Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 77 of 126
Found at i:22983242 original size:17 final size:16
Alignment explanation
Indices: 22983203--22983246 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
22983193 AATATTTTAA
*
22983203 AATTAAATTTAAAATT
1 AATTAAACTTAAAATT
*
22983219 AACTAAACTTAAATATT
1 AATTAAACTTAAA-ATT
22983236 AATTAAACTTA
1 AATTAAACTTA
22983247 CCTTTCTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.39
Consensus pattern (16 bp):
AATTAAACTTAAAATT
Found at i:22993897 original size:21 final size:21
Alignment explanation
Indices: 22993867--22993926 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
22993857 CAAACAATGA
22993867 CAAAAA-TATCGATACATTTT
1 CAAAAAGTATCGATACATTTT
* *
22993887 CAAAAAGTATCAATACCTTTT
1 CAAAAAGTATCGATACATTTT
22993908 CAAAAAGTATCGATACATT
1 CAAAAAGTATCGATACATT
22993927 GTATCAGGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
20 6 0.17
21 29 0.83
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.32
Consensus pattern (21 bp):
CAAAAAGTATCGATACATTTT
Found at i:22998077 original size:2 final size:2
Alignment explanation
Indices: 22998070--22998098 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22998060 AATCATGCCA
22998070 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
22998099 TATTTATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:22999298 original size:20 final size:23
Alignment explanation
Indices: 22999275--22999325 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
22999265 TTAAGCTAAG
22999275 TTAATTAA-A-GT-TTAATTTAA
1 TTAATTAAGATGTATTAATTTAA
*
22999295 TTAATTAAGATTTATTAATTTAA
1 TTAATTAAGATGTATTAATTTAA
22999318 TCTAATTA
1 T-TAATTA
22999326 TAAAAGTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
21 1 0.04
22 1 0.04
23 10 0.38
24 6 0.23
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (23 bp):
TTAATTAAGATGTATTAATTTAA
Found at i:23002535 original size:31 final size:29
Alignment explanation
Indices: 23002479--23002536 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 29
23002469 GTTTATCTAC
23002479 AAGATAAACTTTAAATTAAATTTAATATT
1 AAGATAAACTTTAAATTAAATTTAATATT
23002508 AAGATAATCACTTTAATATTAAA-TTAATA
1 AAGATAA--ACTTTAA-ATTAAATTTAATA
23002537 AAATACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 7 0.27
31 13 0.50
32 6 0.23
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (29 bp):
AAGATAAACTTTAAATTAAATTTAATATT
Found at i:23002570 original size:12 final size:11
Alignment explanation
Indices: 23002520--23002573 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
23002510 GATAATCACT
23002520 TTAATATTAAA
1 TTAATATTAAA
23002531 TTAATA--AAA
1 TTAATATTAAA
*
23002540 -TACTATTAAA
1 TTAATATTAAA
*
23002550 ATAAGTATTAAA
1 TTAA-TATTAAA
23002562 TTTAATATTAAA
1 -TTAATATTAAA
23002574 CTATTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
8 4 0.11
9 3 0.09
10 3 0.09
11 8 0.23
12 14 0.40
13 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:23002577 original size:32 final size:30
Alignment explanation
Indices: 23002521--23002590 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 30
23002511 ATAATCACTT
23002521 TAATATTAAATTAATAAAATACTATTAAAA
1 TAATATTAAATTAATAAAATACTATTAAAA
*
23002551 TAAGTATTAAATTTAATATTAA-ACTATTAAAA
1 TAA-TATTAAA-TTAATA-AAATACTATTAAAA
23002583 TAATATTA
1 TAATATTA
23002591 TTTTAGAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 3 0.08
31 12 0.33
32 19 0.53
33 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (30 bp):
TAATATTAAATTAATAAAATACTATTAAAA
Found at i:23011161 original size:11 final size:11
Alignment explanation
Indices: 23011145--23011169 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23011135 GTGGCGAACC
23011145 CTTCAACAAAT
1 CTTCAACAAAT
23011156 CTTCAACAAAT
1 CTTCAACAAAT
23011167 CTT
1 CTT
23011170 TTCGCACTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (11 bp):
CTTCAACAAAT
Found at i:23018886 original size:26 final size:26
Alignment explanation
Indices: 23018841--23018905 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
23018831 CTTCCAGAAA
* *
23018841 ATTTAGCTCATACAAGCCCAGTCAG-
1 ATTTAGCTCTTACAAGCCCAGACAGT
23018866 AGTTTAGCTCTTACACA-CCCAGACAGT
1 A-TTTAGCTCTTACA-AGCCCAGACAGT
*
23018893 ATATAGCTCTTAC
1 ATTTAGCTCTTAC
23018906 GAGCTAGTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
25 1 0.03
26 31 0.91
27 2 0.06
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (26 bp):
ATTTAGCTCTTACAAGCCCAGACAGT
Found at i:23018928 original size:51 final size:51
Alignment explanation
Indices: 23018890--23019038 Score: 217
Period size: 51 Copynumber: 2.9 Consensus size: 51
23018880 ACACCCAGAC
* * *
23018890 AGTATATAGCTCTTACGAGCTAGTCAGAATATCACTCTTACGAGCCTAGAT
1 AGTATATCGCTCTTACGAGCCAGTCAGAATATCGCTCTTACGAGCCTAGAT
* * *
23018941 AGTATATCGCACTTACCAGCCAATCAGAATATCGCTCTTACGAGCCTAGAT
1 AGTATATCGCTCTTACGAGCCAGTCAGAATATCGCTCTTACGAGCCTAGAT
* *
23018992 AGAATATCGCTCTTACGAGCCCAGACAGAATATCGCTCTTACGAGCC
1 AGTATATCGCTCTTACGAG-CCAGTCAGAATATCGCTCTTACGAGCC
23019039 ACTCATAATA
Statistics
Matches: 86, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
51 61 0.71
52 25 0.29
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
AGTATATCGCTCTTACGAGCCAGTCAGAATATCGCTCTTACGAGCCTAGAT
Found at i:23018947 original size:26 final size:26
Alignment explanation
Indices: 23018893--23019038 Score: 183
Period size: 26 Copynumber: 5.7 Consensus size: 26
23018883 CCCAGACAGT
*
23018893 ATATAGCTCTTACGAG-CTAG-TCAGA
1 ATATCGCTCTTACGAGCCTAGAT-AGA
* *
23018918 ATATCACTCTTACGAGCCTAGATAGT
1 ATATCGCTCTTACGAGCCTAGATAGA
* *
23018944 ATATCGCACTTACCAGCC-A-ATCAGA
1 ATATCGCTCTTACGAGCCTAGAT-AGA
23018969 ATATCGCTCTTACGAGCCTAGATAGA
1 ATATCGCTCTTACGAGCCTAGATAGA
* *
23018995 ATATCGCTCTTACGAGCCCAGACAGA
1 ATATCGCTCTTACGAGCCTAGATAGA
23019021 ATATCGCTCTTACGAGCC
1 ATATCGCTCTTACGAGCC
23019039 ACTCATAATA
Statistics
Matches: 105, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
24 2 0.02
25 33 0.31
26 67 0.64
27 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (26 bp):
ATATCGCTCTTACGAGCCTAGATAGA
Found at i:23019005 original size:77 final size:76
Alignment explanation
Indices: 23018893--23019049 Score: 208
Period size: 77 Copynumber: 2.1 Consensus size: 76
23018883 CCCAGACAGT
* * *
23018893 ATATAGCTCTTACGAGCTAGTCAGAATATCACTCTTACGAGCCTAGATAGTATATCGCACTTACC
1 ATATAGCTCTTACGAGCTAGTCAGAATATCACTCTTACGAGCCCAGACAGAATATCGCACTTACC
23018958 AGCCAATCAGA
66 AGCCAATCAGA
* * *
23018969 ATATCGCTCTTACGAGCCTAGAT-AGAATATCGCTCTTACGAGCCCAGACAGAATATCGCTCTTA
1 ATATAGCTCTTACGAG-CTAG-TCAGAATATCACTCTTACGAGCCCAGACAGAATATCGCACTTA
* * *
23019033 CGAGCCACTCATA
64 CCAGCCAATCAGA
23019046 ATAT
1 ATAT
23019050 TACTTCGTTT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
76 15 0.21
77 54 0.77
78 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (76 bp):
ATATAGCTCTTACGAGCTAGTCAGAATATCACTCTTACGAGCCCAGACAGAATATCGCACTTACC
AGCCAATCAGA
Found at i:23025033 original size:32 final size:32
Alignment explanation
Indices: 23024997--23025058 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
23024987 ACATAGTTCG
*
23024997 CACATAGCAAACACACTTACGAACACAGTTTA
1 CACATAACAAACACACTTACGAACACAGTTTA
* * *
23025029 CACATAACAGACACACTTGCGAACATAGTT
1 CACATAACAAACACACTTACGAACACAGTT
23025059 CGCCAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.42, C:0.27, G:0.11, T:0.19
Consensus pattern (32 bp):
CACATAACAAACACACTTACGAACACAGTTTA
Found at i:23031617 original size:11 final size:11
Alignment explanation
Indices: 23031601--23031628 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
23031591 ACAGTTAGCC
23031601 TCCTTGATGGA
1 TCCTTGATGGA
23031612 TCCTTGATGGA
1 TCCTTGATGGA
23031623 TCCTTG
1 TCCTTG
23031629 CTTCTGCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.21, G:0.25, T:0.39
Consensus pattern (11 bp):
TCCTTGATGGA
Found at i:23033539 original size:21 final size:21
Alignment explanation
Indices: 23033513--23033559 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
23033503 TATCCTTGGC
23033513 ACCTCCAACTCAATAAGGAAA
1 ACCTCCAACTCAATAAGGAAA
23033534 ACCTCCAACTCAATAAGGAAA
1 ACCTCCAACTCAATAAGGAAA
*
23033555 TCCTC
1 ACCTC
23033560 AATTTCATCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.32, G:0.09, T:0.17
Consensus pattern (21 bp):
ACCTCCAACTCAATAAGGAAA
Found at i:23040841 original size:38 final size:38
Alignment explanation
Indices: 23040799--23040882 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 38
23040789 TGAGTCTATT
** * * *
23040799 CAGAATTGCGGCCAGAATTGTCACTACATGA-CGATGTC
1 CAGAATTGCACCCAAAATTATCACTACATGAGC-ATGCC
*
23040837 CAGAATTGCACCCAAAATTATCACTGCATGAGCATGCC
1 CAGAATTGCACCCAAAATTATCACTACATGAGCATGCC
23040875 CAGAATTG
1 CAGAATTG
23040883 TCGCTGTAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 38 0.97
39 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (38 bp):
CAGAATTGCACCCAAAATTATCACTACATGAGCATGCC
Found at i:23047022 original size:32 final size:32
Alignment explanation
Indices: 23046968--23047034 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
23046958 CTTAGTAAAA
* *
23046968 TTAAAAAAAAACTTAAGAGTTTAATGAAGATT
1 TTAAAAAAAAAATTAAGAGTTTAATGAAAATT
* *
23047000 TTAAAAAAATAAATT-AGGGTTTAATTAAAATT
1 TTAAAAAAA-AAATTAAGAGTTTAATGAAAATT
23047032 TTA
1 TTA
23047035 TGAGTTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.36
Consensus pattern (32 bp):
TTAAAAAAAAAATTAAGAGTTTAATGAAAATT
Found at i:23047103 original size:23 final size:23
Alignment explanation
Indices: 23047055--23047105 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
23047045 GAGAATTTTC
* * *
23047055 AAAATTTTTAAAAAAGTTTATTA
1 AAAATTTTAAAAAAAATTTATAA
23047078 AAAATTTTAAAATAAAATTTA-AA
1 AAAATTTTAAAA-AAAATTTATAA
23047101 AAAAT
1 AAAAT
23047106 ATAATGAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (23 bp):
AAAATTTTAAAAAAAATTTATAA
Found at i:23048287 original size:72 final size:72
Alignment explanation
Indices: 23048190--23048420 Score: 239
Period size: 72 Copynumber: 3.2 Consensus size: 72
23048180 TGTCAATTTT
* * * *
23048190 CATACATTTATGCTCGTT-AGATTGCACATGTTTACGCTCATCAGCTTGCACATGTTTACGCTCG
1 CATACATTTACGCTC-TTCAGCTTGCACATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCG
23048254 TCAGCTTA
65 TCAGCTTA
* ** * **
23048262 TATACATTTACGCTCTTCAGCTTGCACATGTTTACGCTCGTCAGCTTATATACGTTTACGCTCAC
1 CATACATTTACGCTCTTCAGCTTGCACATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCGT
*
23048327 CAGCTTC
66 CAGCTTA
* ** * ** * * *
23048334 CACACGCTTACGCTCGTCAGCTTATATATGTTTACGCTCGTCATCTTGCATATGTTTATGCTCGT
1 CATACATTTACGCTCTTCAGCTTGCACATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCGT
*
23048399 CAGCTTT
66 CAGCTTA
* *
23048406 CACAAATTTACGCTC
1 CATACATTTACGCTC
23048421 GTCTGCTTAT
Statistics
Matches: 128, Mismatches: 30, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
71 2 0.02
72 126 0.98
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.36
Consensus pattern (72 bp):
CATACATTTACGCTCTTCAGCTTGCACATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCGT
CAGCTTA
Found at i:23048421 original size:72 final size:72
Alignment explanation
Indices: 23048217--23048440 Score: 252
Period size: 72 Copynumber: 3.1 Consensus size: 72
23048207 TAGATTGCAC
* * * *
23048217 ATGTTTACGCTCATCAGCTTGCACATGTTTACGCTCGTCAGCTTAT-ATACATTTACGCTCTTCA
1 ATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCGTCAGCTT-TCACACATTTACGCTCGTCA
** *
23048281 GCTTGCAC
65 GCTTATAT
** * ** * **
23048289 ATGTTTACGCTCGTCAGCTTATATACGTTTACGCTCACCAGCTTCCACACGCTTACGCTCGTCAG
1 ATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCGTCAGCTTTCACACATTTACGCTCGTCAG
23048354 CTTATAT
66 CTTATAT
* * * *
23048361 ATGTTTACGCTCGTCATCTTGCATATGTTTATGCTCGTCAGCTTTCACAAATTTACGCTCGTCTG
1 ATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCGTCAGCTTTCACACATTTACGCTCGTCAG
23048426 CTTATAT
66 CTTATAT
*
23048433 TTGTTTAC
1 ATGTTTAC
23048441 TTGATTCAAC
Statistics
Matches: 123, Mismatches: 28, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
72 123 1.00
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (72 bp):
ATGTTTACGCTCGTCAGCTTGCATATGTTTACGCTCGTCAGCTTTCACACATTTACGCTCGTCAG
CTTATAT
Found at i:23048423 original size:48 final size:48
Alignment explanation
Indices: 23048219--23048404 Score: 273
Period size: 48 Copynumber: 3.9 Consensus size: 48
23048209 GATTGCACAT
23048219 GTTTACGCTCATCAGCTTGCACATGTTTACGCTCGTCAGCTTATATAC
1 GTTTACGCTCATCAGCTTGCACATGTTTACGCTCGTCAGCTTATATAC
* *
23048267 ATTTACGCTCTTCAGCTTGCACATGTTTACGCTCGTCAGCTTATATAC
1 GTTTACGCTCATCAGCTTGCACATGTTTACGCTCGTCAGCTTATATAC
* * * * *
23048315 GTTTACGCTCACCAGCTTCCACACGCTTACGCTCGTCAGCTTATATAT
1 GTTTACGCTCATCAGCTTGCACATGTTTACGCTCGTCAGCTTATATAC
* * * *
23048363 GTTTACGCTCGTCATCTTGCATATGTTTATGCTCGTCAGCTT
1 GTTTACGCTCATCAGCTTGCACATGTTTACGCTCGTCAGCTT
23048405 TCACAAATTT
Statistics
