAAAAACTAATCAAATATGTAGCAAAATTTTTTAAAAT
Found at i:350747 original size:111 final size:111
Alignment explanation
Indices: 350521--350747 Score: 303
Period size: 111 Copynumber: 2.0 Consensus size: 111
350511 TTTCTCTTTT
350521 TTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTATTTCTATTGGAAAAACTAATCAA
1 TTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTATTTCTATTGGAAAAACTAATCAA
* * * ****** ** *
350586 ATATGTTGCAAAATTTTTTAAAATTTTACCTTTTTCTCTTTTCTCT
66 ATATGTAGCAAAATTTTTTAAAATTTGACATTTTAAAAACTGATCA
* *
350632 TTTTATTTGATTATTTGTTTATTTTAATTTATTATTGTGTTATTTCTATTGGAAAAACTAATGAA
1 TTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTATTTCTATTGGAAAAACTAATCAA
*
350697 ATATGTAGCAAAATTTTTT-TAATTTGATCATTTTAAAAACTGATCA
66 ATATGTAGCAAAATTTTTTAAAATTTGA-CATTTTAAAAACTGATCA
350743 TTTTA
1 TTTTA
350748 ATTAGTAGCC
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
110 6 0.06
111 94 0.94
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.55
Consensus pattern (111 bp):
TTTTATTTGATTATTTATTTATTTTAATTTATTATTGTGTTATTTCTATTGGAAAAACTAATCAA
ATATGTAGCAAAATTTTTTAAAATTTGACATTTTAAAAACTGATCA
Found at i:353490 original size:19 final size:18
Alignment explanation
Indices: 353466--353528 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
353456 AAATCGTAAC
353466 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
353485 TGTATCGATAC---A--T
1 TGTATCGATACATAAGTT
*
353498 TATATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
353517 TGTATCGATACA
1 TGTATCGATACA
353529 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 11 0.31
16 2 0.06
19 23 0.64
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:353536 original size:32 final size:32
Alignment explanation
Indices: 353466--353536 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
353456 AAATCGTAAC
*
353466 TGTATCGATACATAAGTGTTGTATCGATACAT
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
353498 TATATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
353530 TGTATCG
1 TGTATCG
353537 CTACGAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:353599 original size:13 final size:13
Alignment explanation
Indices: 353581--353607 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
353571 ATTACTCAAA
353581 TGTATCGATACAT
1 TGTATCGATACAT
353594 TGTATCGATACAT
1 TGTATCGATACAT
353607 T
1 T
353608 AATCTTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:358684 original size:20 final size:20
Alignment explanation
Indices: 358659--358783 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
358649 TTTTACCCAG
358659 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
358679 ATGTATCGATACATTCTGTCTTTTACCCAA
1 ATGTATCGATACA-----T-TTTT---C-A
*
358709 ATGTCTCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
358729 ATGTATCAATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
358749 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
358769 ATGTATCGATACATT
1 ATGTATCGATACATT
358784 CCATCTTTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
20 59 0.70
21 1 0.01
24 4 0.05
25 2 0.02
26 4 0.05
29 1 0.01
30 13 0.15
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:364599 original size:13 final size:13
Alignment explanation
Indices: 364581--364606 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
364571 CAATTTTTTG
364581 TGTATCGATACAT
1 TGTATCGATACAT
364594 TGTATCGATACAT
1 TGTATCGATACAT
364607 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:364618 original size:32 final size:33
Alignment explanation
Indices: 364561--364624 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
364551 TACAAGCCAA
**
364561 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
364594 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
364625 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:365289 original size:18 final size:18
Alignment explanation
Indices: 365266--365301 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
365256 AATCAAAATA
365266 ATTTTAACAAATTCGTAC
1 ATTTTAACAAATTCGTAC
365284 ATTTTAACAAATTCGTAC
1 ATTTTAACAAATTCGTAC
365302 TTTCTCCCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
ATTTTAACAAATTCGTAC
Found at i:367200 original size:13 final size:13
Alignment explanation
Indices: 367182--367219 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
367172 ATAATCCCCC
367182 TGTATCGATACAG
1 TGTATCGATACAG
*
367195 TGTATCGATACAT
1 TGTATCGATACAG
*
367208 TGTATCAATACA
1 TGTATCGATACA
367220 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:369321 original size:15 final size:15
Alignment explanation
Indices: 369285--369322 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
369275 TTCATCAATT
* *
369285 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
369300 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
369315 TCATTTTG
1 TCATTTTG
369323 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:373404 original size:20 final size:20
Alignment explanation
Indices: 373379--373430 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
373369 TACAAGCCAA
**
373379 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
373399 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
373418 TGTATCGATACAA
1 TGTATCGATACAA
373431 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:375530 original size:22 final size:23
Alignment explanation
Indices: 375460--375531 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
375450 TCAAAATGAC
*
375460 AAAAAAAG-GTCAAAAGCAAAAGT
1 AAAAAAAGTG-CAAAAGCAAAACT
* * *
375483 ATAAAATA-TG-AAAAGGAAAACA
1 A-AAAAAAGTGCAAAAGCAAAACT
375505 AAAAAAAGTGCAAAAGCAAAA-T
1 AAAAAAAGTGCAAAAGCAAAACT
375527 AAAAA
1 AAAAA
375532 GGGAACAACA
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
21 5 0.13
22 17 0.45
23 10 0.26
24 6 0.16
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (23 bp):
AAAAAAAGTGCAAAAGCAAAACT
Found at i:376857 original size:27 final size:27
Alignment explanation
Indices: 376824--376932 Score: 164
Period size: 27 Copynumber: 4.0 Consensus size: 27
376814 TTTCTTTTCA
*
376824 AAGTCCACAACTCCGTGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
376851 AAGTCCACAACTCCGTGGCATCCTTTCA
1 AAGTCCACAACTCCGTGGCATCCTTT-T
376879 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
376906 AAGTCCACAACTTCATGGTATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
376933 TAAGCCCATA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
27 49 0.65
28 26 0.35
ACGTcount: A:0.24, C:0.31, G:0.14, T:0.31
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:376891 original size:28 final size:28
Alignment explanation
Indices: 376819--377489 Score: 424
Period size: 28 Copynumber: 23.1 Consensus size: 28
376809 TGGCATTTCT
* * * *
376819 TTTCAAAGTCCACAACTCCGTGGTATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
376847 TTT-TAAGTCCACAACTCCGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * *
376874 TTTCAAAGTCCACAACTCCGTGGCATCC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
376902 TTT-TAAGTCCACAACTTCA-TGGTATCC
1 TTTCAAAGCCCACAA-GTCAGTGGCATCC
** * *
376929 TTTTTAAGCCCATAAGTAAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
376956 TTTCCAAAGCCCACAAGTCAGTGGCAACCC
1 TTT-CAAAGCCCACAAGTCAGTGGC-ATCC
** *
376986 ATTTCAAAGCCCACACAAGTTGGTGGCAACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC
*
377018 ATTTCAAAGCCCACACAAGTC-GATGGCAACCC
1 -TTTCAAAG-CC-CACAAGTCAG-TGGC-ATCC
* **
377050 ATTTCAAAGCCCATAAGTCAGTGGCATTA
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
