Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 104 of 335
Found at i:32664797 original size:30 final size:30
Alignment explanation
Indices: 32664761--32664846 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
32664751 CTTGTTTTCA
32664761 TATATTGTTGTGTATATAGTTAATTATTTT
1 TATATTGTTGTGTATATAGTTAATTATTTT
32664791 TATATTGTTGTGTATATAGTTAATTATTTT
1 TATATTGTTGTGTATATAGTTAATTATTTT
*
32664821 TATATTGTTGTATATATAGTTAATTA
1 TATATTGTTGTGTATATAGTTAATTA
32664847 GATTATTAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (30 bp):
TATATTGTTGTGTATATAGTTAATTATTTT
Found at i:32667498 original size:20 final size:20
Alignment explanation
Indices: 32667475--32667513 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32667465 AATTTTTTTA
* *
32667475 AAAAAATTCATTAAGAATCC
1 AAAAAATTAATTAAAAATCC
32667495 AAAAAATTAATTAAAAATC
1 AAAAAATTAATTAAAAATC
32667514 TAGAAAGGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (20 bp):
AAAAAATTAATTAAAAATCC
Found at i:32668146 original size:21 final size:20
Alignment explanation
Indices: 32668122--32668165 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
32668112 AAAAAGTCAT
*
32668122 AAATCCTTAAAAATATAAAAA
1 AAATCCTTAAAAAT-GAAAAA
*
32668143 AAATCATTAAAAATGAAAAA
1 AAATCCTTAAAAATGAAAAA
32668163 AAA
1 AAA
32668166 CCTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.70, C:0.07, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATCCTTAAAAATGAAAAA
Found at i:32669409 original size:18 final size:18
Alignment explanation
Indices: 32669388--32669441 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
32669378 CCACCACTAA
32669388 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
32669406 CTCCA-T---CAC-C-TA
1 CTCCACTAGCCACACTTG
32669418 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
32669436 CTCCAC
1 CTCCAC
32669442 CACCACTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 3 0.11
16 3 0.11
17 2 0.07
18 12 0.43
ACGTcount: A:0.22, C:0.48, G:0.07, T:0.22
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:32669421 original size:30 final size:30
Alignment explanation
Indices: 32669378--32669445 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
32669368 CTAGCCTTTG
32669378 CCACCA-CTAACTCCACTAGCCACACTTGCT
1 CCACCACCT-ACTCCACTAGCCACACTTGCT
*
32669408 CCATCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCTACTCCACTAGCCACACTTGCT
32669438 CCACCACC
1 CCACCACC
32669446 ACTTGTACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 33 0.94
31 2 0.06
ACGTcount: A:0.25, C:0.50, G:0.06, T:0.19
Consensus pattern (30 bp):
CCACCACCTACTCCACTAGCCACACTTGCT
Found at i:32670018 original size:2 final size:2
Alignment explanation
Indices: 32670011--32670081 Score: 51
Period size: 2 Copynumber: 36.5 Consensus size: 2
32670001 CTATATTACG
* * *
32670011 TA TA TA TA TA TA TA TA TA T- TA TA CTA T- TT TA TG TA TA TA TC
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* *
32670052 TT TA -A TA CTA TA T- TA TT TA TA TA TA TA TA T
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T
32670082 TTTTCTACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
1 4 0.07
2 47 0.85
3 4 0.07
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (2 bp):
TA
Found at i:32670149 original size:25 final size:24
Alignment explanation
Indices: 32670099--32670161 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
32670089 CATGTTATCT
*
32670099 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
32670125 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
**
32670150 TACATATTTTTT
1 TATGTATTTTTT
32670162 TATATCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.15
25 21 0.64
26 7 0.21
ACGTcount: A:0.30, C:0.05, G:0.06, T:0.59
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:32670170 original size:27 final size:25
Alignment explanation
Indices: 32670104--32670175 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
32670094 TATCTTATGT
* *
32670104 ATATATTTTAAT-TATATTATGTAT
1 ATATTTTTTAATCTATATTATGTAC
*
32670128 GTATTTTTTACA-CTATATTATGTAC
1 ATATTTTTTA-ATCTATATTATGTAC
*
32670153 ATATTTTTTTATATCTATTTTAT
1 ATA-TTTTTTA-ATCTATATTAT
32670176 ACATATGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
24 8 0.21
25 14 0.37
26 8 0.21
27 8 0.21
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
ATATTTTTTAATCTATATTATGTAC
Found at i:32670250 original size:25 final size:24
Alignment explanation
Indices: 32670222--32670277 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
32670212 GTTATATTTT
*
32670222 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
32670247 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
32670270 CACTATTA
1 CACTATTA
32670278 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:32672543 original size:31 final size:31
Alignment explanation
Indices: 32672505--32672566 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
32672495 AGGGCACACG
32672505 GCTAAGGCACACACCTGTGTGCTAGGCCGTT
1 GCTAAGGCACACACCTGTGTGCTAGGCCGTT
*
32672536 GCTAAGGCACACGCCTGTGTGCTAGGCCGTT
1 GCTAAGGCACACACCTGTGTGCTAGGCCGTT
32672567 CCCTTCACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.18, C:0.29, G:0.31, T:0.23
Consensus pattern (31 bp):
GCTAAGGCACACACCTGTGTGCTAGGCCGTT
Found at i:32673309 original size:84 final size:84
Alignment explanation
Indices: 32673168--32673338 Score: 342
Period size: 84 Copynumber: 2.0 Consensus size: 84
32673158 ATAATGTATA
32673168 ATTAGGAACTCATTCGTCAGATGGTAATTTATTAAACTCAAATGATGTATATTATTTAGACTTCT
1 ATTAGGAACTCATTCGTCAGATGGTAATTTATTAAACTCAAATGATGTATATTATTTAGACTTCT
32673233 CTATCTTACTCTTCACTTC
66 CTATCTTACTCTTCACTTC
32673252 ATTAGGAACTCATTCGTCAGATGGTAATTTATTAAACTCAAATGATGTATATTATTTAGACTTCT
1 ATTAGGAACTCATTCGTCAGATGGTAATTTATTAAACTCAAATGATGTATATTATTTAGACTTCT
32673317 CTATCTTACTCTTCACTTC
66 CTATCTTACTCTTCACTTC
32673336 ATT
1 ATT
32673339 TACGCACACT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (84 bp):
ATTAGGAACTCATTCGTCAGATGGTAATTTATTAAACTCAAATGATGTATATTATTTAGACTTCT
CTATCTTACTCTTCACTTC
Found at i:32677358 original size:30 final size:30
Alignment explanation
Indices: 32677278--32677372 Score: 86
Period size: 30 Copynumber: 3.1 Consensus size: 30
32677268 CTTTTAATCT
* *
32677278 TTTTGAAAATTTTAATTAAATTCTCTTAAAA
1 TTTTAAAAATTTTAATTAAATTCAC-TAAAA
* * *
32677309 TTTCTAAAAATTCTCATTAACTTCAC-AAATA
1 TTT-TAAAAATTTTAATTAAATTCACTAAA-A
* *
32677340 TTTTAAAAATTTTAATTAAACTC-CTAAAT
1 TTTTAAAAATTTTAATTAAATTCACTAAAA
32677369 TTTT
1 TTTT
32677373 TTAAAAATCT
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
29 5 0.10
30 22 0.43
31 7 0.14
32 17 0.33
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (30 bp):
TTTTAAAAATTTTAATTAAATTCACTAAAA
Found at i:32677996 original size:2 final size:2
Alignment explanation
Indices: 32677991--32678015 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32677981 ATTATACATA
32677991 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
32678016 AGGAAAGAAG
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
Found at i:32678446 original size:3 final size:3
Alignment explanation
Indices: 32678431--32678478 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
32678421 ATTATAAGTC
*
32678431 TAT TAT TA- CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
32678478 T
1 T
32678479 GCTTCTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:32678502 original size:2 final size:2
Alignment explanation
Indices: 32678497--32678527 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32678487 ATTCTCTCTT
32678497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32678528 TTCTTTTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32683355 original size:22 final size:21
Alignment explanation
Indices: 32683323--32683369 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
32683313 ATACAGCTTT
32683323 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
32683343 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
32683365 TTTGA
1 TTTGA
32683370 GAGAATTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:32683397 original size:11 final size:11
Alignment explanation
Indices: 32683353--32683398 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
32683343 CTTTGACAAA
*
32683353 AATTGAGAGA-
1 AATTTAGAGAG
32683363 AATTT-GAGAG
1 AATTTAGAGAG
* *
32683373 AATTTGGAAAG
1 AATTTAGAGAG
32683384 AATTTAGAGAG
1 AATTTAGAGAG
32683395 AATT
1 AATT
32683399 GTTGTGAGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.30
11 17 0.57
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (11 bp):
AATTTAGAGAG
Found at i:32684238 original size:20 final size:22
Alignment explanation
Indices: 32684199--32684238 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
32684189 CATGTATACT
*
32684199 TTTTAAAATCAATAATTATAGA
1 TTTTAAAATAAATAATTATAGA
32684221 TTTTAAAA-AAAT-ATTATA
1 TTTTAAAATAAATAATTATA
32684239 AATCATTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 3 0.18
22 8 0.47
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATAATTATAGA
Found at i:32684344 original size:34 final size:35
Alignment explanation
Indices: 32684286--32684352 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
32684276 TCTTACTTTC
*
32684286 TATTTTTTCTATTATTTTATTTTATAACAAATCAA
1 TATTATTTCTATTATTTTATTTTATAACAAATCAA
*
32684321 TATTATTT-TATT-TTTTAATTTTATATCAAATC
1 TATTATTTCTATTATTTT-ATTTTATAACAAATC
32684353 TTTAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 18 0.62
35 7 0.24
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (35 bp):
TATTATTTCTATTATTTTATTTTATAACAAATCAA
Found at i:32685591 original size:13 final size:13
Alignment explanation
Indices: 32685527--32685613 Score: 75
Period size: 13 Copynumber: 6.7 Consensus size: 13
32685517 ACACTTAAAT
*
32685527 TTTTCTAAAGCAC
1 TTTTCAAAAGCAC
* *
32685540 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
* * *
32685553 CTCTCAAAAGCAT