Matches: 121, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 121 1.00
ACGTcount: A:0.19, C:0.28, G:0.16, T:0.37
Consensus pattern (48 bp):
GTTTACGCTCATCAGCTTGCACATGTTTACGCTCGTCAGCTTATATAC
Found at i:23048439 original size:24 final size:24
Alignment explanation
Indices: 23048217--23048440 Score: 189
Period size: 24 Copynumber: 9.3 Consensus size: 24
23048207 TAGATTGCAC
* ** *
23048217 ATGTTTACGCTCATCAGCTTGCAC
1 ATGTTTACGCTCGTCAGCTTATAT
23048241 ATGTTTACGCTCGTCAGCTTATAT
1 ATGTTTACGCTCGTCAGCTTATAT
** * ** *
23048265 ACATTTACGCTCTTCAGCTTGCAC
1 ATGTTTACGCTCGTCAGCTTATAT
23048289 ATGTTTACGCTCGTCAGCTTATAT
1 ATGTTTACGCTCGTCAGCTTATAT
* ** ** *
23048313 ACGTTTACGCTCACCAGCTTCCAC
1 ATGTTTACGCTCGTCAGCTTATAT
* *
23048337 ACGCTTACGCTCGTCAGCTTATAT
1 ATGTTTACGCTCGTCAGCTTATAT
* **
23048361 ATGTTTACGCTCGTCATCTTGCAT
1 ATGTTTACGCTCGTCAGCTTATAT
* *
23048385 ATGTTTATGCTCGTCAGCTT-TCAC
1 ATGTTTACGCTCGTCAGCTTAT-AT
** *
23048409 AAATTTACGCTCGTCTGCTTATAT
1 ATGTTTACGCTCGTCAGCTTATAT
*
23048433 TTGTTTAC
1 ATGTTTAC
23048441 TTGATTCAAC
Statistics
Matches: 153, Mismatches: 45, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
24 152 0.99
25 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (24 bp):
ATGTTTACGCTCGTCAGCTTATAT
Found at i:23057537 original size:18 final size:18
Alignment explanation
Indices: 23057514--23057705 Score: 143
Period size: 18 Copynumber: 10.4 Consensus size: 18
23057504 GAAAGTATTG
*
23057514 TACTGGCTCATTAGAGTA
1 TACTGGCTCATTAGAGCA
* * *
23057532 TACTGGCTCGTTTGAGTA
1 TACTGGCTCATTAGAGCA
* *
23057550 TACTGGCTCGTTTGAGCA
1 TACTGGCTCATTAGAGCA
23057568 TACTGGCTCGA-TAGAGCA
1 TACTGGCTC-ATTAGAGCA
*
23057586 TATTGGCTCATTAGAGCA
1 TACTGGCTCATTAGAGCA
* * *
23057604 TACTGACTCGTTTGAGCA
1 TACTGGCTCATTAGAGCA
* *
23057622 TACTGGCTCCTAAGAGCGA
1 TACTGGCTCATTAGAGC-A
* * * *
23057641 TTCTGGCTCGTAAGAGTGA
1 TACTGGCTCATTAGAG-CA
* * *
23057660 TATTGGCTCGTAAGAGCA
1 TACTGGCTCATTAGAGCA
* *
23057678 TTACTGGCTCGTAAGAGCGA
1 -TACTGGCTCATTAGAGC-A
23057698 TACTGGCT
1 TACTGGCT
23057706 TGTAAGAGCA
Statistics
Matches: 147, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
17 1 0.01
18 91 0.62
19 54 0.37
20 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (18 bp):
TACTGGCTCATTAGAGCA
Found at i:23057557 original size:36 final size:36
Alignment explanation
Indices: 23057514--23057705 Score: 186
Period size: 36 Copynumber: 5.2 Consensus size: 36
23057504 GAAAGTATTG
* * *
23057514 TACTGGCTCATTAGAGTATACTGGCTCGTTTGAGTA
1 TACTGGCTCATTAGAGCATACTGGCTCGTTAGAGCA
* * *
23057550 TACTGGCTCGTTTGAGCATACTGGCTCGATAGAGCA
1 TACTGGCTCATTAGAGCATACTGGCTCGTTAGAGCA
* * *
23057586 TATTGGCTCATTAGAGCATACTGACTCGTTTGAGCA
1 TACTGGCTCATTAGAGCATACTGGCTCGTTAGAGCA
* * * * *
23057622 TACTGGCTCCTAAGAGCGATTCTGGCTCGTAAGAGTGA
1 TACTGGCTCATTAGAGC-ATACTGGCTCGTTAGAG-CA
* * * *
23057660 TATTGGCTCGTAAGAGCATTACTGGCTCGTAAGAGCGA
1 TACTGGCTCATTAGAGCA-TACTGGCTCGTTAGAGC-A
23057698 TACTGGCT
1 TACTGGCT
23057706 TGTAAGAGCA
Statistics
Matches: 127, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
36 74 0.58
37 14 0.11
38 39 0.31
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (36 bp):
TACTGGCTCATTAGAGCATACTGGCTCGTTAGAGCA
Found at i:23057607 original size:54 final size:54
Alignment explanation
Indices: 23057514--23057705 Score: 170
Period size: 54 Copynumber: 3.5 Consensus size: 54
23057504 GAAAGTATTG
* * * * *
23057514 TACTGGCTCATTAGAGTATACTGGCTCGTTTGAGTATACTGGCTCGTTTGAGCA
1 TACTGGCTCATTAGAGCATACTGGCTCATTAGAGCATACTGACTCGTTTGAGCA
*
23057568 TACTGGCTCGA-TAGAGCATATTGGCTCATTAGAGCATACTGACTCGTTTGAGCA
1 TACTGGCTC-ATTAGAGCATACTGGCTCATTAGAGCATACTGACTCGTTTGAGCA
* * * * * * * * **
23057622 TACTGGCTCCTAAGAGCGATTCTGGCTCGTAAGAGTGATATTGGCTCGTAAGAGCA
1 TACTGGCTCATTAGAGC-ATACTGGCTCATTAGAG-CATACTGACTCGTTTGAGCA
* *
23057678 TTACTGGCTCGTAAGAGCGATACTGGCT
1 -TACTGGCTCATTAGAGC-ATACTGGCT
23057706 TGTAAGAGCA
Statistics
Matches: 114, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
54 60 0.53
55 14 0.12
56 15 0.13
57 25 0.22
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (54 bp):
TACTGGCTCATTAGAGCATACTGGCTCATTAGAGCATACTGACTCGTTTGAGCA
Found at i:23057648 original size:19 final size:19
Alignment explanation
Indices: 23057624--23057714 Score: 114
Period size: 19 Copynumber: 4.8 Consensus size: 19
23057614 TTTGAGCATA
*
23057624 CTGGCTCCTAAGAGCGATT
1 CTGGCTCGTAAGAGCGATT
*
23057643 CTGGCTCGTAAGAGTGATAT
1 CTGGCTCGTAAGAGCGAT-T
23057663 -TGGCTCGTAAGAGC-ATT
1 CTGGCTCGTAAGAGCGATT
*
23057680 ACTGGCTCGTAAGAGCGATA
1 -CTGGCTCGTAAGAGCGATT
*
23057700 CTGGCTTGTAAGAGC
1 CTGGCTCGTAAGAGC
23057715 AAATTACTGA
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
17 1 0.02
18 2 0.03
19 57 0.90
20 3 0.05
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (19 bp):
CTGGCTCGTAAGAGCGATT
Found at i:23061465 original size:20 final size:20
Alignment explanation
Indices: 23061429--23061466 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23061419 GCTTAGAGTA
*
23061429 TTTATCTTTTATGTTTTATT
1 TTTATCTTTTAAGTTTTATT
23061449 TTTAT-TTTTAAGATTTTA
1 TTTATCTTTTAAG-TTTTA
23061467 GGTTGTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTATCTTTTAAGTTTTATT
Found at i:23065782 original size:68 final size:68
Alignment explanation
Indices: 23065703--23065834 Score: 255
Period size: 68 Copynumber: 1.9 Consensus size: 68
23065693 ATATTAATCA
23065703 CATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTTAG
1 CATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTTAG
23065768 TCT
66 TCT
*
23065771 CATTTAATCACATTAGTCACATGAATATTTCAACGTTTATCACATCACATATTAATCACATTTA
1 CATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTTA
23065835 ATCACATGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (68 bp):
CATTTAATCACATTAGTCACATGAATATTTCAACATTTATCACATCACATATTAATCACATTTAG
TCT
Found at i:23065784 original size:10 final size:10
Alignment explanation
Indices: 23065746--23065784 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
23065736 CATTTATCAC
23065746 ATCACATATTA
1 ATCACAT-TTA
23065757 ATCACATTTA
1 ATCACATTTA
* *
23065767 GTCTCATTTA
1 ATCACATTTA
23065777 ATCACATT
1 ATCACATT
23065785 AGTCACATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.41
Consensus pattern (10 bp):
ATCACATTTA
Found at i:23065846 original size:49 final size:49
Alignment explanation
Indices: 23065774--23065890 Score: 173
Period size: 49 Copynumber: 2.4 Consensus size: 49
23065764 TTAGTCTCAT
* *
23065774 TTAATCACA-TTAGTCACATGAATATTTCAACGTTTATCACATCACATA
1 TTAATCACATTTAATCACATGAATATTTCAACATTTATCACATCACATA
* *
23065822 TTAATCACATTTAATCACATGAATATTTTAGCATTTATCACATCACATA
1 TTAATCACATTTAATCACATGAATATTTCAACATTTATCACATCACATA
* *
23065871 TTAATCACATATAATTACAT
1 TTAATCACATTTAATCACAT
23065891 TCAATCATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
48 9 0.15
49 53 0.85
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.38
Consensus pattern (49 bp):
TTAATCACATTTAATCACATGAATATTTCAACATTTATCACATCACATA
Found at i:23065864 original size:23 final size:22
Alignment explanation
Indices: 23065710--23065864 Score: 95
Period size: 23 Copynumber: 6.7 Consensus size: 22
23065700 TCACATTTAA
23065710 TCACA-TTAGTCACATGAATATT
1 TCACATTTA-TCACATGAATATT
*
23065732 TCAACATTTATCACATCACATATT
1 TC-ACATTTATCACATGA-ATATT
* * *
23065756 AATCACATTTAGTCTCAT--TTA-A
1 --TCACATTTA-TCACATGAATATT
23065778 TCACA-TTAGTCACATGAATATT
1 TCACATTTA-TCACATGAATATT
* *
23065800 TCAACGTTTATCACATCACATATT
1 TC-ACATTTATCACATGA-ATATT
23065824 AATCACATTTAATCACATGAATATT
1 --TCACATTT-ATCACATGAATATT
*
23065849 TTAGCATTTATCACAT
1 TCA-CATTTATCACAT
23065865 CACATATTAA
Statistics
Matches: 105, Mismatches: 12, Indels: 31
0.71 0.08 0.21
Matches are distributed among these distances:
19 9 0.09
20 5 0.05
21 2 0.02
22 4 0.04
23 30 0.29
24 21 0.20
25 17 0.16
26 17 0.16
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.38
Consensus pattern (22 bp):
TCACATTTATCACATGAATATT
Found at i:23066080 original size:66 final size:66
Alignment explanation
Indices: 23065972--23066107 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 66
23065962 AATACACGGA
* *
23065972 TCTCTAAACACACCAAATGACATATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAAAA
1 TCTCTAAACACACCAAAAGACATATAGAGCCGAACATATCCCAAAAGTGAAGCATAAAGCTAAAA
23066037 C
66 C
* * *
23066038 TCTCTAAACACACCAAAAGAC-TCATAGAGCCGAACATGTCCCAAAAGTGAAGCGTAAAGCTAAC
1 TCTCTAAACACACCAAAAGACAT-ATAGAGCCGAACATATCCCAAAAGTGAAGCATAAAGCTAAA
23066102 AC
65 AC
23066104 TCTC
1 TCTC
23066108 CTTATTTCCC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
65 1 0.02
66 63 0.98
ACGTcount: A:0.43, C:0.26, G:0.13, T:0.18
Consensus pattern (66 bp):
TCTCTAAACACACCAAAAGACATATAGAGCCGAACATATCCCAAAAGTGAAGCATAAAGCTAAAA
C
Found at i:23066384 original size:36 final size:35
Alignment explanation
Indices: 23066337--23066449 Score: 145
Period size: 36 Copynumber: 3.1 Consensus size: 35
23066327 CACTACATAT
23066337 TCACATGGCATGAATAACATGCTCACATATTTACTA
1 TCACATGGCATGAATAACAT-CTCACATATTTACTA
* **
23066373 TCACATGGCATGAATAACATATCCACATATTTACCG
1 TCACATGGCATGAATAACATCT-CACATATTTACTA
* * *
23066409 TCTCATGGCATGAATAACATACCCACATATTTACTT
1 TCACATGGCATGAATAACAT-CTCACATATTTACTA
23066445 TCACA
1 TCACA
23066450 ATAGTCATCA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 1 0.02
36 65 0.98
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (35 bp):
TCACATGGCATGAATAACATCTCACATATTTACTA
Found at i:23067873 original size:35 final size:35
Alignment explanation
Indices: 23067833--23067942 Score: 98
Period size: 35 Copynumber: 3.2 Consensus size: 35
23067823 TAGTTATCCA
* * *
23067833 ACTAGCACTGGGCACAACTTTCGTTAGTTTATTTG
1 ACTAGCACTGGGCACAACTTCCGTCAGTTTATCTG
** *
23067868 ACTAGCGTTGGGTACAACTTCCGTCAGTTTATCTG
1 ACTAGCACTGGGCACAACTTCCGTCAGTTTATCTG
** * * *
23067903 ACTAGTGCTAGGCACATA-TT-CGTCGGTTTATCCG
1 ACTAGCACTGGGCACA-ACTTCCGTCAGTTTATCTG
23067937 ACTAGC
1 ACTAGC
23067943 GTTGAGTACG
Statistics
Matches: 61, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
34 17 0.28
35 43 0.70
36 1 0.02
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (35 bp):
ACTAGCACTGGGCACAACTTCCGTCAGTTTATCTG
Found at i:23068037 original size:109 final size:109
Alignment explanation
Indices: 23067890--23068095 Score: 304
Period size: 109 Copynumber: 1.9 Consensus size: 109
23067880 TACAACTTCC
* * * *
23067890 GTCAGTTTATCTGACTAGTGCTAGGCACATATTCGTCGGTTTATCCGACTAGCGTTGAGTACGAA
1 GTCAGTTGATCTGACTAGTGCTAGGCACACATTCGTCGGTTTATCCGACTAGCGCTGAGTACAAA
*
23067955 TATCATTGGTTTATCCAACTAGAGCTGGGCTCCCTATTTGTTTT
66 CATCATTGGTTTATCCAACTAGAGCTGGGCTCCCTATTTGTTTT
* * * * *
23067999 GTCAGTTGATCTTACTAGTGCTAGGCATACATTTGTCGGTTTATCCGACTAGCGCTGGGTGCAAA
1 GTCAGTTGATCTGACTAGTGCTAGGCACACATTCGTCGGTTTATCCGACTAGCGCTGAGTACAAA
* *
23068064 CATCGTTGGTTTATCTAACTAGAGCTGGGCTC
66 CATCATTGGTTTATCCAACTAGAGCTGGGCTC
23068096 ACATTTAATA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 85 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (109 bp):
GTCAGTTGATCTGACTAGTGCTAGGCACACATTCGTCGGTTTATCCGACTAGCGCTGAGTACAAA
CATCATTGGTTTATCCAACTAGAGCTGGGCTCCCTATTTGTTTT
Found at i:23072186 original size:17 final size:17
Alignment explanation
Indices: 23072133--23072191 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
23072123 ACTACAATGC
*
23072133 AAAATGCTAGA-ACAAAT
1 AAAATGC-AGAGACAAAA
* *
23072150 AAAATGCAGAGATAATA
1 AAAATGCAGAGACAAAA
23072167 AAAATGCA-ATGACAAAA
1 AAAATGCAGA-GACAAAA
23072184 AAAATGCA
1 AAAATGCA
23072192 TGCAACTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.11
17 31 0.89
ACGTcount: A:0.61, C:0.10, G:0.14, T:0.15
Consensus pattern (17 bp):
AAAATGCAGAGACAAAA
Found at i:23072602 original size:18 final size:18
Alignment explanation
Indices: 23072579--23072615 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23072569 GGCAACAACT
23072579 TCTTC-TTTTTCTTCCTTC
1 TCTTCTTTTTTCTT-CTTC
23072597 TCTTCTTTTTTCTTCTTC
1 TCTTCTTTTTTCTTCTTC
23072615 T
1 T
23072616 TCTGCCTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (18 bp):
TCTTCTTTTTTCTTCTTC
Found at i:23077204 original size:10 final size:10
Alignment explanation
Indices: 23077162--23077204 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
23077152 ATATTTCAGA
23077162 ATTT-ATCAC
1 ATTTAATCAC
23077171 ATATTAATCAC
1 AT-TTAATCAC
* *
23077182 ATTTAGTCTC
1 ATTTAATCAC
23077192 ATTTAATCAC
1 ATTTAATCAC
23077202 ATT
1 ATT
23077205 AGTCACATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 2 0.07
10 19 0.68
11 7 0.25
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (10 bp):
ATTTAATCAC
Found at i:23077251 original size:39 final size:39
Alignment explanation
Indices: 23077202--23077290 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
23077192 ATTTAATCAC
* * **
23077202 ATTAGTCACATGAATATTTCAATGTTTATCACATCACAA
1 ATTAATCACATGAATAATTCAACATTTATCACATCACAA
*
23077241 ATTAATCACATGAATAATTCAACATTTATCACATCACAT
