Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 156 of 325
Found at i:49926112 original size:46 final size:46
Alignment explanation
Indices: 49926062--49926237 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
49926052 TGGTTGAGCA
*
49926062 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
49926108 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
49926153 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
49926201 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49926238 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:49926218 original size:93 final size:93
Alignment explanation
Indices: 49926059--49926229 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
49926049 GGATGGTTGA
* * * *
49926059 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49926124 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
49926152 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
49926217 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
49926230 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:49929514 original size:13 final size:13
Alignment explanation
Indices: 49929487--49929519 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
49929477 TGCCAGAAGC
49929487 AATTAAAAAGAAA
1 AATTAAAAAGAAA
49929500 AATTAGAAAAGAAA
1 AATTA-AAAAGAAA
49929514 AATTAA
1 AATTAA
49929520 GCTAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (13 bp):
AATTAAAAAGAAA
Found at i:49930537 original size:28 final size:28
Alignment explanation
Indices: 49930497--49930596 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
49930487 CCCCTTTAGT
*
49930497 CCCAATCTCATTCATATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
* *
49930525 CCCAACCACATTCATATGGCCCATCAGA
1 CCCAATCACATTCATATGGCCCATCAGG
** * *
49930553 CCCAATCATTTTCATTTGGCCCGTCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
*
49930581 CCCAATCATATTCATA
1 CCCAATCACATTCATA
49930597 GTCATGCAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.27, C:0.35, G:0.12, T:0.26
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCAGG
Found at i:49935974 original size:47 final size:47
Alignment explanation
Indices: 49935910--49936966 Score: 1754
Period size: 47 Copynumber: 22.3 Consensus size: 47
49935900 AAAGTGTATA
*
49935910 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49935957 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49936004 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936051 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936098 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
49936145 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936192 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
49936241 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49936288 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936335 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
49936382 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936429 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
49936478 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936525 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936574 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49936621 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
49936668 TATATATGTGATAAGGCCTAATAGCCAATGTGACGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49936715 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49936764 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
49936811 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAATTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49936858 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * * * *
49936905 TATATATGCGACAGGGCCGAGTGGCCAACGTGATGGATGTTAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49936952 TATAAATGTGATAAG
1 TATATATGTGATAAG
49936967 TCCCGAAGGG
Statistics
Matches: 948, Mismatches: 54, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
47 772 0.81
49 176 0.19
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:49936912 original size:237 final size:237
Alignment explanation
Indices: 49935910--49936966 Score: 1743
Period size: 237 Copynumber: 4.5 Consensus size: 237
49935900 AAAGTGTATA
*
49935910 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
49935975 TAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGAT
*
49936038 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
131 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
49936103 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
196 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
49936145 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
*
49936210 CCTAATGGCCGATGTGATGAATGTGAAA-T-TGTATATATGTGATAAGGCCGAATGGCCAATGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
49936273 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
129 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
49936338 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
194 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
49936382 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
*
49936447 CCTAATGGCCGATGTGATGAATGTGAAA-T-TGTATATATGTGATAAGGCCGAATGGCCAATGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTG
*
49936510 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGT
129 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
49936575 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
192 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
49936621 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * *
49936686 TAATAGCCAATGTGACGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGAT
49936751 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
131 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
49936816 ATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAATTG
196 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* * *
49936858 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGACAGGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
49936923 GAGTGGCCAACGTGATGGATGTTAAAGTGTATA-A-ATGTGATAAG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
49936967 TCCCGAAGGG
Statistics
Matches: 784, Mismatches: 30, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
235 54 0.07
236 2 0.00
237 543 0.69
238 1 0.00
239 184 0.23
ACGTcount: A:0.33, C:0.09, G:0.28, T:0.30
Consensus pattern (237 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
Found at i:49937186 original size:37 final size:37
Alignment explanation
Indices: 49937085--49937186 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
49937075 CTGAGCTCTA
*
49937085 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
49937122 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
49937159 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
49937187 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:49939776 original size:17 final size:18
Alignment explanation
Indices: 49939754--49939787 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49939744 CACATTGAAG
49939754 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
49939771 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
49939788 CATTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:49944121 original size:47 final size:47
Alignment explanation
Indices: 49944043--49944539 Score: 845
Period size: 47 Copynumber: 10.6 Consensus size: 47
49944033 CCCTTTGGGA
* * * * * *
49944043 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49944090 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49944137 CTTATCACATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49944182 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49944231 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49944278 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49944325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49944372 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49944419 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49944466 CTTATCACATATATACACTTTCGCATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49944513 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
49944540 TATTCAAATA
Statistics
Matches: 426, Mismatches: 20, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
45 39 0.09
47 350 0.82
49 37 0.09
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49944475 original size:22 final size:22
Alignment explanation
Indices: 49944447--49944522 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
49944437 TTTCACATTC
49944447 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
**** ** *
49944469 ATCACATATATACACTTTCGCATT
1 ATCACAT-CGGCCA-TTAGGCCTT
49944493 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
49944516 ATCACAT
1 ATCACAT
49944523 ATATACACTT
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:49945078 original size:22 final size:22
Alignment explanation
Indices: 49945045--49945095 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
49945035 ATTTACGGCC
* *
49945045 TTTAGCTATCCTGTCTATGGTG
1 TTTAGCTATCCTGTATACGGTG
49945067 TTTAG-TAGTCCTGTATACGGTG
1 TTTAGCTA-TCCTGTATACGGTG
*
49945089 TTGAGCT
1 TTTAGCT
49945096 GTCTTGTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 21 0.88
23 1 0.04
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.43
Consensus pattern (22 bp):
TTTAGCTATCCTGTATACGGTG
Found at i:49953106 original size:27 final size:27
Alignment explanation
Indices: 49953066--49953176 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
49953056 AGGAAGCGTC
*
49953066 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* *
49953093 CTGGTGGCTCTGCCACATATT-TTTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
* *
49953120 CTGGT-GCTCTGCGACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
49953147 CTGGTGACTCTGTCGC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
49953173 CTGG
1 CTGG
49953177 CAGCCAAGCT
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
25 3 0.04
26 17 0.25
27 39 0.57
28 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.24, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:49964277 original size:49 final size:49
Alignment explanation
Indices: 49964223--49964445 Score: 179
Period size: 49 Copynumber: 4.6 Consensus size: 49