1 TTTTCAAAAGCAC
* **
32685566 TTTTCCACGGCAC
1 TTTTCAAAAGCAC
32685579 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
**
32685592 TTTTCAAAAATAC
1 TTTTCAAAAGCAC
32685605 TTTTCAAAA
1 TTTTCAAAA
32685614 ACAACGAAGA
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 57 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:32685606 original size:26 final size:26
Alignment explanation
Indices: 32685527--32685613 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
32685517 ACACTTAAAT
* *
32685527 TTTTCTAAAGCACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTTTCAAAAGTAC
* * * * ** *
32685553 CTCTCAAAAGCATTTTTCCACGGCAC
1 TTTTCAAAAGCACTTTTCAAAAGTAC
*
32685579 TTTTCAAAAGCACTTTTCAAAAATAC
1 TTTTCAAAAGCACTTTTCAAAAGTAC
32685605 TTTTCAAAA
1 TTTTCAAAA
32685614 ACAACGAAGA
Statistics
Matches: 44, Mismatches: 17, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TTTTCAAAAGCACTTTTCAAAAGTAC
Found at i:32695498 original size:32 final size:33
Alignment explanation
Indices: 32695444--32695507 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
32695434 TAATATCGAT
*
32695444 TTTAATAATTTAATGATGAAAATTATTAATTAG
1 TTTAATAATTAAATGATGAAAATTATTAATTAG
* * *
32695477 TTTAGTAATTAAATTAT-AAAATTTTTAATTA
1 TTTAATAATTAAATGATGAAAATTATTAATTA
32695508 AGTGACTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (33 bp):
TTTAATAATTAAATGATGAAAATTATTAATTAG
Found at i:32701906 original size:2 final size:2
Alignment explanation
Indices: 32701899--32701936 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
32701889 AAATGAATTG
32701899 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32701937 CAATTTGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32703508 original size:22 final size:22
Alignment explanation
Indices: 32703465--32703508 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
32703455 TAATCATTAC
* * * *
32703465 TATTTAGTATCAGTTAATTATT
1 TATTCAGTAACAGTCAAGTATT
32703487 TATTCAGTAACAGTCAAGTATT
1 TATTCAGTAACAGTCAAGTATT
32703509 CGGTAGCAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (22 bp):
TATTCAGTAACAGTCAAGTATT
Found at i:32703518 original size:18 final size:18
Alignment explanation
Indices: 32703487--32703531 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
32703477 GTTAATTATT
32703487 TATTCAGTAACAGTCAAG
1 TATTCAGTAACAGTCAAG
* * *
32703505 TATTCGGTAGCAGTCAAT
1 TATTCAGTAACAGTCAAG
*
32703523 TCTTCAGTA
1 TATTCAGTA
32703532 CCTTTATTTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (18 bp):
TATTCAGTAACAGTCAAG
Found at i:32704355 original size:22 final size:21
Alignment explanation
Indices: 32704330--32704394 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
32704320 TCCCCTGTTC
*
32704330 TTCTCTGTTTCGTTTGTTTTTT
1 TTCTCTATTTC-TTTGTTTTTT
* * *
32704352 TTCTCTTTTTCATTTCTTTTAT
1 TTCTCTATTTC-TTTGTTTTTT
*
32704374 TTCATTTATTTCTTTGTTTTT
1 TTC-TCTATTTCTTTGTTTTT
32704395 ATTATTAAAC
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (21 bp):
TTCTCTATTTCTTTGTTTTTT
Found at i:32705953 original size:2 final size:2
Alignment explanation
Indices: 32705911--32705940 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32705901 TGGTAAAATG
32705911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32705941 TGAGGTGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32724805 original size:73 final size:73
Alignment explanation
Indices: 32724712--32724857 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
32724702 ATGGATCCTG
32724712 GTTTTTTAGCTTAAAGAGTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACC
1 GTTTTTTAGCTTAAAGAGTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACC
32724777 CTTCAAGT
66 CTTCAAGT
32724785 GTTTTTTAGCTTAAAGAGTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACC
1 GTTTTTTAGCTTAAAGAGTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACC
32724850 CTTCAAGT
66 CTTCAAGT
32724858 CAGCTCTTTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (73 bp):
GTTTTTTAGCTTAAAGAGTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACC
CTTCAAGT
Found at i:32724888 original size:73 final size:72
Alignment explanation
Indices: 32724725--32724875 Score: 212
Period size: 73 Copynumber: 2.0 Consensus size: 72
32724715 TTTTAGCTTA
* *
32724725 AAGAGTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACCCTTCAAGTGTTTT
1 AAGACTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACCCTTCAAGTGTCTT
* *
32724790 TTAGCTT
66 TAACCTT
*
32724797 AAAGAGTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACCCTTCAAGTCAGC
1 -AAGACTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACCCTTCAAGT--G-
32724862 TCTTTAATCCTT
62 TCTTTAA-CCTT
32724874 AA
1 AA
32724876 CTTTTCCAGT
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
73 60 0.85
75 1 0.01
76 7 0.10
77 3 0.04
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (72 bp):
AAGACTTTACAAAGTATTCGGATTTTTATCTGAAAAATTATTTAATTTCACCCTTCAAGTGTCTT
TAACCTT
Found at i:32727390 original size:3 final size:3
Alignment explanation
Indices: 32727382--32727441 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
32727372 GCAAATTTAC
32727382 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32727430 AAT AAT AAT AAT
1 AAT AAT AAT AAT
32727442 TATTTGCCTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32730078 original size:15 final size:15
Alignment explanation
Indices: 32730060--32730115 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
32730050 AACCCTTATC
*
32730060 CTATTAGACACATCA
1 CTATCAGACACATCA
*
32730075 CTATCA-ATTACATCA
1 CTATCAGA-CACATCA
* *
32730090 TTAACAGACACATCA
1 CTATCAGACACATCA
32730105 CTATCAGACAC
1 CTATCAGACAC
32730116 CTCAAAATCA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 1 0.03
15 30 0.94
16 1 0.03
ACGTcount: A:0.41, C:0.29, G:0.05, T:0.25
Consensus pattern (15 bp):
CTATCAGACACATCA
Found at i:32730286 original size:15 final size:17
Alignment explanation
Indices: 32730260--32730298 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
32730250 ATACAACATG
32730260 ACAAACAATAA-TCAAT
1 ACAAACAATAATTCAAT
*
32730276 ACAAA-AATAATTTAAT
1 ACAAACAATAATTCAAT
32730292 ACAAACA
1 ACAAACA
32730299 CAGTCATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 5 0.25
16 14 0.70
17 1 0.05
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (17 bp):
ACAAACAATAATTCAAT
Found at i:32731571 original size:11 final size:12
Alignment explanation
Indices: 32731554--32731583 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
32731544 ATTACATGGT
32731554 GAAAAGAAGAAA
1 GAAAAGAAGAAA
32731566 -AAAAGAAGAAA
1 GAAAAGAAGAAA
32731577 GAAAAGA
1 GAAAAGA
32731584 TTGGATATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
GAAAAGAAGAAA
Found at i:32731841 original size:2 final size:2
Alignment explanation
Indices: 32731834--32731866 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32731824 AAATTCTTTA
32731834 AT AT AT AT 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 AT AT AT AT A
32731867 CTCACATTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32739954 original size:2 final size:2
Alignment explanation
Indices: 32739947--32739978 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32739937 AAATGGCATA
32739947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32739979 GTGTGTGTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32741168 original size:25 final size:25
Alignment explanation
Indices: 32741139--32741190 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
32741129 GTAAAGCCGA
32741139 ATGGCTAATGTGAAATATGTATGAG
1 ATGGCTAATGTGAAATATGTATGAG
32741164 ATGGCTAATGTGAAATATGTATGAG
1 ATGGCTAATGTGAAATATGTATGAG
32741189 AT
1 AT
32741191 ATGTATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.33
Consensus pattern (25 bp):
ATGGCTAATGTGAAATATGTATGAG
Found at i:32741269 original size:50 final size:48
Alignment explanation
Indices: 32741164--32741403 Score: 426
Period size: 50 Copynumber: 4.9 Consensus size: 48
32741154 TATGTATGAG
*
32741164 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
32741212 ATGGCTAGTGTGAAATATGTATGAGATATGTATATATGTGGTAAAGCCGA
1 ATGGCTAGTGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGA
32741262 ATGGCTAGTGTGAAATATGTATGAGATATGTATATATGTGGTAAAGCCGA
1 ATGGCTAGTGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGA
*
32741312 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
32741360 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAG
32741404 ATATGTATAT
Statistics
Matches: 187, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
48 90 0.48
50 97 0.52
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (48 bp):
ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
Found at i:32741346 original size:98 final size:97
Alignment explanation
Indices: 32741164--32741403 Score: 428
Period size: 98 Copynumber: 2.5 Consensus size: 97
32741154 TATGTATGAG
* *
32741164 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATA
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
32741229 TGTATGAGATATGTATATATGTGGTAAAGCCGA
66 TGTATGAGATATG-ATATATGTGGTAAAGCCGA
32741262 ATGGCTAGTGTGAAATATGTATGAGATATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAA
1 ATGGCTAGTGTGAAATATGTATGAGATATG--TATATGTGGTAAAGCCGAATGGCTAATGTGAAA
32741327 TATGTATGAGATATG-TATATGTGGTAAAGCCGA
64 TATGTATGAGATATGATATATGTGGTAAAGCCGA
32741360 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAG
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAG
32741404 ATATGTATAT
Statistics
Matches: 138, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
96 14 0.10
98 77 0.56
100 47 0.34
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (97 bp):
ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATA
TGTATGAGATATGATATATGTGGTAAAGCCGA
Found at i:32741407 original size:19 final size:19
Alignment explanation
Indices: 32741383--32741422 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