1 ATTAATCACATGAATAATTCAACATTTATCACATCACAA
23077280 ATTAATCACAT
1 ATTAATCACAT
23077291 ATAATTGCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (39 bp):
ATTAATCACATGAATAATTCAACATTTATCACATCACAA
Found at i:23077461 original size:66 final size:66
Alignment explanation
Indices: 23077382--23077518 Score: 211
Period size: 66 Copynumber: 2.1 Consensus size: 66
23077372 GATACACAGA
* *
23077382 TCTCCAAACACACCAAATGACTCATAAAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACA
1 TCTCCAAACACACCAAAAGACTCATAAAGTCAAACATATCCCAAAAGTGAAGCATAAAGCTAACA
23077447 C
66 C
* * * **
23077448 TCTCCAAACACACCAAAAGACTCATAGAGTCAAACATGTCCTAAAAGTGAAGTGTAAAGCTAACA
1 TCTCCAAACACACCAAAAGACTCATAAAGTCAAACATATCCCAAAAGTGAAGCATAAAGCTAACA
23077513 C
66 C
23077514 TCTCC
1 TCTCC
23077519 TTATTTCCCC
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.18
Consensus pattern (66 bp):
TCTCCAAACACACCAAAAGACTCATAAAGTCAAACATATCCCAAAAGTGAAGCATAAAGCTAACA
C
Found at i:23077805 original size:36 final size:36
Alignment explanation
Indices: 23077765--23077923 Score: 192
Period size: 36 Copynumber: 4.4 Consensus size: 36
23077755 TTAGCATAAT
* *
23077765 ATATTCACTGTCACATGACATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
*
23077801 ATATTTACTGTCTCATGGCATGAATAACATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* * **
23077837 ATATTTAATGTCACATGGCTTGAATGGCATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* * * * *
23077873 ATATTTATTATCTCATGGCATGAACAAAATACCCAC
1 ATATTTACTGTCACATGGCATGAATAACATACCCAC
* *
23077909 ATTTTTACTTTCACA
1 ATATTTACTGTCACA
23077924 ACAGTCATTA
Statistics
Matches: 103, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 103 1.00
ACGTcount: A:0.35, C:0.24, G:0.10, T:0.31
Consensus pattern (36 bp):
ATATTTACTGTCACATGGCATGAATAACATACCCAC
Found at i:23088490 original size:17 final size:18
Alignment explanation
Indices: 23088463--23088496 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23088453 GCTTTAGGGA
23088463 ATATGCCAAAATATTCAC
1 ATATGCCAAAATATTCAC
*
23088481 ATAT-CCAAAATCTTCA
1 ATATGCCAAAATATTCA
23088497 TAATTGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.44, C:0.24, G:0.03, T:0.29
Consensus pattern (18 bp):
ATATGCCAAAATATTCAC
Found at i:23091682 original size:64 final size:64
Alignment explanation
Indices: 23091539--23091666 Score: 229
Period size: 64 Copynumber: 2.0 Consensus size: 64
23091529 TTTACTTGAA
23091539 AGAATTCCCAAGTAACCTCATTCTCGGGCATCACTGCCAAAATCATCATCCACCAACTGTAAGC
1 AGAATTCCCAAGTAACCTCATTCTCGGGCATCACTGCCAAAATCATCATCCACCAACTGTAAGC
* * *
23091603 AGAATTCCCAAGTAACCTCATTCTCGGGCATCACTGCTAAAATCGTCATTCACCAACTGTAAGC
1 AGAATTCCCAAGTAACCTCATTCTCGGGCATCACTGCCAAAATCATCATCCACCAACTGTAAGC
23091667 CTCGTCTTTC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.23
Consensus pattern (64 bp):
AGAATTCCCAAGTAACCTCATTCTCGGGCATCACTGCCAAAATCATCATCCACCAACTGTAAGC
Found at i:23092544 original size:21 final size:21
Alignment explanation
Indices: 23092494--23092546 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
23092484 AACAGTGCAG
*
23092494 ACTTTTACCGATAAAAGTGAC
1 ACTTTTACCGATAAAAGAGAC
* * *
23092515 AGTTCTACCGATACAAGAGAC
1 ACTTTTACCGATAAAAGAGAC
*
23092536 TCTTTTACCGA
1 ACTTTTACCGA
23092547 AATAAGTCAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (21 bp):
ACTTTTACCGATAAAAGAGAC
Found at i:23094802 original size:24 final size:24
Alignment explanation
Indices: 23094775--23094821 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
23094765 TGGGCATGTA
*
23094775 AGAGCTAATCATTCTGGGCTCATG
1 AGAGCTAATCATTCTAGGCTCATG
23094799 AGAGCTAATCATTCTAGGCTCAT
1 AGAGCTAATCATTCTAGGCTCAT
23094822 AATGGGCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AGAGCTAATCATTCTAGGCTCATG
Found at i:23097276 original size:21 final size:20
Alignment explanation
Indices: 23097252--23097295 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23097242 AATTTCATCA
* *
23097252 TTAAGCTTTAATTAACCCTTT
1 TTAAGC-TTAATTAAACCTAT
*
23097273 TTAATCTTAATTAAACCTAT
1 TTAAGCTTAATTAAACCTAT
23097293 TTA
1 TTA
23097296 TACTTAGTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (20 bp):
TTAAGCTTAATTAAACCTAT
Found at i:23102212 original size:18 final size:19
Alignment explanation
Indices: 23102177--23102213 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23102167 ATGGCTTATT
*
23102177 TTATATTTATTTAAACATA
1 TTATATTTATTAAAACATA
23102196 TTATATTT-TTAAAACATA
1 TTATATTTATTAAAACATA
23102214 AAGTGGGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATATTTATTAAAACATA
Found at i:23102313 original size:23 final size:22
Alignment explanation
Indices: 23102287--23102330 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23102277 AAAATATTTC
*
23102287 ATTAAATAATTTGGGTTGAATTA
1 ATTAAATAAATTGGGTT-AATTA
*
23102310 ATTAATTAAATTGGGTTAATT
1 ATTAAATAAATTGGGTTAATT
23102331 TTATTCTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (22 bp):
ATTAAATAAATTGGGTTAATTA
Found at i:23117500 original size:30 final size:30
Alignment explanation
Indices: 23117464--23117520 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
23117454 AGCTAAAGAA
*
23117464 GAAGAAGAAGATCCAT-AGGAGGATCCTAAG
1 GAAGAAGAAGAT-CATGAGGAAGATCCTAAG
23117494 GAAGAAGAAGATCATGAGGAAGATCCT
1 GAAGAAGAAGATCATGAGGAAGATCCT
23117521 GTGGAGATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.44, C:0.12, G:0.30, T:0.14
Consensus pattern (30 bp):
GAAGAAGAAGATCATGAGGAAGATCCTAAG
Found at i:23125005 original size:12 final size:12
Alignment explanation
Indices: 23124988--23125012 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23124978 TGTTATTATG
23124988 ATGAATGCTATT
1 ATGAATGCTATT
23125000 ATGAATGCTATT
1 ATGAATGCTATT
23125012 A
1 A
23125013 ATTATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:23129891 original size:15 final size:16
Alignment explanation
Indices: 23129854--23129895 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23129844 TACTTATTCT
23129854 ACAAAAACAAACAAGA
1 ACAAAAACAAACAAGA
** *
23129870 AGTAAAA-AAACTAGA
1 ACAAAAACAAACAAGA
23129885 ACAAAAACAAA
1 ACAAAAACAAA
23129896 AATAAAATAA
Statistics
Matches: 20, Mismatches: 5, Indels: 2
0.74 0.19 0.07
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.74, C:0.14, G:0.07, T:0.05
Consensus pattern (16 bp):
ACAAAAACAAACAAGA
Found at i:23135289 original size:50 final size:49
Alignment explanation
Indices: 23135198--23135295 Score: 119
Period size: 50 Copynumber: 2.0 Consensus size: 49
23135188 TATAGAGGAA
* *
23135198 GTATCTGGCAGTAAATCTGCAAATTGCTGGTGGCATGACCACATTATTCT
1 GTATCTGGCAATAAATCTGCAAATTGCTGGTGGCA-GACCACACTATTCT
*
23135248 GTATCTGGCAATAAATCTGCACATAT-CTGGTGGTTCA-ACCACACTATT
1 GTATCTGGCAATAAATCTGCAAAT-TGCTGGTGG--CAGACCACACTATT
23135296 TTGTTTCTAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
50 39 0.93
51 1 0.02
52 2 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (49 bp):
GTATCTGGCAATAAATCTGCAAATTGCTGGTGGCAGACCACACTATTCT
Found at i:23137450 original size:76 final size:74
Alignment explanation
Indices: 23137324--23137610 Score: 253
Period size: 76 Copynumber: 3.9 Consensus size: 74
23137314 TAAACAAATC
* ** * * * * *
23137324 GTCGGTTTATCTGACTAACAATGGACGCAAAACATCATTGGTTTATCCAACTAGAGCTGGGCTCA
1 GTCGGTTTATCCGACTAACGCTGGGCGCAAATCATCGTTGGTATATCCAACTAGAGTTGGGCTCA
23137389 CTATTTATATT
66 CTA-TTATA-T
* * * *
23137400 GTCGGTTTATCCGACTAGCGTTGGGCGCAAACCATTGTTGGTATATCCAACTAGAGTTGGGCTCA
1 GTCGGTTTATCCGACTAACGCTGGGCGCAAATCATCGTTGGTATATCCAACTAGAGTTGGGCTCA
* * *
23137465 TTATACAAAT
66 CTAT-TATAT
* ** * * * * *
23137475 CGTCGATTTATCCGACTAGTGCTGGGCGC-AATCATCGTTAGTTTATCTAACTAGTGTTGGGCAC
1 -GTCGGTTTATCCGACTAACGCTGGGCGCAAATCATCGTTGGTATATCCAACTAGAGTTGGGCTC
23137539 AC-A-TATCA-
65 ACTATTAT-AT
* * *
23137547 --CCGATTATCCGACTAACGCTGGGCGCAAATCATTGTTGGTATATCCAACTAGAGTTGGGCTCA
1 GTCGGTTTATCCGACTAACGCTGGGCGCAAATCATCGTTGGTATATCCAACTAGAGTTGGGCTCA
23137610 C
66 C
23137611 CCTTTTATAT
Statistics
Matches: 170, Mismatches: 37, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
69 21 0.12
70 31 0.18
72 1 0.01
73 1 0.01
74 1 0.01
75 31 0.18
76 84 0.49
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (74 bp):
GTCGGTTTATCCGACTAACGCTGGGCGCAAATCATCGTTGGTATATCCAACTAGAGTTGGGCTCA
CTATTATAT
Found at i:23137604 original size:70 final size:74
Alignment explanation
Indices: 23137405--23137606 Score: 236
Period size: 70 Copynumber: 2.8 Consensus size: 74
23137395 ATATTGTCGG
* * * *
23137405 TTTATCCGACTAGCGTTGGGCGCAAACCATTGTTGGTATATCCAACTAGAGTTGGGCTCATTATA
1 TTTATCCGACTAGCGCTGGGCGCAAATCATTGTTGGTATATCCAACTAGAGTTGGGCACAATATA
23137470 CAAATCGTCGA
66 C-AATCG-CGA
* * * * * *
23137481 TTTATCCGACTAGTGCTGGGCGC-AATCATCGTTAGTTTATCTAACTAGTGTTGGGCACACATAT
1 TTTATCCGACTAGCGCTGGGCGCAAATCATTGTTGGTATATCCAACTAGAGTTGGGCACA-ATAT
23137545 -C-A-C-CGA
65 ACAATCGCGA
*
23137551 -TTATCCGACTAACGCTGGGCGCAAATCATTGTTGGTATATCCAACTAGAGTTGGGC
1 TTTATCCGACTAGCGCTGGGCGCAAATCATTGTTGGTATATCCAACTAGAGTTGGGC
23137607 TCACCCTTTT
Statistics
Matches: 107, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
69 20 0.19
70 31 0.29
72 1 0.01
73 1 0.01
75 30 0.28
76 24 0.22
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (74 bp):
TTTATCCGACTAGCGCTGGGCGCAAATCATTGTTGGTATATCCAACTAGAGTTGGGCACAATATA
CAATCGCGA
Found at i:23137606 original size:36 final size:36
Alignment explanation
Indices: 23137400--23137606 Score: 107
Period size: 36 Copynumber: 5.7 Consensus size: 36
23137390 TATTTATATT
* * * *
23137400 GTCGGTTTATCCGACTAGCGTTGGGCGCAAACCATT
1 GTCGGTTTATCCAACTAGAGTTGGGCGCAAATCATC
* * * *
23137436 GTTGGTATATCCAACTAGAGTTGGGCTCATTATACAAATC
1 GTCGGTTTATCCAACTAGAGTTGGGCGCA-AAT-C--ATC
* * * *
23137476 GTCGATTTATCCGACTAGTGCTGGGCGC-AATCATC
1 GTCGGTTTATCCAACTAGAGTTGGGCGCAAATCATC
** * * * *
23137511 GTTAGTTTATCTAACTAGTGTTGGGCACACAT-ATC
1 GTCGGTTTATCCAACTAGAGTTGGGCGCAAATCATC
* * * * * *
23137546 -ACCGATTATCCGACTA-ACGCTGGGCGCAAATCATT
1 GTCGGTTTATCCAACTAGA-GTTGGGCGCAAATCATC
* *
23137581 GTTGGTATATCCAACTAGAGTTGGGC
1 GTCGGTTTATCCAACTAGAGTTGGGC
23137607 TCACCCTTTT
Statistics
Matches: 120, Mismatches: 42, Indels: 18
0.67 0.23 0.10
Matches are distributed among these distances:
34 20 0.17
35 29 0.24
36 42 0.35
37 3 0.03
38 3 0.03
40 23 0.19
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (36 bp):
GTCGGTTTATCCAACTAGAGTTGGGCGCAAATCATC
Found at i:23141508 original size:13 final size:13
Alignment explanation
Indices: 23141490--23141514 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23141480 TCAGACACAT
23141490 GCCCGTGTGTCTG
1 GCCCGTGTGTCTG
23141503 GCCCGTGTGTCT
1 GCCCGTGTGTCT
23141515 CCTGTACCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (13 bp):
GCCCGTGTGTCTG
Found at i:23144522 original size:25 final size:26
Alignment explanation
Indices: 23144494--23144547 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
23144484 TTATTATTCC
* * *
23144494 AAATTTAATTTAAAA-ACATTATATA
1 AAATTTAATTCAAAATACAGTAAATA
*
23144519 AAATTTTATTCAAAATACAGTAAATA
1 AAATTTAATTCAAAATACAGTAAATA
23144545 AAA
1 AAA
23144548 AATTCAAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (26 bp):
AAATTTAATTCAAAATACAGTAAATA
Found at i:23147915 original size:29 final size:30
Alignment explanation
Indices: 23147861--23147922 Score: 81
Period size: 31 Copynumber: 2.1 Consensus size: 30
23147851 ATTTTAAAAT
* * *
23147861 TATACATGAGCTTTAATTTAATGTGCGATTA
1 TATACATGAACTTTAATTT-AGGTGCAATTA
23147892 TATACATGAACTTTAATTT-GGTGCAATTA
1 TATACATGAACTTTAATTTAGGTGCAATTA
23147921 TA
1 TA
23147923 CACTTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 10 0.36
31 18 0.64
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAGGTGCAATTA
Found at i:23147930 original size:29 final size:29
Alignment explanation
Indices: 23147858--23147926 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
23147848 TAAATTTTAA
* *
23147858 AATTATACA-TGAGCTTTAATTTAATGTGC
1 AATTATACACTGAACTTTAATTT-AGGTGC
* *
23147887 GATTATATACATGAACTTTAATTT-GGTGC
1 AATTATACAC-TGAACTTTAATTTAGGTGC
23147916 AATTATACACT
1 AATTATACACT
23147927 TGAAATTCTA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
28 1 0.03
29 19 0.59
31 12 0.38
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (29 bp):
AATTATACACTGAACTTTAATTTAGGTGC
Found at i:23155923 original size:29 final size:30
Alignment explanation
Indices: 23155890--23155952 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
23155880 GCCCAAAGCC
23155890 ACAAAAACCA-ACAGCAAGCCAATTCTCAT
1 ACAAAAACCATACAGCAAGCCAATTCTCAT
** *
23155919 AC-AAATTCATTCAGCAAGCCAATTCTCAT
1 ACAAAAACCATACAGCAAGCCAATTCTCAT
23155948 ACAAA
1 ACAAA
23155953 TTCATTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.17
29 22 0.76
30 2 0.07
ACGTcount: A:0.46, C:0.29, G:0.06, T:0.19
Consensus pattern (30 bp):
ACAAAAACCATACAGCAAGCCAATTCTCAT
Found at i:23155953 original size:29 final size:29
Alignment explanation