377079 TTTCAAAGCCCACACAAGTCGGTGGCAACTCA
1 TTTCAAAG-CC-CACAAGTCAGTGGC-A-TCC
* ** *
377111 TTTGAAAGCCCACACAAGTTGGTGGCAACCC
1 TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC
* *
377142 ATTTCAAAGCCCACACAAGTTAGTGGCAACCC
1 -TTTCAAAG-CC-CACAAGTCAGTGGC-ATCC
* * *
377174 ATTTCAAAGCCACATAAGTCGGTGGCAACCC
1 -TTTCAAAGCC-CACAAGTCAGTGGC-ATCC
* ** *
377205 ATTTCAAAGCCCACAAATTGGTGGCATCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
*
377234 TTTCAAAGCCCACAAGTCGGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
*
377261 TTTTCAAAGCCCATAAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * *
377290 TTTCAAAGTCCATAAATCGGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* ** *
377318 TTTCAAAGCCCATAAGTTGGTGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
377346 TTTCAAAGCCCACAAGTCAATGGCATCT
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
377374 TTTCCAAGCCCATAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
377401 TTTTCAAAGCCCACGAGTCAGTGGCATCT
1 -TTTCAAAGCCCACAAGTCAGTGGCATCC
* *
377430 TTTCAAAGTCCACAAGTCATTGGCATCTC
1 TTTCAAAGCCCACAAGTCAGTGGCATC-C
*
377459 TTT-AAAGCCCACACAAGTTAGTGGCA-CC
1 TTTCAAAG-CC-CACAAGTCAGTGGCATCC
377487 TTT
1 TTT
377490 TTTTAAAAGC
Statistics
Matches: 548, Mismatches: 71, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
27 54 0.10
28 264 0.48
29 14 0.03
30 54 0.10
31 41 0.07
32 121 0.22
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:376895 original size:55 final size:55
Alignment explanation
Indices: 376819--376931 Score: 190
Period size: 55 Copynumber: 2.1 Consensus size: 55
376809 TGGCATTTCT
* *
376819 TTTCAAAGTCCACAACTCCGTGGTATCCTTTTAAGTCCACAACTCCGTGGCATCC
1 TTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC
* *
376874 TTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCATGGTATCC
1 TTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC
376929 TTT
1 TTT
376932 TTAAGCCCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (55 bp):
TTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC
Found at i:376952 original size:55 final size:55
Alignment explanation
Indices: 376819--376958 Score: 147
Period size: 55 Copynumber: 2.6 Consensus size: 55
376809 TGGCATTTCT
* ** * *
376819 TTTCAAAGTCCACAACTCCGTGGTATCCTTTTAAGTCCACAACTCCGTGGCATCC
1 TTTCAAAGCCCACAACTAAGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC
* ** * *
376874 TTTCAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTTCATGGTATCC
1 TTTCAAAGCCCACAACTAAGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC
** * *
376929 TTTTTAAGCCCATAAGTAAGTGGCA-CCTTT
1 TTTCAAAGCCCACAACTAAGTGGCATCCTTT
376959 CCAAAGCCCA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
54 5 0.07
55 69 0.93
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.31
Consensus pattern (55 bp):
TTTCAAAGCCCACAACTAAGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCC
Found at i:377012 original size:32 final size:32
Alignment explanation
Indices: 376960--377273 Score: 370
Period size: 32 Copynumber: 10.3 Consensus size: 32
376950 GGCACCTTTC
*
376960 CAAAG-CC-CACAAGTCAGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
376990 CAAAGCCCACACAAGTTGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
377022 CAAAGCCCACACAAGTCGATGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
* * **
377054 CAAAG-CC-CATAAGTCAGTGGC-A-TTATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
377082 CAAAGCCCACACAAGTCGGTGGCAACTCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
* *
377114 GAAAGCCCACACAAGTTGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
**
377146 CAAAGCCCACACAAGTTAGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
377178 CAAAG-CCACATAAGTCGGTGGCAACCCATTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
* * *
377209 CAAAGCCCACA-AA-TTGGTGGC-A-TCTTTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
*
377237 CAAAG-CC-CACAAGTCGGTGGC-A-CCTTTT
1 CAAAGCCCACACAAGTCGGTGGCAACCCATTT
377265 CAAAGCCCA
1 CAAAGCCCA
377274 TAAGTCAGTG
Statistics
Matches: 248, Mismatches: 25, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
26 2 0.01
27 4 0.02
28 36 0.15
29 6 0.02
30 35 0.14
31 35 0.14
32 130 0.52
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (32 bp):
CAAAGCCCACACAAGTCGGTGGCAACCCATTT
Found at i:377722 original size:48 final size:48
Alignment explanation
Indices: 377594--377725 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 48
377584 GGCACCTTTA
*
377594 TTAGCTCAATGTCGTTGGCCTTGAATCAACACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* *
377642 TTAGCTTAATGTCGCTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
* * * **
377690 TTTGCTCGATGTTGTTGGCCTTGAATTGGCACATTG
1 TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTG
377726 GCACTCCTCT
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.18, C:0.26, G:0.19, T:0.37
Consensus pattern (48 bp):
TTAGCTCAATGTCGTTGGCCTTGAATCAGCACATTGTCCACTTTTCCC
Found at i:384411 original size:429 final size:429
Alignment explanation
Indices: 383567--384860 Score: 2309
Period size: 429 Copynumber: 3.0 Consensus size: 429
383557 TGCATTCAAG
383567 GGATTATATCGAAATGATTTCAAGTCGAAACTATTGAAACCAATGTCAAGTCAAAATGTAGGTAG
1 GGATTATATCGAAATGATTTCAAGTCGAAACTATTGAAACCAATGTCAAGTCAAAATGTAGGTAG
* * *
383632 TAAAGTACCGATTTCAAGCATCGTGAGGAGGTTCATATCTCTTGACGTGTAATCAACTCCTAAAC
66 TAAAGTACCGATTTCAAGCATCGTGAGGAGGTTCGTATCTCTTTACGTGTAATCAACTCCCAAAC
* * *
383697 CCAACCGACGAGTCTCTTAATTACGTAGACCATGGGATTGATGTCTCAAGTTTCGTAACTTAAGA
131 CCAACTGACGAGTCTCTTAATTACGTAGACCATGGGATTGATGTCTCGAGTTTCCTAACTTAAGA
* *
383762 CATGGCTTTCAATAGGCATTCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAATTTC
196 CATGGCTTTCAAT----ATTCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAGTTTT
* * *
383827 GGTCACTTCGTGGTGACCGTCGAAGATGGGTTAGATGGGCGATTCATTTATCAATCTTCCCTTTT
257 GATCACTTCGTGGTGACCGTCGAGGATGGGTTAGATGGGCAATTCATTTATCAATCTTCCCTTTT
383892 TCAACACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGC
322 TCAACACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGC
383957 CTCATTTGGCCTATCGCAGGGGGTCGAGCCCATGTCGCGACAA
387 CTCATTTGGCCTATCGCAGGGGGTCGAGCCCATGTCGCGACAA
*
384000 GGATTATATCGAAATGATTTTAAGTCGAAACTATTGAAACCAATGTCAAGTCAAAATGTAGGTAG
1 GGATTATATCGAAATGATTTCAAGTCGAAACTATTGAAACCAATGTCAAGTCAAAATGTAGGTAG
* *
384065 TAAAGTACCAATTTCAAGCATCGTGAAGAGGTTCGTATCTCTTTACGTGTAATCAACTCCCAAAC
66 TAAAGTACCGATTTCAAGCATCGTGAGGAGGTTCGTATCTCTTTACGTGTAATCAACTCCCAAAC
*
384130 CCAACTGACGAGTCTCTTAATTACGTAAACCATGGGATTGATGTCTCGAGTTTCCTAACTTAAGA
131 CCAACTGACGAGTCTCTTAATTACGTAGACCATGGGATTGATGTCTCGAGTTTCCTAACTTAAGA
*
384195 CATGGCTTTCAATATTCGATCATTCCTAGCCCAAAATGATCGGTGGCGACTCCAAAGTTTTGATC
196 CATGGCTTTCAATATTCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAGTTTTGATC
384260 ACTTCGTGGTGACCGTCGAGGATGGGTTAGATGGGCAATTCATTTATCAATCTTCCCTTTTTCAA
261 ACTTCGTGGTGACCGTCGAGGATGGGTTAGATGGGCAATTCATTTATCAATCTTCCCTTTTTCAA
*
384325 CACATACCTCTTACCATACCATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGCCTCA
326 CACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGCCTCA
*
384390 TTTGGCCTATCGCAGGGGGTCGAGCCCATGTCGTGACAA
391 TTTGGCCTATCGCAGGGGGTCGAGCCCATGTCGCGACAA
**
384429 GGATTATATCGAAATGATTTCAAGTCGAAACTATTGAAACCAATGTCTCGTCAAAATGTAGGTAG
1 GGATTATATCGAAATGATTTCAAGTCGAAACTATTGAAACCAATGTCAAGTCAAAATGTAGGTAG
384494 TAAAGTACCGATTTCAAGCATCGTGAGGAGGTTCGTATCTCTTTACGTGTAATCAACTCCCAAAC
66 TAAAGTACCGATTTCAAGCATCGTGAGGAGGTTCGTATCTCTTTACGTGTAATCAACTCCCAAAC
*