49964213 ACATCAAATT
* *
49964223 CGATGCCATGTCCCAGACAGGTCTTGCACTTACTTTCATATATCAAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGC
* ** * * ** *
49964272 CGATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTA-CCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAG-GC
* * *
49964321 CGATGCCATGTCCTAGACAGGTCTTACACTAACTTGT-ATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTT-TCATATATCAAGGC
* ** ** * **
49964370 AGATG-CATGTCCCAGACATATCTTACACTGGCTCTCATA-AT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGC
* *
49964416 CGATG-CATGTCTCAGACATGTCTTACACTA
1 CGATGCCATGTCCCAGACAGGTCTTACACTA
49964446 GCACACAAAT
Statistics
Matches: 138, Mismatches: 32, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
46 30 0.22
47 2 0.01
48 28 0.20
49 75 0.54
50 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGC
Found at i:49964344 original size:98 final size:97
Alignment explanation
Indices: 49964222--49964407 Score: 266
Period size: 98 Copynumber: 1.9 Consensus size: 97
49964212 CACATCAAAT
* * * *
49964222 TCGATGCCATGTCCCAGACAGGTCTTGCACTTACTT-TCATATATCAAGGCCGATGCCGTGTCCC
1 TCGATGCCATGTCCCAGACAGGTCTTACACTAACTTGT-ATATATCAAGGCAGATG-CATGTCCC
*
49964286 AGACAGGTCTTACACTGGCTCTCATCTACCGGTG
64 AGACAGATCTTACACTGGCTCTCATCTACCGGTG
* * *
49964320 TCGATGCCATGTCCTAGACAGGTCTTACACTAACTTGTATATCTCGAGGCAGATGCATGTCCCAG
1 TCGATGCCATGTCCCAGACAGGTCTTACACTAACTTGTATATATCAAGGCAGATGCATGTCCCAG
*
49964385 ACATATCTTACACTGGCTCTCAT
66 ACAGATCTTACACTGGCTCTCAT
49964408 AATGTGGCCG
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
97 30 0.38
98 47 0.60
99 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (97 bp):
TCGATGCCATGTCCCAGACAGGTCTTACACTAACTTGTATATATCAAGGCAGATGCATGTCCCAG
ACAGATCTTACACTGGCTCTCATCTACCGGTG
Found at i:49965916 original size:30 final size:30
Alignment explanation
Indices: 49965882--49965961 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
49965872 ATTTACTGAA
*
49965882 ATGTGGAAGCCTTTGTGGTTTTTCTCAAAT
1 ATGTGGAAGCCTTTATGGTTTTTCTCAAAT
* *
49965912 ATGTGGAAGCCTTTATGGCTTTTCTCAGAT
1 ATGTGGAAGCCTTTATGGTTTTTCTCAAAT
49965942 ATGTGGAAGCCTTTATGGTT
1 ATGTGGAAGCCTTTATGGTT
49965962 ATTTTCAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (30 bp):
ATGTGGAAGCCTTTATGGTTTTTCTCAAAT
Found at i:49965976 original size:32 final size:29
Alignment explanation
Indices: 49965882--49965978 Score: 122
Period size: 30 Copynumber: 3.2 Consensus size: 29
49965872 ATTTACTGAA
* *
49965882 ATGTGGAAGCCTTTGTGGTTTTTCTCAAAT
1 ATGTGGAAGCCTTTATGGTTTTT-TCAGAT
*
49965912 ATGTGGAAGCCTTTATGGCTTTTCTCAGAT
1 ATGTGGAAGCCTTTATGG-TTTTTTCAGAT
49965942 ATGTGGAAGCCTTTATGGTTATTTTCAGTTAT
1 ATGTGGAAGCCTTTATGGTT-TTTTCAG--AT
49965974 ATGTG
1 ATGTG
49965979 AGCCCTAGTG
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
29 2 0.03
30 46 0.78
31 4 0.07
32 7 0.12
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (29 bp):
ATGTGGAAGCCTTTATGGTTTTTTCAGAT
Found at i:49966007 original size:29 final size:29
Alignment explanation
Indices: 49965969--49966040 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
49965959 GTTATTTTCA
*
49965969 GTTATATGTGAGCCCTAGTGGCAAAACCT
1 GTTATGTGTGAGCCCTAGTGGCAAAACCT
* * **
49965998 GTTATGTGTGAGCCTTGGTGGTGAAACCT
1 GTTATGTGTGAGCCCTAGTGGCAAAACCT
*
49966027 ATTATGTGTGAGCC
1 GTTATGTGTGAGCC
49966041 TTTGTGGCTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (29 bp):
GTTATGTGTGAGCCCTAGTGGCAAAACCT
Found at i:49966041 original size:29 final size:29
Alignment explanation
Indices: 49965992--49966047 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
49965982 CCTAGTGGCA
*
49965992 AAACCTGTTATGTGTGAGCCTTGGTGGTG
1 AAACCTATTATGTGTGAGCCTTGGTGGTG
*
49966021 AAACCTATTATGTGTGAGCCTTTGTGG
1 AAACCTATTATGTGTGAGCCTTGGTGG
49966048 CTATTCTCTA
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:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (29 bp):
AAACCTATTATGTGTGAGCCTTGGTGGTG
Found at i:49966069 original size:59 final size:59
Alignment explanation
Indices: 49965999--49966245 Score: 194
Period size: 59 Copynumber: 4.2 Consensus size: 59
49965989 GCAAAACCTG
* *
49965999 TTATGTGTGAGCCTTGGTGGTGAAACCTATTATGTGTGAGCCTTTGTGGCTATTCTCTA
1 TTATATGTGAGCCTTAGTGGTGAAACCTATTATGTGTGAGCCTTTGTGGCTATTCTCTA
* ** **** * * *
49966058 TAATATGTGAGCCTTTTTTACAAAACCTTTTATATGTGGAAGCCTTTTTGGCTATTCTCTA
1 TTATATGTGAGCCTTAGTGGTGAAACCTATTATGTGT-G-AGCCTTTGTGGCTATTCTCTA
* * ** * ** *
49966119 TTACATGTGAGCCCTAGTGGTGAAATTTGTTATGTGCAAGCCTTTGTGGTTATTCTCTA
1 TTATATGTGAGCCTTAGTGGTGAAACCTATTATGTGTGAGCCTTTGTGGCTATTCTCTA
* ** * * ** * *
49966178 TTATATGTGAGCCTTATTAATG-GA--TATTATGTGTGAGCATTTCCGACTATTCTCTG
1 TTATATGTGAGCCTTAGTGGTGAAACCTATTATGTGTGAGCCTTTGTGGCTATTCTCTA
49966234 TTATATGTGAGC
1 TTATATGTGAGC
49966246 ATTGTTATAT
Statistics
Matches: 143, Mismatches: 43, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
56 35 0.24
58 1 0.01
59 63 0.44
60 1 0.01
61 43 0.30
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (59 bp):
TTATATGTGAGCCTTAGTGGTGAAACCTATTATGTGTGAGCCTTTGTGGCTATTCTCTA
Found at i:49966192 original size:30 final size:30
Alignment explanation
Indices: 49965889--49966192 Score: 90
Period size: 30 Copynumber: 10.2 Consensus size: 30
49965879 GAAATGTGGA
* *
49965889 AGCCTTTGTGGTTTTTCTC-A-AATATGTGG
1 AGCCTTTGTGGTTATTCTCTATTATATGT-G
* *
49965918 AAGCCTTTATGGCTT-TTCTC-A-GATATGTGG
1 -AGCCTTTGTGG-TTATTCTCTATTATATGT-G
* *
49965948 AAGCCTTTATGGTTATTTTC-AGTTATATGTG
1 -AGCCTTTGTGGTTATTCTCTA-TTATATGTG
* * ** ** * *
49965979 AGCCCTAGTGGCAAAAC-CTGTTATGTGTG
1 AGCCTTTGTGGTTATTCTCTATTATATGTG
* * ** *
49966008 AGCCTTGGTGGTGAAAC-CTATTATGTGTG
1 AGCCTTTGTGGTTATTCTCTATTATATGTG
* *
49966037 AGCCTTTGTGGCTATTCTCTATAATATGTG
1 AGCCTTTGTGGTTATTCTCTATTATATGTG
* **** ** *
49966067 AGCCTTTTTTACAAAAC-CTTTTATATGTGG
1 AGCCTTTGTGGTTATTCTCTATTATATGT-G
* * *
49966097 AAGCCTTTTTGGCTATTCTCTATTACATGTG
1 -AGCCTTTGTGGTTATTCTCTATTATATGTG
* * * * * * **
49966128 AGCCCTAGTGGTGAAAT-T-TGTTATGTGCA
1 AGCCTTTGTGGT-TATTCTCTATTATATGTG
49966157 AGCCTTTGTGGTTATTCTCTATTATATGTG
1 AGCCTTTGTGGTTATTCTCTATTATATGTG
49966187 AGCCTT
1 AGCCTT
49966193 ATTAATGGAT
Statistics
Matches: 202, Mismatches: 60, Indels: 24
0.71 0.21 0.08
Matches are distributed among these distances:
28 2 0.01
29 73 0.36
30 94 0.47
31 18 0.09
32 15 0.07
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (30 bp):
AGCCTTTGTGGTTATTCTCTATTATATGTG
Found at i:49966415 original size:30 final size:29
Alignment explanation
Indices: 49966380--49966450 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
49966370 TTGGATGCCC
* * *
49966380 TTGTGGCTATCTAATGATGTATGGAATTCT
1 TTGTGGCTATCTAAGGATGAATGG-ATACT
*
49966410 TTGTGGCTATCTAAGGATGAATGGGTACT
1 TTGTGGCTATCTAAGGATGAATGGATACT
49966439 TTCGTGGCTATC
1 TT-GTGGCTATC
49966451 CAAGTCAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 5 0.14
30 31 0.86
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (29 bp):
TTGTGGCTATCTAAGGATGAATGGATACT
Found at i:49988639 original size:35 final size:35
Alignment explanation
Indices: 49988586--49988656 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
49988576 ATTAAGGGTG
* * *
49988586 TTTGTAATATTAAGGGATTTAGCCTGGACTTGTAA
1 TTTGTAATAGTAACGGATTTAGCCTGGACTGGTAA
*
49988621 TTTGTCATAGTAACGGATTTAGCCTGGACTGGTAA
1 TTTGTAATAGTAACGGATTTAGCCTGGACTGGTAA
49988656 T
1 T
49988657 CCCGACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (35 bp):
TTTGTAATAGTAACGGATTTAGCCTGGACTGGTAA
Found at i:49990130 original size:93 final size:93
Alignment explanation
Indices: 49990018--49990189 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
49990008 GCCCATAAGT
*
49990018 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49990083 CGAGCTCAGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
*
49990111 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
49990176 CGAGTTCGGATGCC
66 CGAGCTCAGATGCC
49990190 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:49990185 original size:46 final size:46
Alignment explanation
Indices: 49990010--49990185 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
49990000 TGTAACCCGC
*
49990010 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
49990056 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--AGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
49990102 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
49990149 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49990186 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 68 0.62
47 30 0.28
49 5 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:49995609 original size:39 final size:40
Alignment explanation
Indices: 49995564--49995731 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
49995554 CGGGGTTTAG
* * *
49995564 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
49995603 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
49995643 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
49995683 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
49995724 CCGGATAT
1 CCGGATAT
49995732 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:49995714 original size:41 final size:40
Alignment explanation
Indices: 49995587--49995731 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
49995577 CTCGCACAAG
* * * * *
49995587 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
49995627 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
49995667 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
49995708 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
49995732 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:50003911 original size:12 final size:12
Alignment explanation
Indices: 50003894--50003919 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50003884 CATTCCGAAG
50003894 TATATATATACA
1 TATATATATACA
50003906 TATATATATACA
1 TATATATATACA
50003918 TA
1 TA
50003920 AGTATGCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:50007440 original size:32 final size:33
Alignment explanation
Indices: 50007395--50007463 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
50007385 AGCTATGGAT
50007395 TGTGTTTAAAATTTAACCATGGATGACATACA-
1 TGTGTTTAAAATTTAACCATGGATGACATACAG
**
50007427 TGTGTTTTGAATTTAACCATGGATGACATACAG
1 TGTGTTTAAAATTTAACCATGGATGACATACAG
50007460 TGTG
1 TGTG
50007464 ATAAACAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.36