Indices: 23155901--23155959 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23155891 CAAAAACCAA
23155901 CAGCAAGCCAATTCTCATACAAATTCATT
1 CAGCAAGCCAATTCTCATACAAATTCATT
23155930 CAGCAAGCCAATTCTCATACAAATTCATT
1 CAGCAAGCCAATTCTCATACAAATTCATT
23155959 C
1 C
23155960 TTTTGGTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (29 bp):
CAGCAAGCCAATTCTCATACAAATTCATT
Found at i:23168944 original size:51 final size:51
Alignment explanation
Indices: 23168896--23169029 Score: 245
Period size: 51 Copynumber: 2.7 Consensus size: 51
23168886 TGTTTCAAGC
23168896 TTTTTTATTTTTAATTAATGTTTATAATTAATAAATATATTATTTTCAAAT
1 TTTTTTATTTTTAATTAATGTTTATAATTAATAAATATATTATTTTCAAAT
23168947 TTTTTTATTTTTAATTAATGTTTATAATTAATAAATATATTATTTTCAAAT
1 TTTTTTATTTTTAATTAATGTTTATAATTAATAAATATATTATTTTCAAAT
*
23168998 TTTTTTATTTTTAATT-AT-TTTTTAATTAATAA
1 TTTTTTATTTTTAATTAATGTTTATAATTAATAA
23169030 CTCTTTTATT
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
49 13 0.16
50 2 0.02
51 67 0.82
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (51 bp):
TTTTTTATTTTTAATTAATGTTTATAATTAATAAATATATTATTTTCAAAT
Found at i:23169274 original size:16 final size:17
Alignment explanation
Indices: 23169243--23169277 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
23169233 TTAGACATAT
23169243 AAATACTATATATAAAG
1 AAATACTATATATAAAG
*
23169260 AAATA-TATATCTAAAG
1 AAATACTATATATAAAG
23169276 AA
1 AA
23169278 TTAGTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AAATACTATATATAAAG
Found at i:23177007 original size:52 final size:51
Alignment explanation
Indices: 23176933--23177177 Score: 328
Period size: 52 Copynumber: 4.7 Consensus size: 51
23176923 ATAAACGAAG
* *
23176933 AGGTCTGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
* * * * *
23176984 ACGATCTGATGACTGTGTGTCATCGTGAGTATATAAATCTTTTACGGATTAA
1 A-GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
* *
23177036 ACGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCCTTTATGGATTAA
1 A-GGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
* *
23177088 GAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCCCTTACGGATTATA
1 -AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTA-A
* * *
23177141 AGGTCCGATGGCTATGGGTCACCGTGAGTATATGAAT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAAT
23177178 GAAGTGAAAT
Statistics
Matches: 171, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
51 1 0.01
52 168 0.98
53 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (51 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTAA
Found at i:23195385 original size:27 final size:26
Alignment explanation
Indices: 23195325--23195421 Score: 90
Period size: 26 Copynumber: 3.6 Consensus size: 26
23195315 CATGCTAGTA
*
23195325 TATATGATAGATGATAATTTTGAGGT
1 TATATGATAAATGATAATTTTGAGGT
* *
23195351 TATGTGATTAAATTGAT-A-TTTGTGGT
1 TATATGA-TAAA-TGATAATTTTGAGGT
*
23195377 ATATATGATAGATGATAATTTTGAGGT
1 -TATATGATAAATGATAATTTTGAGGT
*
23195404 TATGTGATTAAATTGATA
1 TATATGA-TAAA-TGATA
23195422 TTTGTGCATA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
25 4 0.07
26 23 0.41
27 20 0.36
28 9 0.16
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (26 bp):
TATATGATAAATGATAATTTTGAGGT
Found at i:23195402 original size:53 final size:53
Alignment explanation
Indices: 23195322--23195427 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
23195312 GAGCATGCTA
23195322 GTATATATGATAGATGATAATTTTGAGGTTATGTGATTAAATTGATATTTGTG
1 GTATATATGATAGATGATAATTTTGAGGTTATGTGATTAAATTGATATTTGTG
23195375 GTATATATGATAGATGATAATTTTGAGGTTATGTGATTAAATTGATATTTGTG
1 GTATATATGATAGATGATAATTTTGAGGTTATGTGATTAAATTGATATTTGTG
23195428 CATATTGAGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (53 bp):
GTATATATGATAGATGATAATTTTGAGGTTATGTGATTAAATTGATATTTGTG
Found at i:23195424 original size:27 final size:28
Alignment explanation
Indices: 23195336--23195421 Score: 108
Period size: 26 Copynumber: 3.2 Consensus size: 28
23195326 ATATGATAGA
23195336 TGATAATTTTGAGGTTATGTGATTAAAT
1 TGATAATTTTGAGGTTATGTGATTAAAT
* * *
23195364 TGAT-A-TTTGTGGTATATATGA-TAGA-
1 TGATAATTTTGAGGT-TATGTGATTAAAT
23195389 TGATAATTTTGAGGTTATGTGATTAAAT
1 TGATAATTTTGAGGTTATGTGATTAAAT
23195417 TGATA
1 TGATA
23195422 TTTGTGCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
25 4 0.09
26 17 0.36
27 17 0.36
28 9 0.19
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (28 bp):
TGATAATTTTGAGGTTATGTGATTAAAT
Found at i:23202673 original size:79 final size:79
Alignment explanation
Indices: 23202536--23202703 Score: 282
Period size: 79 Copynumber: 2.1 Consensus size: 79
23202526 TTCTCATTTA
* * *
23202536 ATAACTCACGATGCCATGGAGAATCCGTAACAAATGCAGGATCTCAATCATCGGACCTTTAATCC
1 ATAACTCACGATGCCATAGAGAATCCGCAACAAATGCAGGATCTCAATCATCGAACCTTTAATCC
23202601 GTAATAGGATTCAT
66 GTAATAGGATTCAT
* * *
23202615 ATATCTCACGATGCCATAGAGAATCCGCAACAAATGCGGGATCTCAGTCATCGAACCTTTAATCC
1 ATAACTCACGATGCCATAGAGAATCCGCAACAAATGCAGGATCTCAATCATCGAACCTTTAATCC
23202680 GTAATAGGATTCAT
66 GTAATAGGATTCAT
23202694 ATAACTCACG
1 ATAACTCACG
23202704 GTGACACAGA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (79 bp):
ATAACTCACGATGCCATAGAGAATCCGCAACAAATGCAGGATCTCAATCATCGAACCTTTAATCC
GTAATAGGATTCAT
Found at i:23202740 original size:53 final size:53
Alignment explanation
Indices: 23202660--23203048 Score: 591
Period size: 53 Copynumber: 7.3 Consensus size: 53
23202650 GCGGGATCTC
* *
23202660 AGTCATCGAACCTTTAATCCGTAATAGGATTCATATAACTCACGGTGACACAG
1 AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAG
*
23202713 AGTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACATAG
1 AGTCATCGGACCTTTAATCCGTAATAGGA-TTCATATAACTCACGATGACACAG
** * *
23202767 AGTCATCAAACCTTTAATCTGTAATAGGATTCATATAACTCATGATGACACAG
1 AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAG
* *
23202820 AGTCATCGGACCTTTAATCCGTAATAAGATTTCATATAACTCACGATGACACAA
1 AGTCATCGGACCTTTAATCCGTAATAGGA-TTCATATAACTCACGATGACACAG
* * *
23202874 AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAAATCATGATGACATAG
1 AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAG
23202927 AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAG
1 AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAG
* * * *
23202980 AGTCATCAGACTTTTAAT-CTTCAATAGGATTTCATATAACTCACGATGACATAG
1 AGTCATCGGACCTTTAATCCGT-AATAGGA-TTCATATAACTCACGATGACACAG
23203034 AGTCATCGGACCTTT
1 AGTCATCGGACCTTT
23203049 TTGCATTTAC
Statistics
Matches: 304, Mismatches: 28, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
52 2 0.01
53 168 0.55
54 134 0.44
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (53 bp):
AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAG
Found at i:23202851 original size:107 final size:107
Alignment explanation
Indices: 23202660--23203048 Score: 602
Period size: 107 Copynumber: 3.6 Consensus size: 107
23202650 GCGGGATCTC
* *
23202660 AGTCATCGAACCTTTAATCCGTAATAGGATTCATATAACTCACGGTGACACAGAGTCATCGGACC
1 AGTCATCAAACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAGAGTCATCGGACC
*
23202725 TTTAATCCGTAATAGGATTTCATATAACTCACGATGACATAG
66 TTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAG
* *
23202767 AGTCATCAAACCTTTAATCTGTAATAGGATTCATATAACTCATGATGACACAGAGTCATCGGACC
1 AGTCATCAAACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAGAGTCATCGGACC
* *
23202832 TTTAATCCGTAATAAGATTTCATATAACTCACGATGACACAA
66 TTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAG
** * * *
23202874 AGTCATCGGACCTTTAATCCGTAATAGGATTCATATAAATCATGATGACATAGAGTCATCGGACC
1 AGTCATCAAACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAGAGTCATCGGACC
23202939 TTTAATCCGTAATAGGA-TTCATATAACTCACGATGACACAG
66 TTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAG
* * * *
23202980 AGTCATCAGACTTTTAAT-CTTCAATAGGATTTCATATAACTCACGATGACATAGAGTCATCGGA
1 AGTCATCAAACCTTTAATCCGT-AATAGGA-TTCATATAACTCACGATGACACAGAGTCATCGGA
23203044 CCTTT
64 CCTTT
23203049 TTGCATTTAC
Statistics
Matches: 261, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
105 2 0.01
106 46 0.18
107 213 0.82
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (107 bp):
AGTCATCAAACCTTTAATCCGTAATAGGATTCATATAACTCACGATGACACAGAGTCATCGGACC
TTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAG
Found at i:23202925 original size:160 final size:161
Alignment explanation
Indices: 23202660--23203048 Score: 622
Period size: 160 Copynumber: 2.4 Consensus size: 161
23202650 GCGGGATCTC
* *
23202660 AGTCATCGAACCTTTAATCCGTAATAGGA-TTCATATAACTCACGGTGACACAGAGTCATCGGAC
1 AGTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGAC
* *
23202724 CTTTAATCCGTAATAGGATTTCATATAACTCACGATGACATAGAGTCATCAAACCTTTAATCTGT
66 CTTTAATCCGTAATAGGATTTCATATAAATCACGATGACATAGAGTCATCAAACCTTTAATCCGT
*
23202789 AATAGGATTCATATAACTCATGATGACACAG
131 AATAGGATTCATATAACTCACGATGACACAG
* *
23202820 AGTCATCGGACCTTTAATCCGTAATAAGATTTCATATAACTCACGATGACACAAAGTCATCGGAC
1 AGTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGAC
* **
23202885 CTTTAATCCGTAATAGGA-TTCATATAAATCATGATGACATAGAGTCATCGGACCTTTAATCCGT
66 CTTTAATCCGTAATAGGATTTCATATAAATCACGATGACATAGAGTCATCAAACCTTTAATCCGT
23202949 AATAGGATTCATATAACTCACGATGACACAG
131 AATAGGATTCATATAACTCACGATGACACAG
* * * *
23202980 AGTCATCAGACTTTTAAT-CTTCAATAGGATTTCATATAACTCACGATGACATAGAGTCATCGGA
1 AGTCATCGGACCTTTAATCCGT-AATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGA
23203044 CCTTT
65 CCTTT
23203049 TTGCATTTAC
Statistics
Matches: 211, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
159 2 0.01
160 158 0.75
161 51 0.24
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (161 bp):
AGTCATCGGACCTTTAATCCGTAATAGGATTTCATATAACTCACGATGACACAGAGTCATCGGAC
CTTTAATCCGTAATAGGATTTCATATAAATCACGATGACATAGAGTCATCAAACCTTTAATCCGT
AATAGGATTCATATAACTCACGATGACACAG
Found at i:23206790 original size:51 final size:51
Alignment explanation
Indices: 23206726--23206824 Score: 198
Period size: 51 Copynumber: 1.9 Consensus size: 51
23206716 AACGTCTACC
23206726 ATAATAGGTTACACTATAAAGACTAATGTTGGGTATGCCACAATCTATATA
1 ATAATAGGTTACACTATAAAGACTAATGTTGGGTATGCCACAATCTATATA
23206777 ATAATAGGTTACACTATAAAGACTAATGTTGGGTATGCCACAATCTAT
1 ATAATAGGTTACACTATAAAGACTAATGTTGGGTATGCCACAATCTAT
23206825 GTAGTGAGAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (51 bp):
ATAATAGGTTACACTATAAAGACTAATGTTGGGTATGCCACAATCTATATA
Found at i:23218548 original size:24 final size:24
Alignment explanation
Indices: 23218520--23218569 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
23218510 TGTATCGGTA
23218520 TCTTCCTGTTTTTCATTTTCATTT
1 TCTTCCTGTTTTTCATTTTCATTT
* *
23218544 TCTTCTTGTTTTTCATTTTCTTTT
1 TCTTCCTGTTTTTCATTTTCATTT
23218568 TC
1 TC
23218570 CTCTTGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.06, C:0.20, G:0.04, T:0.70
Consensus pattern (24 bp):
TCTTCCTGTTTTTCATTTTCATTT
Found at i:23218574 original size:24 final size:24
Alignment explanation
Indices: 23218526--23218575 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
23218516 GGTATCTTCC
*
23218526 TGTTTTTCATTTTCATTTTCTTCT
1 TGTTTTTCATTTTCATTTTCCTCT
*
23218550 TGTTTTTCATTTTCTTTTTCCTCT
1 TGTTTTTCATTTTCATTTTCCTCT
23218574 TG
1 TG
23218576 AGAACTCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.70
Consensus pattern (24 bp):
TGTTTTTCATTTTCATTTTCCTCT
Found at i:23222016 original size:5 final size:5
Alignment explanation
Indices: 23222006--23222030 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23221996 AAATGTTGCT
23222006 CTGAG CTGAG CTGAG CTGAG CTGAG
1 CTGAG CTGAG CTGAG CTGAG CTGAG
23222031 TGCAATAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (5 bp):
CTGAG
Found at i:23226902 original size:18 final size:17
Alignment explanation
Indices: 23226881--23226926 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
23226871 TTATTTTAAG
*
23226881 TATTTTTTATTCATTATT
1 TATTTTTTACTCATT-TT
*
23226899 TATTTGTTACTCATTTT
1 TATTTTTTACTCATTTT
*
23226916 TATTATTTACT
1 TATTTTTTACT
23226927 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTTTTACTCATTTT
Found at i:23228134 original size:182 final size:182
Alignment explanation
Indices: 23227827--23228195 Score: 711
Period size: 182 Copynumber: 2.0 Consensus size: 182
23227817 ACCGTTGCAC
23227827 AAGCCCCTTGTGCAAGCCATTATGTCACAAAATCAAGTGTAGTTTAGCAAGGACTGAATCACCAA
1 AAGCCCCTTGTGCAAGCCATTATGTCACAAAATCAAGTGTAGTTTAGCAAGGACTGAATCACCAA
*
23227892 CCTGAACTTGCACATCCCTCCGATTCTGATCCACCCACTTCTTGTTGCGCTTACTTGCCTTATGA
66 CCTGAACTTGCACATCCCTCCGATTCTGATCCACCCACTTCTTGTTGCACTTACTTGCCTTATGA
23227957 AGGCAAGATCGAGCTAAATCGTTTTGCTCTTGCAAATCCCTCACAAATTGAT
131 AGGCAAGATCGAGCTAAATCGTTTTGCTCTTGCAAATCCCTCACAAATTGAT
23228009 AAGCCCCTTGTGCAAGCCATTATGTCACAAAATCAAGTGTAGTTTAGCAAGGACTGAATCACCAA
1 AAGCCCCTTGTGCAAGCCATTATGTCACAAAATCAAGTGTAGTTTAGCAAGGACTGAATCACCAA
23228074 CCTGAACTTGCACATCCCTCCGATTCTGATCCACCCACTTCTTGTTGCACTTACTTGCCTTATGA
66 CCTGAACTTGCACATCCCTCCGATTCTGATCCACCCACTTCTTGTTGCACTTACTTGCCTTATGA