32741373 AATATGTATG
32741383 AGATATGTATATGTGGTAA
1 AGATATGTATATGTGGTAA
32741402 AGATATGTATATGTGGTAA
1 AGATATGTATATGTGGTAA
32741421 AG
1 AG
32741423 CCGAATGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.35
Consensus pattern (19 bp):
AGATATGTATATGTGGTAA
Found at i:32741445 original size:98 final size:96
Alignment explanation
Indices: 32741164--32741446 Score: 292
Period size: 98 Copynumber: 2.9 Consensus size: 96
32741154 TATGTATGAG
* ** *
32741164 ATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA-GTGTGAAAT
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAA--CGAATGTATATGTGT-AAAG
* * *
32741228 ATGTATGAGATATGTATATATGTGGTAAAGCCGA
63 ACGAATGAGATATGTAAATATGTGGTAAAGCCGA
32741262 ATGGCTAGTGTGAAATATGTATGAGATATGTATATATGTGGTAAAGCCGAATGGCTA-ATGTG-A
1 ATGGCTAGTGTGAAATATGTATGAGATATG--TATATGTGGTAAA--CGAAT-G-TATATGTGTA
* * *
32741325 AATATGTATGAGATATGT--ATATGTGGTAAAGCCGA
60 AAGACGAATGAGATATGTAAATATGTGGTAAAGCCGA
*
32741360 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAA-GATATGTATATGTGGTAAAGC
1 ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAACGA-ATGTATATGT-GTAAAGA
*
32741424 CGAATG-GCTAGTGTGAAATATGT
64 CGAATGAGATA-TGT-AAATATGT
32741447 AGGAGATGTG
Statistics
Matches: 164, Mismatches: 8, Indels: 26
0.83 0.04 0.13
Matches are distributed among these distances:
92 2 0.01
93 7 0.04
94 6 0.04
95 10 0.06
96 13 0.08
98 82 0.50
100 39 0.24
101 2 0.01
102 3 0.02
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (96 bp):
ATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAACGAATGTATATGTGTAAAGACG
AATGAGATATGTAAATATGTGGTAAAGCCGA
Found at i:32741633 original size:37 final size:37
Alignment explanation
Indices: 32741578--32741680 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
32741568 GGAAATATAT
32741578 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
32741615 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
32741652 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
32741681 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:32743203 original size:21 final size:23
Alignment explanation
Indices: 32743156--32743209 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
32743146 CATTCAAGAT
**
32743156 AAAATAATATATAAAACTCTTTA
1 AAAATAATATATAAAACTAATTA
*
32743179 AAAATAATATAT-AAAC-AATTC
1 AAAATAATATATAAAACTAATTA
32743200 AAAAT-ATATA
1 AAAATAATATA
32743210 ATGTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 7 0.25
22 4 0.14
23 12 0.43
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATATAAAACTAATTA
Found at i:32743443 original size:23 final size:23
Alignment explanation
Indices: 32743377--32743443 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
32743367 TATAAGAAAA
*
32743377 ATAAT-AAT-GAAA-ATAATATT
1 ATAATAAATAGAAATATAATAAT
32743397 AGTATATAAATAGAAATA-AA-AAT
1 A-TA-ATAAATAGAAATATAATAAT
32743420 ATAATAAATAGAAATATAATAAT
1 ATAATAAATAGAAATATAATAAT
32743443 A
1 A
32743444 GTAGAAATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 6 0.15
23 10 0.26
24 6 0.15
25 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAATAAATAGAAATATAATAAT
Found at i:32743450 original size:17 final size:15
Alignment explanation
Indices: 32743410--32743455 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
32743400 ATATAAATAG
*
32743410 AAATAAAAATATAAT
1 AAATAGAAATATAAT
32743425 AAATAGAAATATAAT
1 AAATAGAAATATAAT
32743440 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
32743456 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:32743465 original size:14 final size:13
Alignment explanation
Indices: 32743425--32743526 Score: 59
Period size: 14 Copynumber: 7.2 Consensus size: 13
32743415 AAAATATAAT
32743425 AAATAGA-AATATA
1 AAATAGATAA-ATA
*
32743438 ATAATAGTAGAAATA
1 A-AATAG-ATAAATA
32743453 TAAATAGATAAATA
1 -AAATAGATAAATA
32743467 AAATTAGATAAATA
1 AAA-TAGATAAATA
32743481 ATAATAGTATTAGAATA
1 A-AATAG-A-TA-AATA
32743498 ACAA-A-ATAAATA
1 A-AATAGATAAATA
32743510 TAAATAGA-AACATA
1 -AAATAGATAA-ATA
32743524 AAA
1 AAA
32743527 ATAATAGTAA
Statistics
Matches: 74, Mismatches: 2, Indels: 26
0.73 0.02 0.25
Matches are distributed among these distances:
12 6 0.08
13 13 0.18
14 30 0.41
15 12 0.16
16 6 0.08
17 7 0.09
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.25
Consensus pattern (13 bp):
AAATAGATAAATA
Found at i:32743484 original size:29 final size:30
Alignment explanation
Indices: 32743420--32743541 Score: 76
Period size: 29 Copynumber: 4.2 Consensus size: 30
32743410 AAATAAAAAT
32743420 ATAATAAATAGAAATATAATAATAGTAGAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
*
32743450 AT-ATAAATAGATAA-ATAA-AATTAG-ATAA
1 ATAATAAATAGA-AATATAATAA-TAGTAGAA
* * * * ** *
32743478 ATAAT-AATAGTATTAGAATAACAAAATAA
1 ATAATAAATAGAAATATAATAATAGTAGAA
* * * *
32743507 AT-ATAAATAGAAACATAAAAATAATAGTA
1 ATAATAAATAGAAATATAATAATAGTAGAA
32743536 ATAATA
1 ATAATA
32743542 TATTAAATTA
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 43 0.62
30 7 0.10
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (30 bp):
ATAATAAATAGAAATATAATAATAGTAGAA
Found at i:32743538 original size:23 final size:23
Alignment explanation
Indices: 32743474--32743538 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 23
32743464 ATAAAATTAG
*
32743474 ATAAATAATAATAGTATTAGAATA
1 ATAAA-AATAATAGTAATAGAATA
*
32743498 A-CAAAATAAATA-TAAATAGAA-A
1 ATAAAAAT-AATAGT-AATAGAATA
32743520 CATAAAAATAATAGTAATA
1 -ATAAAAATAATAGTAATA
32743539 ATATATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
22 5 0.15
23 21 0.64
24 7 0.21
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (23 bp):
ATAAAAATAATAGTAATAGAATA
Found at i:32747156 original size:54 final size:54
Alignment explanation
Indices: 32747091--32747200 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
32747081 ACACACTTGG
32747091 TGCGCTCAACCCTGTCTTTTGCACCCTTAAGCATGCTTGTACATAAGTATTCTA
1 TGCGCTCAACCCTGTCTTTTGCACCCTTAAGCATGCTTGTACATAAGTATTCTA
32747145 TGCGCTCAACCCTGTCTTTTGCACCCTTAAGCATGCTTGTACATAAGTATTCTA
1 TGCGCTCAACCCTGTCTTTTGCACCCTTAAGCATGCTTGTACATAAGTATTCTA
32747199 TG
1 TG
32747201 TCCTAACTTG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.35
Consensus pattern (54 bp):
TGCGCTCAACCCTGTCTTTTGCACCCTTAAGCATGCTTGTACATAAGTATTCTA
Found at i:32751142 original size:18 final size:20
Alignment explanation
Indices: 32751107--32751146 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 20
32751097 TAGTTTTCAT
32751107 ATTTTTATTTTTAAGAATTTA
1 ATTTTTATTTTT-AGAATTTA
32751128 ATTTTT-TTTTT-GAATTTA
1 ATTTTTATTTTTAGAATTTA
32751146 A
1 A
32751147 AAATTTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
20 5 0.26
21 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
ATTTTTATTTTTAGAATTTA
Found at i:32751956 original size:17 final size:18
Alignment explanation
Indices: 32751918--32751958 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
32751908 TATTAAATGA
32751918 TTTTTATAATCTTTATGCT
1 TTTTTATAATCTTTAT-CT
32751937 TTTTTAATAAT-TTTAT-T
1 TTTTT-ATAATCTTTATCT
32751954 TTTTT
1 TTTTT
32751959 GGATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
19 10 0.48
20 5 0.24
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTATAATCTTTATCT
Found at i:32751966 original size:16 final size:17
Alignment explanation
Indices: 32751947--32751982 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
32751937 TTTTTAATAA
*
32751947 TTTTAT-TTTTTTGGAT
1 TTTTATATTTTTTGAAT
32751963 TTTTATATTTTTTGAAT
1 TTTTATATTTTTTGAAT
32751980 TTT
1 TTT
32751983 AAAAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (17 bp):
TTTTATATTTTTTGAAT
Found at i:32751983 original size:16 final size:16
Alignment explanation
Indices: 32751945--32751983 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
32751935 CTTTTTTAAT
32751945 AATTTTATTTTTTTGG
1 AATTTTATTTTTTTGG
*
32751961 ATTTTTATATTTTTT-G
1 AATTTTAT-TTTTTTGG
32751977 AATTTTA
1 AATTTTA
32751984 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (16 bp):
AATTTTATTTTTTTGG
Found at i:32752746 original size:19 final size:19
Alignment explanation
Indices: 32752719--32752789 Score: 61
Period size: 19 Copynumber: 3.5 Consensus size: 19
32752709 GATTATGTTA
32752719 GTATATTAATCAAAGTAAT
1 GTATATTAATCAAAGTAAT
* *
32752738 GTATTTTAATATTCAAAGTACAA
1 GTATATT-A-A-TCAAAGTA-AT
* *
32752761 ATATATTAATCAAAGTAGT
1 GTATATTAATCAAAGTAAT
*
32752780 GTATTTTAAT
1 GTATATTAAT
32752790 ATTCAAAGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
19 14 0.35
20 9 0.22
21 2 0.05
22 9 0.22
23 6 0.15
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.41
Consensus pattern (19 bp):
GTATATTAATCAAAGTAAT
Found at i:32752756 original size:22 final size:22
Alignment explanation
Indices: 32752728--32752799 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
32752718 AGTATATTAA
32752728 TCAAAGTAATGTATTTTAATAT
1 TCAAAGTAATGTATTTTAATAT
** *
32752750 TCAAAGTACAAATATATT-A-A-
1 TCAAAGTA-ATGTATTTTAATAT
*
32752770 TCAAAGTAGTGTATTTTAATAT
1 TCAAAGTAATGTATTTTAATAT
32752792 TCAAAGTA
1 TCAAAGTA
32752800 CTAAATAAGC
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 5 0.13
20 9 0.23
21 2 0.05
22 17 0.44
23 6 0.15
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (22 bp):
TCAAAGTAATGTATTTTAATAT
Found at i:32752767 original size:42 final size:43
Alignment explanation
Indices: 32752720--32752806 Score: 158
Period size: 42 Copynumber: 2.0 Consensus size: 43
32752710 ATTATGTTAG
32752720 TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTAC-AAA
1 TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACTAAA
*
32752762 TATATTAATCAAAGTAGTGTATTTTAATATTCAAAGTACTAAA
1 TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACTAAA
32752805 TA
1 TA
32752807 AGCGATTAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 38 0.88
43 5 0.12
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (43 bp):