Consensus pattern (33 bp):
TGTGTTTAAAATTTAACCATGGATGACATACAG
Found at i:50008110 original size:24 final size:24
Alignment explanation
Indices: 50008083--50008182 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
50008073 TGAAATTGTG
*
50008083 CTAAGTAAAATAAGACCATGGCAT
1 CTAAGTAAAATAAGTCCATGGCAT
* * * *
50008107 CTAAATGAATTAAGTTCATGGCAATGT
1 CTAAGTAAAATAAGTCCATGGC-A--T
* *
50008134 GCTAAGTAAAATAGGCCCATGGCAT
1 -CTAAGTAAAATAAGTCCATGGCAT
*
50008159 CTAAGTAAAATAAGTCCATTGCAT
1 CTAAGTAAAATAAGTCCATGGCAT
50008183 TATGCTAAGT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
24 38 0.66
25 2 0.03
27 2 0.03
28 16 0.28
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (24 bp):
CTAAGTAAAATAAGTCCATGGCAT
Found at i:50008173 original size:52 final size:52
Alignment explanation
Indices: 50008079--50008192 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 52
50008069 AATATGAAAT
* * *
50008079 TGTGCTAAGTAAAATAAGACCATGGCATCTAAATGAATTAAGTTCATGGCAA
1 TGTGCTAAGTAAAATAAGACCATGGCATCTAAATAAAATAAGTCCATGGCAA
* * * * *
50008131 TGTGCTAAGTAAAATAGGCCCATGGCATCTAAGTAAAATAAGTCCATTGCAT
1 TGTGCTAAGTAAAATAAGACCATGGCATCTAAATAAAATAAGTCCATGGCAA
*
50008183 TATGCTAAGT
1 TGTGCTAAGT
50008193 GAGAAATTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTGCTAAGTAAAATAAGACCATGGCATCTAAATAAAATAAGTCCATGGCAA
Found at i:50008281 original size:51 final size:51
Alignment explanation
Indices: 50008218--50008366 Score: 239
Period size: 51 Copynumber: 2.9 Consensus size: 51
50008208 TGAACCTTAG
50008218 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
* * *
50008269 GACTAAAATAGCTTTGGACACAAGTGTGGTACTAGGTGAAGGCCACTTTTT
1 GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
50008320 GAATAAAATAGCTTTGG-CTACAAAG-GTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGAC-AC-AAGTGTGGTACTATGTGAAGGCCACT
50008367 ATGTATCCGT
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
50 1 0.01
51 87 0.96
52 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGGCCACTTTAT
Found at i:50012034 original size:35 final size:35
Alignment explanation
Indices: 50011994--50012063 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
50011984 AAACACATCC
* * *
50011994 CAAACCGTTTAATGACGCATCACTGAAAATTACTA
1 CAAACCGTTTAATAACGCATCACTAAAAATCACTA
50012029 CAAACCGTTTAATAACGCATCACTAAAAATCACTA
1 CAAACCGTTTAATAACGCATCACTAAAAATCACTA
50012064 ACTCTTTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.24
Consensus pattern (35 bp):
CAAACCGTTTAATAACGCATCACTAAAAATCACTA
Found at i:50025533 original size:30 final size:30
Alignment explanation
Indices: 50025489--50025577 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
50025479 CAAAGATAAT
*
50025489 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAAACCAAGATA
* *
50025518 GAGAAACCCAGAATAAAGAAAACC-AGAATA
1 AAGAAAACCAGAATAAAGAAAACCAAG-ATA
* * * *
50025548 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAAACCAAGATA
50025578 CGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAAACCAAGATA
Found at i:50025537 original size:15 final size:15
Alignment explanation
Indices: 50025489--50025568 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
50025479 CAAAGATAAT
50025489 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
*
50025503 AAGAAATCCA-AGATA
1 AAGAAAACCAGA-ATA
* *
50025518 GAGAAACCCAGAATA
1 AAGAAAACCAGAATA
50025533 AAGAAAACCAGAATA
1 AAGAAAACCAGAATA
* * *
50025548 AAGAGATCCAGGATA
1 AAGAAAACCAGAATA
50025563 AAGAAA
1 AAGAAA
50025569 CCCAAGATAC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 9 0.17
15 44 0.81
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.17, T:0.09
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:50025577 original size:15 final size:15
Alignment explanation
Indices: 50025500--50025577 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
50025490 AGAAAACCGA
*
50025500 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
50025515 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
*
50025529 AATAAAGAAAACC-AG
1 -ATAAAGAAACCCAAG
* * *
50025544 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
50025560 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
50025575 ATA
1 ATA
50025578 CGATACTATG
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
14 2 0.04
15 48 0.94
16 1 0.02
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.10
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:50031139 original size:16 final size:16
Alignment explanation
Indices: 50031112--50031157 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
50031102 GGAAAGAAAT
50031112 AAAGAA-AAGAGAAGG
1 AAAGAAGAAGAGAAGG
*
50031127 AAAGAAGAAGAGAGGG
1 AAAGAAGAAGAGAAGG
*
50031143 AAAGCAAGGAGAGAA
1 AAAG-AAGAAGAGAA
50031158 ACTAGGTGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 6 0.23
16 12 0.46
17 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.37, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGAGAAGG
Found at i:50036096 original size:28 final size:24
Alignment explanation
Indices: 50036043--50036091 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50036033 AGTAAACCAC
50036043 AAGTAATCATATATTGAGAGTCTA
1 AAGTAATCATATATTGAGAGTCTA
*
50036067 AAGTAATCATATATTGAGGGTCTA
1 AAGTAATCATATATTGAGAGTCTA
50036091 A
1 A
50036092 CTAAAAGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (24 bp):
AAGTAATCATATATTGAGAGTCTA
Found at i:50039539 original size:4 final size:4
Alignment explanation
Indices: 50039522--50039594 Score: 55
Period size: 4 Copynumber: 18.0 Consensus size: 4
50039512 AGAAAAGGGG
* *
50039522 GAAA GAAA GGGAAA GAAA G-AG GAAA GAAA GAAA GAAA GAAAA GAGAT
1 GAAA GAAA --GAAA GAAA GAAA GAAA GAAA GAAA GAAA G-AAA GA-AA
50039569 GAAA GAAA G--A GAAA TGAAA G-AA GAAA
1 GAAA GAAA GAAA GAAA -GAAA GAAA GAAA
50039595 AGAGGGAGAG
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
2 2 0.04
3 5 0.09
4 34 0.61
5 11 0.20
6 4 0.07
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.03
Consensus pattern (4 bp):
GAAA
Found at i:50039587 original size:15 final size:14
Alignment explanation
Indices: 50039543--50039590 Score: 64
Period size: 15 Copynumber: 3.5 Consensus size: 14
50039533 AAAGAAAGAG
50039543 GAAAG-AAAGAAA-
1 GAAAGAAAAGAAAT
*
50039555 GAAAGAAAAGAGAT
1 GAAAGAAAAGAAAT
50039569 GAAAGAAAGAGAAAT
1 GAAAGAAA-AGAAAT
50039584 GAAAGAA
1 GAAAGAA
50039591 GAAAAGAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
12 5 0.16
13 6 0.19
14 8 0.26
15 12 0.39
ACGTcount: A:0.69, C:0.00, G:0.27, T:0.04
Consensus pattern (14 bp):
GAAAGAAAAGAAAT
Found at i:50039594 original size:22 final size:20
Alignment explanation
Indices: 50039532--50039594 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 20
50039522 GAAAGAAAGG
50039532 GAAAGAAAGAGGAAAGAAAGAAA
1 GAAAGAAA-A-GAAAG-AAGAAA
*
50039555 GAAAGAAAAG--AGATGAAA
1 GAAAGAAAAGAAAGAAGAAA
50039573 GAAAGAGAAATGAAAGAAGAAA
1 GAAAGA-AAA-GAAAGAAGAAA
50039595 AGAGGGAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
18 11 0.32
19 5 0.15
20 1 0.03
21 1 0.03
22 8 0.24
23 8 0.24
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.03
Consensus pattern (20 bp):
GAAAGAAAAGAAAGAAGAAA
Found at i:50040069 original size:15 final size:16
Alignment explanation
Indices: 50040043--50040072 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50040033 ATGAACCCTC
50040043 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
50040059 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
50040073 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:50055025 original size:40 final size:40
Alignment explanation
Indices: 50054970--50055132 Score: 236
Period size: 40 Copynumber: 4.1 Consensus size: 40
50054960 TATTCGGATG
*
50054970 ATAACCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
*
50055010 ATAACCGGGCTAAGACGCGAAGGCATTTGTGCGAGTTGCT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * *
50055050 ATATCTGGGCTAAGACCCGAAGGCATTTGTGTGAGTTCCT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * *
50055090 GTATCCGGGCTAGGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
50055130 ATA
1 ATA
50055133 TCTGGCTAAA
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:50055111 original size:80 final size:80
Alignment explanation
Indices: 50054976--50055150 Score: 255
Period size: 80 Copynumber: 2.2 Consensus size: 80
50054966 GATGATAACC
* * *
50054976 GGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCTATAACCGGGCTAAGACGCGAAGGCATTTGTG
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTCCTATAACCGGGCTAAGACCCGAAGGCATTTGTG
50055041 CGAGTTGCTATATCT
66 CGAGTTGCTATATCT
* * * *
50055056 GGGCTAAGACCCGAAGGCATTTGTGTGAGTTCCTGTATCCGGGCTAGGACCCGAAGGCATTTGTG
1 GGGCTAAGACCCGAAGGCATTTGTGCGAGTTCCTATAACCGGGCTAAGACCCGAAGGCATTTGTG
*
50055121 CGAGTTGTTATATCT
66 CGAGTTGCTATATCT
50055136 -GGCTAA-ATCCCGAAG
1 GGGCTAAGA-CCCGAAG
50055151 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 72 0.84
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (80 bp):
GGGCTAAGACCCGAAGGCATTTGTGCGAGTTCCTATAACCGGGCTAAGACCCGAAGGCATTTGTG
CGAGTTGCTATATCT
Found at i:50058975 original size:46 final size:46
Alignment explanation
Indices: 50058925--50059053 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
50058915 TGGTTGAGCA
*
50058925 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
50058971 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
50059017 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50059054 CGGGTTACAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50060427 original size:40 final size:40
Alignment explanation
Indices: 50060342--50060535 Score: 263
Period size: 40 Copynumber: 5.0 Consensus size: 40
50060332 GGTGTTACGC
50060342 TTTGTGCGAGTTAC-ATTATCCGGGCTAAGT-CCGAAGGCA
1 TTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCA
50060381 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
50060421 TTTGTGCGAGTTGCTATATCCGGGCTAAGTCTCGAAGGCA
1 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
50060461 TTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA
1 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* * * **
50060501 TTCGAGCAAG-TA-TATATCCGGTTTAA-TCCCGAAGG
1 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
50060536 TACTTGGTCT
Statistics
Matches: 141, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
37 9 0.06
38 11 0.08
39 30 0.21
40 91 0.65