* *
23228139 AGGCAAGATCGAGCTAAATCGTTTTGCTCTTGCCAATCCCTCGCAAATTGAT
131 AGGCAAGATCGAGCTAAATCGTTTTGCTCTTGCAAATCCCTCACAAATTGAT
23228191 AAGCC
1 AAGCC
23228196 ACTGGATTTG
Statistics
Matches: 184, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 184 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (182 bp):
AAGCCCCTTGTGCAAGCCATTATGTCACAAAATCAAGTGTAGTTTAGCAAGGACTGAATCACCAA
CCTGAACTTGCACATCCCTCCGATTCTGATCCACCCACTTCTTGTTGCACTTACTTGCCTTATGA
AGGCAAGATCGAGCTAAATCGTTTTGCTCTTGCAAATCCCTCACAAATTGAT
Found at i:23239638 original size:50 final size:50
Alignment explanation
Indices: 23239559--23239714 Score: 163
Period size: 50 Copynumber: 3.1 Consensus size: 50
23239549 TGACATTCAT
* *
23239559 TAACTCTCATGATTAGTTAAGTTTGCATCATAAATAATGACATGCATTAAG
1 TAACTCACATG-TTAGTTAAATTTGCATCATAAATAATGACATGCATTAAG
* * ** *
23239610 TAACTTACATGTTAGTTAAATATGCATCATAAATCCT-ATCATGCATTATG
1 TAACTCACATGTTAGTTAAATTTGCATCATAAATAATGA-CATGCATTAAG
* * *
23239660 TAACTCCCATGTTAGTTAAAGTTTGCATCATTAAATCAA-GTCATGCATTTAG
1 TAACTCACATGTTAGTTAAA-TTTGCATCA-TAAAT-AATGACATGCATTAAG
23239712 TAA
1 TAA
23239715 TCCATTAGTT
Statistics
Matches: 85, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.01
50 50 0.59
51 17 0.20
52 17 0.20
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (50 bp):
TAACTCACATGTTAGTTAAATTTGCATCATAAATAATGACATGCATTAAG
Found at i:23243598 original size:216 final size:214
Alignment explanation
Indices: 23243218--23246030 Score: 2743
Period size: 216 Copynumber: 13.0 Consensus size: 214
23243208 TTCGTATCAT
* * * * *
23243218 GTTGTTTACAAAATGACTAACAATATAGACCAAATGACGAGATTTCCAGAGCATGGAATGTTCGA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATGTTCG-
* * * * * *
23243283 AAAATTTCTCGAAGGAATGGATCATCTTGAATACATTAAGGATCCAAAGTTATAAAACAACTCGT
65 AAAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGT
** * * * *
23243348 AAAAAGTTTGACAAGTTCAAAAGTTCGCCCAAGAATCGAGAGAGAAACAATACTCACATAAATAA
130 -AAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAA-CAAGAGAGAAACAATTCTCACGTAAATAA
*
23243413 GTTTTTAATTCAAAGA-AAAAA
193 GTTTTTAATTCAAAGACCAAAA
* * *
23243434 GTTGTTTATAGAATGACAAACTATTTAGACCAAATGATGCGATTTCTC-GATCATGGAATGTTCA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CAGAGCATGGAATGTTC-
* * *
23243498 GAAAATTGCTCGAAAGAATGGATCGTATTGAATACTTTAAAGCAACCGAAG-TATTAAAAGAACT
64 GAAAATTGCTCGAAAGAATGGATCATCTTGAATACTTT-AAGGAACCGAAGTTA-TAAAAGAACT
* * ** *
23243562 CGTAAAAGTTTTACAAGATCGGATTTTCGGCCAAGAACAAAGAGAGAAATAATTCTCACGTAAAT
127 CGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAAC-AAGAGAGAAACAATTCTCACGTAAAT
*
23243627 AAGTTTTTAATTCAAAGTCCAAAA
191 AAGTTTTTAATTCAAAGACCAAAA
* * * **
23243651 GTTGTTTACAAAATGACAAACTATTTATAGACCAAATGATGCAATTTTCTGAGCAAAGAATGTTT
1 GTTGTTTACAAAATGACAAACTA-TT-TAGACCAAATGATGCGATTTCCAGAGCATGGAATG-TT
* * * ** * *
23243716 AGAAAATTGCTTGAAGGAATGGATTGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGTACTT
63 CGAAAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTC
* * ** * *
23243781 ATAAAATTTTGACAAGTTAAGAAGTTAGGCCAAGGAGCAAGAGAGAAACAATTCTCACGT--A-A
128 GTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAA-GAACAAGAGAGAAACAATTCTCACGTAAATA
*
23243843 AGTTTTTAATTCAAAGACGAAAA
192 AGTTTTTAATTCAAAGACCAAAA
* * * * *
23243866 TTTGTTTACAAAGT-A-AAACAGAATTTAGACTC-AATGATGTGATTTCCCGAGCATGGAATGTT
1 GTTGTTTACAAAATGACAAAC--TATTTAGAC-CAAATGATGCGATTTCCAGAGCATGGAATGTT
* * * * * * *
23243928 CATAAAATTGGTCGAAGGAATGGTTCATCTTGAATACTCTCAGGAATCGAAGTTATAAAAGAACT
63 C-GAAAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACT
* * * * * * *
23243993 CGTAAATGTTTGACAAGTTCGGAAGGTCGTCAAAGAACAAGAGAGAAATAATTCTTAGGTAAATA
127 CGTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACAAGAGAGAAACAATTCTCACGTAAATA
*
23244058 AG-TTTTAATTCAAAGACAAAAA
192 AGTTTTTAATTCAAAGACCAAAA
* * * * *
23244080 GTTGTTTACAAAATGGCAAACTATTTAAACCAAATTATGCAATTTCCCA-TGCA-GAGAATGTCT
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTT-CCAGAGCATG-GAATGT-T
* *** ***
23244143 TGAAAATTGCTCG-AAGAAGTGTCCCATCTTGAATACTTTAAGGAATATAAGTTATAAAAGAACT
63 CGAAAATTGCTCGAAAGAA-TGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACT
* * ** *
23244207 CGTAAAAGTGTGAGAAGTTTAGAAGTTCATG-CAAGAACAAGAGAGAAACAATTCTCACGTAAAT
127 CGTAAAAGTTTGACAAGTTCGGAAGTTC-GGCCAAGAACAAGAGAGAAACAATTCTCACGTAAAT
23244271 AAGTTTTTAATT-ATAAGACCAAAA
191 AAGTTTTTAATTCA-AAGACCAAAA
* * * * *
23244295 TTTGTTTACAAAATGACAAATTATTTAGATCAAATGATGAGATTTCCAGAGCATGGAATGTTCAA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATGTTC-G
* * * *
23244360 AAAATTGCTCG-AAGAAATGGATCGTCTTGAATACTTTAATGAACCAAAGTTATAAAAGAACTAG
65 AAAATTGCTCGAAAG-AATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCG
* * * * * *
23244424 TAAAATTTTGACAAGTTCAGAAGTTCGTCAAAGAACAAGAGAGAAACATTTCTTACGTAAATAAG
129 TAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACAAGAGAGAAACAATTCTCACGTAAATAAG
*
23244489 TTTTTAATTTAAAGACCAAAA
194 TTTTTAATTCAAAGACCAAAA
* * * * *
23244510 GTTATTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAACCATGAAATGTTTGA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATGTTCGA
* * * *
23244575 AAAGTTGCTCGAAGGAATGGATCGTCTTAAATACTTTAAGGAACCGGAGTTATAAACA-AACTCG
66 AAA-TTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAA-AGAACTCG
* * *
23244639 TAAAAGTTTGACAAGATCGGAAGTTCGACCAAGAACCAAGAGAGAATCAATTCTCACGTAAATAA
129 TAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAA-CAAGAGAGAAACAATTCTCACGTAAATAA
23244704 GTTTTTAATTCAAAGACCAAAA
193 GTTTTTAATTCAAAGACCAAAA
* * * * *
23244726 GTAGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGTATGTTCAA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATGTTC-G
* * * *
23244791 AAAATTGTTCGAAGGAATGGATCATCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAACTCAT
65 AAAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGT
* * * ** *
23244856 AAAAGTTTAACAAGTTCGGAAGCTCGGCAAAGAACCAAGAGAGAAACAATAGTCACATAAATAAG
130 AAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAA-CAAGAGAGAAACAATTCTCACGTAAATAAG
*
23244921 TTTTTAATTCAAAGACAAAAA
194 TTTTTAATTCAAAGACCAAAA
** * * * *
23244942 GTTGTTTACAGGATGACAAACTATTTAGGCCAAATGATGCGATTTCCTGATCATGTAATGTTC--
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATGTTCGA
* * * * * * * *
23245005 ----T-CACGTAAATAA--G-T--T-TT---TAATTCAAAG-ACCAAAAGTTATTAACA-AAGTC
66 AAATTGCTCG-AAAGAATGGATCATCTTGAATACTTTAAGGAACC-GAAGTTA-TAAAAGAACTC
* * * * * * *
23245054 -AAAAACTATTTAGACTTAATGATT--TAATTTTTCGAGCACGAA-ATTTCATAAAATTTGTCTT
128 GTAAAA--GTTT-GAC--AA-G-TTCGGAA--GTTCG-GC-C-AAGA----ACAAGA---G---A
* * * * *
23245115 GAACTCGATGATGTGATTTCAAGTAAATATA-TTTTTAATTCAAAGATCAAAT
171 GAA-AC-A--A--T--TCTCACGTAAATA-AGTTTTTAATTCAAAGACCAAAA
* * *
23245167 GTTGTTTACAAAATGACATACTATTTAGATCAAATGATGCGATTTCCCGAGCATGGAATGTTCGA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATGTTCG-
* *
23245232 AAAATTGCTCG-AAGAAATGGATCGTCTTGAATGCTTTAAGGAA-CGAAAGTTATAAAAGAACTC
65 AAAATTGCTCGAAAG-AATGGATCATCTTGAATACTTTAAGGAACCG-AAGTTATAAAAGAACTC
* ** ** * * * *
23245295 GTAAAAGTTTGACATGTTTTGAAGTTCATCAAAGAACAAGAGAGAAATAATTCTTATGTAAATAA
128 GTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACAAGAGAGAAACAATTCTCACGTAAATAA
23245360 G-TTTTAATTCAAAGACCAAAA
193 GTTTTTAATTCAAAGACCAAAA
* * * * *
23245381 GTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCAAAGCATGAAATGCTTGG
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATG-TTCG
* *
23245446 AAAACTGCTC-AAAGGAATGGATCATCTTGAATACTTTAAGGAACCGGAGTTATAAACA-AACTC
65 AAAATTGCTCGAAA-GAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAA-AGAACTC
* * * *
23245509 GTAAAAGTTTGACAAGATCGAAAGTTTGACCAAGAACTAAGAGAGAAACAATTCTCACGTAAATA
128 GTAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAAC-AAGAGAGAAACAATTCTCACGTAAATA
*
23245574 AGTTTTTAATTCAAAGATCAAAA
192 AGTTTTTAATTCAAAGACCAAAA
* *
23245597 GTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATACGATTTCTC-GAGCATGGAATGTTCG
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CAGAGCATGGAATGTTCG
* * * *
23245661 AAAAATTGTTCGAAAGAATGGATCGTCTTGAATACTTTGAGGAGCCGAAGTTATAAAAGAACTCG
65 -AAAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCG
* * * * **
23245726 TAAAAGTTTGATAAGTTCGGATGTCCGGCCAAGAACCAAGAGAGAAATAATAGTCACGTAAATAA
129 TAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAA-CAAGAGAGAAACAATTCTCACGTAAATAA
23245791 GTTTTTAATTCAAAGACCAAAA
193 GTTTTTAATTCAAAGACCAAAA
* *
23245813 GTTGTTTACAAAATGA-AAACTATTTAGATCAAATGATGCGATTTCCTA-AGTATGGAATGTTCG
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC-AGAGCATGGAATGTTCG
* * * *
23245876 AAAAATTGTTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGATATAAAAGAACTCG
65 -AAAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCG
* * * * * * *
23245941 TAAAAGTTTGACAAGTTTGAAAGTTCGACCAAGAACCAAGAGGGAAATAATACTCACATAAATAA
129 TAAAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAA-CAAGAGAGAAACAATTCTCACGTAAATAA
23246006 GTTTTTAATTCAAAGACCAAAA
193 GTTTTTAATTCAAAGACCAAAA
23246028 GTT
1 GTT
23246031 TTTGATGTGA
Statistics
Matches: 2135, Mismatches: 347, Indels: 231
0.79 0.13 0.09
Matches are distributed among these distances:
199 7 0.00
200 16 0.01
201 7 0.00
202 2 0.00
203 2 0.00
204 5 0.00
205 1 0.00
206 6 0.00
207 3 0.00
208 3 0.00
209 7 0.00
211 3 0.00
212 25 0.01
213 114 0.05
214 326 0.15
215 593 0.28
216 662 0.31
217 61 0.03
218 69 0.03
219 69 0.03
220 2 0.00
221 2 0.00
223 4 0.00
225 82 0.04
226 2 0.00
229 4 0.00
231 2 0.00
232 5 0.00
233 4 0.00
234 2 0.00
235 6 0.00
236 1 0.00
237 4 0.00
238 2 0.00
239 3 0.00
240 7 0.00
241 17 0.01
242 5 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (214 bp):
GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAGAGCATGGAATGTTCGA
AAATTGCTCGAAAGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTA
AAAGTTTGACAAGTTCGGAAGTTCGGCCAAGAACAAGAGAGAAACAATTCTCACGTAAATAAGTT
TTTAATTCAAAGACCAAAA
Found at i:23244793 original size:431 final size:430
Alignment explanation
Indices: 23243218--23246030 Score: 2956
Period size: 431 Copynumber: 6.5 Consensus size: 430
23243208 TTCGTATCAT
* * * * * * * *
23243218 GTTGTTTACAAAATGACTAACAATATAGACCAAATGACGAGATTTCCAGAGCATGGAATGTTCGA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAAGCATGAAATGTTTG-
* * * * *
23243283 AAAATTTCTCGAAGGAATGGATCATCTTGAATACATTAAGGATCCAAAGTTATAAAACAACTCGT
65 AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGT
* * * * *
23243348 AAAAAGTTTGACAAGTTCAAAAGTTCGCCCAAGAATCGAGAGAGAAACAATACTCACATAAATAA
130 -AAAAGTTTGACAAGTTCAAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* * * *
23243413 GTTTTTAATTCAAAGA-AAAAAGTTGTTTATAGAATGACAAACTATTTAGACCAAATGATGCGAT
194 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
* * * * *
23243477 TTCTCGATCATGGAATGTTCAGAAAATTGCTCGAA-AGAATGGATCGTATTGAATACTTTAAAGC
259 TTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGA-AATGGATCGTCTTGAATACTTT-AAGG
* * ** *
23243541 AACCGAAG-TATTAAAAGAACTCGTAAAAGTTTTACAAGATCGGATTTTCGGCCAAGAACAAAGA
322 AACCGAAGTTA-TAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCAAAGAAC-AAGA
*
23243605 GAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGTCCAAAA
385 GAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
* * ** *
23243651 GTTGTTTACAAAATGACAAACTATTTATAGACCAAATGATGCAATTTTCTGAGCA-AAGAATGTT
1 GTTGTTTACAAAATGACAAACTA-TT-TAGACCAAATGATGCGATTTCCAAAGCATGA-AATGTT
* ** *
23243715 TAGAAAATTGCTTGAAGGAATGGATTGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGTACT
63 T-GAAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACT
** * * * * *
23243780 TATAAAATTTTGACAAGTT-AAGAAGTTAGGCCAAGGAGCAAGAGAGAAACAATTCTCACGT--A
127 CGTAAAAGTTTGACAAGTTCAA-AAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAA
* * * **
23243842 -AAGTTTTTAATTCAAAGACGAAAATTTGTTTACAAAGT-AAAACAGAATTTAGACTC-AATGAT
191 TAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAA-ACTATTTAGAC-CAAATGAT
* * * * * * * *
23243904 GTGATTTCCCGAGCATGGAATGTTCATAAAATTGGTCGAAGGAATGGTTCATCTTGAATACTCTC
254 GCGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTTTA
* * * *
23243969 AGGAATCGAAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGGTCGTCAAAGAACAAG
319 AGGAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCAAAGAACAAG
* * *
23244034 AGAGAAATAATTCTTAGGTAAATAAG-TTTTAATTCAAAGACAAAAA
384 AGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
* * * * * *
23244080 GTTGTTTACAAAATGGCAAACTATTTAAACCAAATTATGCAATTTCCCATGCA-GAGAATGTCTT
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAAGCATGA-AATGT-TT
*** ***
23244144 GAAAATTGCTCGAA-GAAGTGTCCCATCTTGAATACTTTAAGGAATATAAGTTATAAAAGAACTC
64 GAAAATTGCTCGAAGGAA-TGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTC
* * * * *
23244208 GTAAAAGTGTGAGAAGTTTAGAAGTTC-ATGCAAGAA-CAAGAGAGAAACAATTCTCACGTAAAT
128 GTAAAAGTTTGACAAGTTCAAAAGTTCGA-CCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
* * * * *