TATATTAATCAAAGTAATGTATTTTAATATTCAAAGTACTAAA
Found at i:32758047 original size:26 final size:26
Alignment explanation
Indices: 32758018--32758069 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
32758008 TAGTGCTACG
*
32758018 TGGTGTGCAACCATTAGAGGTGCAAA
1 TGGTGTGCAACCATTAGAAGTGCAAA
* * *
32758044 TGGTTTGTAACCATTGGAAGTGCAAA
1 TGGTGTGCAACCATTAGAAGTGCAAA
32758070 AGGTTGCTCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (26 bp):
TGGTGTGCAACCATTAGAAGTGCAAA
Found at i:32762497 original size:11 final size:12
Alignment explanation
Indices: 32762457--32762521 Score: 52
Period size: 11 Copynumber: 5.9 Consensus size: 12
32762447 CTTGAACCAA
*
32762457 AATTA-AAATTT
1 AATTATAAATAT
32762468 AA-TAT-AATAT
1 AATTATAAATAT
*
32762478 AA-TAAAAATAT
1 AATTATAAATAT
*
32762489 AATT-TAAATTT
1 AATTATAAATAT
32762500 AATTATAAA-AT
1 AATTATAAATAT
*
32762511 ATTTATAAATA
1 AATTATAAATA
32762522 ATATTTTTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 10 0.23
11 27 0.63
12 6 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTATAAATAT
Found at i:32766760 original size:14 final size:15
Alignment explanation
Indices: 32766736--32766768 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32766726 TTTAGAGCAT
*
32766736 ATTTTTAATTTTTTA
1 ATTTTTAATTTTATA
32766751 ATTTTT-ATTTTATA
1 ATTTTTAATTTTATA
32766765 ATTT
1 ATTT
32766769 AACACACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTTAATTTTATA
Found at i:32773296 original size:28 final size:29
Alignment explanation
Indices: 32773241--32773304 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
32773231 ATATTAGTGT
*
32773241 TTGAAATTGTTATTTTTTTAATTTAATCC
1 TTGAAATTGTTATTTGTTTAATTTAATCC
*
32773270 TTGAACTTGTT-TTTGTTT-ATATTAAT-C
1 TTGAAATTGTTATTTGTTTAAT-TTAATCC
*
32773297 TTAAAATT
1 TTGAAATT
32773305 AAATTTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
27 9 0.30
28 11 0.37
29 10 0.33
ACGTcount: A:0.28, C:0.06, G:0.08, T:0.58
Consensus pattern (29 bp):
TTGAAATTGTTATTTGTTTAATTTAATCC
Found at i:32774970 original size:17 final size:17
Alignment explanation
Indices: 32774944--32774979 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32774934 AATTTTGATG
* *
32774944 GTGTTTGATATTGGTAT
1 GTGTTCGATATAGGTAT
32774961 GTGTTCGATATAGGTAT
1 GTGTTCGATATAGGTAT
32774978 GT
1 GT
32774980 TCAAATTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.31, T:0.47
Consensus pattern (17 bp):
GTGTTCGATATAGGTAT
Found at i:32779119 original size:12 final size:12
Alignment explanation
Indices: 32779104--32779268 Score: 72
Period size: 12 Copynumber: 13.8 Consensus size: 12
32779094 TGTTATTTCA
*
32779104 ATTTCAATTTTG
1 ATTTCGATTTTG
*
32779116 ATTTCGATTCTG
1 ATTTCGATTTTG
*
32779128 A-TTCTGATTCTG
1 ATTTC-GATTTTG
*
32779140 ATTTTGATTTCT-
1 ATTTCGATTT-TG
*
32779152 ATTTCGCTTTTG
1 ATTTCGATTTTG
*
32779164 ATTTCAATTTTG
1 ATTTCGATTTTG
** **
32779176 A--AAGACTCACTG
1 ATTTCGA-T-TTTG
32779188 A-TTCTGATTTTG
1 ATTTC-GATTTTG
*
32779200 ATTTTGATTTTG
1 ATTTCGATTTTG
* *
32779212 ATTTC-AATTCG
1 ATTTCGATTTTG
*
32779223 ATCTCGATTTTG
1 ATTTCGATTTTG
*
32779235 ATTTAGATTTTG
1 ATTTCGATTTTG
* * *
32779247 GTTTTGATTTCG
1 ATTTCGATTTTG
*
32779259 ATTTGGATTT
1 ATTTCGATTT
32779269 CAATTTAGGG
Statistics
Matches: 112, Mismatches: 31, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
10 1 0.01
11 13 0.12
12 90 0.80
13 6 0.05
14 2 0.02
ACGTcount: A:0.20, C:0.11, G:0.15, T:0.54
Consensus pattern (12 bp):
ATTTCGATTTTG
Found at i:32779135 original size:18 final size:19
Alignment explanation
Indices: 32779110--32779168 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 19
32779100 TTCAATTTCA
32779110 ATTT-TGATTTCGATTCTG
1 ATTTCTGATTTCGATTCTG
*
32779128 A-TTCTGA-TTCTGATTTTG
1 ATTTCTGATTTC-GATTCTG
* *
32779146 ATTTCT-ATTTCGCTTTTG
1 ATTTCTGATTTCGATTCTG
32779164 ATTTC
1 ATTTC
32779169 AATTTTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 5 0.14
18 23 0.66
19 7 0.20
ACGTcount: A:0.15, C:0.14, G:0.14, T:0.58
Consensus pattern (19 bp):
ATTTCTGATTTCGATTCTG
Found at i:32779196 original size:6 final size:6
Alignment explanation
Indices: 32779186--32779268 Score: 69
Period size: 6 Copynumber: 14.0 Consensus size: 6
32779176 AAAGACTCAC
* * * * * *
32779186 TGATTC TGATTT TGATTT TGATTT TGA-TT TCAATT CGATCT CGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
* * * *
32779233 TGATTT AGATTT TGGTTT TGATTT CGATTT GGATTT
1 TGATTT TGATTT TGATTT TGATTT TGATTT TGATTT
32779269 CAATTTAGGG
Statistics
Matches: 62, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
5 4 0.06
6 58 0.94
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.57
Consensus pattern (6 bp):
TGATTT
Found at i:32779213 original size:18 final size:18
Alignment explanation
Indices: 32779187--32779268 Score: 76
Period size: 18 Copynumber: 4.6 Consensus size: 18
32779177 AAGACTCACT
* *
32779187 GATTCTGATTTTGATTTT
1 GATTTTGATTTTGATTTC
* *
32779205 GATTTTGA-TTTCAATTC
1 GATTTTGATTTTGATTTC
* * *
32779222 GATCTCGATTTTGATTTA
1 GATTTTGATTTTGATTTC
*
32779240 GATTTTGGTTTTGATTTC
1 GATTTTGATTTTGATTTC
*
32779258 GATTTGGATTT
1 GATTTTGATTT
32779269 CAATTTAGGG
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
17 12 0.25
18 36 0.75
ACGTcount: A:0.18, C:0.07, G:0.18, T:0.56
Consensus pattern (18 bp):
GATTTTGATTTTGATTTC
Found at i:32779286 original size:16 final size:16
Alignment explanation
Indices: 32779265--32779306 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
32779255 TTCGATTTGG
32779265 ATTTCAATTTAGGGTT
1 ATTTCAATTTAGGGTT
32779281 ATTTCAATTTAGGGTT
1 ATTTCAATTTAGGGTT
*
32779297 ATTTCGATTT
1 ATTTCAATTT
32779307 GTATGACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.52
Consensus pattern (16 bp):
ATTTCAATTTAGGGTT
Found at i:32779389 original size:25 final size:25
Alignment explanation
Indices: 32779351--32779401 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
32779341 ATGATGTTTT
*
32779351 TTGTTTGTAACTGCTATTGTATGGA
1 TTGTTTGTAACTGCCATTGTATGGA
*
32779376 TTGTTTGTATCTGCCATTGTATGGA
1 TTGTTTGTAACTGCCATTGTATGGA
32779401 T
1 T
32779402 GCCATTGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.49
Consensus pattern (25 bp):
TTGTTTGTAACTGCCATTGTATGGA
Found at i:32779784 original size:15 final size:15
Alignment explanation
Indices: 32779764--32779793 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32779754 TGAAGAAGAC
*
32779764 ATGTCTGGTAGTGAT
1 ATGTCTAGTAGTGAT
32779779 ATGTCTAGTAGTGAT
1 ATGTCTAGTAGTGAT
32779794 GCATCTGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.30, T:0.40
Consensus pattern (15 bp):
ATGTCTAGTAGTGAT
Found at i:32781445 original size:377 final size:377
Alignment explanation
Indices: 32780736--32781493 Score: 1367
Period size: 377 Copynumber: 2.0 Consensus size: 377
32780726 GGAAATTGCA
*
32780736 AGCTCGTACCAAATATCTTTCATATCTGACAAACAAAAGGTAAAACTCCATTTATTTATTTTTTA
1 AGCTCATACCAAATATCTTTCATATCTGACAAACAAAAGGTAAAACTCCATTTATTTATTTTTTA
32780801 TGTTGATTCTATTTAGGGATTGTCAAAGAATTAAACTATTTTTTTCCTAATTGCAGGGACTTTTA
66 TGTTGATTCTATTTAGGGATTGTCAAAGAATTAAACTATTTTTTTCCTAATTGCAGGGACTTTTA
*
32780866 GAAGCAATATGTATGTTGTTTCCTAATGCAGAAATAAGACACTGTGTTAGACACCTACATGCCAA
131 GAAGCAATATGTATGTTGTTTCCTAATGCAGAAACAAGA-ACTGTGTTAGACACCTACATGCCAA
* *
32780931 TTTTAAGAAGGCTAGTTTTCGAACAAAGGAATTGAAAGATTCGCTTTGGAAAGCTGCCAGAACAA
195 TTTCAAGAAGGCTAGTTTTCGAACAAAGAAATTGAAAGATTCGCTTTGGAAAGCTGCCAGAACAA
32780996 GTACTACAAGGGATTTGAGGATGCCATGGATAAACTGAGGAAAACCAATCAACATGCTTATGATC
260 GTACTACAAGGGATTTGAGGATGCCATGGATAAACTGAGGAAAACCAATCAACATGCTTATGATC
32781061 AGTTGAAGGAAAAGAACCCTACTCACTGGTCAAGGTCTCACTTCTCAATTAGG
325 AGTTGAAGGAAAAGAACCCTACTCACTGGTCAAGGTCTCACTTCTCAATTAGG
*
32781114 AGCTCATACCAAATATCTTTCATGTCTGACAAACAAAAGGTAAAACTCCATTTATTTATTTATTT
1 AGCTCATACCAAATATCTTTCATATCTGACAAACAAAAGGTAAAACTCCATTTATTTA-TT-TTT
* *
32781179 TATGTTGTTTCTATTTAGGGATTGTCAAAGAATTAAACTATTTTTTTTCTAA-TGCAGGGACTTT
64 TATGTTGATTCTATTTAGGGATTGTCAAAGAATTAAACTATTTTTTTCCTAATTGCAGGGACTTT
*
32781243 TAGAAGCAATATGTATGTTGTTTCTTAATGCAGAAACAAG-ACTGTGTTAGACACCTACATGCCA
129 TAGAAGCAATATGTATGTTGTTTCCTAATGCAGAAACAAGAACTGTGTTAGACACCTACATGCCA
32781307 ATTTCAAGAAGGCTAGTTTTCGAACAAAGAAATTGAAAGATTCGCTTTGGAAAGCTGCCAGAACA
194 ATTTCAAGAAGGCTAGTTTTCGAACAAAGAAATTGAAAGATTCGCTTTGGAAAGCTGCCAGAACA
*
32781372 AGTACTACAAGGGATTTGAGGATGCCATGGATGAACTGAGGAAAACCAATCAACATGCTTATGAT
259 AGTACTACAAGGGATTTGAGGATGCCATGGATAAACTGAGGAAAACCAATCAACATGCTTATGAT
** *
32781437 TGGTTGAAGGAAAAGAACCCTACTCACTGGTTAAGGTCTCACTTCTCAATTAGG
324 CAGTTGAAGGAAAAGAACCCTACTCACTGGTCAAGGTCTCACTTCTCAATTAGG
32781491 AGC
1 AGC
32781494 CATTCTGACA
Statistics
Matches: 366, Mismatches: 12, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
377 205 0.56
378 56 0.15
379 52 0.14
380 53 0.14
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.31
Consensus pattern (377 bp):
AGCTCATACCAAATATCTTTCATATCTGACAAACAAAAGGTAAAACTCCATTTATTTATTTTTTA
TGTTGATTCTATTTAGGGATTGTCAAAGAATTAAACTATTTTTTTCCTAATTGCAGGGACTTTTA
GAAGCAATATGTATGTTGTTTCCTAATGCAGAAACAAGAACTGTGTTAGACACCTACATGCCAAT
TTCAAGAAGGCTAGTTTTCGAACAAAGAAATTGAAAGATTCGCTTTGGAAAGCTGCCAGAACAAG
TACTACAAGGGATTTGAGGATGCCATGGATAAACTGAGGAAAACCAATCAACATGCTTATGATCA
GTTGAAGGAAAAGAACCCTACTCACTGGTCAAGGTCTCACTTCTCAATTAGG
Found at i:32782641 original size:21 final size:21
Alignment explanation
Indices: 32782611--32782656 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
32782601 AAGTTGGTGT
*
32782611 CCCAACTCAGCAACAGGCTAC
1 CCCAAATCAGCAACAGGCTAC
* * *
32782632 CCCAAATCAGTAAGAGGGTAC
1 CCCAAATCAGCAACAGGCTAC
32782653 CCCA
1 CCCA
32782657 GCTCAACAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.17, T:0.11
Consensus pattern (21 bp):
CCCAAATCAGCAACAGGCTAC
Found at i:32783449 original size:36 final size:36
Alignment explanation
Indices: 32783377--32783452 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
32783367 TAAACTATGT
* * * *