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
Found at i:50068497 original size:79 final size:79
Alignment explanation
Indices: 50068362--50068521 Score: 250
Period size: 79 Copynumber: 2.0 Consensus size: 79
50068352 CGGATGATAA
* *
50068362 CCGGGCTAAGACCTGAAGGCATTTGTGCGATTGCTATATCCGGGCTAAGACGCGAAGGCATTTGT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGATTGCTATATCCGGGCTAAGACCCGAAGGCATTTGT
*
50068427 GTGAGTTGCTATAT
66 GCGAGTTGCTATAT
* *
50068441 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTATCC-GGCTAGGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
*
50068505 TGCGAGTTGTTATAT
65 TGCGAGTTGCTATAT
50068520 CC
1 CC
50068522 AGCTAAATCC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
79 64 0.86
80 10 0.14
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGATTGCTATATCCGGGCTAAGACCCGAAGGCATTTGT
GCGAGTTGCTATAT
Found at i:50068536 original size:39 final size:40
Alignment explanation
Indices: 50068362--50068521 Score: 252
Period size: 39 Copynumber: 4.0 Consensus size: 40
50068352 CGGATGATAA
*
50068362 CCGGGCTAAGACCTGAAGGCATTTGTGCGA-TTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
50068401 CCGGGCTAAGACGCGAAGGCATTTGTGTGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
50068441 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
50068481 CC-GGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
50068520 CC
1 CC
50068522 AGCTAAATCC
Statistics
Matches: 111, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 63 0.57
40 48 0.43
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:50068805 original size:22 final size:22
Alignment explanation
Indices: 50068763--50068806 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
50068753 AAAATGTGCA
* *
50068763 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
50068785 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
50068807 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:50074107 original size:31 final size:32
Alignment explanation
Indices: 50074050--50074111 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
50074040 ACAAAGTCAC
* *
50074050 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
50074082 CAGATA-A-ATATATGTGGCGAAGCCACCAGA
1 CAGATATAGATAT-TGTGGCGAAGCCACCAGA
50074112 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 4 0.15
31 17 0.63
32 6 0.22
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:50081564 original size:43 final size:43
Alignment explanation
Indices: 50081515--50081630 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
50081505 ACATGTATCA
* ** *
50081515 CATCCATTATGAACTTGGACCACTCAATGAGCTCGGATGCTCG
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCTCG
*
50081558 CATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC-CA
1 CATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCTCG
** * * *
50081600 CATATATCACGAACCCAGACCACTCAACGAG
1 CATCCATAATGAACTCAGACCACTCAACGAG
50081631 TTTAGACTTC
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 27 0.43
43 36 0.57
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (43 bp):
CATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGCTCG
Found at i:50081627 original size:42 final size:43
Alignment explanation
Indices: 50081532--50081630 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 43
50081522 TATGAACTTG
* * * * *
50081532 GACCACTCAATGAGCTCGGATGCTCGCATCCATAATGAACTCA
1 GACCACTCAACGAGCTCGGATGCTCACATACATAACGAACCCA
* *
50081575 GACCACTCAACGAGCTCGGATGC-CACATATATCACGAACCCA
1 GACCACTCAACGAGCTCGGATGCTCACATACATAACGAACCCA
50081617 GACCACTCAACGAG
1 GACCACTCAACGAG
50081631 TTTAGACTTC
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 27 0.55
43 22 0.45
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.16
Consensus pattern (43 bp):
GACCACTCAACGAGCTCGGATGCTCACATACATAACGAACCCA
Found at i:50084383 original size:5 final size:5
Alignment explanation
Indices: 50084373--50084408 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
50084363 GTGACATAAA
*
50084373 ATATG ATATG ATATG ATATG ATATG TATAAG ATATG
1 ATATG ATATG ATATG ATATG ATATG -ATATG ATATG
50084409 TCCCGAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (5 bp):
ATATG
Found at i:50085403 original size:26 final size:26
Alignment explanation
Indices: 50085364--50085419 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
50085354 CTAAACCTTA
*
50085364 AAAATCTAACAAAACAATAAAATCCT
1 AAAATCTAACAAAACAATAAAACCCT
** * *
50085390 AAAATCTAGTAAAATAATGAAACCCT
1 AAAATCTAACAAAACAATAAAACCCT
50085416 AAAA
1 AAAA
50085420 AGCCAACAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.61, C:0.16, G:0.04, T:0.20
Consensus pattern (26 bp):
AAAATCTAACAAAACAATAAAACCCT
Found at i:50091963 original size:15 final size:15
Alignment explanation
Indices: 50091943--50091972 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50091933 GAATTGGCGT
*
50091943 TGTTAAGTTTTGGGA
1 TGTTAAATTTTGGGA
50091958 TGTTAAATTTTGGGA
1 TGTTAAATTTTGGGA
50091973 GGGTTAGAGG
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:0.00, G:0.30, T:0.47
Consensus pattern (15 bp):
TGTTAAATTTTGGGA
Found at i:50092056 original size:25 final size:25
Alignment explanation
Indices: 50091991--50092056 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 25
50091981 GGCGCCATCT
50091991 GTGAAATCAATTGAAATGCTGCGTG
1 GTGAAATCAATTGAAATGCTGCGTG
** *
50092016 GTGAAGA-CAAGCGAAATGTTGCGTG
1 GTGAA-ATCAATTGAAATGCTGCGTG
50092041 GTGAAATCAATTGAAA
1 GTGAAATCAATTGAAA
50092057 CGGTGAGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.03
25 32 0.94
26 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.24
Consensus pattern (25 bp):
GTGAAATCAATTGAAATGCTGCGTG
Found at i:50100504 original size:45 final size:45
Alignment explanation
Indices: 50100449--50100578 Score: 199
Period size: 45 Copynumber: 2.9 Consensus size: 45
50100439 TATTATCATT
*
50100449 TCACCGGCATTATAGCCTACTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* *
50100494 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
50100539 TCAACGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
50100579 TAATACCAGC
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
44 3 0.04
45 75 0.96
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:50100627 original size:38 final size:38
Alignment explanation
Indices: 50100571--50100772 Score: 289
Period size: 38 Copynumber: 5.3 Consensus size: 38
50100561 GGCTCAAAGG
* * *
50100571 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAA
* * *
50100609 CCCGGATATATTACCAGCACGAAGGCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAA
*
50100647 CCCGGATATATTACCAGCACTAAGCTTACGGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAA
*
50100685 CCCGGATATATTACCAGCACGAAGCCTGA-GGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCT-ACGGGATTTAA
* * *
50100723 GCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAA
50100761 CCCGGATATATT
1 CCCGGATATATT
50100773 TCTAGCATAT
Statistics
Matches: 145, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
38 144 0.99
39 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAA
Found at i:50100668 original size:76 final size:76
Alignment explanation
Indices: 50100571--50100772 Score: 323
Period size: 76 Copynumber: 2.7 Consensus size: 76
50100561 GGCTCAAAGG
* * * *
50100571 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAACCCGGATATATTACCAGCACGAAGGCT
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
*
50100636 GCGGGATTTAA
66 GAGGGATTTAA
*
50100647 CCCGGATATATTACCAGCACTAAGCTTACGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
50100712 GAGGGATTTAA
66 GAGGGATTTAA
* * *
50100723 GCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAACCCGGATATATT
1 CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAACCCGGATATATT
50100773 TCTAGCATAT
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 116 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.23
Consensus pattern (76 bp):
CCCGGATATATTACCAGCACTAAGCCTACGGGATTTAACCCGGATATATTACCAGCACGAAGCCT
GAGGGATTTAA
Found at i:50100787 original size:38 final size:38
Alignment explanation
Indices: 50100571--50100808 Score: 282
Period size: 38 Copynumber: 6.2 Consensus size: 38
50100561 GGCTCAAAGG
* * * * *
50100571 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAA
* * *
50100609 CCCGGATATATTACCAGCACGAAGGCTGCGGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAA
* * *
50100647 CCCGGATATATTACCAGCACTAAGCTTACGGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAA
*
50100685 CCCGGATATATTACCAGCACGAAGCCTG-AGGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTGCA-GGATTTAA
*
50100723 GCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAA
1 CCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAA
* * *
50100761 CCCGGATATATTTCTAGCA-TATAGCCTGCAGGTCTTTAA
1 CCCGGATATATTACCAGCACTA-AGCCTGCAGG-ATTTAA
50100800 GCCCGGATA
1 -CCCGGATA
50100809 CACATCAAAT
Statistics
Matches: 175, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
37 2 0.01
38 159 0.91
39 6 0.03
40 8 0.05
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (38 bp):
CCCGGATATATTACCAGCACTAAGCCTGCAGGATTTAA
Found at i:50107241 original size:18 final size:17
Alignment explanation
Indices: 50107209--50107244 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
50107199 ATGTGATTAT
*
50107209 TTCATAAATTTATAAAA
1 TTCATAAATTCATAAAA
50107226 TTCATATAATTCATAAAA
1 TTCATA-AATTCATAAAA
50107244 T
1 T
50107245 CACATACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (17 bp):
TTCATAAATTCATAAAA
Found at i:50111404 original size:123 final size:123
Alignment explanation
Indices: 50111185--50111434 Score: 491
Period size: 123 Copynumber: 2.0 Consensus size: 123
50111175 GTGGTCGGGG
50111185 GGATTTTAATGCTATTTTGAATGATGCTGAGACAGAGGGTAGGTGTAGGAAGGCTCGCTCGCAGA
1 GGATTTTAATGCTATTTTGAATGATGCTGAGACAGAGGGTAGGTGTAGGAAGGCTCGCTCGCAGA
*
50111250 TGAATAAGTTCAAGGATCTTGTGGATGAGCTGGCTCTTTTAGATATCAACCCAATAAA
66 TGAATAAGTTCAAGGATCTTATGGATGAGCTGGCTCTTTTAGATATCAACCCAATAAA
50111308 GGATTTTAATGCTATTTTGAATGATGCTGAGACAGAGGGTAGGTGTAGGAAGGCTCGCTCGCAGA
1 GGATTTTAATGCTATTTTGAATGATGCTGAGACAGAGGGTAGGTGTAGGAAGGCTCGCTCGCAGA
50111373 TGAATAAGTTCAAGGATCTTATGGATGAGCTGGCTCTTTTAGATATCAACCCAATAAA
66 TGAATAAGTTCAAGGATCTTATGGATGAGCTGGCTCTTTTAGATATCAACCCAATAAA
50111431 GGAT
1 GGAT
50111435 GGTTTACTTG