384559 CCAACTGACGAGTCTCTTAATTACGTAGACCATGGGATTGATGTCTCGAGTTTCCTAACTTAATA
131 CCAACTGACGAGTCTCTTAATTACGTAGACCATGGGATTGATGTCTCGAGTTTCCTAACTTAAGA
*
384624 CATGGCTTTCAATATTCGATCATGCCTAGCCCAAAATGATCGGTGGTGACTCCAAAGTTTTGATC
196 CATGGCTTTCAATATTCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAGTTTTGATC
* *
384689 ACTTCGTGGTGACCGTCGAGGATCGGTTAAATGGGCAATTCATTTATCAATCTTCCCTTTTTCAA
261 ACTTCGTGGTGACCGTCGAGGATGGGTTAGATGGGCAATTCATTTATCAATCTTCCCTTTTTCAA
* *
384754 CACATACCTCTTACCATGCCATAGAAATCCCCAATCATGAGGGATATTAAGTCGAGCAAGCCTCA
326 CACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGCCTCA
*
384819 TTTGGCCTATCGTAGGGGGTCGAGCCCATGTCGCGACAA
391 TTTGGCCTATCGCAGGGGGTCGAGCCCATGTCGCGACAA
384858 GGA
1 GGA
384861 CCACACTTGG
Statistics
Matches: 827, Mismatches: 34, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
429 629 0.76
433 198 0.24
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (429 bp):
GGATTATATCGAAATGATTTCAAGTCGAAACTATTGAAACCAATGTCAAGTCAAAATGTAGGTAG
TAAAGTACCGATTTCAAGCATCGTGAGGAGGTTCGTATCTCTTTACGTGTAATCAACTCCCAAAC
CCAACTGACGAGTCTCTTAATTACGTAGACCATGGGATTGATGTCTCGAGTTTCCTAACTTAAGA
CATGGCTTTCAATATTCGATCATGCCTAGCCCAAAATGATCGGTGGCGACTCCAAAGTTTTGATC
ACTTCGTGGTGACCGTCGAGGATGGGTTAGATGGGCAATTCATTTATCAATCTTCCCTTTTTCAA
CACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGCCTCA
TTTGGCCTATCGCAGGGGGTCGAGCCCATGTCGCGACAA
Found at i:385188 original size:97 final size:95
Alignment explanation
Indices: 384913--385189 Score: 317
Period size: 97 Copynumber: 2.8 Consensus size: 95
384903 TTTGGAAATC
* * *
384913 TAAATCTTATTTTTTGTTTAAATTGTCATCATCGGGGACACTCCGACCCCATTCCT-TCAAGGGG
1 TAAATCTTA-TTTTTGCTTAAATTGTCATCATCGGGGACACTCCAACCCCATTCCTCT-GA-GGG
* * *
384977 ATACTCCAATCCCATTTTTAAACTCGTAAAGATT
63 ATACTTC-ATCCCGTTTTTAAACTCATAAAGATT
* * * *
385011 TAAATTTTATTTTTACTTAAATTGTCATCATCAGGGACACTCTAACCCCATTCCTCTGAAGGGAT
1 TAAATCTTATTTTTGCTTAAATTGTCATCATCGGGGACACTCCAACCCCATTCCTCTG-AGGGAT
* *
385076 ACTTTGA-CCCTGTTTTTAAACTCATCAAGATT
65 AC-TTCATCCC-GTTTTTAAACTCATAAAGATT
* *
385108 TAAATCTTATTTTTGCTTAAATTGTCATCATCGGGGAGA-TACCAACCCTATTCCTCTGAGGAGA
1 TAAATCTTATTTTTGCTTAAATTGTCATCATCGGGGACACT-CCAACCCCATTCCTCTGAGG-GA
385172 TACTTCATCTCCGTTTTT
64 TACTTCATC-CCGTTTTT
385190 CAACCAAAAA
Statistics
Matches: 152, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
96 10 0.07
97 129 0.85
98 13 0.09
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (95 bp):
TAAATCTTATTTTTGCTTAAATTGTCATCATCGGGGACACTCCAACCCCATTCCTCTGAGGGATA
CTTCATCCCGTTTTTAAACTCATAAAGATT
Found at i:389266 original size:13 final size:13
Alignment explanation
Indices: 389248--389272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
389238 ATAATGCACA
389248 GTATCGATACATT
1 GTATCGATACATT
389261 GTATCGATACAT
1 GTATCGATACAT
389273 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:398088 original size:13 final size:13
Alignment explanation
Indices: 398070--398094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
398060 ATAATGCATA
398070 GTATCGATACATT
1 GTATCGATACATT
398083 GTATCGATACAT
1 GTATCGATACAT
398095 GACCACTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:398212 original size:13 final size:13
Alignment explanation
Indices: 398194--398219 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
398184 ACATACAAGA
398194 TGTATCGATACAT
1 TGTATCGATACAT
398207 TGTATCGATACAT
1 TGTATCGATACAT
398220 GACCAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:398235 original size:33 final size:32
Alignment explanation
Indices: 398174--398241 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
398164 CCTTAACTGT
398174 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
398206 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
398239 TTG
1 TTG
398242 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:400369 original size:79 final size:77
Alignment explanation
Indices: 400203--400392 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 77
400193 AGTTTAATAT
* * * *
400203 TTTGGAGATAAAATCGGAGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCTCGATTG
1 TTTGGAAATAAAATCGGA-TTAGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTG
*
400268 TGAAAAATTAGTG
65 TGAAAAATGAGTG
* * *
400281 TTTCAGAAATAAAATCGGGATTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCGATT
1 TTT-GGAAATAAAATC-GGATTAGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATT
*
400346 GTGGAAAATCGA-TG
64 GTGAAAAAT-GAGTG
400360 TTCTGGAAATAAAATCAAGG-TTAGAGTATCCCC
1 TT-TGGAAATAAAATC--GGATTAGAGTATCCCC
400393 AATGGTGGAA
Statistics
Matches: 95, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 85 0.89
80 7 0.07
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (77 bp):
TTTGGAAATAAAATCGGATTAGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCCCGATTGT
GAAAAATGAGTG
Found at i:400391 original size:51 final size:50
Alignment explanation
Indices: 400327--400442 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 50
400317 AAAATAACGG
* * * *
400327 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTCTGGAAATAAAATCAA
1 GGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTCTGAAAATAAAA-CAA
* * * *
400378 GGTTAGAGTATCCCCAATGGTGGAAAATTGGTGTTTTGAAAATAAAACCA
1 GGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTCTGAAAATAAAACAA
400428 GGCTTAGAGTATCCC
1 GG-TTAGAGTATCCC
400443 TTCAAAAATA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
50 4 0.07
51 52 0.93
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.28
Consensus pattern (50 bp):
GGTTAGAGTATCCCCAATGGTGGAAAATCGATGTTCTGAAAATAAAACAA
Found at i:400421 original size:130 final size:130
Alignment explanation
Indices: 400287--400522 Score: 339
Period size: 130 Copynumber: 1.8 Consensus size: 130
400277 AGTGTTTCAG
* * * **
400287 AAATAAAATCGGGATTAGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCCCGATTGTGGAA
1 AAATAAAACCAGGATTAGAGTATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAA
* *
400352 AATCGATGTTCTGGAAATAAAATCAAGGTT-AGAGTATCCCCAATGGTGGAAAATTGGTGTTTTG
66 AATCGATATTCTAGAAATAAAATCAAGGTTGA-AGTATCCCCAATGGTGGAAAATTGGTGTTTTG
400416 A
130 A
* *
400417 AAATAAAACCAGGCTTAGAGTATCCCTTCAAAAATAATAGGGTTGGAGTATCCCCGATTGTAAAA
1 AAATAAAACCAGGATTAGAGTATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAA
* * **
400482 AATTGATATTTTAGAAATAAAATCGGGGTTGAAGTATCCCC
66 AATCGATATTCTAGAAATAAAATCAAGGTTGAAGTATCCCC
400523 TCGAAAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 91 0.99
131 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (130 bp):
AAATAAAACCAGGATTAGAGTATCCCTTCAAAAATAACAGGGTTGGAGTATCCCCGATTGTAAAA
AATCGATATTCTAGAAATAAAATCAAGGTTGAAGTATCCCCAATGGTGGAAAATTGGTGTTTTGA
Found at i:400466 original size:79 final size:78
Alignment explanation
Indices: 400378--400897 Score: 457
Period size: 79 Copynumber: 6.6 Consensus size: 78
400368 ATAAAATCAA
* * * * * ** *
400378 GGTTAGAGTATCCCCAATGGTGGAAAATTGGTGTTTTGAAAATAAAACCAGGCTTAGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTT-GAGTATCCC
*
400443 TTCAAAAATAATAG
65 TTCAAAAATAATGG
** * *
400457 GGTTGGAGTATCCCCGATTGTAAAAAATTGATATTTT-AGAAATAAAA-TCGGGGTTGAAGTATC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGA-AAATAAAACT-GGGGTTG-AGTATC
* *
400520 CCCTCGAAAATAATGG
63 CCTTCAAAAATAATGG
* * *
400536 GGTTGGAGTATCCCCGATTATGAAAAATCGATGTTTTGAAAATAAAACTGGGGTTGGAATATCCT
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTT-GAGTATCC-
* *
400601 CTT-AGAAATAA-CG
64 CTTCAAAAATAATGG
* * *
400614 GGTTGGAGTATCCCCGATTGT-GAAAATTTGATATTTT-AGAAATAAAA-TCGAGGTTGGAGTAT