32783377 TAAGCAACAATATGCCAGCAGCCATACATACCAACA
1 TAAGCAACAATATACCAGCAACAATACATACAAACA
*
32783413 TAAGCAACAATATACCAGCAACAATA-TTACAAAACA
1 TAAGCAACAATATACCAGCAACAATACATAC-AAACA
32783449 TAAG
1 TAAG
32783453 TTGGTTTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 3 0.09
36 31 0.91
ACGTcount: A:0.50, C:0.25, G:0.09, T:0.16
Consensus pattern (36 bp):
TAAGCAACAATATACCAGCAACAATACATACAAACA
Found at i:32786685 original size:11 final size:10
Alignment explanation
Indices: 32786651--32786701 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
32786641 ATCTTCTCGA
32786651 TTTGG-TCTGT
1 TTTGGCTCT-T
*
32786661 TTTGTCTCTT
1 TTTGGCTCTT
32786671 TTTGGCTCGTT
1 TTTGGCTC-TT
*
32786682 TTTGGCTCCT
1 TTTGGCTCTT
*
32786692 TTTGACTCTT
1 TTTGGCTCTT
32786702 GGTGCTTTCC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 21 0.62
11 13 0.38
ACGTcount: A:0.02, C:0.20, G:0.20, T:0.59
Consensus pattern (10 bp):
TTTGGCTCTT
Found at i:32806798 original size:14 final size:14
Alignment explanation
Indices: 32806779--32806805 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32806769 AAAGGCAACC
32806779 AAAAAGAAAGAAAG
1 AAAAAGAAAGAAAG
32806793 AAAAAGAAAGAAA
1 AAAAAGAAAGAAA
32806806 AAATAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAG
Found at i:32808765 original size:178 final size:179
Alignment explanation
Indices: 32808523--32808888 Score: 554
Period size: 178 Copynumber: 2.1 Consensus size: 179
32808513 GGGTAACAGG
32808523 CTGAAAATTACAAATCTTTATCTCCATGTATCGGCTATGAAGCAGATTAAAAATGGCAAGTCTTA
1 CTGAAAATTACAAATCTTTATCTCCATGTATCGGCTATGAAGCAGATTAAAAATGGCAAGTCTTA
** * * * *
32808588 TCTTTATGTATTGGCTATGGAGTAGATTTTAGCCACCGGCCTTATCTCTCTGAGGTAGCAAGAGA
66 TCTTTATGTATCAGCTATGAAGCAAATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCAAGAGA
* *
32808653 GCAAGTTGAAGATACAAGTCTTATCTTCATGAGATAGTAAGGAAGCAGA
131 GCAAGTCGAAGATACAAGTCTTATCTTCATGAGATAGAAAGGAAGCAGA
* * ** **
32808702 CTGAAAATTACAGATC-TTATCTCCATGTATCGGCTATGGAGCAGATTGGAAATGGTGAGTCTTA
1 CTGAAAATTACAAATCTTTATCTCCATGTATCGGCTATGAAGCAGATTAAAAATGGCAAGTCTTA
*
32808766 TCTTTATGTATCAGCTATGAAGCAAATTTTAGCCATCGGCCTTATCTCTCTAAGGTAGCAAGAGA
66 TCTTTATGTATCAGCTATGAAGCAAATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCAAGAGA
* * * *
32808831 GCAGGTCGAAGATACAAGTCTTATCTTCTTGAGGTAGAAAGGAAGTAGA
131 GCAAGTCGAAGATACAAGTCTTATCTTCATGAGATAGAAAGGAAGCAGA
32808880 CTGAAAATT
1 CTGAAAATT
32808889 TCAAGCCTTA
Statistics
Matches: 168, Mismatches: 19, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
178 153 0.91
179 15 0.09
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (179 bp):
CTGAAAATTACAAATCTTTATCTCCATGTATCGGCTATGAAGCAGATTAAAAATGGCAAGTCTTA
TCTTTATGTATCAGCTATGAAGCAAATTTTAGCCACCGGCCTTATCTCTCTAAGGTAGCAAGAGA
GCAAGTCGAAGATACAAGTCTTATCTTCATGAGATAGAAAGGAAGCAGA
Found at i:32809004 original size:88 final size:88
Alignment explanation
Indices: 32808892--32809689 Score: 1222
Period size: 88 Copynumber: 9.1 Consensus size: 88
32808882 GAAAATTTCA
* * * * *
32808892 AGCCTTAACCCCTTAAGCAATAGGGTAACAGACTGAACATTACAGATCGTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
32808957 AGTGGAGCAGATCAAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
*
32808980 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AGAAATTATAGATCTTATCTCCCTAAGCAG
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGA-AAATTACAGATCTTATCTCCCTAAGCAG
* * * *
32809044 TAGGGGAACAGATCAAAGATGGTG
65 TAGTGGAGCAGATCGAAGACGGTG
* *
32809068 AGCCTTAAACCCCTAAGCATTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
32809133 AGTAGAGCAGATCAAAGATGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
32809156 AGCCTTAA-CCCTTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCTCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
32809220 AGCGGAACAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
32809243 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCTCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
32809308 AGGGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
*
32809331 AGCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
32809396 AGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * * *
32809419 AGCCTTAACCTCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAAATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* *
32809484 AGCGGAACAGATCGAAGACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* * *
32809507 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAAT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
*
32809572 AGTGGAGCAGATCGAAAACGGTG
66 AGTGGAGCAGATCGAAGACGGTG
* *
32809595 AGCCTTAACCCCTTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* **
32809660 AGCGGAGCAGATCGAAGATAGTG
66 AGTGGAGCAGATCGAAGACGGTG
32809683 AGCCTTA
1 AGCCTTA
32809690 TCTCCCTGAA
Statistics
Matches: 654, Mismatches: 53, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
87 80 0.12
88 573 0.88
89 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGACGGTG
Found at i:32809690 original size:44 final size:43
Alignment explanation
Indices: 32808941--32809696 Score: 290
Period size: 44 Copynumber: 17.2 Consensus size: 43
32808931 TTACAGATCG
* * **
32808941 TATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCT
1 TATCTCCCTAAGCAGTAG-GGAACAGATCGAAGATAGTGAGCCT
* * * * *
32808985 TAACCCCCTAAGCAGTAGGGTAACAGGCTAGAA-ATTA-T-AGATCT
1 TATCTCCCTAAGCAGTAGGG-AACA-GATCGAAGA-TAGTGAG-CCT
* *
32809029 TATCTCCCTAAGCAGTAGGGGAACAGATCAAAGATGGTGAGCCT
1 TATCTCCCTAAGCAGTA-GGGAACAGATCGAAGATAGTGAGCCT
* * * * ** *
32809073 TAAAC-CCCTAAGCATTAGGGTAACAG-GCTGAAAATTACAGA-TCT
1 T-ATCTCCCTAAGCAGTAGGG-AACAGATC-GAAGA-TAGTGAGCCT
* * * *
32809117 TATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGATGGTGAGCCT
1 TATCTCCCTAAGCAGTAG-GGAACAGATCGAAGATAGTGAGCCT
* * * * ** *
32809161 TAAC-CCTTAAGCAGTAGGGTAACAG-GCTGAAAATTACAGA-TCT
1 TATCTCCCTAAGCAGTAGGG-AACAGATC-GAAGA-TAGTGAGCCT
* **
32809204 TATCTCTCTAAGCAGTAGCGGAACAGATCGAAGACGGTGAGCCT
1 TATCTCCCTAAGCAGTAG-GGAACAGATCGAAGATAGTGAGCCT
* * * * ** *
32809248 TAACCCCCTAAGCAGTAGGGTAACAGGCTGGAA-ATTACAGA-TCT
1 TATCTCCCTAAGCAGTAGGG-AACA-GATCGAAGA-TAGTGAGCCT
* * **
32809292 TATCTCTCTAAGCAGTAGGGGAGCAGATCGAAGACGGTGAGCCT
1 TATCTCCCTAAGCAGTA-GGGAACAGATCGAAGATAGTGAGCCT
* * * * * ** *
32809336 TAACCCCCTAAGTAGTAGGGTAACAG-GCTGAAAATTACAGA-TCT
1 TATCTCCCTAAGCAGTAGGG-AACAGATC-GAAGA-TAGTGAGCCT
* **
32809380 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAGCCT
1 TATCTCCCTAAGCAGTAG-GGAACAGATCGAAGATAGTGAGCCT
* * ** * ** **
32809424 TAAC-CTCCTAAGCAGTAGGGTAACAGGTTAAAAATTA-CAAATCT
1 TATCTC-CCTAAGCAGTAGGG-AACAGATCGAAGA-TAGTGAGCCT
**
32809468 TATCTCCCTAAGCAGTAGCGGAACAGATCGAAGACGGTGAGCCT
1 TATCTCCCTAAGCAGTAG-GGAACAGATCGAAGATAGTGAGCCT
* * * ** * ** *
32809512 TAACCCCCTAAGCAGTAGGGTAACAGGTTAAAAATTACAGA-TCT
1 TATCTCCCTAAGCAGTAGGG-AACAGATCGAAGA-TAGTGAGCCT
* * * **
32809556 TATCTCCCTAAGCAATAGTGGAGCAGATCGAAAACGGTGAGCCT
1 TATCTCCCTAAGCAGTAG-GGAACAGATCGAAGATAGTGAGCCT
* * * ** *
32809600 TAAC-CCCTTAAGCAGTAGGGTAACAGGCTGGAA-ATTACAGA-TCT
1 TATCTCCC-TAAGCAGTAGGG-AACA-GATCGAAGA-TAGTGAGCCT
*
32809644 TATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATAGTGAGCCT
1 TATCTCCCTAAGCAGTAG-GGAACAGATCGAAGATAGTGAGCCT
32809688 TATCTCCCT
1 TATCTCCCT
32809697 GAAGTTGCGG
Statistics
Matches: 495, Mismatches: 164, Indels: 106
0.65 0.21 0.14
Matches are distributed among these distances:
42 2 0.00
43 80 0.16
44 360 0.73
45 53 0.11
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (43 bp):
TATCTCCCTAAGCAGTAGGGAACAGATCGAAGATAGTGAGCCT
Found at i:32811020 original size:190 final size:190
Alignment explanation
Indices: 32810697--32811076 Score: 760
Period size: 190 Copynumber: 2.0 Consensus size: 190
32810687 GAGAGAGTTT
32810697 GACCGCGTGTTTTGGCTATAAATGGGGGATTTGCGCAATTAGTCTCCCTCTTTCACACTAACATT
1 GACCGCGTGTTTTGGCTATAAATGGGGGATTTGCGCAATTAGTCTCCCTCTTTCACACTAACATT
32810762 CAATTGAGCCCTATTTATGTTTTTTTGACTCTTTTAAATTGTCCCTAGAATTTGCGTGCCGTTAC
66 CAATTGAGCCCTATTTATGTTTTTTTGACTCTTTTAAATTGTCCCTAGAATTTGCGTGCCGTTAC
32810827 AAATCATTCCGCGCTTAAATGTTTCATTTTAGGCATTTGGTTTATTTGTTTTTTTAGCCC
131 AAATCATTCCGCGCTTAAATGTTTCATTTTAGGCATTTGGTTTATTTGTTTTTTTAGCCC
32810887 GACCGCGTGTTTTGGCTATAAATGGGGGATTTGCGCAATTAGTCTCCCTCTTTCACACTAACATT
1 GACCGCGTGTTTTGGCTATAAATGGGGGATTTGCGCAATTAGTCTCCCTCTTTCACACTAACATT
32810952 CAATTGAGCCCTATTTATGTTTTTTTGACTCTTTTAAATTGTCCCTAGAATTTGCGTGCCGTTAC
66 CAATTGAGCCCTATTTATGTTTTTTTGACTCTTTTAAATTGTCCCTAGAATTTGCGTGCCGTTAC
32811017 AAATCATTCCGCGCTTAAATGTTTCATTTTAGGCATTTGGTTTATTTGTTTTTTTAGCCC
131 AAATCATTCCGCGCTTAAATGTTTCATTTTAGGCATTTGGTTTATTTGTTTTTTTAGCCC
32811077 TCGTTAGTTT
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
190 190 1.00
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (190 bp):
GACCGCGTGTTTTGGCTATAAATGGGGGATTTGCGCAATTAGTCTCCCTCTTTCACACTAACATT
CAATTGAGCCCTATTTATGTTTTTTTGACTCTTTTAAATTGTCCCTAGAATTTGCGTGCCGTTAC
AAATCATTCCGCGCTTAAATGTTTCATTTTAGGCATTTGGTTTATTTGTTTTTTTAGCCC
Found at i:32812915 original size:2 final size:2
Alignment explanation
Indices: 32812908--32812938 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
32812898 AACTCACAAG
32812908 AT AT AT 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 AT AT AT A
32812939 ATAGAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32813105 original size:36 final size:36
Alignment explanation
Indices: 32813065--32813137 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
32813055 ACATCAATTC
32813065 ACCCATTCTTGGTGATTATTGAACGTGACAATTTAT
1 ACCCATTCTTGGTGATTATTGAACGTGACAATTTAT
32813101 ACCCATTCTTGGTGATTATTGAACGTGACAATTTAT
1 ACCCATTCTTGGTGATTATTGAACGTGACAATTTAT
32813137 A
1 A
32813138 GAGAAAACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.38
Consensus pattern (36 bp):
ACCCATTCTTGGTGATTATTGAACGTGACAATTTAT
Found at i:32818447 original size:10 final size:9
Alignment explanation