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 126 1.00
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (123 bp):
GGATTTTAATGCTATTTTGAATGATGCTGAGACAGAGGGTAGGTGTAGGAAGGCTCGCTCGCAGA
TGAATAAGTTCAAGGATCTTATGGATGAGCTGGCTCTTTTAGATATCAACCCAATAAA
Found at i:50117272 original size:46 final size:48
Alignment explanation
Indices: 50117185--50117304 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 48
50117175 TGATATGTGT
* * *
50117185 GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACATACATCGACATCGAGATAGACAA
* * * *
50117231 GCTACTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATACATCGACATCGAGATAGACAA
50117279 GCTAGTGTAAGA-ACTGTCTGGGACAT
1 GCTAGTGTAAGACA-TGTCTGGGACAT
50117305 GGCGTCAGCT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 37 0.59
47 2 0.03
48 24 0.38
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATACATCGACATCGAGATAGACAA
Found at i:50117392 original size:49 final size:49
Alignment explanation
Indices: 50117188--50117497 Score: 214
Period size: 49 Copynumber: 6.5 Consensus size: 49
50117178 TATGTGTGCT
* * * * *
50117188 AGTGTAAGACATGTCTGGGACAT-GCATCGACATTG--AGATGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * * * * *
50117234 ACTGTAAGACATGTCTGGGACAT-ACATCGGCCTCGAGATAT-ACAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGA-AAGCC
* * * * * * *
50117282 AGTGTAAGAACTGTCTGGGACATGGCGTC-AGCTTG-TTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
50117326 AGTGTAAGACCTGTCTGGGACATGGCATCGACACT-GATGGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * * *
50117375 AGTGTAAGACCTATCTGGAACATGGCATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * **
50117424 AGTGTAAGACCTGTCTCGGACATGGCATCGACTTGGAT-G-TGCTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* *
50117471 AATATAAGACCATGTCTGGGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
50117498 GTCGGCATCT
Statistics
Matches: 206, Mismatches: 45, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
44 28 0.14
45 2 0.01
46 35 0.17
47 17 0.08
48 46 0.22
49 78 0.38
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:50117445 original size:142 final size:138
Alignment explanation
Indices: 50117180--50117449 Score: 348
Period size: 142 Copynumber: 1.9 Consensus size: 138
50117170 TTGGGTGATA
* *
50117180 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGATGAGAGCTACTGTAAGACA
1 TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACACTGAGATGAGAGCCACTGTAAGACA
* * * *
50117245 TGTCTGGGACATACATCGGCCTCGAGATATACAAGCTAGTGTAAGAACTGTCTGGGACATGGCGT
66 TATCTGGAACATACATCGACCTCGAGATATACAAGCTAGTGTAAGAACTGTCTCGGACATGGCGT
50117310 CAGCTTGT
131 CAGCTTGT
* *
50117318 TGTGTG-TCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATGGATGAGAGCCAGTGTAA
1 TGTGTGCT-AGTGTAAGACATGTCTGGGACAT-GCATCGACACTGA--GATGAGAGCCACTGTAA
* * * *
50117382 GACCTATCTGGAACATGGCATCGACCTCGATATATGA-AAG-TCAGTGTAAGACCTGTCTCGGAC
62 GACATATCTGGAACAT-ACATCGACCTCGAGATAT-ACAAGCT-AGTGTAAGAACTGTCTCGGAC
50117445 ATGGC
124 ATGGC
50117450 ATCGACTTGG
Statistics
Matches: 113, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
137 1 0.01
138 28 0.25
139 12 0.11
141 29 0.26
142 42 0.37
143 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (138 bp):
TGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCGACACTGAGATGAGAGCCACTGTAAGACA
TATCTGGAACATACATCGACCTCGAGATATACAAGCTAGTGTAAGAACTGTCTCGGACATGGCGT
CAGCTTGT
Found at i:50125692 original size:27 final size:27
Alignment explanation
Indices: 50125662--50125741 Score: 115
Period size: 27 Copynumber: 3.0 Consensus size: 27
50125652 GAATCTCATA
* * *
50125662 TCTGTAGGCTAGTATTATTGAAATACC
1 TCTGTAGGGTAGAATTACTGAAATACC
*
50125689 TCTGTAGGGTAGAATTACTGAAATGCC
1 TCTGTAGGGTAGAATTACTGAAATACC
*
50125716 CCTGTAGGGTAGAATTACTGAAATAC
1 TCTGTAGGGTAGAATTACTGAAATAC
50125742 GCTTTATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (27 bp):
TCTGTAGGGTAGAATTACTGAAATACC
Found at i:50125809 original size:27 final size:28
Alignment explanation
Indices: 50125736--50126011 Score: 175
Period size: 27 Copynumber: 10.2 Consensus size: 28
50125726 AGAATTACTG
* * *
50125736 AAATACGCTTTATTTA-CAAAATTAC-A
1 AAATACCCTTGATTTAGTAAAATTACAA
* * *
50125762 GAATACCCTTGGTTTA-CAAAATTACAA
1 AAATACCCTTGATTTAGTAAAATTACAA
*
50125789 AAATACCCTTGA-TTAGTAAAATTACCA
1 AAATACCCTTGATTTAGTAAAATTACAA
* *
50125816 AAATACCCCT-AGTTT-GTAAAATTACCA
1 AAATACCCTTGA-TTTAGTAAAATTACAA
*
50125843 AAATACCCTT-AGTTTA-TAAAATTACCA
1 AAATACCCTTGA-TTTAGTAAAATTACAA
* * **
50125870 AAATACCCCTAATTT-GTAAAATTACTG
1 AAATACCCTTGATTTAGTAAAATTACAA
* ** **
50125897 AAATACCCTTAACCT-GTAAAATTACTG
1 AAATACCCTTGATTTAGTAAAATTACAA
* * * * *
50125924 AAATACCCTCGATTTGGAAAAATTATAG
1 AAATACCCTTGATTTAGTAAAATTACAA
* *
50125952 AAATACCCCTGATTTA-CAAAATTACAA
1 AAATACCCTTGATTTAGTAAAATTACAA
*
50125979 AAAT-CCCTTGACTTTCA--AAAATTACAG
1 AAATACCCTTGA-TTT-AGTAAAATTACAA
50126006 AAATAC
1 AAATAC
50126012 TATTGGTTTG
Statistics
Matches: 208, Mismatches: 31, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
26 31 0.15
27 150 0.72
28 27 0.13
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.30
Consensus pattern (28 bp):
AAATACCCTTGATTTAGTAAAATTACAA
Found at i:50125839 original size:54 final size:54
Alignment explanation
Indices: 50125753--50125907 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 54
50125743 CTTTATTTAC
* * * **
50125753 AAAATTA-CAGAATACCCTTGGTTTACAAAATTACAAAAATACCCTT-GATTAGT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGATTA-T
* *
50125806 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGATTAT
* **
50125860 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTGAAATACCCTTA
1 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTA
50125908 ACCTGTAAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 7 0.08
54 79 0.88
55 4 0.04
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.30
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAGTTTGTAAAATTACAAAAATACCCTTAGATTAT
Found at i:50125866 original size:81 final size:81
Alignment explanation
Indices: 50125753--50125932 Score: 218
Period size: 81 Copynumber: 2.2 Consensus size: 81
50125743 CTTTATTTAC
* * * *
50125753 AAAATTA-CAGAATACCCTTGGTTTACAAAATTACAAAAATACCCTTGATTAGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAA
***
50125817 AATACCCCTAGTTTGT
66 AATACCCCTAACCTGT
* * * **
50125833 AAAATTACCAAAATACCCTTAGTTTATAAAATTACCAAAATACCCCTAATTTGTAAAATTACTGA
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAA
*
50125898 AATACCCTTAACCTGT
66 AATACCCCTAACCTGT
**
50125914 AAAATTACTGAAATACCCT
1 AAAATTACCAAAATACCCT
50125933 CGATTTGGAA
Statistics
Matches: 84, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 7 0.08
81 77 0.92
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTAGTTTACAAAATTACAAAAATACCCCTAATTAGTAAAATTACCAA
AATACCCCTAACCTGT
Found at i:50126026 original size:27 final size:27
Alignment explanation
Indices: 50125996--50126047 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
50125986 TTGACTTTCA
*
50125996 AAAATTA-CAGAAATACTATTGGTTTGC
1 AAAATTATC-GAAATACCATTGGTTTGC
*
50126023 AAAATTATCGAAATACCCTTGGTTT
1 AAAATTATCGAAATACCATTGGTTT
50126048 ATAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATCGAAATACCATTGGTTTGC
Found at i:50126353 original size:41 final size:41
Alignment explanation
Indices: 50126308--50126430 Score: 219
Period size: 41 Copynumber: 3.0 Consensus size: 41
50126298 AGAGGAAGAA
50126308 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
50126349 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* *
50126390 ATTAAGGATCGCATGGTTACTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
50126431 GTGGCTTTTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 78 1.00
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:50132687 original size:40 final size:40
Alignment explanation
Indices: 50132617--50132840 Score: 308
Period size: 40 Copynumber: 5.5 Consensus size: 40
50132607 AAACCAAGTA
* * *
50132617 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
50132656 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
50132696 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50132736 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
* * *
50132779 CCTTCGGGACTTGGCCCGGTTATCACAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
50132822 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
50132841 TTATCATCAG
Statistics
Matches: 171, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.08
40 80 0.47
42 2 0.01
43 75 0.44
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50132778 original size:43 final size:43
Alignment explanation
Indices: 50132643--50132847 Score: 314
Period size: 43 Copynumber: 4.9 Consensus size: 43
50132633 GGATATAGCT
* *
50132643 ACTCGCTCAACTGCCTTCGGGACTTAGCCCGG--AT-ATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
50132683 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG--AT-ATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
50132723 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
* * *
50132766 ACTCACACAAATGCCTTCGGGACTTGGCCCGGTTATCACAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
*
50132809 ACTCGCATAAATGCCTTCGGGACTTAGCCCGGTTATCAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCAT
50132848 CAGAATATTC
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
40 70 0.46
42 2 0.01
43 81 0.53
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (43 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCATAGTA
Found at i:50132841 original size:86 final size:83
Alignment explanation
Indices: 50132617--50132847 Score: 319
Period size: 86 Copynumber: 2.8 Consensus size: 83
50132607 AAACCAAGTA
* * * *
50132617 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTGCCTTCGGGACTTAGCCCGG--AT-
1 CCTTCGGGACTTAGCCCGGATACAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATC
*
50132677 ATAGTAACTCGCACAAATG
65 ATAGTAACTCACACAAATG
*
50132696 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCA
1 CCTTCGGGACTTAGCCCGGATACAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCA
50132761 TAGTAACTCACACAAATG
66 TAGTAACTCACACAAATG
* *
50132779 CCTTCGGGACTTGGCCCGGTTATCACAGTAACTCGCATAAATGCCTTCGGGACTTAGCCCGGTTA
1 CCTTCGGGACTTAGCCCGG--AT-ACAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA
50132844 TCAT
63 TCAT
50132848 CAGAATATTC
Statistics