1 GGTTGGAGTATCCCCGATTGTGGAAAA-TCGATGTTTTGA-AAATAAAACT-GGGGTT-GAGTAT
*
400676 -CCTCTCAGAAAA-AATAG
62 CCCT-TCA-AAAATAATGG
* * *
400693 GGTTAGAGTATCCTCAATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTTGAAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTTG-AGTATCCC
* * *
400758 CTCGAAAATAACGG
65 TTCAAAAATAATGG
* * * * * *
400772 GGTTGGAGTATTCTCGATTATGTAAAATCAATGTTTTGAAAATAAAACTGGGGTTAGAATATCCC
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTT-GAGTATCCC
* *
400837 TTCAGAAATAACGG
65 TTCAAAAATAATGG
* ** *
400851 GGTTGGAGTATCCTCGATTGTAAAAAATCGGTGTTTT-AGAAATAAAA
1 GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGA-AAATAAAA
400898 GCATGAATGG
Statistics
Matches: 363, Mismatches: 56, Indels: 44
0.78 0.12 0.10
Matches are distributed among these distances:
76 2 0.01
77 8 0.02
78 59 0.16
79 279 0.77
80 15 0.04
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATCGATGTTTTGAAAATAAAACTGGGGTTGAGTATCCCT
TCAAAAATAATGG
Found at i:400675 original size:157 final size:154
Alignment explanation
Indices: 400409--400897 Score: 529
Period size: 157 Copynumber: 3.1 Consensus size: 154
400399 GGAAAATTGG
** * * * *
400409 TGTTTTGAAAATAAAACCAGGCTTAGAGTATCCCTTCAAAAATAATAGGGTTGGAGTATCCCCGA
1 TGTTTTGAAAATAAAACTGGGGTT-GAATATCCCTT-AGAAATAA-CGGGTTGGAGTATCCCCGA
* *
400474 TTGTAAAAAATTGATATTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCGAAAATAATGGGGT
63 TTGT-GAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGT
* *
400539 TGGAGTATCCCCGATTATGAAAAATCGA
127 TGGAGTATCCTCGATTGTGAAAAATCGA
400567 TGTTTTGAAAATAAAACTGGGGTTGGAATATCCTCTTAGAAATAACGGGTTGGAGTATCCCCGAT
1 TGTTTTGAAAATAAAACTGGGGTT-GAATATCC-CTTAGAAATAACGGGTTGGAGTATCCCCGAT
* * *
400632 TGTGAAAATTTGATATTTTAGAAATAAAATCGAGGTTGGAGTATCCTCTCAGAAAA-AATAGGGT
64 TGTGAAAA-TTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTC-GAAAATAATGGGGT
* * *
400696 TAGAGTATCCTCAATTGTGGAAAATCGA
127 TGGAGTATCCTCGATTGTGAAAAATCGA
* * * *
400724 TGTTTTGAAAATAAAACTGGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCTCGA
1 TGTTTTGAAAATAAAACTGGGGTTGAA-TATCCCTTAG-AAATAAC-GGGTTGGAGTATCCCCGA
* ** * * * * *
400789 TTATGTAAAATCAATGTTTT-GAAAATAAAA-CTGGGGTTAGAATATCCCTTC-AGAAATAACGG
63 TTGTG-AAAATTGATATTTTAG-AAATAAAATC-GGGGTTGGAGTATCCCCTCGA-AAATAATGG
* *
400851 GGTTGGAGTATCCTCGATTGTAAAAAATCGG
124 GGTTGGAGTATCCTCGATTGTGAAAAATCGA
400882 TGTTTT-AGAAATAAAA
1 TGTTTTGA-AAATAAAA
400898 GCATGAATGG
Statistics
Matches: 282, Mismatches: 37, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
156 11 0.04
157 132 0.47
158 132 0.47
159 7 0.02
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (154 bp):
TGTTTTGAAAATAAAACTGGGGTTGAATATCCCTTAGAAATAACGGGTTGGAGTATCCCCGATTG
TGAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGA
GTATCCTCGATTGTGAAAAATCGA
Found at i:400694 original size:236 final size:236
Alignment explanation
Indices: 400378--400897 Score: 687
Period size: 236 Copynumber: 2.2 Consensus size: 236
400368 ATAAAATCAA
* * *
400378 GGTTAGAGTATCCCCAATGGTGGAAAATTGGTGTTTT-GAAAATAAAACCAGGCTTAGAGTATCC
1 GGTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTAG-AAATAAAACCAGGCTTAGAGTATCC
* * *
400442 CTTCAAAAATAATAGGGTTGGAGTATCCCCGATTGTAAAAAATTGATATTTT-AGAAATAAAA-T
64 CTTCAAAAATAATAGGGTTAGAGTATCCCCAATTGTAAAAAATCGATATTTTGA-AAATAAAACT
* *
400505 CGGGGTTGAAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATCGATGT
128 -GGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGT
*
400570 TTTGAAAATAAAACTGGGGTTGGAATATCCTCTT-AGAAATAAC-G
192 TTTGAAAATAAAACTGGGGTTAGAATATCC-CTTCAGAAATAACGG
* * * *
400614 GGTTGGAGTATCCCCGATTGTGAAAATTTGATATTTTAGAAATAAAATCGAGG-TTGGAGTAT-C
1 GGTTGGAGTATCCCCGATTGTGAAAA-TTGGTGTTTTAGAAATAAAA-CCAGGCTTAGAGTATCC
* ** *
400677 CTCTCAGAAAA-AATAGGGTTAGAGTATCCTCAATTGTGGAAAATCGATGTTTTGAAAATAAAAC
64 CT-TCA-AAAATAATAGGGTTAGAGTATCCCCAATTGTAAAAAATCGATATTTTGAAAATAAAAC
* * *
400741 TGGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATTCTCGATTATGTAAAATCAATGT
127 TGGGGTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGT
400806 TTTGAAAATAAAACTGGGGTTAGAATATCCCTTCAGAAATAACGG
192 TTTGAAAATAAAACTGGGGTTAGAATATCCCTTCAGAAATAACGG
* * *
400851 GGTTGGAGTATCCTCGATTGTAAAAAATCGGTGTTTTAGAAATAAAA
1 GGTTGGAGTATCCCCGATTGT-GAAAATTGGTGTTTTAGAAATAAAA
400898 GCATGAATGG
Statistics
Matches: 249, Mismatches: 25, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
235 11 0.04
236 185 0.74
237 49 0.20
238 4 0.02
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (236 bp):
GGTTGGAGTATCCCCGATTGTGAAAATTGGTGTTTTAGAAATAAAACCAGGCTTAGAGTATCCCT
TCAAAAATAATAGGGTTAGAGTATCCCCAATTGTAAAAAATCGATATTTTGAAAATAAAACTGGG
GTTGAAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATGTTTTG
AAAATAAAACTGGGGTTAGAATATCCCTTCAGAAATAACGG
Found at i:403917 original size:42 final size:41
Alignment explanation
Indices: 403867--403961 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
403857 ATTAAATGTG
403867 TCCTACTCTTTGAGGACAAAGGAGAAAAGGAAATAAAATGCA
1 TCCTACTCTTTGAGGACAAAGG-GAAAAGGAAATAAAATGCA
* * *
403909 TCTTACTCTTTGAGGACAAAGGGAAAAGGAAATAAAGTGCG
1 TCCTACTCTTTGAGGACAAAGGGAAAAGGAAATAAAATGCA
403950 TCCTACTCTTTG
1 TCCTACTCTTTG
403962 GAGACTAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 28 0.57
42 21 0.43
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (41 bp):
TCCTACTCTTTGAGGACAAAGGGAAAAGGAAATAAAATGCA
Found at i:403957 original size:41 final size:42
Alignment explanation
Indices: 403841--403961 Score: 163
Period size: 42 Copynumber: 2.9 Consensus size: 42
403831 CTTCAAAGAT
* * * *
403841 AAAGGAAAAGAAGAAAATTAAATGTGTCCTACTCTTTGAGGAC
1 AAAGGAGAA-AAGGAAATAAAATGCGTCCTACTCTTTGAGGAC
* *
403884 AAAGGAGAAAAGGAAATAAAATGCATCTTACTCTTTGAGGAC
1 AAAGGAGAAAAGGAAATAAAATGCGTCCTACTCTTTGAGGAC
*
403926 AAAGG-GAAAAGGAAATAAAGTGCGTCCTACTCTTTG
1 AAAGGAGAAAAGGAAATAAAATGCGTCCTACTCTTTG
403962 GAGACTAGAA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 28 0.41
42 33 0.48
43 8 0.12
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.22
Consensus pattern (42 bp):
AAAGGAGAAAAGGAAATAAAATGCGTCCTACTCTTTGAGGAC
Found at i:404043 original size:60 final size:60
Alignment explanation
Indices: 403950--404428 Score: 484
Period size: 61 Copynumber: 8.0 Consensus size: 60
403940 ATAAAGTGCG
* *
403950 TCCTACTCTTTGGAGACTAG-AAGGTGCCACCAACTT-TGTGGGCTTTACAAAGAGAAAACA
1 TCCTGCTCTTTGAAGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAG-GAAAACA
* * * *
404010 TCCTACTTTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTAGGCTTTGAAA-GAAAAGCA
1 TCCTGCTCTTTGAAGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-CA
* *
404069 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAAGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA--CA
* * * * *
404130 TCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTATGGCCTTTAAAA-GAAAAGGCG
1 TCCTGCTCTTTGAAGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA--CA
404190 TCCTGCT-TTCT-AAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTT-TGAA-GACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA--CA
* ** * **
404251 TCCTGCTTTTTGGGGACT-GAAAATGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAAGACTAG-AAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAA--CA
* * * * *
404314 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGTGTTTTGAAAGGAAAGCA
1 TCCTGCTCTTTGAAGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACA
*
404373 TCCTGCTCTTT-AAGGACT-GGAAGGTGCCACCAACTTGTGTGGG-TTTAAAAGGAAAA