Indices: 32818431--32818466 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
32818421 AATTTGTGAA
32818431 AAATAAAAT
1 AAATAAAAT
32818440 AGAATAAAAT
1 A-AATAAAAT
32818450 AAATAAAAAT
1 AAAT-AAAAT
32818460 AAATAAA
1 AAATAAA
32818467 GAACACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:32822449 original size:2 final size:2
Alignment explanation
Indices: 32822442--32822469 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
32822432 TCATTTTAAA
32822442 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32822470 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32823461 original size:11 final size:11
Alignment explanation
Indices: 32823447--32823514 Score: 50
Period size: 11 Copynumber: 6.3 Consensus size: 11
32823437 TAAAAAAATG
32823447 AAAATTTATAA
1 AAAATTTATAA
*
32823458 AAAAATTATAA
1 AAAATTTATAA
* * *
32823469 AACATATCT-A
1 AAAATTTATAA
*
32823479 AAATTTTATAA
1 AAAATTTATAA
* *
32823490 AAAAATTAT-T
1 AAAATTTATAA
32823500 AAAATTCTATAA
1 AAAATT-TATAA
32823512 AAA
1 AAA
32823515 TAATGAAAAA
Statistics
Matches: 40, Mismatches: 14, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
10 11 0.28
11 26 0.65
12 3 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTTATAA
Found at i:32825041 original size:2 final size:2
Alignment explanation
Indices: 32825030--32825078 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
32825020 ATTAAGTTAT
32825030 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32825071 TA TA TA TA
1 TA TA TA TA
32825079 AAGTAAAAGG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:32826973 original size:19 final size:18
Alignment explanation
Indices: 32826949--32826990 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 18
32826939 CGGTTGAATG
32826949 AAAGGAAAATTGACGGTAA
1 AAAGG-AAATTGACGGTAA
32826968 AAAGG-AATTGACGGTAA
1 AAAGGAAATTGACGGTAA
32826985 AAAGGA
1 AAAGGA
32826991 TCTAGCCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 17 0.77
19 5 0.23
ACGTcount: A:0.52, C:0.05, G:0.29, T:0.14
Consensus pattern (18 bp):
AAAGGAAATTGACGGTAA
Found at i:32826978 original size:17 final size:17
Alignment explanation
Indices: 32826956--32826990 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
32826946 ATGAAAGGAA
32826956 AATTGACGGTAAAAAGG
1 AATTGACGGTAAAAAGG
32826973 AATTGACGGTAAAAAGG
1 AATTGACGGTAAAAAGG
32826990 A
1 A
32826991 TCTAGCCCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.29, T:0.17
Consensus pattern (17 bp):
AATTGACGGTAAAAAGG
Found at i:32827308 original size:46 final size:46
Alignment explanation
Indices: 32827257--32827536 Score: 398
Period size: 46 Copynumber: 6.0 Consensus size: 46
32827247 GTGTGCTCTC
** *
32827257 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
**
32827303 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC--G
32827351 ATATGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 ---TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* * * * *
32827400 TGACATGAAAAGAATAAGACCATAGTTGCAAGATACCATGGCAACT
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
*
32827446 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
* *
32827492 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
32827537 ATGACAGAAA
Statistics
Matches: 212, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
46 168 0.79
49 1 0.00
51 43 0.20
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
Found at i:32827433 original size:97 final size:96
Alignment explanation
Indices: 32827257--32827584 Score: 443
Period size: 92 Copynumber: 3.4 Consensus size: 96
32827247 GTGTGCTCTC
** * * * **
32827257 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
32827322 CCATGGTTGAAAGATACCATGGCAACGTGATA
66 CCATGGTTGAAAGATACCATGGCAAC-TGATA
32827354 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
* *
32827419 CCATAGTTGCAAGATACCATGGCAAC---T-
66 CCATGGTTGAAAGATACCATGGCAACTGATA
*
32827446 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
*
32827511 CCATGGTTGAAAGATACCATGGCAACATGACA
66 CCATGGTTGAAAGATACCATGGCAAC-TGATA
* * * * *
32827543 -GAAAATG-AATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TG-ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
32827585 TCATGTCAAA
Statistics
Matches: 207, Mismatches: 18, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
92 88 0.43
93 1 0.00
96 32 0.15
97 86 0.42
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (96 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGA
CCATGGTTGAAAGATACCATGGCAACTGATA
Found at i:32827542 original size:46 final size:46
Alignment explanation
Indices: 32827271--32827589 Score: 370
Period size: 46 Copynumber: 6.7 Consensus size: 46
32827261 ATGAAATGTG
* * * **
32827271 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
* *
32827317 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAAC-----ATGACATGAAAAGAA
*
32827368 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
* * * * *
32827414 TAAGACCATAGTTGCAAGATACCATGGCAACTTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
**
32827460 TAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
32827506 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAA-G-A--A
* * * *
32827555 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -TAAGACCATGGTTGAAAGATACCATGGCAACATG
32827590 TCAAAGATAA
Statistics
Matches: 240, Mismatches: 23, Indels: 16
0.86 0.08 0.06
Matches are distributed among these distances:
45 5 0.02
46 160 0.67
47 1 0.00
49 1 0.00
50 30 0.12
51 43 0.18
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAAAGAA
Found at i:32829407 original size:51 final size:50
Alignment explanation
Indices: 32829321--32829450 Score: 174
Period size: 51 Copynumber: 2.6 Consensus size: 50
32829311 GGAGAGCTTG
* * *
32829321 GTTTAGCCACTGGT-GGG-GGTTGTGGTTTTGATTCAGAGGGAGGATTCA
1 GTTTAGCCACTGATGGGGTGGTTGTGGTTTTGATTCAGAGGAAAGATTCA
* *
32829369 GTTTAGCCACTGATGGGGATGGTTGTGGTTTTGGTTCAGAGGAAAGATTCG
1 GTTTAGCCACTGATGGGG-TGGTTGTGGTTTTGATTCAGAGGAAAGATTCA
*
32829420 GTGTAGCCACTGATGGGGGTGGTTGTGGTTT
1 GTTTAGCCACTGAT-GGGGTGGTTGTGGTTT
32829451 GTTTTGAGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
48 13 0.18
49 3 0.04
51 52 0.72
52 4 0.06
ACGTcount: A:0.16, C:0.10, G:0.40, T:0.34
Consensus pattern (50 bp):
GTTTAGCCACTGATGGGGTGGTTGTGGTTTTGATTCAGAGGAAAGATTCA
Found at i:32832719 original size:45 final size:45
Alignment explanation
Indices: 32832668--32832758 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
32832658 ATGTAACAGG
32832668 ACCAAAGTAGAAGTAAGAGATCAAAGAATTTATAATGAATAAATA
1 ACCAAAGTAGAAGTAAGAGATCAAAGAATTTATAATGAATAAATA
32832713 ACCAAAGTAGAAGTAAGAGATCAAAGAATTTATAATGAATAAATA
1 ACCAAAGTAGAAGTAAGAGATCAAAGAATTTATAATGAATAAATA
32832758 A
1 A
32832759 TTAATAACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.22
Consensus pattern (45 bp):
ACCAAAGTAGAAGTAAGAGATCAAAGAATTTATAATGAATAAATA
Found at i:32833888 original size:12 final size:11
Alignment explanation
Indices: 32833872--32833920 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
32833862 TAAAAAGGAG
32833872 TAATAAATAAA
1 TAATAAATAAA
*
32833883 TGAATAAACAAAA
1 T-AATAAA-TAAA
32833896 TAAT-AATAAA
1 TAATAAATAAA
32833906 TAATAAAATAAA
1 TAAT-AAATAAA
32833918 TAA
1 TAA
32833921 ATAATCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 7 0.22
11 3 0.09
12 18 0.56
13 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:32833915 original size:27 final size:26
Alignment explanation
Indices: 32833872--32833925 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
32833862 TAAAAAGGAG
*
32833872 TAATAAATAAATGAATAAACAAAATAA
1 TAATAAATAAATAAATAAA-AAAATAA
*
32833899 TAATAAAT-AATAAAATAAATAAATAA
1 TAATAAATAAAT-AAATAAAAAAATAA
32833925 T
1 T
32833926 CAAAGGCTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (26 bp):
TAATAAATAAATAAATAAAAAAATAA
Found at i:32835510 original size:15 final size:15
Alignment explanation
Indices: 32835490--32835518 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32835480 ACTGTGGACT
32835490 TTAATATTTTATTTA
1 TTAATATTTTATTTA
32835505 TTAATATTTTATTT
1 TTAATATTTTATTT
32835519 TGGTTATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTAATATTTTATTTA
Found at i:32835956 original size:44 final size:44
Alignment explanation
Indices: 32835908--32836344 Score: 280
Period size: 44 Copynumber: 9.9 Consensus size: 44
32835898 GACTTGTTGT
* * * *
32835908 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC
* * * * ** *
32835952 TTCAATCTGCTCTACTGCAACATCAAAGAGATAAGATTTGCTATC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGC
* * * * * *
32835997 TTCGATCTACTCTACTACAACTTTTGGGAGATAAGATCTGTAAC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC
* * *
32836041 TTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTATAGC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC
* * * ** *
32836085 TTTAATCTGCTCTACTGCAACTTTAGATAGATAAGATTTGCTATC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGC
* * * *
32836130 TTCAACCTGA-TTCGCTGTAACTTTAGGGAGATAAGATTTATAACTTGTAGC
1 TTCAATCT-ACTCCACTGCAACTTTAGGGAGATAAG----AT---TTGTAGC
* * * * *
32836181 TTTAATTTATTCCACTGCAACTTTAGGGAAATAAGATTTGCTATC
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTG-TAGC
* * * *
32836226 TTCCATCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGTAG-
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC
* * *
32836269 -----T-TACTCCACTGCAACTTTAGGGAGATAAAATTTAT-GAA
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAG-C
* ** * *
32836307 TTTAATCTTTTCCATTGCAACTTTAAGGAGATAAGATT
1 TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATT
32836345 CGTCACTGTA
Statistics
Matches: 301, Mismatches: 72, Indels: 40
0.73 0.17 0.10
Matches are distributed among these distances:
36 1 0.00
37 29 0.10
38 1 0.00
43 1 0.00
44 135 0.45
45 97 0.32
47 2 0.01
49 2 0.01
50 1 0.00
51 29 0.10
52 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (44 bp):
TTCAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGC
Found at i:32836152 original size:133 final size:133
Alignment explanation
Indices: 32835908--32836175 Score: 351
Period size: 133 Copynumber: 2.0 Consensus size: 133
32835898 GACTTGTTGT
32835908 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCTACTGCAAC
1 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCTACTGCAAC
* * * *
32835973 ATCAAAGAGATAAGATTTGCTATCTTCGATCTACTCTACTACAACTTTTGGGAGATAAGATCTGT
66 ATCAAAGAGATAAGATTTGCTATCTTCAACCTACTCTACTACAACTTTAGGGAGATAAGATCTAT
32836038 AAC
131 AAC
* * * *
32836041 TTCAATCTGCTCCACTGTAACTTTAGGGAGATAAGATTTA-TAGCTTTAATCTGCTCTACTGCAA
1 TTCAATATACTCCACTGTAACTTCAGGGAGATAAGA-TTAGTAGCTTCAATCTGCTCTACTGCAA
* * * * * * ** *
32836105 CTTTAGATAGATAAGATTTGCTATCTTCAACCTGATTC-GCTGTAACTTTAGGGAGATAAGATTT
65 CATCAAAGAGATAAGATTTGCTATCTTCAACCT-ACTCTACTACAACTTTAGGGAGATAAGATCT
32836169 ATAAC
129 ATAAC
32836174 TT
1 TT
32836176 GTAGCTTTAA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
133 110 0.95
134 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (133 bp):
TTCAATATACTCCACTGTAACTTCAGGGAGATAAGATTAGTAGCTTCAATCTGCTCTACTGCAAC
ATCAAAGAGATAAGATTTGCTATCTTCAACCTACTCTACTACAACTTTAGGGAGATAAGATCTAT
AAC
Found at i:32836221 original size:96 final size:90
Alignment explanation
Indices: 32835915--32836301 Score: 310
Period size: 89 Copynumber: 4.4 Consensus size: 90
32835905 TGTTTCAATA
* * * * * * * * **
32835915 TACTCCACTGTAACTTCAGGGAGATAAGATTAG-TAGCTTCAATCTGCTCTACTGCAACATCAAA
1 TACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTTAGG
** * **
32835979 GAGATAAGATTTGCTATCTTCGATC
66 GAGATAAGATTTTATAGCTTTAATC
* * * * *
32836004 TACTCTACTACAACTTTTGGGAGATAAGATCTG-TAACTTCAATCTGCTCCACTGTAACTTTAGG
1 TACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTTAGG
32836068 GAGATAAGA-TTTATAGCTTTAATC
66 GAGATAAGATTTTATAGCTTTAATC
* * ** * * * *
32836092 TGCTCTACTGCAACTTTAGATAGATAAGATTTGCTATCTTCAACCTGATTCGCTGTAACTTTAGG
1 TACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTTAGG
*
32836157 GAGATAAGATTTATAACTTGTAGCTTTAATT
66 GAGATAAGATTT-T-A----TAGCTTTAATC
* * * * *
32836188 TATTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTCCATCTGCTCCACTGCAACTTCAGG
1 TACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTTAGG
* *
32836253 GAGATGAGA--TT-T-G---TAGT-
66 GAGATAAGATTTTATAGCTTTAATC
*
32836270 TACTCCACTGCAACTTTAGGGAGATAAAATTT
1 TACTCCACTGCAACTTTAGGGAGATAAGATTT
32836302 ATGAATTTAA
Statistics
Matches: 241, Mismatches: 49, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
82 29 0.12
83 3 0.01
86 1 0.00
87 1 0.00
88 37 0.15
89 94 0.39
90 2 0.01
91 1 0.00
92 1 0.00
93 1 0.00
94 1 0.00
96 70 0.29
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (90 bp):
TACTCCACTGCAACTTTAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGTAACTTTAGG
GAGATAAGATTTTATAGCTTTAATC
Found at i:32845862 original size:19 final size:20
Alignment explanation
Indices: 32845824--32845868 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
32845814 GGGTCTTTTT
* *
32845824 ATGAAACTTAATGCATATG-
1 ATGAAACGTAATGCAGATGA
*
32845843 ATGAAACGTAATGTAGATGA
1 ATGAAACGTAATGCAGATGA
32845863 ATGAAA
1 ATGAAA
32845869 TGAATACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (20 bp):
ATGAAACGTAATGCAGATGA
Found at i:32849617 original size:12 final size:11
Alignment explanation
Indices: 32849599--32849647 Score: 55
Period size: 12 Copynumber: 4.3 Consensus size: 11
32849589 TAAAAAGGAG
32849599 TAATAAATAAA
1 TAATAAATAAA
*
32849610 TGAATAAACAAAA
1 T-AATAAA-TAAA
32849623 TAAT-AATAAA
1 TAATAAATAAA
32849633 TAATAAAATAAA
1 TAAT-AAATAAA
32849645 TAA
1 TAA
32849648 ATAATCAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 7 0.22
11 3 0.09
12 18 0.56
13 4 0.12
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:32849642 original size:27 final size:26
Alignment explanation
Indices: 32849599--32849652 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
32849589 TAAAAAGGAG
*
32849599 TAATAAATAAATGAATAAACAAAATAA
1 TAATAAATAAATAAATAAA-AAAATAA
*
32849626 TAATAAAT-AATAAAATAAATAAATAA
1 TAATAAATAAAT-AAATAAAAAAATAA
32849652 T
1 T
32849653 CAAAGGCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (26 bp):
TAATAAATAAATAAATAAAAAAATAA
Found at i:32853290 original size:28 final size:26
Alignment explanation
Indices: 32853246--32853304 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
32853236 ATATTTATAT
32853246 TATATTATTTTAGTATTTGATAATTTTA
1 TATATTATTTTAGTA-TTGA-AATTTTA
* *
32853274 TATATT-TTTTACTTATTGAAATTTTT
1 TATATTATTTTA-GTATTGAAATTTTA
32853300 TATAT
1 TATAT
32853305 AGTTATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 11 0.39
27 9 0.32
28 8 0.29
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (26 bp):
TATATTATTTTAGTATTGAAATTTTA
Found at i:32854195 original size:13 final size:14
Alignment explanation
Indices: 32854166--32854193 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32854156 GGTTGAAAAG
32854166 TGAAAAATAATTTT
1 TGAAAAATAATTTT
32854180 TGAAAAATAATTTT
1 TGAAAAATAATTTT
32854194 GAGATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TGAAAAATAATTTT
Found at i:32855375 original size:31 final size:30
Alignment explanation
Indices: 32855337--32855396 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
32855327 TGTTTTATAA
*
32855337 TTTTTTTAAATTTTAAATATATATATTTAAT
1 TTTTTTTAAAATTTAAATAT-TATATTTAAT
*
32855368 TTTTTTTAAAATTTAAATATTATTTTTAA
1 TTTTTTTAAAATTTAAATATTATATTTAA
32855397 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTTTTTAAAATTTAAATATTATATTTAAT
Found at i:32855395 original size:20 final size:20
Alignment explanation
Indices: 32855368--32855413 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
32855358 TATATTTAAT
32855368 TTTTTTTAAAA-TTTAAATA
1 TTTTTTTAAAATTTTAAATA
32855387 TTATTTTTAAAATTTTAAATA
1 TT-TTTTTAAAATTTTAAATA
32855408 TTTTTT
1 TTTTTT
32855414 AATAATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 13 0.52
21 10 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTTAAAATTTTAAATA
Found at i:32855401 original size:32 final size:32
Alignment explanation
Indices: 32855329--32855402 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
32855319 ATTTCAAATG
*
32855329 TTTTATAA-TTTTTTTAAATTTTAAATATATAT
1 TTTTA-AATTTTTTTTAAAATTTAAATATATAT
*
32855361 ATTT-AATTTTTTTTAAAATTTAAATAT-TAT
1 TTTTAAATTTTTTTTAAAATTTAAATATATAT
*
32855391 TTTTAAAATTTT
1 TTTTAAATTTTT
32855403 AAATATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 8 0.22
31 25 0.69
32 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (32 bp):
TTTTAAATTTTTTTTAAAATTTAAATATATAT
Found at i:32855487 original size:28 final size:28
Alignment explanation
Indices: 32855456--32855635 Score: 77
Period size: 29 Copynumber: 6.1 Consensus size: 28
32855446 ATAACCTTTC
32855456 AAATTTATTATTATTTTTATAATATTTT
1 AAATTTATTATTATTTTTATAATATTTT
*
32855484 AAATGTATATT-TTAAATTTTA-AATATTTTT
1 AAAT-T-TATTATT-ATTTTTATAATA-TTTT
* * *
32855514 AATTTGTTTTATAATATTTTTA-AGT-TTTT
1 AAATT-TATTAT--TATTTTTATAATATTTT
* * * *
32855543 AAATTTTTTATAATATTTAAAATATTTTT
1 AAATTTATTATTATTTTTATAATA-TTTT
* *
32855572 AAA-ATA-TATTATTTTTAAAGATATGATATTTC
1 AAATTTATTATTATTTTT----ATA--ATATTTT
*
32855604 AAATTTATTGTT-TGTTTTATAATATTTT
1 AAATTTATTATTAT-TTTTATAATATTTT
32855632 AAAT
1 AAAT
32855636 GTATATTTTA
Statistics
Matches: 114, Mismatches: 19, Indels: 38
0.67 0.11 0.22
Matches are distributed among these distances:
26 6 0.05
27 10 0.09
28 21 0.18
29 26 0.23
30 21 0.18
31 10 0.09
32 7 0.06
33 6 0.05
34 7 0.06
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (28 bp):
AAATTTATTATTATTTTTATAATATTTT
Found at i:32855509 original size:16 final size:16
Alignment explanation
Indices: 32855470--32855518 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
32855460 TTATTATTAT
32855470 TTTTATAATATTTTAAA
1 TTTTA-AATATTTTAAA
*
32855487 -TGT--ATATTTTAAA
1 TTTTAAATATTTTAAA
*
32855500 TTTTAAATATTTTTAA
1 TTTTAAATATTTTAAA
32855516 TTT
1 TTT
32855519 GTTTTATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
13 10 0.38
14 2 0.08
16 14 0.54
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TTTTAAATATTTTAAA
Found at i:32855550 original size:9 final size:9
Alignment explanation
Indices: 32855500--32855574 Score: 53
Period size: 10 Copynumber: 7.8 Consensus size: 9
32855490 ATATTTTAAA
32855500 TTTTAAATAT
1 TTTTAAAT-T
*
32855510 TTTTAATTT
1 TTTTAAATT
32855519 GTTTTATAATAT
1 -TTTTA-AAT-T
*
32855531 TTTT-AAGT
1 TTTTAAATT
32855539 TTTTAAATT
1 TTTTAAATT
*
32855548 TTTTATAATA
1 TTTTA-AATT
*
32855558 TTTAAAATAT
1 TTTTAAAT-T
32855568 TTTTAAA
1 TTTTAAA
32855575 ATATATTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
8 5 0.10
9 14 0.27
10 25 0.49
11 6 0.12
12 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTAAATT
Found at i:32855567 original size:37 final size:37
Alignment explanation
Indices: 32855467--32855574 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 37
32855457 AATTTATTAT
*
32855467 TATTTTTATAATATTTTAAATGTATATTTTAAATTTTAAA
1 TATTTTTATAATA-TTTAAA-ATAT-TTTTAAATTTTAAA
* * * *
32855507 TATTTTTA-ATTTGTTTTATAATATTTTTAAGTTTTTAAA
1 TATTTTTATA-AT-ATTTAAAATATTTTTAA-ATTTTAAA
32855546 T-TTTTTATAATATTTAAAATATTTTTAAA
1 TATTTTTATAATATTTAAAATATTTTTAAA
32855575 ATATATTATT
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
37 15 0.27
38 13 0.24
39 13 0.24
40 14 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (37 bp):
TATTTTTATAATATTTAAAATATTTTTAAATTTTAAA
Found at i:32855601 original size:17 final size:15
Alignment explanation
Indices: 32855564--32855602 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
32855554 AATATTTAAA
32855564 ATATTTTTAAAATAT
1 ATATTTTTAAAATAT
32855579 ATTATTTTTAAAGATAT
1 A-TATTTTTAAA-ATAT
32855596 GATATTT
1 -ATATTT
32855603 CAAATTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 10 0.48