Matches: 137, Mismatches: 7, Indels: 9
0.90 0.05 0.06
Matches are distributed among these distances:
79 14 0.10
80 40 0.29
82 2 0.01
83 36 0.26
85 2 0.01
86 43 0.31
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (83 bp):
CCTTCGGGACTTAGCCCGGATACAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATCA
TAGTAACTCACACAAATG
Found at i:50140721 original size:38 final size:42
Alignment explanation
Indices: 50140618--50140845 Score: 280
Period size: 43 Copynumber: 5.6 Consensus size: 42
50140608 AAACCAAGTA
* * * *
50140618 CCTTCGGGATTTAG-CCGG-AT-ATAGCT-ACTCACTCAACTA
1 CCTTCGGGACTTAGCCCGGTATCATAG-TAACTCACACAAATG
*
50140657 CCTTCGGGACTTAGCCCGG-AT-ATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTATCATAGTAACTCACACAAATG
50140697 CCTTC-GGACTTA-CCCGG-AT-ATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTATCATAGTAACTCACACAAATG
50140735 CCTTC-GGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGG-TATCATAGTAACTCACACAAATG
* *
50140777 CCTTCGGGACTTGGCCCGGTTATCATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-TATCATAGTAACTCACACAAATG
50140820 CCTTCGGGACTTAGCCCGGTTATCAT
1 CCTTCGGGACTTAGCCCGG-TATCAT
50140846 CTAAATATTC
Statistics
Matches: 173, Mismatches: 9, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
38 37 0.21
39 26 0.15
40 24 0.14
41 2 0.01
42 24 0.14
43 60 0.35
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (42 bp):
CCTTCGGGACTTAGCCCGGTATCATAGTAACTCACACAAATG
Found at i:50140801 original size:43 final size:43
Alignment explanation
Indices: 50140657--50140845 Score: 288
Period size: 43 Copynumber: 4.6 Consensus size: 43
50140647 CACTCAACTA
*
50140657 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
50140697 CCTTC-GGACTTA-CCCGG--AT-ATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
50140735 CCTTC-GGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
* *
50140777 CCTTCGGGACTTGGCCCGGTTATCATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
50140820 CCTTCGGGACTTAGCCCGGTTATCAT
1 CCTTCGGGACTTAGCCCGGTTATCAT
50140846 CTAAATATTC
Statistics
Matches: 140, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
38 37 0.26
39 12 0.09
40 5 0.04
41 2 0.01
42 24 0.17
43 60 0.43
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (43 bp):
CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
Found at i:50145323 original size:13 final size:13
Alignment explanation
Indices: 50145307--50145339 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50145297 TTTGATTAAA
*
50145307 TTAGTTAATTAGT
1 TTAGATAATTAGT
50145320 TTAGATAATTAGT
1 TTAGATAATTAGT
50145333 TTA-ATAA
1 TTAGATAA
50145340 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:50150722 original size:6 final size:6
Alignment explanation
Indices: 50150682--50150735 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
50150672 CCTCTTATCT
* * *
50150682 TTTTTA TTTTTTA TTTCTA TTTCTA TTTTTA TTTTTA TTTTTA TGTTTA
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
50150731 TTTTT
1 TTTTT
50150736 CGTTATAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
6 37 0.86
7 6 0.14
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:50153650 original size:13 final size:13
Alignment explanation
Indices: 50153634--50153666 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50153624 TTTGATTAAA
*
50153634 TTAGTTAATTAGT
1 TTAGATAATTAGT
50153647 TTAGATAATTAGT
1 TTAGATAATTAGT
50153660 TTA-ATAA
1 TTAGATAA
50153667 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:50154392 original size:20 final size:20
Alignment explanation
Indices: 50154367--50154411 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
50154357 CAGTACCAAT
*
50154367 TGTTTGTGAGTATCCAAATG
1 TGTTTGCGAGTATCCAAATG
50154387 TGTTTGCGAGTATCCAAATG
1 TGTTTGCGAGTATCCAAATG
50154407 TGTTT
1 TGTTT
50154412 CCAGAAGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.42
Consensus pattern (20 bp):
TGTTTGCGAGTATCCAAATG
Found at i:50157905 original size:21 final size:20
Alignment explanation
Indices: 50157877--50157915 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50157867 ATGTATATTT
50157877 TGAAGTTTCTTAATAGATTA
1 TGAAGTTTCTTAATAGATTA
* *
50157897 TGAATGTTTGTTGATAGAT
1 TGAA-GTTTCTTAATAGAT
50157916 ATACAAGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (20 bp):
TGAAGTTTCTTAATAGATTA
Found at i:50172697 original size:20 final size:20
Alignment explanation
Indices: 50172669--50172707 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
50172659 CTAATATTCA
50172669 ACATGGGTAAAATTTTAGAG
1 ACATGGGTAAAATTTTAGAG
*
50172689 ACATTGGTAAAATTTTAGA
1 ACATGGGTAAAATTTTAGA
50172708 CTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGGGTAAAATTTTAGAG
Found at i:50174933 original size:16 final size:16
Alignment explanation
Indices: 50174909--50174940 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50174899 GACTTCTTGG
50174909 AGGCAGTAATGTTGAA
1 AGGCAGTAATGTTGAA
*
50174925 AGGCGGTAATGTTGAA
1 AGGCAGTAATGTTGAA
50174941 GATGGGCTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.34, T:0.25
Consensus pattern (16 bp):
AGGCAGTAATGTTGAA
Found at i:50186645 original size:25 final size:25
Alignment explanation
Indices: 50186611--50186660 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
50186601 TGCATGTGAT
* *
50186611 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50186636 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50186661 AGTTAGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:50191653 original size:25 final size:25
Alignment explanation
Indices: 50191619--50191668 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
50191609 TGCATGTGAT
* *
50191619 TAATGTGTGGATTAGGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50191644 TAATATGTGGATTAAGTGGTTAGGC
1 TAATATGTGGATTAAGTGGTTAGGC
50191669 AGTTAGTGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (25 bp):
TAATATGTGGATTAAGTGGTTAGGC
Found at i:50202609 original size:16 final size:17
Alignment explanation
Indices: 50202588--50202620 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50202578 ATTACATATC
*
50202588 ATATTT-AAGATTACGT
1 ATATTTGAAGATCACGT
50202604 ATATTTGAAGATCACGT
1 ATATTTGAAGATCACGT
50202621 TCCACATTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (17 bp):
ATATTTGAAGATCACGT
Found at i:50210162 original size:33 final size:33
Alignment explanation
Indices: 50210120--50210185 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
50210110 CATTGTAAAC
50210120 TGAAAAATATATAGGATTTTTCCTATATAAATT
1 TGAAAAATATATAGGATTTTTCCTATATAAATT
50210153 TGAAAAATATATAGGATTTTTCCTATATAAATT
1 TGAAAAATATATAGGATTTTTCCTATATAAATT
50210186 ATCACCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.09, T:0.42
Consensus pattern (33 bp):
TGAAAAATATATAGGATTTTTCCTATATAAATT
Found at i:50232915 original size:40 final size:40
Alignment explanation
Indices: 50232816--50233046 Score: 340
Period size: 40 Copynumber: 5.8 Consensus size: 40
50232806 TGGATGATAA
* * * * **
50232816 CCGGGCTAAGTCCCGAAGGCATCTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
50232856 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
50232895 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
50232935 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
50232975 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
50233015 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
50233047 AGCTATATCC
Statistics
Matches: 176, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 33 0.19
40 141 0.80
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:50236064 original size:47 final size:46
Alignment explanation
Indices: 50235992--50236161 Score: 175
Period size: 47 Copynumber: 3.7 Consensus size: 46
50235982 ATATTTGAGT
50235992 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGC
* * * * *
50236038 TTCTGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGAATGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGAGATGTA-GC-TAGGC
* * * *
50236086 -CCGAGCTCGTTGAGTAGAGTCCGAGTTCGTGAGATGTAACTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGC
* *
50236131 ATCCAAACTTGTTGAGTTGAGTCCGAGTTCA
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCA
50236162 CTTATGGATG
Statistics
Matches: 97, Mismatches: 19, Indels: 14
0.75 0.15 0.11
Matches are distributed among these distances:
45 4 0.04
46 30 0.31
47 59 0.61
48 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGC
Found at i:50236112 original size:46 final size:46
Alignment explanation
Indices: 50236045--50236214 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
50236035 GGCTTCTGAA
50236045 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAG
* * * * * *
50236091 CTCGTTGAGTAGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCAAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC--CCGAG
* *
50236138 CTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAG
50236184 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
50236215 GCAGGTTACA
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 55 0.55
47 24 0.24
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAG
Found at i:50236157 original size:93 final size:93
Alignment explanation
Indices: 50235993--50236207 Score: 349
Period size: 93 Copynumber: 2.3 Consensus size: 93
50235983 TATTTGAGTT
* * * **
50235993 CCGAACTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAGCTAGGCTTCTGAACTCGTTGAGTTGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCAAACTCGTTGAGTTGA
*
50236058 GTCCGAGTTCACTTATGGATGCGAATGC
66 GTCCGAGTTCACTTATGGATGCGAACGC
* * *
50236086 CCGAGCTCGTTGAGTAGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCAAACTTGTTGAGTTGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCAAACTCGTTGAGTTGA
50236151 GTCCGAGTTCACTTATGGATGCGAACGC
66 GTCCGAGTTCACTTATGGATGCGAACGC
50236179 CCGAGCTCGTTGAGTTGAGTCCGAGTTCA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCA
50236208 CTTATGGGCA
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 111 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCATGAGATGTAACTAGGCATCCAAACTCGTTGAGTTGA
GTCCGAGTTCACTTATGGATGCGAACGC
Found at i:50256358 original size:22 final size:22
Alignment explanation
Indices: 50256296--50256349 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
50256286 CATCAGTGTC
*
50256296 GCTGTCGCACGTAGCCGTTATT
1 GCTGTCGCACGTAGCCATTATT
50256318 GCTGTCGCACGTAGCCATTATT