1 TCCTGCTCTTTGAA-GACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
404429 GGCACCCTGC
Statistics
Matches: 365, Mismatches: 36, Indels: 38
0.83 0.08 0.09
Matches are distributed among these distances:
58 20 0.05
59 83 0.23
60 89 0.24
61 91 0.25
62 54 0.15
63 28 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAAGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAACA
Found at i:404153 original size:61 final size:61
Alignment explanation
Indices: 403970--404456 Score: 609
Period size: 60 Copynumber: 8.1 Consensus size: 61
403960 TGGAGACTAG
* * *
403970 AAGGTGCCACCAACTT-TGTGGGCTTTACAAAGAGAAAA--CATCCTACTTTTTGAAGACTAGA
1 AAGGTGCCACCAACTTGTGTGGGCTTTA-AAAG-GAAAAGGCATCCTGCTCTTTGAGGACT-GA
* * *
404031 AA-GTGCCACCAACTTGTGTAGGCTTTGAAA-GAAAA-GCATCCTGCTCTTTGAGGACTAA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA
* *
404089 AAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGATTGA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA
* * * *
404150 AAGGTGCCACCAACTTGTATGGCCTTTAAAA-GAAAAGGCGTCCTGCT-TTCTAAGGACTGA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTT-TGAGGACTGA
* *
404210 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTTTTTGGGGACTGAA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTG-A
* ** *
404272 AATGTGCCACCAACTTGTGTGGGCTTTAAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTAA
1 AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA
* * * * *
404334 AAGGTGCCACCAACTTGTGTGTGTTTTGAAAGG-AAA-GCATCCTGCTCTTTAAGGACTGG
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA
* * *
404393 AAGGTGCCACCAACTTGTGTGGG-TTTAAAAGGAAAAGGCACCCTGCTCCTTGAGGAATGA
1 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA
404453 AAGG
1 AAGG
404457 ATAAAAAGTT
Statistics
Matches: 372, Mismatches: 42, Indels: 25
0.85 0.10 0.06
Matches are distributed among these distances:
58 16 0.04
59 87 0.23
60 98 0.26
61 89 0.24
62 54 0.15
63 28 0.08
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (61 bp):
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTGA
Found at i:404236 original size:121 final size:120
Alignment explanation
Indices: 403942--404448 Score: 609
Period size: 121 Copynumber: 4.2 Consensus size: 120
403932 AAAAGGAAAT
* *
403942 AAAGTGCGTCCTACTCTTTG-GAGACTAGAAGGTGCCACCAACTT-TGTGGGCTTTACAAAGAGA
1 AAAG-GCGTCCTGCTCTTTGAG-GACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAG-GA
* * * *
404005 AAA-CATCCTACTTTTTGAAGACTAGAAA-GTGCCACCAACTTGTGTAGGCTTTGAAA-GA
62 AAAGCATCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGT-GGCTTTAAAAGGA
* *
404063 AAA-GCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-
* *
404127 GCATCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTATGGCCTTTAAAA-GA
65 GCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGG-CTTTAAAAGGA
* *
404183 AAAGGCGTCCTGCT-TTCTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
1 AAAGGCGTCCTGCTCTT-TGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA
* * *
404247 GGCATCCTGCTTTTTGGGGACTGAAAATGTGCCACCAACTTGTGTGGGCTTTAAAAAGGA
65 -GCATCCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGT-GGCTTT-AAAAGGA
* * * *
404307 AAAGGTGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGTGTTTTGAAAGG-AAAG
1 AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
404371 CATCCTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGTTTAAAAGGA
66 CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGCTTTAAAAGGA
** *
404426 AAAGGCACCCTGCTCCTTGAGGA
1 AAAGGCGTCCTGCTCTTTGAGGA
404449 ATGAAAGGAT
Statistics
Matches: 338, Mismatches: 35, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
118 5 0.01
119 70 0.21
120 62 0.18
121 95 0.28
122 42 0.12
123 9 0.03
124 53 0.16
125 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (120 bp):
AAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
CATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGCTTTAAAAGGA
Found at i:405462 original size:12 final size:11
Alignment explanation
Indices: 405447--405483 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
405437 TTTTTATCTC
405447 TTTTTTGTTTGT
1 TTTTTTGTTT-T
*
405459 TTTTTGGTTTT
1 TTTTTTGTTTT
405470 TTTTTTGTTTT
1 TTTTTTGTTTT
405481 TTT
1 TTT
405484 AGAAAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:417794 original size:79 final size:79
Alignment explanation
Indices: 417711--417900 Score: 231
Period size: 79 Copynumber: 2.4 Consensus size: 79
417701 AAGTCTAATA
* * ***
417711 TTTTGGAGATAAAATCGAGATTGGAGTATCCCTTCTGAAATAATGGGGTTGGAGTATCCCCAATT
1 TTTTGGAAATAAAATCGAGGTTGGAGTATCCCTTAAAAAATAATGGGGTTGGAGTATCCCCAATT
417776 GT-GAAAATTTGATG
66 GTGGAAAA-TTGATG
* * * *
417790 TTTTGGATATAAAATC-AGGGTTGAAGTATCCTTTAAAAAATAATGGGGTTGGAGTATCCCTAAT
1 TTTTGGAAATAAAATCGA-GGTTGGAGTATCCCTTAAAAAATAATGGGGTTGGAGTATCCCCAAT
*
417854 TGTGGAAAATTGGTG
65 TGTGGAAAATTGATG
* * *
417869 TTCTGAAAATAAAATCGGGGTTGGAGTATCCC
1 TTTTGGAAATAAAATCGAGGTTGGAGTATCCC
417901 AATGGTGGAA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 87 0.94
80 5 0.05
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (79 bp):
TTTTGGAAATAAAATCGAGGTTGGAGTATCCCTTAAAAAATAATGGGGTTGGAGTATCCCCAATT
GTGGAAAATTGATG
Found at i:417920 original size:50 final size:51
Alignment explanation
Indices: 417834--417950 Score: 182
Period size: 50 Copynumber: 2.3 Consensus size: 51
417824 AAAAAATAAT
* *
417834 GGGGTTGGAGTATCCCTAATTGTGGAAAATTGGTGTTCTGAAAATAAAATC
1 GGGGTTGGAGTATCCCTAATGGTGGAAAATTGGTGTTCTGAAAATAAAACC
* *
417885 GGGGTTGGAGTATCCC-AATGGTGGAAAATTGGTGTTTTGGAAATAAAACC
1 GGGGTTGGAGTATCCCTAATGGTGGAAAATTGGTGTTCTGAAAATAAAACC
*
417935 AGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
417951 CTTGGAAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
50 45 0.74
51 16 0.26
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCTAATGGTGGAAAATTGGTGTTCTGAAAATAAAACC
Found at i:417938 original size:129 final size:130
Alignment explanation
Indices: 417755--417992 Score: 329
Period size: 129 Copynumber: 1.8 Consensus size: 130
417745 CTGAAATAAT
* * *
417755 GGGGTTGGAGTATCCCCAATTGTGAAAATTTGATGTTTTGGATATAAAATCAGGGTTGAAGTAT-
1 GGGGTTGGAGTATCCCCAATGGTGAAAATTTGATGTTTTGGAAATAAAACCAGGGTTGAAGTATC
* * * *
417819 CCTTTAAAAAATAATGGGGTTGGAGTATCCCTAATTGTGGAAAATTGGTGTTCTGAAAATAAAAT
66 CCCTT-AAAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTCTGAAAATAAAAT
417884 C
130 C
* *
417885 GGGGTTGGAGTAT-CCCAATGGTGGAAAA-TTGGTGTTTTGGAAATAAAACCAGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCAATGGT-GAAAATTTGATGTTTTGGAAATAAAACCAGGGTTGAAGTAT
** *
417948 CCCCTTGGAAATAATAGGGTTGTAGTATCCCCAATTGTGAAAAAT
65 CCCCTTAAAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAAT
417993 CAATATTTTA
Statistics
Matches: 94, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
129 72 0.77
130 22 0.23
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (130 bp):
GGGGTTGGAGTATCCCCAATGGTGAAAATTTGATGTTTTGGAAATAAAACCAGGGTTGAAGTATC
CCCTTAAAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATTGGTGTTCTGAAAATAAAATC
Found at i:418008 original size:129 final size:129
Alignment explanation
Indices: 417755--418029 Score: 322
Period size: 129 Copynumber: 2.1 Consensus size: 129
417745 CTGAAATAAT
* * *
417755 GGGGTTGGAGTATCCCCAATTGTGAAAATTTGATGTTTTGGATATAAAATCAGGGTTGAAGTATC
1 GGGGTTGGAGTAT-CCCAATGGTGAAAATTTGATGTTTTGGAAATAAAACCAGGGTTGAAGTATC
* * * * *** *
417820 CTTTAAAAAATAATGGGGTTGGAGTATCCCTAATTGTGGAAAATTGGTGTTCTGAAAATAAAATC
65 CCTTAAAAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTCTGAAAATAAAATC
* *
417885 GGGGTTGGAGTATCCCAATGGTGGAAAA-TTGGTGTTTTGGAAATAAAACCAGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCAATGGT-GAAAATTTGATGTTTTGGAAATAAAACCAGGGTTGAAGTAT-
** * *
417949 CCCTT-GGAAATAATAGGGTTGTAGTATCCCCAATTGTGAAAAATCAATATT-TTAGAAATAAAA
64 CCCTTAAAAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTCTGA-AAATAAAA
418012 TC
128 TC
* *
418014 GAGGTTAGAGTATCCC
1 GGGGTTGGAGTATCCC
418030 CTAGAAAATA
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
128 2 0.02
129 99 0.80
130 22 0.18
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (129 bp):
GGGGTTGGAGTATCCCAATGGTGAAAATTTGATGTTTTGGAAATAAAACCAGGGTTGAAGTATCC
CTTAAAAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTCTGAAAATAAAATC
Found at i:418010 original size:79 final size:79
Alignment explanation
Indices: 417886--418263 Score: 352
Period size: 79 Copynumber: 4.8 Consensus size: 79
417876 AATAAAATCG
* * *** * * * *
417886 GGGTTGGAGTAT-CCCAATGGTGGAAAATTGGTGTTTTGGAAATAAAA-CCAGGGTTGGAGTATC
1 GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGA-GGTTAGAGTATC
* *
417949 CCCTTGGAAATAATA
65 CCCTAGGAAATAACA
*
417964 GGGTTGTAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTAGAGTATCC
1 GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTAGAGTATCC
*
418029 CCTAGAAAATAACA
66 CCTAGGAAATAACA
* * * * *
418043 GGGTTGGAGTCTCGCCAATTGTGAAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTAGAGTATCC
418108 CCTCA-GAAATAACA
66 CCT-AGGAAATAACA
* * * * * * *
418122 GGGTTGGAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAAT-TAGGGTTAGAGTGTC
1 GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGA-GGTTAGAGTATC
* *
418186 CCTTCA-GAAATAACG
65 CCCT-AGGAAATAACA
* * * * * * * * * *
418201 GGGATGGATTCTCCTCGATTGTGAAAAATCGATGTTTTGGATATAAAATCGAGGTTGGAGTAT
1 GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTAGAGTAT
418264 ATGCAATTGT
Statistics
Matches: 246, Mismatches: 49, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
78 12 0.05
79 230 0.93
80 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCGAGGTTAGAGTATCC
CCTAGGAAATAACA
Found at i:418089 original size:208 final size:208
Alignment explanation
Indices: 417731--418108 Score: 494
Period size: 208 Copynumber: 1.8 Consensus size: 208
417721 AAAATCGAGA
* * * ** * *
417731 TTGGAGTATCCCTTCTGAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAATTTGATGTTTTGG
1 TTGGAGTATCCCTTCGGAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAG
* ** ** *
417796 ATATAAAATCAGGGTTGAAGTATCCTTTAAAAAATAATGGGGTTGGAGTATCCCTAATTGTGGAA
66 AAATAAAATCAGGGTTGAAGTATCCCCTAAAAAATAACAGGGTTGGAGTATCCCTAATTGTGAAA
*** *
417861 AATTGGTGTTCTGAAAATAAAATCGGGGTTGGAGTATCCCAATGGTGGAAAATTGGTGTTTTGGA
131 AATCAATGTTCTGAAAATAAAATCGAGGTTGGAGTATCCCAATGGTGGAAAATTGGTGTTTTGGA
417926 AATAAAACCAGGG
196 AATAAAACCAGGG
*
417939 TTGGAGTATCCCCTT-GGAAATAATAGGGTTGTAGTATCCCCAATTGTGAAAAATCAATATTTTA
1 TTGGAGTAT-CCCTTCGGAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTA
* *
418003 GAAATAAAATC-GAGGTT-AGAGTATCCCCTAGAAAATAACAGGGTTGGAGTCTCGCC-AATTGT
65 GAAATAAAATCAG-GGTTGA-AGTATCCCCTAAAAAATAACAGGGTTGGAGTATC-CCTAATTGT
* *
418065 GAAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATCCC
127 GAAAAATCAATGTTCTGAAAATAAAATCGAGGTTGGAGTATCCC
418109 CTCAGAAATA
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
207 2 0.01
208 135 0.94
209 7 0.05
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (208 bp):
TTGGAGTATCCCTTCGGAAATAATAGGGTTGGAGTATCCCCAATTGTGAAAAATCAATATTTTAG
AAATAAAATCAGGGTTGAAGTATCCCCTAAAAAATAACAGGGTTGGAGTATCCCTAATTGTGAAA
AATCAATGTTCTGAAAATAAAATCGAGGTTGGAGTATCCCAATGGTGGAAAATTGGTGTTTTGGA
AATAAAACCAGGG
Found at i:418099 original size:158 final size:157
Alignment explanation
Indices: 417886--418263 Score: 474
Period size: 158 Copynumber: 2.4 Consensus size: 157
417876 AATAAAATCG
* * * * * *
417886 GGGTTGGAGTATCCCAATGGTGGAAAATTGGTGTTTTGGAAATAAAA-CCAGGGTTGGAGTATCC
1 GGGTTGGAGTCTCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAATCGA-GGTTGGAGTATCC
** * * *
417950 CCTTGGAAATAATAGGGTTGTAGTATCCCCAATTGTGAAAAATCAATATTTTAGAAATAAAATCG
65 CCTCAGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAAT-G
418015 A-GGTTAGAGTATCCCCT-AGAAAATAACA
129 AGGGTTAGAGTATCCCCTCAG-AAATAACA
*
418043 GGGTTGGAGTCTCGCCAATTGTGAAAAATCAATGTTTTGGAAATAAAATCGAGGTTGGAGTATCC
1 GGGTTGGAGTCTC-CCAATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGAGTATCC
* * * * *
418108 CCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGGAAAATTAGTATTTTAGAAATAAAATTA
65 CCTCAGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATGA
* * *
418173 GGGTTAGAGTGTCCCTTCAGAAATAACG
130 GGGTTAGAGTATCCCCTCAGAAATAACA
* * * *
418201 GGGATGGATTCTCCTCGATTGTGAAAAATCGATGTTTTGGATATAAAATCGAGGTTGGAGTAT
1 GGGTTGGAGTCTCC-CAATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGAGTAT
418264 ATGCAATTGT
Statistics
Matches: 191, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
157 14 0.07
158 173 0.91
159 4 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (157 bp):
GGGTTGGAGTCTCCCAATTGTGAAAAATCGATGTTTTGGAAATAAAATCGAGGTTGGAGTATCCC
CTCAGAAATAACAGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTAGAAATAAAATGAG
GGTTAGAGTATCCCCTCAGAAATAACA
Found at i:422904 original size:164 final size:165
Alignment explanation
Indices: 422632--422933 Score: 400
Period size: 164 Copynumber: 1.8 Consensus size: 165
422622 AAACCAAGAA
* * * * *
422632 GAAAAGTCTTAAAAATTTTTGTATCCCTACAGAAAGCCATAGGAATAATAAAAATCTTTAAAAAT
1 GAAAAGTCTTAAAAATTTCTATACCCCTACAGAAAGCCATAGAAATAATAAAAATCCTTAAAAAT
* * *
422697 GACAAATGATGATTTTACCTCTAAAACCTAAAATTTGCTATTTAGTTCCTTAAACTTTTGAAAA-
66 GACAAATGATGATTTTACCTCTAAAACCTAAAATTTACTATTTAATTCC-TAAACTTTTAAAAAT
422761 TTTCATTTTGTACTCAATAGAAAACTGAGAAGATGT
130 TTTCATTTTGTACTCAATAGAAAACTGAGAAGATGT
* *
422797 GAAAAGTCTTGAAAATTTCTATACCCCT-CTAG-AAGCCCATA-AAATAATAGAAATCCTTAAAA
1 GAAAAGTCTTAAAAATTTCTATACCCCTAC-AGAAAG-CCATAGAAATAATAAAAATCCTTAAAA
* * *
422859 GTGACAAAAATTATGA-TTTACCTCT-AAATCTAAAATTTACTATTTAATTCCTAAACTTTTAAA
64 ATGAC--AAATGATGATTTTACCTCTAAAACCTAAAATTTACTATTTAATTCCTAAACTTTTAAA
422922 AATTTTCATTTT
127 AATTTTCATTTT
422934 AGTCCCTACA
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
163 13 0.11
164 58 0.49
165 40 0.34
166 8 0.07
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (165 bp):
GAAAAGTCTTAAAAATTTCTATACCCCTACAGAAAGCCATAGAAATAATAAAAATCCTTAAAAAT
GACAAATGATGATTTTACCTCTAAAACCTAAAATTTACTATTTAATTCCTAAACTTTTAAAAATT
TTCATTTTGTACTCAATAGAAAACTGAGAAGATGT
Found at i:425634 original size:134 final size:135
Alignment explanation
Indices: 425353--425653 Score: 423
Period size: 134 Copynumber: 2.2 Consensus size: 135
425343 AGTGGCCTGG
*
425353 GATTTGAACCCAGGCCACCCATGATGAAAGAAAAAGCCACTAACCACTTTGCCATACCCATTTTT
1 GATTTGAACCCAGGCCACCCATGATGAAAGAAAAAGCCACTAACCACTTTGCCACACCCATTTTT
* * * *
425418 TGGTTAAAATTACCCAAACAATCTTTTAACCTGTTGATTTCGTGGGTGATTGAAAAATTTAAGTG
66 T-GTTAAAATTACCAAAACAATCATTTAACCTGTTGATTTCGTAGGTGATTGAAAAATTGAAGTG
*
425483 ATTTGC
130 ACTTGC
*
425489 GATTTGAACCCATGCCACCCATGATGAAA-AAGGAAA-CCACTAACCACTTTGCCACACCCA-TT
1 GATTTGAACCCAGGCCACCCATGATGAAAGAA--AAAGCCACTAACCACTTTGCCACACCCATTT
*
425551 TTT-TTAAGAATTACCAAAACAATCATTTAACCTGTTGATTTTGTAGGTGATTGAAAAATTGAAG
64 TTTGTTAA-AATTACCAAAACAATCATTTAACCTGTTGATTTCGTAGGTGATTGAAAAATTGAAG
* *
425615 TGGCTTGT
128 TGACTTGC
*
425623 GA-TTGAAACCCAGGCCACCCATGTTGAAAGA
1 GATTTG-AACCCAGGCCACCCATGATGAAAGA
425654 GTAGCACCTA
Statistics