23244271 AAGTTTTTAATT-ATAAGACCAAAATTTGTTTACAAAATGACAAATTATTTAGATCAAATGATGA
192 AAGTTTTTAATTCA-AAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGC
* *
23244335 GATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTTTAAT
256 GATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTTTAAG
* * * * *
23244400 GAACCAAAGTTATAAAAGAACTAGTAAAATTTTGACAAGTTCAGAAGTTCGTCAAAGAACAAGAG
321 GAACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCAAAGAACAAGAG
* * * *
23244465 AGAAACATTTCTTACGTAAATAAGTTTTTAATTTAAAGACCAAAA
386 AGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
* *
23244510 GTTATTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAACCATGAAATGTTTGA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAAGCATGAAATGTTTGA
* * *
23244575 AAAGTTGCTCGAAGGAATGGATCGTCTTAAATACTTTAAGGAACCGGAGTTATAAACA-AACTCG
66 AAA-TTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAA-AGAACTCG
* ** *
23244639 TAAAAGTTTGACAAGATCGGAAGTTCGACCAAGAACCAAGAGAGAATCAATTCTCACGTAAATAA
129 TAAAAGTTTGACAAGTTCAAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
*
23244704 GTTTTTAATTCAAAGACCAAAAGTAGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
194 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
* * * * *
23244769 TTCCCGAGCATGGTATGTTCAAAAAATTGTTCGAAGGAATGGATCATCTTGAATACTTTAAGAAA
259 TTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTTTAAGGAA
* * *
23244834 CCGAAGTTATAAAAGAACTCATAAAAGTTTAACAAGTTCGGAAGCTCGGCAAAGAACCAAGAGAG
324 CCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCAAAGAA-CAAGAGAG
* ** * *
23244899 AAACAATAGTCACATAAATAAGTTTTTAATTCAAAGACAAAAA
388 AAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
** * * *
23244942 GTTGTTTACAGGATGACAAACTATTTAGGCCAAATGATGCGATTTCC--TG-AT--CATG--T-A
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAAGCATGAAATGTTTGA
** * * * * * * * * * *
23244999 ATGTT-CTC-ACGTAA---ATAAGT-TT--TTAATTCAAAG-ACCAAAAGTTATTAACA-AAGTC
66 AAATTGCTCGAAGGAATGGATCA-TCTTGAATACTTTAAGGAACC-GAAGTTA-TAAAAGAACTC
* * * *** * * * * *
23245054 -AAAAACTATTTAGACTTAATGATTTAATTTTTCGAGCACGAAATTTCATAAAATTTGTCTTGAA
128 GTAAAA--GTTT-GAC--AA-G-TTCAAAAGTTCGACCAAG-AA---C-CAAGA---G---AGAA
* * * * *
23245118 CTCGATGATGTGATTTCAAGTAAATATA-TTTTTAATTCAAAGATCAAATGTTGTTTACAAAATG
175 -AC-A--A--T--TCTCACGTAAATA-AGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATG
* * * *
23245182 ACATACTATTTAGATCAAATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGA
231 AAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGA
* *
23245247 AATGGATCGTCTTGAATGCTTTAAGGAA-CGAAAGTTATAAAAGAACTCGTAAAAGTTTGACATG
296 AATGGATCGTCTTGAATACTTTAAGGAACCG-AAGTTATAAAAGAACTCGTAAAAGTTTGACAAG
** ** * *
23245311 TTTTGAAGTTCATCAAAGAACAAGAGAGAAATAATTCTTATGTAAATAAG-TTTTAATTCAAAGA
360 TTCGGAAGTTCGGCAAAGAACAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGA
23245375 CCAAAA
425 CCAAAA
* * *
23245381 GTTATTTACAAAATGACAAACTATTTAGACCAAATGATGTGATTTCCAAAGCATGAAATGCTTGG
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAAGCATGAAATG-TTTG
* * *
23245446 AAAACTGCTCAAAGGAATGGATCATCTTGAATACTTTAAGGAACCGGAGTTATAAACA-AACTCG
65 AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAA-AGAACTCG
* * * *
23245510 TAAAAGTTTGACAAGATCGAAAGTTTGACCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAA
129 TAAAAGTTTGACAAGTTCAAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAA
* *
23245575 GTTTTTAATTCAAAGATCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATACGAT
194 GTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGAT
* * * *
23245640 TTCTCGAGCATGGAATGTTCGAAAAATTGTTCGAA-AGAATGGATCGTCTTGAATACTTTGAGGA
259 TTCCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGA-AATGGATCGTCTTGAATACTTTAAGGA
* * * * *
23245704 GCCGAAGTTATAAAAGAACTCGTAAAAGTTTGATAAGTTCGGATGTCCGGCCAAGAACCAAGAGA
323 ACCGAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCAAAGAA-CAAGAGA
**
23245769 GAAATAATAGTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
387 GAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
* * * * *
23245813 GTTGTTTACAAAATGA-AAACTATTTAGATCAAATGATGCGATTTCCTAAGTATGGAATGTTCGA
1 GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAAGCATGAAATGTTTG-
* * *
23245877 AAAATTGTTCGAAGGAATGGATCATCTTGAATACTTTAAGGAATCGAAGATATAAAAGAACTCGT
65 AAAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGT
** * * * *
23245942 AAAAGTTTGACAAGTTTGAAAGTTCGACCAAGAACCAAGAGGGAAATAATACTCACATAAATAAG
130 AAAAGTTTGACAAGTTCAAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
23246007 TTTTTAATTCAAAGACCAAAAGTT
195 TTTTTAATTCAAAGACCAAAAGTT
23246031 TTTGATGTGA
Statistics
Matches: 1974, Mismatches: 319, Indels: 176
0.80 0.13 0.07
Matches are distributed among these distances:
415 7 0.00
416 17 0.01
417 6 0.00
418 7 0.00
419 1 0.00
420 2 0.00
421 5 0.00
422 12 0.01
423 4 0.00
424 2 0.00
425 1 0.00
426 27 0.01
427 108 0.05
428 8 0.00
429 235 0.12
430 347 0.18
431 471 0.24
432 209 0.11
433 27 0.01
434 51 0.03
435 84 0.04
436 2 0.00
437 2 0.00
438 3 0.00
439 62 0.03
440 26 0.01
441 174 0.09
442 3 0.00
444 7 0.00
445 1 0.00
448 5 0.00
449 12 0.01
450 5 0.00
451 2 0.00
452 1 0.00
453 8 0.00
454 6 0.00
455 17 0.01
456 7 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.28
Consensus pattern (430 bp):
GTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCAAAGCATGAAATGTTTGA
AAATTGCTCGAAGGAATGGATCATCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACTCGTA
AAAGTTTGACAAGTTCAAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
TTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTT
CCCGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTTTAAGGAACC
GAAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTCGGAAGTTCGGCAAAGAACAAGAGAGAAA
TAATTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAA
Found at i:23245570 original size:871 final size:871
Alignment explanation
Indices: 23243406--23245859 Score: 2727
Period size: 871 Copynumber: 2.8 Consensus size: 871
23243396 AATACTCACA
* * * * *
23243406 TAAATAAGTTTTTAATTCA-AAGA-AAAAAGTTGTTTATAGAATGACAAACTATTTAGACCAAAT
1 TAAATAAGTTTTTAATT-ATAAGACCAAAATTTGTTTACAAAATGACAAACTATTTAGATCAAAT
* * * *
23243469 GATGCGATTTCTC-GATCATGGAATGTTCAGAAAATTGCTCGAA-AGAATGGATCGTATTGAATA
65 GATGAGATTTC-CAGAGCATGGAATGTTCAAAAAATTGCTCGAAGA-AATGGATCGTCTTGAATA
* * * * * * ** ** *
23243532 CTTTAAAGCAACCGAAG-TATTAAAAGAACTCGTAAAAGTTTTACAAGATCGGATTTTCGGCCAA
128 CTTT-AAGGAACCAAAGTTA-TAAAAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCATCAAA
* * * *
23243596 GAACAAAGAGAGAAATAATTCTCACGTAAATAAGTTTTTAATTCAAAGTCCAAAAGTTGTTTACA
191 GAAC-AAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTTACA
* * ** * * * *
23243661 AAATGACAAACTATTTATAGACCAAATGATGCAATTTTCTGAGCA-AAGAATGTTTAGAAAA-TT
255 AAATGACAAACTA-TT-TAGACCAAATGATGCGATTTCCAAACCATGA-AATG-TTGGAAAAGCT
** ** * * * ** *
23243724 GCTTGAAGGAATGGATTGTCTTGAATACTTTAAGGAACCGAAGTTATAAA-AGTACTTATAAAAT
316 GCTCAAAGGAATGGATCATCTTAAATACTTTAAGGAACCGGAGTTATAAACA-AACTCGTAAAAG
** * * * *
23243788 TTTGACAAG-TTAAGAAGTTAGGCCAAGGAGCAAGAGAGAAACAATTCTCACGT--A-AAGTTTT
380 TTTGACAAGATCGA-AAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * * ** **
23243849 TAATTCAAAGACGAAAATTTGTTTACAAAGT-AAAACAGAATTTAGACTC-AATGATGTGATTTC
444 TAATTCAAAGACCAAAAGTAGTTTACAAAATGAAAA-ACTATTTAGAC-CAAATGATACGATTTC
* * * * * * * *
23243912 CCGAGCATGGAATGTTCATAAAATTGGTCGAAGGAATGGTTCATCTTGAATACTCTCAGGAATCG
507 CCGAGCATGGAATGTTCAAAAAATTGTTCGAAAGAATGGATCATCTTGAATACTTTAAGAAACCG
* * * *
23243977 AAGTTATAAAAGAACTCGTAAATGTTTGACAAGTTCGGAAGGT-CGTCAAAGAA-CAAGAGAGAA
572 AAGTTATAAAAGAACTCATAAAAGTTTAACAAGTTCGGAA-GTCCGGCAAAGAACCAAGAGAGAA
* ** * ** *
23244040 ATAATTCTTAGGTAAATAAG-TTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGGCAAACTAT
636 ACAATAGTCACATAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAAT-GAAAACTAT
* * * * * * * * * ** *
23244104 TTAAACCAAATTATGCAATTTCC-CATGCA-GAGAATG-TCT--TGAAAAT-TG-CTCGAA--GA
700 TTAGACCAAATGATGCGATTTCCTGAT-CATG-TAATGTTCTCACGTAAATAAGTTTTTAATTCA
* * * ** * * * * * * ***
23244160 AGTGTCC-CATCTTGAAT-ACTTTAAG-GAATATAAGT-TATA-A---AA-GAACTCGTAA-AAG
763 A-AGACCAAAAGTT-ATTAAC--AAAGTCAA-A-AACTATTTAGACTTAATG-A-T-TTAATTTT
* * * * ** ** * **** *
23244215 T-GTG-A-GAAGTTT-A-GAAGTTCATG-CAAGAACAAGAGAGAAACAATTCTCACG
819 TCGAGCACGAAATTTCATAAAATT--TGTCTTGAACTCGA-TGATGTGATT-TCAAG
*
23244266 TAAATAAGTTTTTAATTATAAGACCAAAATTTGTTTACAAAATGACAAATTATTTAGATCAAATG
1 TAAATAAGTTTTTAATTATAAGACCAAAATTTGTTTACAAAATGACAAACTATTTAGATCAAATG
23244331 ATGAGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTT
66 ATGAGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTT
* * *
23244396 TAATGAACCAAAGTTATAAAAGAACTAGTAAAATTTTGACAAGTTCAGAAGTTCGTCAAAGAACA
131 TAAGGAACCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCATCAAAGAACA
* *
23244461 AGAGAGAAACATTTCTTACGTAAATAAGTTTTTAATTTAAAGACCAAAAGTTATTTACAAAATGA
196 AGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAATGA
* * *
23244526 CAAACTATTTAGACCAAATGATGCGATTTCCAAACCATGAAATGTTTGAAAAGTTGCTCGAAGGA
261 CAAACTATTTAGACCAAATGATGCGATTTCCAAACCATGAAATGTTGGAAAAGCTGCTCAAAGGA
*
23244591 ATGGATCGTCTTAAATACTTTAAGGAACCGGAGTTATAAACAAACTCGTAAAAGTTTGACAAGAT
326 ATGGATCATCTTAAATACTTTAAGGAACCGGAGTTATAAACAAACTCGTAAAAGTTTGACAAGAT
* *
23244656 CGGAAGTTCGACCAAGAACCAAGAGAGAATCAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
391 CGAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
* *
23244721 CAAAAGTAGTTTACAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGAGCATGGTATG
456 CAAAAGTAGTTTACAAAATGAAAAACTATTTAGACCAAATGATACGATTTCCCGAGCATGGAATG
*
23244786 TTCAAAAAATTGTTCGAAGGAATGGATCATCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAA
521 TTCAAAAAATTGTTCGAAAGAATGGATCATCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAA
23244851 CTCATAAAAGTTTAACAAGTTCGGAAG-CTCGGCAAAGAACCAAGAGAGAAACAATAGTCACATA
586 CTCATAAAAGTTTAACAAGTTCGGAAGTC-CGGCAAAGAACCAAGAGAGAAACAATAGTCACATA
** *
23244915 AATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAGGATGACAAACTATTTAGGCCAAATGAT
650 AATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGA-AAACTATTTAGACCAAATGAT
23244980 GCGATTTCCTGATCATGTAATGTTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATT
714 GCGATTTCCTGATCATGTAATGTTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATT
23245045 AACAAAGTCAAAAACTATTTAGACTTAATGATTTAATTTTTCGAGCACGAAATTTCATAAAATTT
779 AACAAAGTCAAAAACTATTTAGACTTAATGATTTAATTTTTCGAGCACGAAATTTCATAAAATTT
23245110 GTCTTGAACTCGATGATGTGATTTCAAG
844 GTCTTGAACTCGATGATGTGATTTCAAG
* *
23245138 TAAATATA-TTTTTAATTCA-AAGATC-AAATGTTGTTTACAAAATGACATACTATTTAGATCAA
1 TAAATA-AGTTTTTAATT-ATAAGACCAAAAT-TTGTTTACAAAATGACAAACTATTTAGATCAA
* * * *
23245200 ATGATGCGATTTCCCGAGCATGGAATGTTCGAAAAATTGCTCGAAGAAATGGATCGTCTTGAATG
63 ATGATGAGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATA
* * * **
23245265 CTTTAAGGAACGAAAGTTATAAAAGAACTCGTAAAAGTTTGACATGTTTTGAAGTTCATCAAAGA
128 CTTTAAGGAACCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCATCAAAGA
* *
23245330 ACAAGAGAGAAATAATTCTTATGTAAATAAG-TTTTAATTCAAAGACCAAAAGTTATTTACAAAA
193 ACAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAA
* *
23245394 TGACAAACTATTTAGACCAAATGATGTGATTTCCAAAGCATGAAATGCTTGGAAAA-CTGCTCAA
258 TGACAAACTATTTAGACCAAATGATGCGATTTCCAAACCATGAAATG-TTGGAAAAGCTGCTCAA
*
23245458 AGGAATGGATCATCTTGAATACTTTAAGGAACCGGAGTTATAAACAAACTCGTAAAAGTTTGACA
322 AGGAATGGATCATCTTAAATACTTTAAGGAACCGGAGTTATAAACAAACTCGTAAAAGTTTGACA
* *
23245523 AGATCGAAAGTTTGACCAAGAACTAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
387 AGATCGAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAA
* * *
23245588 AGATCAAAAGTTGTTTACAAAATGAAAAACTATTTAGACCAAATGATACGATTTCTCGAGCATGG
452 AGACCAAAAGTAGTTTACAAAATGAAAAACTATTTAGACCAAATGATACGATTTCCCGAGCATGG
* * * * *
23245653 AATGTTCGAAAAATTGTTCGAAAGAATGGATCGTCTTGAATACTTTGAGGAGCCGAAGTTATAAA
517 AATGTTCAAAAAATTGTTCGAAAGAATGGATCATCTTGAATACTTTAAGAAACCGAAGTTATAAA
* * * * * *
23245718 AGAACTCGTAAAAGTTTGATAAGTTCGGATGTCCGGCCAAGAACCAAGAGAGAAATAATAGTCAC
582 AGAACTCATAAAAGTTTAACAAGTTCGGAAGTCCGGCAAAGAACCAAGAGAGAAACAATAGTCAC
* * *
23245783 GTAAATAAGTTTTTAATTCAAAGACCAAAAGTTGTTTACAAAATGAAAACTATTTAGATCAAATG
647 ATAAATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGAAAACTATTTAGACCAAATG
23245848 ATGCGATTTCCT
712 ATGCGATTTCCT
23245860 AAGTATGGAA
Statistics
Matches: 1372, Mismatches: 173, Indels: 88
0.84 0.11 0.05
Matches are distributed among these distances:
856 7 0.01
857 126 0.09
858 5 0.00
859 71 0.05
860 229 0.17
861 124 0.09
862 65 0.05
863 6 0.00
865 5 0.00
866 4 0.00
867 10 0.01
868 8 0.01
869 10 0.01
870 31 0.02
871 434 0.32
872 210 0.15
873 15 0.01
874 8 0.01
875 4 0.00
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (871 bp):
TAAATAAGTTTTTAATTATAAGACCAAAATTTGTTTACAAAATGACAAACTATTTAGATCAAATG
ATGAGATTTCCAGAGCATGGAATGTTCAAAAAATTGCTCGAAGAAATGGATCGTCTTGAATACTT