1 GCTGTCGCACGTAGCCATTATT
50256340 GCTGTCGCAC
1 GCTGTCGCAC
50256350 ACGACCATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (22 bp):
GCTGTCGCACGTAGCCATTATT
Found at i:50258147 original size:38 final size:38
Alignment explanation
Indices: 50258098--50258175 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
50258088 CTTTCATAAG
50258098 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
1 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
50258136 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
1 TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
50258174 TA
1 TA
50258176 ATAAGATAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (38 bp):
TATGTTTTAATAAATGAATGTTTAGAGAAATTCTTTGT
Found at i:50269490 original size:47 final size:47
Alignment explanation
Indices: 50269412--50270052 Score: 1093
Period size: 47 Copynumber: 13.6 Consensus size: 47
50269402 CCCTTCGGGA
* * * * *
50269412 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
50269459 CCTGTCACATATATACACTTTCACATCCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50269506 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269553 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269600 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269647 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269694 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269743 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50269837 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50269884 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50269933 CTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50270027 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
50270053 CACAATTATC
Statistics
Matches: 567, Mismatches: 23, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 476 0.84
49 91 0.16
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50269792 original size:190 final size:190
Alignment explanation
Indices: 50269412--50270052 Score: 1115
Period size: 190 Copynumber: 3.4 Consensus size: 190
50269402 CCCTTCGGGA
* * * * * * *
50269412 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
50269477 TTTCACATCCATCACATCGGCTATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
50269540 TCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269600 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50269665 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
50269730 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
50269790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
50269855 TTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* * * *
50269920 TTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCTATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50269980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
50270045 ATTCACAT
66 TTTCACAT
50270053 CACAATTATC
Statistics
Matches: 434, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
188 93 0.21
190 341 0.79
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50270088 original size:143 final size:141
Alignment explanation
Indices: 50269412--50270052 Score: 1066
Period size: 143 Copynumber: 4.5 Consensus size: 141
50269402 CCCTTCGGGA
* * * * * * *
50269412 CTTATCACATTTATACACTTTCACATTCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
50269477 TTTCACATCCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 ATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
50269542 GGCTATTAGGC
131 GGCCATTAGGC
50269553 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
50269618 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 ATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
50269683 GGCCATTAGGC
131 GGCCATTAGGC
50269694 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
50269759 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
50269824 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
50269837 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
50269902 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
50269967 TTGGCTATTAGGC
129 TCGGCCATTAGGC
*
50269980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
50270045 ATTCACAT
66 ATTCACAT
50270053 CACAATTATC
Statistics
Matches: 478, Mismatches: 18, Indels: 8
0.95 0.04 0.02
Matches are distributed among these distances:
141 201 0.42
143 277 0.58
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
ATTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:50274744 original size:40 final size:40
Alignment explanation
Indices: 50274646--50274860 Score: 303
Period size: 40 Copynumber: 5.4 Consensus size: 40
50274636 GATGATAACT
* *
50274646 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
50274686 GGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
50274725 GGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
50274765 GGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
50274805 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
*
50274845 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
50274861 TACCGGGTTG
Statistics
Matches: 159, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 51 0.32
40 108 0.68
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:50274816 original size:80 final size:80
Alignment explanation
Indices: 50274640--50274860 Score: 306
Period size: 79 Copynumber: 2.8 Consensus size: 80
50274630 TATTCGGATG
* * *
50274640 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
50274703 ATTCGTGCGAGTTACT
65 ATTCGTGCGAGTTACT
*
50274719 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
* *
50274784 TTTGTGTGAGTTACT
66 TTCGTGCGAGTTACT
* * * *
50274799 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGTTATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
50274861 TACCGGGTTG
Statistics
Matches: 128, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 65 0.51
80 63 0.49
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTCGTGCGAGTTACT
Found at i:50281405 original size:21 final size:21
Alignment explanation
Indices: 50281364--50281405 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50281354 AAGAAAGGAA
* **
50281364 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
50281385 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
50281406 GTTATCACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:50282965 original size:40 final size:40
Alignment explanation
Indices: 50282865--50283081 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
50282855 CGGATGATAA
* * *
50282865 CCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
50282905 CCGGGCTAAG-CCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50282944 CCGGGCTAAGTCCCGAAGGCATTTCTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
50282984 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * *
50283024 CCGGGCTAAGTCATGAAGGCATTTGAGCGAG-TAGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
50283064 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
50283082 TACCGGGTTG
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 48 0.31
40 106 0.69
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:50283077 original size:119 final size:119
Alignment explanation
Indices: 50282865--50283081 Score: 287
Period size: 119 Copynumber: 1.8 Consensus size: 119
50282855 CGGATGATAA
* * * * *
50282865 CCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTCGT
1 CCGGGATAAGTCCCGAAGGAATTTGTGCGAGTGACTAATACCGGGCTAAGCACGAAGGCATTCGA
*
50282930 GCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTCTGCAAGTTACTATAT
66 GCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTCTGCAAGTTACTATAT
* * * *
50282984 CCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCATGAAGGCATTT
1 CCGGGATAAGTCCCGAAGGAATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CACGAAGGCATTC
*
50283048 GAGCGAG-TAGTTATATCC-GGCTAAATCCCGAAGG
64 GAGCGAGTTA-CTATATCCGGGCTAAATCCCGAAGG
50283082 TACCGGGTTG
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 2 0.02
119 59 0.70
120 23 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
CCGGGATAAGTCCCGAAGGAATTTGTGCGAGTGACTAATACCGGGCTAAGCACGAAGGCATTCGA
GCGAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTCTGCAAGTTACTATAT
Found at i:50297484 original size:6 final size:6
Alignment explanation
Indices: 50297475--50297499 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50297465 AATATTTTTA
50297475 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
50297500 GGTGTTACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:50298892 original size:49 final size:47
Alignment explanation
Indices: 50298707--50298929 Score: 132
Period size: 49 Copynumber: 4.7 Consensus size: 47
50298697 TTGAGATGAG
* * * *
50298707 AGCTAGTGTAAGACTTGTCTGGGACATGGCATC-AGCTTG-T-TGAG
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATGTGAA
* * * * * * * *
50298751 TG-TCATTGTAAGACCTATTTGGGACATGGCATCGACAC-CAATAGAAGAG
1 AGCT-AGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCGAT-G-TGAA
* * * * *
50298800 AGCTAGTGTAAGCCCTATCTAGGACACGGCATCAGCCTCGATGTATGAA
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATG--TGAA
* * * * **
50298849 AGTTAGTGTAAGACCTGTCTGGGACATGTCATCAACGTTGATGTGCT
1 AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATGTGAA
*
50298896 AGCTAGTGTAAGACCATGTCTGGGATATGGCATC
1 AGCTAGTGTAAGACC-TGTCTGGGACATGGCATC
50298930 GTCATTTTAT
Statistics
Matches: 134, Mismatches: 34, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
43 1 0.01
44 26 0.19
45 1 0.01
46 2 0.01
47 16 0.12
48 18 0.13
49 69 0.51
50 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (47 bp):
AGCTAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATGTGAA
Found at i:50300814 original size:46 final size:46
Alignment explanation
Indices: 50300764--50300936 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
50300754 TGGTTGAGCA
*
50300764 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
50300810 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
50300857 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
50300903 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50300937 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 62 0.58
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:50300920 original size:93 final size:93
Alignment explanation