Matches: 148, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
133 7 0.05
134 79 0.53
135 8 0.05
136 51 0.34
137 3 0.02
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (135 bp):
GATTTGAACCCAGGCCACCCATGATGAAAGAAAAAGCCACTAACCACTTTGCCACACCCATTTTT
TGTTAAAATTACCAAAACAATCATTTAACCTGTTGATTTCGTAGGTGATTGAAAAATTGAAGTGA
CTTGC
Found at i:429092 original size:2 final size:2
Alignment explanation
Indices: 429087--429142 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
429077 AAAAAAATTA
* * * **
429087 AT AT AT AG AT AT AT AC AT AT AT AT AT AT AT AT GT AT AT AT GC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
429129 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
429143 CATGGTAAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:429642 original size:20 final size:20
Alignment explanation
Indices: 429617--429655 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
429607 GTCTTTCTTT
429617 TTCTCTTTTCTAAATAAAAA
1 TTCTCTTTTCTAAATAAAAA
429637 TTCTCTTTTCTAAATAAAA
1 TTCTCTTTTCTAAATAAAA
429656 CCCTAAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (20 bp):
TTCTCTTTTCTAAATAAAAA
Found at i:432266 original size:92 final size:92
Alignment explanation
Indices: 432105--432309 Score: 258
Period size: 92 Copynumber: 2.3 Consensus size: 92
432095 CCTAAAATGA
* ** * *
432105 TTTCATGCATATTAAGGATTATTTAT-CATTTTTC---CATGTATTTTAAGGTTATTTAGATTCT
1 TTTCATTCATATTAAGGACCATTT-TGCATTTTTCATTCATGCATTTTAAGGTTATTTAGATTAT
* *
432166 TCACATAATCTAGGGACTACGTACCA-T
65 TCACATAATCTAAGGACTACATACCATT
*
432193 TTTCTATTCATATTAAGGACCATTTTGCATTTTTCATTCATGCATTTTAGGGTTATTTAGATTAT
1 TTTC-ATTCATATTAAGGACCATTTTGCATTTTTCATTCATGCATTTTAAGGTTATTTAGATTAT
* *
432258 TTACATAATCTAAGGACTACATAGCATT
65 TCACATAATCTAAGGACTACATACCATT
*
432286 TTTCATTCATATTAGGGACCATTT
1 TTTCATTCATATTAAGGACCATTT
432310 GGCAAATTCC
Statistics
Matches: 100, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
88 5 0.05
89 25 0.25
92 65 0.65
93 5 0.05
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (92 bp):
TTTCATTCATATTAAGGACCATTTTGCATTTTTCATTCATGCATTTTAAGGTTATTTAGATTATT
CACATAATCTAAGGACTACATACCATT
Found at i:435129 original size:166 final size:166
Alignment explanation
Indices: 434745--435171 Score: 484
Period size: 166 Copynumber: 2.6 Consensus size: 166
434735 TTTTCACTGT
* *
434745 TTTATAAA-TTTTAAAATTCATCAAATATTATTATTTAATTTATATTAAATTAGTTTTGAAAACC
1 TTTA-AAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAA-A
* * * * ** *
434809 TCCTTTTATTTTATGAATTTTTCATTTTTTCCTTAAAATTTCTTTTACTTCCAAAATACGGAGTT
64 TTCATTTATTTTATGAGTTTTTAATTTTTTCCTTAAAATTTCTCATACTTCCAAAAAACGGAGTT
* * * * **
434874 TTTTATTCCGTAAATATTTTTTGAGGGGTTTTTCTTGG
129 TTCTATTCCATAAATATATTTCGAGGGGTTTTTCTCAG
* * * * * *
434912 TTTATAATTTCTAAAATTCATCAAATATTATCATTTAATTCATAGTAAATTATTTTTTAAAAATT
1 TTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATT
* **
434977 CATTTATTTTCATGAGTTTTTAATTTTTTTCTTAAAA-TTCTCATA-TTCTCAAAAAATTGAGTT
66 CATTTATTTT-ATGAGTTTTTAATTTTTTCCTTAAAATTTCTCATACTTC-CAAAAAACGGAGTT
* *
435040 TTCTATTTCATAAATA-ATTTCGGGGGGATTTTTCTCAG
129 TTCTATTCCATAAATATATTTCGAGGGG-TTTTTCTCAG
* * * *
435078 TTTAAAATTTTTAAAATTCATCAAATATTTTTATTAAATTCCTATTAAATTAGTTTTGCAAAATT
1 TTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATT
* *
435143 CAATTTATTTTATGAGTTTTGAAATTTTT
66 C-ATTTATTTTATGAGTTTTTAATTTTTT
435172 GTATTTATTA
Statistics
Matches: 217, Mismatches: 38, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
165 11 0.05
166 122 0.56
167 84 0.39
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.51
Consensus pattern (166 bp):
TTTAAAATTTTTAAAATTCATCAAATATTATTATTTAATTCATATTAAATTAGTTTTGAAAAATT
CATTTATTTTATGAGTTTTTAATTTTTTCCTTAAAATTTCTCATACTTCCAAAAAACGGAGTTTT
CTATTCCATAAATATATTTCGAGGGGTTTTTCTCAG
Found at i:435555 original size:9 final size:8
Alignment explanation
Indices: 435523--435556 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
435513 TTAATTTATT
435523 AAAGAAAA
1 AAAGAAAA
*
435531 TAAGAAAA
1 AAAGAAAA
435539 AAAGAAAA
1 AAAGAAAA
435547 AAAGTAAAA
1 AAAG-AAAA
435556 A
1 A
435557 TGTAGAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (8 bp):
AAAGAAAA
Found at i:437842 original size:13 final size:13
Alignment explanation
Indices: 437824--437849 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
437814 AATTTTTTTG
437824 TGTATCGATACAT
1 TGTATCGATACAT
437837 TGTATCGATACAT
1 TGTATCGATACAT
437850 ACTTGTTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:438597 original size:21 final size:21
Alignment explanation
Indices: 438556--438599 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
438546 CTCCCCTTTA
* *
438556 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
438577 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
438598 TC
1 TC
438600 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:440420 original size:13 final size:13
Alignment explanation
Indices: 440402--440438 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
440392 AATCACCCTA
440402 TATCGATACAATG
1 TATCGATACAATG
440415 TATCGATACAATG
1 TATCGATACAATG
440428 TATCGATACAA
1 TATCGATACAA
440439 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.30
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:440449 original size:20 final size:20
Alignment explanation
Indices: 440424--440502 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
440414 GTATCGATAC
440424 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
440444 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
440469 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
440489 CATGTATCGATACA
1 AATGTATCGATACA
440503 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:442546 original size:15 final size:15
Alignment explanation
Indices: 442510--442547 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
442500 TTCATCAATT
* *
442510 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
442525 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
442540 TCATTTTG
1 TCATTTTG
442548 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:444380 original size:21 final size:21
Alignment explanation
Indices: 444351--444395 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
444341 AAGTTTTCAT
*
444351 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
444371 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
444393 TTT
1 TTT
444396 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:446629 original size:13 final size:13
Alignment explanation
Indices: 446611--446636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
446601 CAATTTTTTG
446611 TGTATCGATACAT
1 TGTATCGATACAT
446624 TGTATCGATACAT
1 TGTATCGATACAT
446637 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:447121 original size:13 final size:13
Alignment explanation
Indices: 447103--447127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
447093 CATAAAGTGT
447103 TGTATCGATACAA
1 TGTATCGATACAA
447116 TGTATCGATACA
1 TGTATCGATACA
447128 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:447125 original size:33 final size:33
Alignment explanation
Indices: 447083--447149 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
447073 TTCAACGATT
447083 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
447116 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
447149 T
1 T
447150 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:447208 original size:13 final size:13
Alignment explanation
Indices: 447190--447214 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