TAAGGAACCAAAGTTATAAAAGAACTAGTAAAAGTTTGACAAGTTCAGAAGTTCATCAAAGAACA
AGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTTACAAAATGA
CAAACTATTTAGACCAAATGATGCGATTTCCAAACCATGAAATGTTGGAAAAGCTGCTCAAAGGA
ATGGATCATCTTAAATACTTTAAGGAACCGGAGTTATAAACAAACTCGTAAAAGTTTGACAAGAT
CGAAAGTTCGACCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAGAC
CAAAAGTAGTTTACAAAATGAAAAACTATTTAGACCAAATGATACGATTTCCCGAGCATGGAATG
TTCAAAAAATTGTTCGAAAGAATGGATCATCTTGAATACTTTAAGAAACCGAAGTTATAAAAGAA
CTCATAAAAGTTTAACAAGTTCGGAAGTCCGGCAAAGAACCAAGAGAGAAACAATAGTCACATAA
ATAAGTTTTTAATTCAAAGACAAAAAGTTGTTTACAAAATGAAAACTATTTAGACCAAATGATGC
GATTTCCTGATCATGTAATGTTCTCACGTAAATAAGTTTTTAATTCAAAGACCAAAAGTTATTAA
CAAAGTCAAAAACTATTTAGACTTAATGATTTAATTTTTCGAGCACGAAATTTCATAAAATTTGT
CTTGAACTCGATGATGTGATTTCAAG
Found at i:23246530 original size:21 final size:21
Alignment explanation
Indices: 23246506--23246547 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
23246496 AAAAGAGTGC
23246506 AAGAGAGAAGAAA-AAGAAAGT
1 AAGAGAGAA-AAAGAAGAAAGT
**
23246527 AAGATTGAAAAAGAAGAAAGT
1 AAGAGAGAAAAAGAAGAAAGT
23246548 GATCAAGCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (21 bp):
AAGAGAGAAAAAGAAGAAAGT
Found at i:23246597 original size:39 final size:39
Alignment explanation
Indices: 23246543--23246620 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
23246533 GAAAAAGAAG
23246543 AAAGTGATCAAGCAGTAGTGAGGAACGTCCTAACTAACC
1 AAAGTGATCAAGCAGTAGTGAGGAACGTCCTAACTAACC
23246582 AAAGTGATCAAGCAGTAGTGAGGAACGTCCTAACTAACC
1 AAAGTGATCAAGCAGTAGTGAGGAACGTCCTAACTAACC
23246621 CACATGTGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (39 bp):
AAAGTGATCAAGCAGTAGTGAGGAACGTCCTAACTAACC
Found at i:23247255 original size:32 final size:32
Alignment explanation
Indices: 23247214--23247276 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
23247204 TTCTCTAATT
* *
23247214 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATATATTTCAGGTACATGC
23247246 AATTAGCTGATTAATATATTTCAGGTACATG
1 AATTAGCTGATTAATATATTTCAGGTACATG
23247277 TATGGATGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (32 bp):
AATTAGCTGATTAATATATTTCAGGTACATGC
Found at i:23247584 original size:10 final size:10
Alignment explanation
Indices: 23247569--23247601 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
23247559 TCTAGCCTAG
*
23247569 TCCATTCAGT
1 TCCATTCAGC
23247579 TCCATTCAGC
1 TCCATTCAGC
23247589 TCCATTCAGC
1 TCCATTCAGC
23247599 TCC
1 TCC
23247602 TTATTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.18, C:0.39, G:0.09, T:0.33
Consensus pattern (10 bp):
TCCATTCAGC
Found at i:23250511 original size:31 final size:31
Alignment explanation
Indices: 23250476--23250562 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 31
23250466 AAAGAAAATT
23250476 GAAAAAAAGAAAGGAA-AAATGAGAGAAAAGA
1 GAAAAAAAGAAAGGAAGAAA-GAGAGAAAAGA
23250507 GAAAAGAAAGAGAA--AAGAAAGAGAGAAAAGA
1 GAAAA-AAAGA-AAGGAAGAAAGAGAGAAAAGA
* * *
23250538 -AAAAGATGAAAGGAAGAAAAAGAGA
1 GAAAAAAAGAAAGGAAGAAAGAGAGA
23250563 TAGAAAAATT
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
28 2 0.04
29 3 0.06
30 15 0.31
31 18 0.38
32 8 0.17
33 2 0.04
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (31 bp):
GAAAAAAAGAAAGGAAGAAAGAGAGAAAAGA
Found at i:23250518 original size:18 final size:18
Alignment explanation
Indices: 23250497--23250562 Score: 59
Period size: 18 Copynumber: 3.7 Consensus size: 18
23250487 AGGAAAAATG
23250497 AGAGAAAAGAGAAAAGAA
1 AGAGAAAAGAGAAAAGAA
23250515 AGAGAAAAGA-AAGAGAGAA
1 AGAGAAAAGAGAA-A-AGAA
*
23250534 A-AGAAAA-AGATGAAAGGA
1 AGAGAAAAGAGA--AAAGAA
23250552 AGA-AAAAGAGA
1 AGAGAAAAGAGA
23250563 TAGAAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
17 3 0.08
18 26 0.65
19 10 0.25
20 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (18 bp):
AGAGAAAAGAGAAAAGAA
Found at i:23250533 original size:13 final size:12
Alignment explanation
Indices: 23250499--23250540 Score: 68
Period size: 13 Copynumber: 3.5 Consensus size: 12
23250489 GAAAAATGAG
23250499 AGAAAAGAGAAA
1 AGAAAAGAGAAA
23250511 AG-AAAGAGAAA
1 AGAAAAGAGAAA
23250522 AGAAAGAGAGAAA
1 AGAAA-AGAGAAA
23250535 AGAAAA
1 AGAAAA
23250541 AGATGAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 11 0.39
12 5 0.18
13 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAGAGAAA
Found at i:23253704 original size:38 final size:38
Alignment explanation
Indices: 23253653--23253760 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
23253643 TATTCACAAC
23253653 TGCGCCCAGAATTGTCACTGCATAACGATGTCCAGAAT
1 TGCGCCCAGAATTGTCACTGCATAACGATGTCCAGAAT
* * *
23253691 TGCGCCTAGAATTGTCATTGCATAATGATGTCCAGAAT
1 TGCGCCCAGAATTGTCACTGCATAACGATGTCCAGAAT
* * * * * *
23253729 TACACCCAAAATAGTCACTCCATGACGATGTC
1 TGCGCCCAGAATTGTCACTGCATAACGATGTC
23253761 AAAAATTATC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.26
Consensus pattern (38 bp):
TGCGCCCAGAATTGTCACTGCATAACGATGTCCAGAAT
Found at i:23257254 original size:38 final size:38
Alignment explanation
Indices: 23257212--23257291 Score: 117
Period size: 38 Copynumber: 2.1 Consensus size: 38
23257202 GTCTATTTAG
* * *
23257212 AATTGCGCCCAGAATTGTCACTGCAT-AACGATGTCCAA
1 AATTGAGCCCAAAATTGTCACTGCATGAA-GATGTCAAA
23257250 AATTGAGCCCAAAATTGTCACTGCATGAAGATGTCAAA
1 AATTGAGCCCAAAATTGTCACTGCATGAAGATGTCAAA
23257288 AATT
1 AATT
23257292 ATCACTGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 36 0.95
39 2 0.05
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (38 bp):
AATTGAGCCCAAAATTGTCACTGCATGAAGATGTCAAA
Found at i:23274840 original size:70 final size:70
Alignment explanation
Indices: 23274752--23274958 Score: 353
Period size: 70 Copynumber: 3.0 Consensus size: 70
23274742 TTAGGAGCAT
* * *
23274752 TGGGGTTTTATATATCAAAGTTAATTCTTAACTTAGTGATAATTTCGAAAGGGAACAATGGTTGT
1 TGGGGTTTTATATATCAAAGTTAATTGTTAACTTACTGATAATTTCAAAAGGGAACAATGGTTGT
23274817 TCCAA
66 TCCAA
*
23274822 TGGGATTTTATATATCAAAGTTAATTGTTAACTTACTGATAATTTCAAAAGGGAACAATGGTTGT
1 TGGGGTTTTATATATCAAAGTTAATTGTTAACTTACTGATAATTTCAAAAGGGAACAATGGTTGT
23274887 TCCAA
66 TCCAA
*
23274892 TGGGGTTTTAGATATCCAAA-TTAATTGTTAACTTACTGATAATTTCAAAAGGGAACAATGGTTG
1 TGGGGTTTTATATAT-CAAAGTTAATTGTTAACTTACTGATAATTTCAAAAGGGAACAATGGTTG
23274956 TTC
65 TTC
23274959 TAGTAAGAAT
Statistics
Matches: 130, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
70 126 0.97
71 4 0.03
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (70 bp):
TGGGGTTTTATATATCAAAGTTAATTGTTAACTTACTGATAATTTCAAAAGGGAACAATGGTTGT
TCCAA
Found at i:23305983 original size:11 final size:12
Alignment explanation
Indices: 23305941--23305997 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 12
23305931 TATGATCCTA
23305941 TTAT-TATTTAAT
1 TTATGTATTT-AT
23305953 TTAT-TA-TTAT
1 TTATGTATTTAT
23305963 TTAT-TATTTAT
1 TTATGTATTTAT
23305974 TTATGT-TTTAT
1 TTATGTATTTAT
23305985 TCTATGATATTTA
1 T-TATG-TATTTA
23305998 ATTTTATTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
10 8 0.20
11 16 0.40
12 11 0.28
13 1 0.03
14 4 0.10
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (12 bp):
TTATGTATTTAT
Found at i:23313988 original size:15 final size:15
Alignment explanation
Indices: 23313968--23314027 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 15
23313958 GTCAGAACAA
23313968 CTTTTTCTTCTTTTT
1 CTTTTTCTTCTTTTT
23313983 CTTTTTTCTTCTTTTCT
1 C-TTTTTCTTCTTTT-T
* *
23314000 CTTCCTTCTTC-TTCT
1 CTT-TTTCTTCTTTTT
23314015 CTTTTCTCTTCTT
1 CTTTT-TCTTCTT
23314028 CTTCAATACC
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 1 0.03
15 10 0.27
16 18 0.49
17 8 0.22
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (15 bp):
CTTTTTCTTCTTTTT
Found at i:23313994 original size:3 final size:3
Alignment explanation
Indices: 23313972--23314031 Score: 53
Period size: 3 Copynumber: 22.0 Consensus size: 3
23313962 GAACAACTTT
*
23313972 TTC TTC TTT TTC TT- TT- TTC TTC TT- TTC -TC TTCC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
23314014 -TC TT- TTC -TC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC
23314032 AATACCCACA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
2 14 0.29
3 31 0.65
4 3 0.06
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:23313994 original size:10 final size:10
Alignment explanation
Indices: 23313972--23314027 Score: 51
Period size: 10 Copynumber: 5.5 Consensus size: 10
23313962 GAACAACTTT
*
23313972 TTCTTCTTT-
1 TTCTTTTTTC
23313981 TTCTTTTTTC
1 TTCTTTTTTC
*
23313991 TTCTTTTCTC
1 TTCTTTTTTC
* *
23314001 TTCCTTCTTC
1 TTCTTTTTTC
23314011 TTCTCTTTTCTC
1 TTCT-TTTT-TC
23314023 TTCTT
1 TTCTT
23314028 CTTCAATACC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
9 8 0.22
10 19 0.51
11 4 0.11
12 6 0.16
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:23320178 original size:18 final size:18
Alignment explanation
Indices: 23320146--23320181 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23320136 TGCATTCGAC
*
23320146 TATGTGGCTATATCTGAT
1 TATGTGGCTACATCTGAT
*
23320164 TATGTGGCTGCATCTGAT
1 TATGTGGCTACATCTGAT
23320182 CAAGATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (18 bp):
TATGTGGCTACATCTGAT
Found at i:23321525 original size:26 final size:25
Alignment explanation
Indices: 23321473--23321526 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
23321463 TTAAAAAGAA
**
23321473 TAACAAAAGAAGTAAAATAGATTAG
1 TAACAAAAGAAGTAAAATAGAAAAG
23321498 TAACAAATAGAAGTCAAAAT-GAAAAG
1 TAACAAA-AGAAGT-AAAATAGAAAAG
23321524 TAA
1 TAA
23321527 TCACAACTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 13 0.52
27 5 0.20
ACGTcount: A:0.61, C:0.06, G:0.15, T:0.19
Consensus pattern (25 bp):
TAACAAAAGAAGTAAAATAGAAAAG
Found at i:23326791 original size:48 final size:48
Alignment explanation
Indices: 23326687--23326792 Score: 122
Period size: 48 Copynumber: 2.2 Consensus size: 48
23326677 TAACACTCCG
* * * * ***
23326687 AAGAGGGAAAGATTGAAGCCGTAATGGTGGATCTTACACCTTAAAATTG
1 AAGAGGG-AAGATTGAAACCGTAATGGCGGACCTAACACCTTAAAACCA
* *
23326736 AACAGGGAAGGTTGAAACCGTAATGGCGGACCTAACACCTTAAAACCA
1 AAGAGGGAAGATTGAAACCGTAATGGCGGACCTAACACCTTAAAACCA
23326784 AAGAGGGAA
1 AAGAGGGAA
23326793 ATATTGAAGT
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 41 0.87
49 6 0.13
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.18
Consensus pattern (48 bp):
AAGAGGGAAGATTGAAACCGTAATGGCGGACCTAACACCTTAAAACCA
Found at i:23327294 original size:147 final size:147
Alignment explanation
Indices: 23326687--23327293 Score: 565
Period size: 147 Copynumber: 4.1 Consensus size: 147
23326677 TAACACTCCG
* * * *
23326687 AAGAGGGAAAGATTGAAGCCGTAATGGTGGATCTTACACCTTAAAATTGAACAGGGA-AGGTTGA
1 AAGAGGGAAAGATTGAAGCCGTAACGATGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGA
* * * * * * * * * *
23326751 AACCGTAATGGCGGACCTAACACCTTAAAA-CCAAAGAGGGAAATATTGAAGTTGCAACGACGAA
66 AGCAGCAATGACAGACCTAACACCCTAAAATCGAAA-AGGGAAATATTGAAATCGCAACGACGGA
* * **
23326815 TCTTACACCTTAAAACTG
130 TCTAACACCCTAAAACCA
* * * * * * *
23326833 AAGAGGGATAGGTTGAAACTGCAACGACGGATCTTACATCTTAAAACTGAAGAGGGATAGGTTGA
1 AAGAGGGAAAGATTGAAGCCGTAACGATGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGA
* ** * * * * * * * ***
23326898 AGCCA-TAATGATGGACCTAACATCCTAAAATTGAATAGGGATATATTGAAATTGTAATGGTAGA
66 AG-CAGCAATGACAGACCTAACACCCTAAAATCGAAAAGGGAAATATTGAAATCGCAACGACGGA
**
23326962 TCTAACACCCTAAAACTG
130 TCTAACACCCTAAAACCA
* * * * * *
23326980 AAGAGAGAAAGATTAAAGCCGTAACGATGGATCTTACATCTTAAAATTGAAGAGAGATAGGTTAA
1 AAGAGGGAAAGATTGAAGCCGTAACGATGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGA
* * * * * * * * * * **
23327045 AGCCGCAATGGCAAACCTAACACCCTGAAATTGAAGA-GGAATAGATTGAAGTCACAACGATGTT
66 AGCAGCAATGACAGACCTAACACCCTAAAATCGAAAAGGGAA-ATATTGAAATCGCAACGACGGA
23327109 TCTAACACCCTAAAACCA
130 TCTAACACCCTAAAACCA
* *
23327127 AAGAGGGAAAGATTGAAGCCATAACGATGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGC
1 AAGAGGGAAAGATTGAAGCCGTAACGATGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGA
* * * * *
23327192 AGTAGCAATGACAGATCTAACACCCTAAAATCGAAAAGGGAAATATTGAAACCGTAATGACGGAT
66 AGCAGCAATGACAGACCTAACACCCTAAAATCGAAAAGGGAAATATTGAAATCGCAACGACGGAT
*
23327257 CTTACACCCTAAAACCA
131 CTAACACCCTAAAACCA
23327274 AAGAGGGAAAGATTGAAGCC
1 AAGAGGGAAAGATTGAAGCC
23327294 ACAATGACAA
Statistics
Matches: 366, Mismatches: 89, Indels: 11
0.79 0.19 0.02
Matches are distributed among these distances:
146 50 0.14
147 309 0.84
148 7 0.02
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (147 bp):
AAGAGGGAAAGATTGAAGCCGTAACGATGGATCTTACACCTTAAAACTGAAGAGGGATAGGTTGA
AGCAGCAATGACAGACCTAACACCCTAAAATCGAAAAGGGAAATATTGAAATCGCAACGACGGAT
CTAACACCCTAAAACCA
Found at i:23327300 original size:49 final size:49
Alignment explanation
Indices: 23326686--23327316 Score: 350
Period size: 49 Copynumber: 12.9 Consensus size: 49
23326676 CTAACACTCC
** * * *
23326686 GAAGAGGGAAAGATTGAAGCCGTAATGGTGGATCTTACACCTTAAAATT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * * * * *
23326735 GAACAGGG-AAGGTTGAAACCGTAATGGCGGACCTAACACCTTAAAACC
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * ** * * * * *
23326783 AAAGAGGGAAATATTGAAGTTGCAACGACGAATCTTACACCTTAAAACT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * * * * * * *
23326832 GAAGAGGGATAGGTTGAAACTGCAACGACGGATCTTACATCTTAAAACT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * * * * *
23326881 GAAGAGGGATAGGTTGAAGCCATAATGATGGACCTAACATCCTAAAATT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * *** ***
23326930 GAATAGGGATATATTGAAATTGTAATGGTAGATCTAACACCCTAAAACT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * * * * * *
23326979 GAAGAGAGAAAGATTAAAGCCGTAACGATGGATCTTACATCTTAAAATT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * * * * ** * * *
23327028 GAAGAGAGATAGGTTAAAGCCGCAATGGCAAACCTAACACCCTGAAATT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* ** * * ** *
23327077 GAAGA-GGAATAGATTGAAGTCACAACGATGTTTCTAACACCCTAAAACC
1 GAAGAGGGAA-AGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * * * *
23327126 AAAGAGGGAAAGATTGAAGCCATAACGATGGATCTTACACCTTAAAACT
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * ** * *
23327175 GAAGAGGGATAGGTTGCAGTAGCAATGACAGATCTAACACCCTAAAA-T
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* * * * *
23327223 CGAAAAGGGAAATATTGAAACCGTAATGACGGATCTTACACCCTAAAACC
1 -GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
* ** ** *
23327273 AAAGAGGGAAAGATTGAAGCCACAATGACAAATCTAACATCCTA
1 GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTA
23327317 TGAAAAAATA
Statistics
Matches: 438, Mismatches: 139, Indels: 10
0.75 0.24 0.02
Matches are distributed among these distances:
48 42 0.10
49 392 0.89
50 4 0.01
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (49 bp):
GAAGAGGGAAAGATTGAAGCCGTAATGACGGATCTAACACCCTAAAACT
Found at i:23329145 original size:11 final size:11
Alignment explanation
Indices: 23329129--23329179 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 11
23329119 ATTTACTAAC
23329129 ATTTAATTTTT
1 ATTTAATTTTT
23329140 ATTTAATTTATT
1 ATTTAATTT-TT
23329152 AGTATTAATTATTT
1 A-T-TTAATT-TTT
23329166 ATTT-ATGTTTT
1 ATTTAAT-TTTT
23329177 ATT
1 ATT
23329180 CTATGATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
11 17 0.49
12 6 0.17
13 2 0.06
14 9 0.26
15 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (11 bp):
ATTTAATTTTT
Found at i:23331348 original size:55 final size:55
Alignment explanation
Indices: 23331282--23331447 Score: 244
Period size: 55 Copynumber: 3.0 Consensus size: 55
23331272 TTATCCAAAC
* * *
23331282 AGTTGTTAGATGCGACGACAATTCTGGGTGCAATTTCGAATATGCTCATGCAGCG
1 AGTTGTCAGATGCGACGACAATTCTGGGCGCAATTTCGGATATGCTCATGCAGCG
* *
23331337 AGTTGTCAGATGCGACGACAATTCTGGGCACAA-TTCTGGATATGCTCATGTAGCG
1 AGTTGTCAGATGCGACGACAATTCTGGGCGCAATTTC-GGATATGCTCATGCAGCG
* * *
23331392 AGCTGTCAGATACGACGACAATTCTGGGCGCAATTTTGGATATGCTCATGCAGCG
1 AGTTGTCAGATGCGACGACAATTCTGGGCGCAATTTCGGATATGCTCATGCAGCG
23331447 A
1 A
23331448 CATTAATAGT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
54 3 0.03
55 94 0.95
56 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (55 bp):
AGTTGTCAGATGCGACGACAATTCTGGGCGCAATTTCGGATATGCTCATGCAGCG
Found at i:23340708 original size:21 final size:21
Alignment explanation
Indices: 23340683--23340725 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
23340673 ATGTTTGTCT
23340683 TACTCATACTTCTTTTGTTTC
1 TACTCATACTTCTTTTGTTTC
** *
23340704 TACTCATTTTTCTTTTTTTTC
1 TACTCATACTTCTTTTGTTTC
23340725 T
1 T
23340726 TTCTAATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.21, G:0.02, T:0.65
Consensus pattern (21 bp):
TACTCATACTTCTTTTGTTTC
Found at i:23340734 original size:22 final size:22
Alignment explanation
Indices: 23340692--23340749 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
23340682 TTACTCATAC
* *
23340692 TTCTTTTGTTTC-TACTCATTT
1 TTCTTTTTTTTCTTACTAATTT
*
23340713 TTCTTTTTTTTCTTTCTAATTT
1 TTCTTTTTTTTCTTACTAATTT
* *
23340735 TTCTCTATTTTCTTA
1 TTCTTTTTTTTCTTA
23340750 TTCTGGCTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (22 bp):
TTCTTTTTTTTCTTACTAATTT
Found at i:23349794 original size:12 final size:12
Alignment explanation
Indices: 23349777--23349801 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23349767 TTCCTCACCT
23349777 TCTTTTCCTTCC
1 TCTTTTCCTTCC
23349789 TCTTTTCCTTCC
1 TCTTTTCCTTCC
23349801 T
1 T
23349802 TGCCTTCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TCTTTTCCTTCC
Found at i:23370988 original size:31 final size:30
Alignment explanation
Indices: 23370950--23371022 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 30
23370940 AAGGGTGTCG
23370950 CGACTGTGTCGTCTGTGT-CGACACACCAGGA
1 CGACTGTGTCG-C-GTGTCCGACACACCAGGA
23370981 CGACTGTGTCGCGTGTCGCGACACACCAGGA
1 CGACTGTGTCGCGTGTC-CGACACACCAGGA
23371012 C--CTGTGTCGCG
1 CGACTGTGTCGCG
23371023 ACAAAGACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
29 14 0.35
30 1 0.03
31 25 0.62
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (30 bp):
CGACTGTGTCGCGTGTCCGACACACCAGGA
Found at i:23375670 original size:13 final size:13
Alignment explanation
Indices: 23375654--23375678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23375644 TTAAAAAAAA
23375654 ATGCTAAAGATGT
1 ATGCTAAAGATGT
23375667 ATGCTAAAGATG
1 ATGCTAAAGATG
23375679 ACCAAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (13 bp):
ATGCTAAAGATGT
Found at i:23376602 original size:17 final size:17
Alignment explanation
Indices: 23376570--23376613 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
23376560 ATTAAATTAC
*
23376570 AATGACAAATGGAAATGT
1 AATGAC-AATGCAAATGT
23376588 AATGACAATGCAAATGT
1 AATGACAATGCAAATGT
*
23376605 AGTGACAAT
1 AATGACAAT
23376614 TAAAATGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.48, C:0.09, G:0.20, T:0.23
Consensus pattern (17 bp):
AATGACAATGCAAATGT
Found at i:23376619 original size:17 final size:17
Alignment explanation
Indices: 23376570--23376626 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
23376560 ATTAAATTAC
*
23376570 AATGACAAATGGAAATGT
1 AATGAC-AATGAAAATGT
*
23376588 AATGACAATGCAAATGT
1 AATGACAATGAAAATGT
* * *
23376605 AGTGACAATTAAAATGC
1 AATGACAATGAAAATGT
23376622 AATGA
1 AATGA
23376627 AAAAGGAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 27 0.82
18 6 0.18
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (17 bp):
AATGACAATGAAAATGT
Found at i:23377094 original size:12 final size:12
Alignment explanation
Indices: 23377077--23377110 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23377067 CTCATCAACT
23377077 TCTTTTCCTTCC
1 TCTTTTCCTTCC
*
23377089 TCTTTTTCTTCC
1 TCTTTTCCTTCC
*
23377101 TCTTGTCCTT
1 TCTTTTCCTT
23377111 TTTCTTCTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.35, G:0.03, T:0.62
Consensus pattern (12 bp):
TCTTTTCCTTCC
Found at i:23378089 original size:19 final size:20
Alignment explanation
Indices: 23378069--23378115 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23378059 TTTTGAAGTG
23378069 TTAAAATGATTTTGACTTGT
1 TTAAAATGATTTTGACTTGT
* * *
23378089 TTTAAATTATTTTGACTAGT
1 TTAAAATGATTTTGACTTGT
23378109 TTAAAAT
1 TTAAAAT
23378116 CAGTTTAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (20 bp):
TTAAAATGATTTTGACTTGT
Found at i:23378100 original size:20 final size:20
Alignment explanation
Indices: 23378072--23378143 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
23378062 TGAAGTGTTA
*
23378072 AAATGATTTTGACTTGTTTT
1 AAATTATTTTGACTTGTTTT
* *
23378092 AAATTATTTTGACTAGTTTA
1 AAATTATTTTGACTTGTTTT
* * *
23378112 AAATCAGTTTAACTTGATTTTT
1 AAATTATTTTGACTTG--TTTT
23378134 AAAATTATTT
1 -AAATTATTT
23378144 CAAACTTTTC
Statistics
Matches: 39, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
20 29 0.74
22 3 0.08
23 7 0.18
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.51
Consensus pattern (20 bp):
AAATTATTTTGACTTGTTTT
Found at i:23378842 original size:18 final size:18
Alignment explanation
Indices: 23378811--23378845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23378801 ACTTAGTCGG
* *
23378811 TTTCTTCTTTCCCTTAGT
1 TTTCTACTTCCCCTTAGT
23378829 TTTCTACTTCCCCTTAG
1 TTTCTACTTCCCCTTAG
23378846 AGGATGAGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.31, G:0.06, T:0.54
Consensus pattern (18 bp):
TTTCTACTTCCCCTTAGT
Found at i:23381553 original size:11 final size:11
Alignment explanation
Indices: 23381539--23381614 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
23381529 GATAATCATT
23381539 TTAATATTAAA
1 TTAATATTAAA
23381550 TTAATA--AAA
1 TTAATATTAAA
*
23381559 -TACTATTAAA
1 TTAATATTAAA
*
23381569 ATAAGTATTAAA
1 TTAA-TATTAAA
23381581 TTAA-ATTTAATA
1 TTAATA-TTAA-A
23381593 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
23381606 ATAATATTA
1 TTAATATTA
23381615 TTTTTGGAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 18
0.70 0.05 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 4 0.08
11 17 0.33
12 15 0.29
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:23381601 original size:37 final size:36
Alignment explanation
Indices: 23381539--23381614 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 36
23381529 GATAATCATT
23381539 TTAATATTAAATTAATAAAATACTATTAAAATAAGTA
1 TTAATATTAAATTAATAAAATACTATTAAAATAA-TA
*
23381576 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTATTAAAATAATA
23381612 TTA
1 TTA
23381615 TTTTTGGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
36 11 0.31
37 23 0.64
38 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAATA
Found at i:23389164 original size:17 final size:17
Alignment explanation
Indices: 23389142--23389183 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23389132 GAAAAAGGTA
23389142 GAAAAAA-AAGAAAATAC
1 GAAAAAATAA-AAAATAC
23389159 GAAAAAATAAAAAATA-
1 GAAAAAATAAAAAATAC
*
23389175 AAAAAAATA
1 GAAAAAATA
23389184 TGTGGGTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
17 13 0.57
18 2 0.09
ACGTcount: A:0.81, C:0.02, G:0.07, T:0.10
Consensus pattern (17 bp):
GAAAAAATAAAAAATAC
Found at i:23394004 original size:177 final size:178
Alignment explanation
Indices: 23393717--23394076 Score: 535
Period size: 177 Copynumber: 2.0 Consensus size: 178
23393707 AAGTCGACAG
* **
23393717 AAGGTTGCAATTGGCGGGTACGAGCTGCATTTATGCAGAAGTCACAAATGTGGGAGATAAGAAAA
1 AAGGTTACAATTGGAAGGTACGAGCTGCATTTATGCAGAAGTCACAAATGTGGGAGAT-A-AAAA
*
23393782 TTTGTTGGGCCTCAAACATGCACTTCAACATGTATGTCAGAAGATCACCGAAAACTTGATTCCAA
64 TTTGTTGGGCCTCAAACATGCACTTCAACATGTATATCAGAAGATCACCGAAAACTTGATTCCAA
* * *
23393847 AACTATTTGCACATATATCATGCCAATGGTGAAGGACTAGTCGACTATCA
129 AACTATCTGCACATATATAATGCCAATGGTGAAGGACTAGCCGACTATCA
* *
23393897 AAGGTTACAATTGGAAGGTACGAGCTGCATTTAT-CTAGAAGTCGCAGATGTGGGAGAT-AAAAT
1 AAGGTTACAATTGGAAGGTACGAGCTGCATTTATGC-AGAAGTCACAAATGTGGGAGATAAAAAT
* * * *
23393960 TTGTTGGGCCTCACACATGCACTTCGACATGTATATCAGAAGATCATCGAAAACTTGATTCTAAA
65 TTGTTGGGCCTCAAACATGCACTTCAACATGTATATCAGAAGATCACCGAAAACTTGATTCCAAA
* * *
23394025 ACTATCTGCACATATATAATGCTAATGGTGAAGGACTTGCCGACTATTA
130 ACTATCTGCACATATATAATGCCAATGGTGAAGGACTAGCCGACTATCA
23394074 AAG
1 AAG
23394077 CTTTTACACT
Statistics
Matches: 163, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
177 111 0.68
179 1 0.01
180 51 0.31
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (178 bp):
AAGGTTACAATTGGAAGGTACGAGCTGCATTTATGCAGAAGTCACAAATGTGGGAGATAAAAATT
TGTTGGGCCTCAAACATGCACTTCAACATGTATATCAGAAGATCACCGAAAACTTGATTCCAAAA
CTATCTGCACATATATAATGCCAATGGTGAAGGACTAGCCGACTATCA
Found at i:23395799 original size:26 final size:26
Alignment explanation
Indices: 23395766--23395816 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
23395756 TTAAACCTTA
23395766 AACATAATTAATGAAATACAAACATG
1 AACATAATTAATGAAATACAAACATG
* *
23395792 AACATAATTAATTAAATTCAAACAT
1 AACATAATTAATGAAATACAAACAT
23395817 AAACTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (26 bp):
AACATAATTAATGAAATACAAACATG
Found at i:23396240 original size:27 final size:27
Alignment explanation
Indices: 23396183--23396242 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
23396173 GAAACTTCGA
* *
23396183 ATGATATTCATGGCCTGAACAACCCGT
1 ATGATATCCATGGCCTGAACAACCCGG
*
23396210 ATGATATCCATGGCCTG-ACCACCCTGG
1 ATGATATCCATGGCCTGAACAACCC-GG
23396237 ATGATA
1 ATGATA
23396243 AGACTCGGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (27 bp):
ATGATATCCATGGCCTGAACAACCCGG
Found at i:23398308 original size:17 final size:17
Alignment explanation
Indices: 23398286--23398320 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23398276 ATTAATCAAA
*
23398286 AAATAAAACGTAAACAT
1 AAATAAAACATAAACAT
*
23398303 AAATAAAATATAAACAT
1 AAATAAAACATAAACAT
23398320 A
1 A
23398321 CTTAACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.03, T:0.20
Consensus pattern (17 bp):
AAATAAAACATAAACAT
Done.