Indices: 50300761--50300931 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
50300751 GGATGGTTGA
* *
50300761 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
50300826 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
50300854 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
50300919 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50300932 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:50308387 original size:46 final size:46
Alignment explanation
Indices: 50308337--50308509 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
50308327 TGGTTGAGCA
50308337 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
50308383 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
50308428 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
50308476 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
50308510 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:50308493 original size:93 final size:93
Alignment explanation
Indices: 50308334--50308504 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
50308324 GGATGGTTGA
* *
50308334 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50308399 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
50308427 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
50308492 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
50308505 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:50332498 original size:42 final size:43
Alignment explanation
Indices: 50332438--50332543 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 43
50332428 GAATTAAGAA
*
50332438 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATATATGAG-GC
1 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATAGATGAGAGC
* * * * * *
50332480 ATCCGAGCTCGTTCAGTGGTCCGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATAGATGAGAGC
*
50332523 ATCCGAGCCCGTTGAGTGGTC
1 ATCCGAGCTCGTTGAGTGGTC
50332544 TGAGTTCATA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 33 0.61
43 21 0.39
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATAGATGAGAGC
Found at i:50332541 original size:43 final size:43
Alignment explanation
Indices: 50332438--50332563 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 43
50332428 GAATTAAGAA
* * * ** *
50332438 ATCCGAGCTCGTTGAGTGGTCCAAATTCATGATATATGAG-GC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGC
* *
50332480 ATCCGAGCTCGTTCAGTGGTCCGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGC
* * *
50332523 ATCCGAGCCCGTTGAGTGGTCTGAGTTCATAATGGCTGCGA
1 ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGA
50332564 TACATGTAAC
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 33 0.46
43 38 0.54
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGTGGTCCGAGTTCATAATGGATGCGAGC
Found at i:50339353 original size:43 final size:42
Alignment explanation
Indices: 50339246--50339358 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
50339236 GAATTAAGAA
** *
50339246 ATCCGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGAGGC
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATAGATGAGGC
* * * *
50339288 ATCCGAGCTCGTTCAGTGGTCTGAGTTCATTATGGATGCGAGC
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATAGATGAG-GC
* *
50339331 ATCCGAGCCCGTTGAGTTGTCTGAGTTC
1 ATCCGAGCTCGTTGAGTGGTCTGAGTTC
50339359 GTAATGGCTG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 33 0.55
43 27 0.45
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (42 bp):
ATCCGAGCTCGTTGAGTGGTCTGAGTTCATGATAGATGAGGC
Found at i:50339371 original size:43 final size:43
Alignment explanation
Indices: 50339246--50339371 Score: 119
Period size: 43 Copynumber: 3.0 Consensus size: 43
50339236 GAATTAAGAA
* * ** * ** *
50339246 ATCCGAGCTCGTTGAGTGGTCCAAGTTCATGATATATGAG-GC
1 ATCCGAGCCCGTTCAGTGGTCTGAGTTCATAATGGATGCGAGC
* *
50339288 ATCCGAGCTCGTTCAGTGGTCTGAGTTCATTATGGATGCGAGC
1 ATCCGAGCCCGTTCAGTGGTCTGAGTTCATAATGGATGCGAGC
* * * *
50339331 ATCCGAGCCCGTTGAGTTGTCTGAGTTCGTAATGGCTGCGA
1 ATCCGAGCCCGTTCAGTGGTCTGAGTTCATAATGGATGCGA
50339372 TACATGTAAC
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (43 bp):
ATCCGAGCCCGTTCAGTGGTCTGAGTTCATAATGGATGCGAGC
Found at i:50348048 original size:43 final size:43
Alignment explanation
Indices: 50347977--50348062 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
50347967 GATATATGAG
* *
50347977 GCATCCGAGCTCGTTCAATGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCCCGTTCAATGGTCCGAGTTCATAATGGATGCGA
* * ** *
50348020 GCATCCGAGCCCGTTGAGTGGTTTGAGTTCATAATGGCTGCGA
1 GCATCCGAGCCCGTTCAATGGTCCGAGTTCATAATGGATGCGA
50348063 TACATGTAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCCCGTTCAATGGTCCGAGTTCATAATGGATGCGA
Found at i:50348118 original size:51 final size:51
Alignment explanation
Indices: 50348021--50348120 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
50348011 TGGATGCGAG
* * *
50348021 CATCCGAGCCCGTTGAGTGGTTTGAGTTCATAATGGCTGCGATACATGTAA
1 CATCCGAGCCCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGTAA
* * * *
50348072 CATCCGAGCTCGTTGAGAGGTTCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAGCCCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGT
50348121 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (51 bp):
CATCCGAGCCCGTTGAGAGGTTCGAGTTCATAATGGATGCGATACATGTAA
Found at i:50354879 original size:51 final size:51
Alignment explanation
Indices: 50354782--50354881 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
50354772 ATATATGAGG
* *
50354782 CATCCGAGCCCGTTGAGTGGTCTGAGTTCATAATGGCTGCGATACATGTAA
1 CATCCGAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
* * * *
50354833 CATCCGAGCTCGTTGAGAGGT-TCGAGTTCATTATGGATGTGTTACATGT
1 CATCCGAGCCCGTTGAGAGGTCT-GAGTTCATAATGGATGCGATACATGT
50354882 TATAAGGTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.02
51 41 0.98
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (51 bp):
CATCCGAGCCCGTTGAGAGGTCTGAGTTCATAATGGATGCGATACATGTAA
Found at i:50359338 original size:46 final size:45
Alignment explanation
Indices: 50359285--50359461 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
50359275 AATTTGGGCA
*
50359285 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
50359331 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
50359378 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
50359424 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
50359462 CGGGTTACAT
Statistics
Matches: 108, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:50359440 original size:93 final size:93
Alignment explanation
Indices: 50359281--50359452 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
50359271 AGGAAATTTG
* *
50359281 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
50359346 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
50359374 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
50359439 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
50359453 ACTTATGGAC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:50361844 original size:40 final size:40
Alignment explanation
Indices: 50361800--50362025 Score: 382
Period size: 40 Copynumber: 5.7 Consensus size: 40
50361790 GCTACTAGCT
50361800 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
50361840 CAAATGCCTTCGAGACTTAGCCCGGTGATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
50361880 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
50361920 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
50361960 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
50362000 CAAATGCCTTCGGGACTTAGCCCGGT
1 CAAATGCCTTCGGGACTTAGCCCGGT
50362026 ATCAATCCGA
Statistics
Matches: 175, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 1 0.01
40 173 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:50370043 original size:40 final size:40
Alignment explanation
Indices: 50369999--50370223 Score: 380
Period size: 40 Copynumber: 5.6 Consensus size: 40
50369989 GCTACTAGCT
50369999 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
50370039 CAAATGCCTTCGAGACTTAGCCCGGTGATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
50370079 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
50370119 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
50370159 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
50370199 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
50370224 GTATCAATCC
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 173 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:50376542 original size:45 final size:45
Alignment explanation
Indices: 50376400--50376572 Score: 197
Period size: 45 Copynumber: 3.8 Consensus size: 45
50376390 ATTTGGGCAT
* *
50376400 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*** * * * *
50376445 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACG
* *
50376490 CATGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 C-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
50376536 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
50376573 CGGGTTACAT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
44 6 0.06
45 63 0.60
46 31 0.30
47 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:50379747 original size:27 final size:27
Alignment explanation
Indices: 50379706--50379759 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50379696 TGCCATGTGA
* *
50379706 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
50379733 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
50379760 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:50380085 original size:49 final size:49
Alignment explanation
Indices: 50380006--50380200 Score: 230
Period size: 49 Copynumber: 3.9 Consensus size: 49
50379996 TCTATTGTGA
* *
50380006 GGTCACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * * *
50380055 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTAGGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAA-TT
* * * * *
50380105 CGATCACGTGTGTAGTGA-TAAGTGCAGGCTACCACGTGTACTGGATAATT
1 -GGTCACATGTGTAGT-ACTAAGTGCAGGCTACTACGCGTACCGGATAATT
* * *
50380155 GGTCGCATGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCGGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATA
50380201 GCCTTGTCTA
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
49 78 0.66
50 4 0.03
51 36 0.30
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCGGATAATT
Done.