17 9 0.43
18 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (15 bp):
ATATTTTTAAAATAT
Found at i:32855662 original size:31 final size:29
Alignment explanation
Indices: 32855618--32855706 Score: 99
Period size: 31 Copynumber: 2.9 Consensus size: 29
32855608 TTATTGTTTG
* *
32855618 TTTTATAATATTTTAAATGTATATTTTAAATA
1 TTTT-TAAAATTTTAAAT-TA-ATTTTAAAAA
32855650 TTTTTAAAATTTTAAATATAATTTTTAAAAA
1 TTTTTAAAATTTTAAAT-TAA-TTTTAAAAA
*
32855681 TTTTT-AATTTTTAAATTAATTTTAAA
1 TTTTTAAAATTTTAAATTAATTTTAAA
32855707 GATATTCAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
28 7 0.13
29 3 0.06
30 11 0.21
31 27 0.52
32 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (29 bp):
TTTTTAAAATTTTAAATTAATTTTAAAAA
Found at i:32855759 original size:33 final size:33
Alignment explanation
Indices: 32855684--32855759 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
32855674 TTAAAAATTT
* *
32855684 TTAATTTTTAAATTAATTTTAAAGATATTCAAA
1 TTAATTTTTAAATTAAATTTAAAGATATTAAAA
* *
32855717 TGT-TTTTTTAAATTAAATTTAAA-ATTTTAAAA
1 T-TAATTTTTAAATTAAATTTAAAGATATTAAAA
32855749 TTAATATTTTA
1 TTAAT-TTTTA
32855760 TTTGGTGGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
31 1 0.03
32 9 0.26
33 24 0.69
34 1 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (33 bp):
TTAATTTTTAAATTAAATTTAAAGATATTAAAA
Found at i:32858793 original size:48 final size:48
Alignment explanation
Indices: 32858733--32858930 Score: 288
Period size: 48 Copynumber: 4.1 Consensus size: 48
32858723 CCTCAGATGG
** * *
32858733 TGGTTGCGGTTTTGGTTTTGAAGGAGGGTTAGGTTTAGGCACTGGTGA
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
* * * *
32858781 TGGTTGTGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGTCACTGTTAA
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
*
32858829 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGG
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
* * *
32858877 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGCCACTGTTGG
1 TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
32858925 TGGTTG
1 TGGTTG
32858931 TGGCTGCGGA
Statistics
Matches: 135, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.12, C:0.09, G:0.42, T:0.37
Consensus pattern (48 bp):
TGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGA
Found at i:32858929 original size:96 final size:96
Alignment explanation
Indices: 32858730--32858930 Score: 321
Period size: 96 Copynumber: 2.1 Consensus size: 96
32858720 GCTCCTCAGA
** *
32858730 TGGTGGTTGCGGTTTTGGTTTTGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGTGGTTTTG
1 TGGTGGTTGCGGTTTTGGTTCAGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGCGGTTTTG
*
32858795 GTTCAGAGGGCGGGTTAGGTTTAGTCACTGT
66 GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
** * * *
32858826 TAATGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGGCACTGGTGGTGGTTGCGGTTTTG
1 TGGTGGTTGCGGTTTTGGTTCAGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGCGGTTTTG
32858891 GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
66 GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
32858922 TGGTGGTTG
1 TGGTGGTTG
32858931 TGGCTGCGGA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.12, C:0.09, G:0.42, T:0.37
Consensus pattern (96 bp):
TGGTGGTTGCGGTTTTGGTTCAGAAGGAGGGTTAGGTTTAGGCACTGGTGATGGTTGCGGTTTTG
GTTCAGAGGGCGGGTTAGGTTTAGCCACTGT
Found at i:32858948 original size:84 final size:84
Alignment explanation
Indices: 32858860--32859070 Score: 296
Period size: 84 Copynumber: 2.5 Consensus size: 84
32858850 GGGCGGGTTA
* * * *
32858860 GGTTTAGGCACTGGTGGTGGTTGCGGTTTTGGTTCAGAGGGCGGGTTAGGTTTAGCCACTGTTGG
1 GGTTTAGGCACTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCGGGTCAGGTTTAGCCACCGGTGG
*
32858925 TGGTTGTGGCTGCGGATTT
66 TGGTTGTGGCTGCCGATTT
* * * *
32858944 GGTTTAGGAATTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCGGGTCCGGTTTAGCTACCGGTGG
1 GGTTTAGGCACTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCGGGTCAGGTTTAGCCACCGGTGG
*
32859009 TGGTTGTGGCTGCCGTTTT
66 TGGTTGTGGCTGCCGATTT
* * * *
32859028 GGTTCAGGCACTAGTGGTGGCTGTGGTTTTGGTTCAGACGGCG
1 GGTTTAGGCACTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCG
32859071 AGTTTAGTGG
Statistics
Matches: 111, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 111 1.00
ACGTcount: A:0.09, C:0.13, G:0.43, T:0.35
Consensus pattern (84 bp):
GGTTTAGGCACTGGTGGTGGTTGTGGTTTTGGTTCAGAGGGCGGGTCAGGTTTAGCCACCGGTGG
TGGTTGTGGCTGCCGATTT
Found at i:32859576 original size:25 final size:27
Alignment explanation
Indices: 32859548--32859605 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
32859538 ACGTTTTGAA
32859548 ATTATAATTTT-GTA-AAAATAATTAT
1 ATTATAATTTTGGTACAAAATAATTAT
*
32859573 ATTA-ATTTTTGGTACCTAAAATAATTAT
1 ATTATAATTTTGGTA-C-AAAATAATTAT
32859601 ATTAT
1 ATTAT
32859606 TTGTGTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 5 0.19
25 7 0.26
28 15 0.56
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (27 bp):
ATTATAATTTTGGTACAAAATAATTAT
Found at i:32865597 original size:26 final size:26
Alignment explanation
Indices: 32865568--32865677 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
32865558 TGATACAAAT
32865568 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
32865594 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
32865620 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
32865646 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
32865672 TGATAA
1 TGATAA
32865678 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:32867772 original size:133 final size:132
Alignment explanation
Indices: 32867453--32867858 Score: 650
Period size: 131 Copynumber: 3.1 Consensus size: 132
32867443 TGAGTAGTCT
32867453 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
32867518 GTTATCTGAATAA-GGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGCTCTGGCCAGTAC-CTA
66 GTTATCTG-ATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGCTCTGGCCAGTACACTG
32867581 TTA
130 TTA
32867584 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTTATTTTGAAATGGG-CTATGGG-CATAC
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATG-TATTTTGAAATGGGCCTATGGGCCATAC
32867647 TGTTATCTGTATAAGGGGCTAAGG-CCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACA
65 TGTTATCTG-ATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAA-GGCTCTGG-CCAGTACA
32867711 CTGTTA
127 CTGTTA
32867717 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
* *
32867782 GTTATC--ATAAGGGGCTAAGGCCCAGTTTATTGTAATTTG-AAAGG-TCTGGCCAGTCCACTGT
66 GTTATCTGATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGCTCTGGCCAGTACACTGT
32867843 TCA
131 T-A
**
32867846 CCTGAATGGGCTT
1 CCCAAATGGGCTT
32867859 AGGCCAATAG
Statistics
Matches: 260, Mismatches: 6, Indels: 20
0.91 0.02 0.07
Matches are distributed among these distances:
128 12 0.05
129 17 0.07
130 42 0.16
131 77 0.30
132 52 0.20
133 48 0.18
134 12 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (132 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGCTCTGGCCAGTACACTGT
TA
Found at i:32868523 original size:55 final size:52
Alignment explanation
Indices: 32868451--32868552 Score: 168
Period size: 55 Copynumber: 1.9 Consensus size: 52
32868441 TGAACATCAA
*
32868451 GTACGATTTTCTGGACTTAGAATGGAAATTTTTTTTTAACGTTTTTGATGAACAT
1 GTACGATTTTCTAGACTTAGAATGG--A-TTTTTTTTAACGTTTTTGATGAACAT
32868506 GTACGATTTTCTAGACTTAGAATGGATTTTTTTTAACGTTTTTGATG
1 GTACGATTTTCTAGACTTAGAATGGATTTTTTTTAACGTTTTTGATG
32868553 TGGCATGCCG
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 21 0.46
53 1 0.02
55 24 0.52
ACGTcount: A:0.25, C:0.09, G:0.19, T:0.47
Consensus pattern (52 bp):
GTACGATTTTCTAGACTTAGAATGGATTTTTTTTAACGTTTTTGATGAACAT
Found at i:32871677 original size:26 final size:25
Alignment explanation
Indices: 32871634--32871741 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 25
32871624 TGATACAAAT
32871634 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
32871659 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
*
32871685 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
32871711 TGATAATGGTTAGGTAAATGTTTCA
1 TGATAATGGTTAGGTAAATGTTCCA
32871736 TGATAA
1 TGATAA
32871742 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
25 33 0.42
26 43 0.55
27 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.37
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:32873908 original size:136 final size:137
Alignment explanation
Indices: 32873516--32873938 Score: 794
Period size: 137 Copynumber: 3.1 Consensus size: 137
32873506 GAGTAGTCTC
32873516 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
32873581 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
32873646 ACTGTTA
131 ACTGTTA
32873653 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
32873718 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTATC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
32873783 ACTGTTA
131 ACTGTTA
*
32873790 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
32873854 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
32873919 ACTGTTA
131 ACTGTTA
**
32873926 CCTGAATGGGCTT
1 CCCAAATGGGCTT
32873939 AGGCCCAATG
Statistics
Matches: 280, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 125 0.45
137 155 0.55
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:32875059 original size:38 final size:37
Alignment explanation
Indices: 32875015--32875125 Score: 106
Period size: 38 Copynumber: 3.0 Consensus size: 37
32875005 TAATTATGTA
32875015 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
32875052 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
32875089 AA-AT-TATAATTTATATTATTAAATTATTATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
32875126 ATTATTAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.13
36 9 0.15
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Done.