447180 ATTACTCAAA
447190 TGTATCGATACAT
1 TGTATCGATACAT
447203 TGTATCGATACA
1 TGTATCGATACA
447215 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:447351 original size:52 final size:52
Alignment explanation
Indices: 447223--447343 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
447213 CACCGATCTT
*
447223 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
447275 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
447327 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
447344 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:451038 original size:156 final size:151
Alignment explanation
Indices: 450408--451050 Score: 585
Period size: 156 Copynumber: 4.1 Consensus size: 151
450398 CGTTACGACA
* * * *
450408 CCATCCATAATCTTTTTTTAAGTCCTTTAGGCGTATTGGGTACCTT-TAAGTCGAAGATATCTCC
1 CCATCTATAATC-TTTTTTAAGT-CTTTAGGGGTATT-GGCA-CTTCTAAGTCG-AGGTATC-CC
* * * * * * * * *
450472 TAAGGACATTTTCATAATTATTTCGAAA-TCGAGTCTTAGGTTGTCACTGGGTTCGTTTTTATAC
60 TAAGGGCATTTTCATAATTTTTTC-AAACT-GAGTCCTAAGTTGTCACCGAGTCCGCTTTTATGC
* *
450536 CGAAGGTGGGTATTTAGGATAGGTTCAGC
123 CGAAAGTGGGTATTTAGGATAGGTTCATC
* * *
450565 CCATCTATAACCATTTTTAAGTGCTTTAGGGGTATTAGCTACTTCTAAGTCGAAGGTATCCACTA
1 CCATCTATAATCTTTTTTAAGT-CTTTAGGGGTATTGGC-ACTTCTAAGTCG-AGGTATCC-CTA
* * * *
450630 TGGGCATTTTCATAATTTTTTCAAACCGAGTCCAAAGCTGTCACCGAG-CCTGCTTTTATGCCGA
62 AGGGCATTTTCATAATTTTTTCAAACTGAGTCCTAAGTTGTCACCGAGTCC-GCTTTTATGCCGA
*
450694 AAGTGGGTATTTA-GAAAGGTTCATC
126 AAGTGGGTATTTAGGATAGGTTCATC
* * ** * *
450719 CCATCTATAATATTTTTTAAGTCCTTTAAGAATATTAGGCACTTCTAAGTCAAAGGTATCTCTTA
1 CCATCTATAATCTTTTTTAAGT-CTTTAGGGGTATT-GGCACTTCTAAGTC-GAGGTATC-CCTA
* * * * * * * *
450784 GGGGTATTTTCATAATTTTTTTCAAAATCGAGTCCTAAGTTATCATCGGGTCCACTTTTATGACG
62 AGGGCATTTTCATAA-TTTTTTCAAACT-GAGTCCTAAGTTGTCACCGAGTCCGCTTTTATGCCG
** *
450849 ATTGTGGGTATTTAGGATAGGTTCGTC
125 AAAGTGGGTATTTAGGATAGGTTCATC
* * * *
450876 CTATCTATAATCCTTTTTTAAGTCTTTTGGGGGTGTTGGACACTTCTAAGTCGAGGTATCCCCAA
1 CCATCTATAAT-CTTTTTTAAGTC-TTTAGGGGTATTGG-CACTTCTAAGTCGAGGTATCCCTAA
* * * *
450941 GAGGCATTTTCGTAA-TTTTTCTACAACTAAGTCCTTAGTTGTCACCGAGTCCGCTTTTATGCCA
63 G-GGCATTTTCATAATTTTTTC-A-AACTGAGTCCTAAGTTGTCACCGAGTCCGCTTTTATGCCG
*
451005 AAAGTAGGTATTTAGGATAGGTTCATC
125 AAAGTGGGTATTTAGGATAGGTTCATC
451032 CCATCTATAATCTTTTTTA
1 CCATCTATAATCTTTTTTA
451051 TTTAGGATAG
Statistics
Matches: 392, Mismatches: 76, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
154 73 0.19
155 73 0.19
156 161 0.41
157 56 0.14
158 29 0.07
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (151 bp):
CCATCTATAATCTTTTTTAAGTCTTTAGGGGTATTGGCACTTCTAAGTCGAGGTATCCCTAAGGG
CATTTTCATAATTTTTTCAAACTGAGTCCTAAGTTGTCACCGAGTCCGCTTTTATGCCGAAAGTG
GGTATTTAGGATAGGTTCATC
Found at i:451060 original size:36 final size:36
Alignment explanation
Indices: 451013--451086 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
451003 CAAAAGTAGG
451013 TATTTAGGATAGGTTCATCCCATCTATAATCTTTTT
1 TATTTAGGATAGGTTCATCCCATCTATAATCTTTTT
451049 TATTTAGGATAGGTTCATCCCATCTATAATCTTTTT
1 TATTTAGGATAGGTTCATCCCATCTATAATCTTTTT
451085 TA
1 TA
451087 AGTCGTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (36 bp):
TATTTAGGATAGGTTCATCCCATCTATAATCTTTTT
Found at i:459754 original size:41 final size:41
Alignment explanation
Indices: 459697--459774 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
459687 CTCAAGCCTA
* *
459697 TCCTAATTTGTCTATTTATATAATATGTTTGTTAATATCTG
1 TCCTAATTTGTCTATTTATATAATATATTTATTAATATCTG
*
459738 TCCTAATTTGTCTATTTATATGATATATTTATTAATA
1 TCCTAATTTGTCTATTTATATAATATATTTATTAATA
459775 AAGTATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.54
Consensus pattern (41 bp):
TCCTAATTTGTCTATTTATATAATATATTTATTAATATCTG
Found at i:461136 original size:13 final size:13
Alignment explanation
Indices: 461118--461143 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
461108 TACAGCAAGT
461118 ATGTATCGATACA
1 ATGTATCGATACA
461131 ATGTATCGATACA
1 ATGTATCGATACA
461144 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:463391 original size:21 final size:21
Alignment explanation
Indices: 463358--463402 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
463348 TTGCAAGTTG
*
463358 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
463380 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
463400 AAA
1 AAA
463403 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:465226 original size:15 final size:15
Alignment explanation
Indices: 465206--465244 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
465196 TAAAAATGTC
*
465206 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
465221 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
465236 CCAAATGAA
1 CAAAATGAA
465245 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:467491 original size:20 final size:20
Alignment explanation
Indices: 467448--467493 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
467438 AAATCTTTTG
467448 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
467469 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
467489 CAAAA
1 CAAAA
467494 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:469128 original size:29 final size:29
Alignment explanation
Indices: 469085--469140 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
469075 TGCTATAATA
469085 TGAATTACTTGATTAAAGGGGAGAATGCG
1 TGAATTACTTGATTAAAGGGGAGAATGCG
* *
469114 TGAATTACTTTATTAAGGGGGAGAATG
1 TGAATTACTTGATTAAAGGGGAGAATG
469141 TACAAATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.34, C:0.05, G:0.30, T:0.30
Consensus pattern (29 bp):
TGAATTACTTGATTAAAGGGGAGAATGCG
Found at i:469148 original size:29 final size:29
Alignment explanation
Indices: 469087--469148 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
469077 CTATAATATG
***
469087 AATTACTTGATTAAAGGGGAGAATGCGTG
1 AATTACTTGATTAAAGGGGAGAATGCACA
* * *
469116 AATTACTTTATTAAGGGGGAGAATGTACA
1 AATTACTTGATTAAAGGGGAGAATGCACA
469145 AATT
1 AATT
469149 TGTTAAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (29 bp):
AATTACTTGATTAAAGGGGAGAATGCACA
Found at i:469814 original size:13 final size:13
Alignment explanation
Indices: 469796--469821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
469786 TACAGCAAGT
469796 ATGTATCGATACA
1 ATGTATCGATACA
469809 ATGTATCGATACA
1 ATGTATCGATACA
469822 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:471596 original size:20 final size:19
Alignment explanation
Indices: 471552--471603 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
471542 TAAAAATAAA
*
471552 AAAATTATTAAAATTTTAAT
1 AAAATTATT-TAATTTTAAT
471572 AAAATTATTTAATTTTAAAT
1 AAAATTATTTAATTTT-AAT
*
471592 TAAATTAATTTA
1 AAAATT-ATTTA
471604 TATAAATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 6 0.21
20 17 0.61
21 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATTATTTAATTTTAAT
Found at i:471796 original size:2 final size:2
Alignment explanation
Indices: 471789--471815 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
471779 AGATTTTATT
471789 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
471816 GGTTCTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:472836 original size:2 final size:2
Alignment explanation
Indices: 472829--472853 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
472819 TTATACATAC
472829 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
472854 AAAGATATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.