Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 133 of 182
Found at i:41766175 original size:21 final size:21
Alignment explanation
Indices: 41766151--41766193 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
41766141 GTGTCTTGGC
41766151 ATAATTCTTAAGATTATACAT
1 ATAATTCTTAAGATTATACAT
41766172 ATAATTCTTAAGATTATACAT
1 ATAATTCTTAAGATTATACAT
41766193 A
1 A
41766194 CTTGTTCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (21 bp):
ATAATTCTTAAGATTATACAT
Found at i:41768998 original size:49 final size:49
Alignment explanation
Indices: 41768919--41769041 Score: 162
Period size: 49 Copynumber: 2.5 Consensus size: 49
41768909 ATAAAATATA
* *
41768919 AGATCTAAACAAA-ACAATATAAATAAATATTTATGTTTATGTAAAACACC
1 AGATCTAAACAAACA-AAT-TAAATAAATATTTATATGTATGTAAAACACC
* *
41768969 AGATCTAAACAAACAAATTAAATAAATATTTATATGTATTTAAAACATC
1 AGATCTAAACAAACAAATTAAATAAATATTTATATGTATGTAAAACACC
*
41769018 AGATCT-GA-AAACAAATTAAATAAA
1 AGATCTAAACAAACAAATTAAATAAA
41769042 CAAGATACAA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
47 16 0.24
48 1 0.01
49 33 0.49
50 16 0.24
51 1 0.01
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (49 bp):
AGATCTAAACAAACAAATTAAATAAATATTTATATGTATGTAAAACACC
Found at i:41775109 original size:13 final size:14
Alignment explanation
Indices: 41775079--41775115 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
41775069 TTATAAGCAC
41775079 AATAAAATATACAA
1 AATAAAATATACAA
41775093 AATAAAATATA-AA
1 AATAAAATATACAA
41775106 AATAAAATAT
1 AATAAAATAT
41775116 TATTTTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AATAAAATATACAA
Found at i:41776874 original size:23 final size:24
Alignment explanation
Indices: 41776815--41776874 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
41776805 TATTTTAAAC
* *
41776815 AAATTGATTATTTGGTAAAACTTTT
1 AAATTTATT-TTTTGTAAAACTTTT
41776840 AAATTTATTTTTTGTAAAA-TTTAT
1 AAATTTATTTTTTGTAAAACTTT-T
*
41776864 AATTTTATTTT
1 AAATTTATTTT
41776875 AATATAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.10
24 20 0.65
25 8 0.26
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.57
Consensus pattern (24 bp):
AAATTTATTTTTTGTAAAACTTTT
Found at i:41779077 original size:21 final size:20
Alignment explanation
Indices: 41779053--41779092 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
41779043 ATTTTTTTTT
41779053 AATAATTTTTGAATTTTTAAA
1 AATAATTTTT-AATTTTTAAA
* *
41779074 AATACTTTTTTATTTTTAA
1 AATAATTTTTAATTTTTAA
41779093 TATTCATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (20 bp):
AATAATTTTTAATTTTTAAA
Found at i:41779738 original size:22 final size:21
Alignment explanation
Indices: 41779695--41779738 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
41779685 TAATTTAGTT
* *
41779695 TAAATAATTTTATTAGAGTAA
1 TAAATAATTTGATTACAGTAA
*
41779716 TAAATAATATTGATTACATTAA
1 TAAATAAT-TTGATTACAGTAA
41779738 T
1 T
41779739 GGTTTATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (21 bp):
TAAATAATTTGATTACAGTAA
Found at i:41780986 original size:25 final size:25
Alignment explanation
Indices: 41780958--41781005 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
41780948 TATTATCATT
*
41780958 ATTATTTAATATTTTAAG-TAAATTA
1 ATTAATTAAT-TTTTAAGTTAAATTA
*
41780983 ATTAATTGATTTTTAAGTTAAAT
1 ATTAATTAATTTTTAAGTTAAAT
41781006 AAATATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (25 bp):
ATTAATTAATTTTTAAGTTAAATTA
Found at i:41788830 original size:17 final size:17
Alignment explanation
Indices: 41788808--41788845 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
41788798 ATTACTTACT
41788808 CTTTATTTTCAGATTTA
1 CTTTATTTTCAGATTTA
* *
41788825 CTTTATTTTTAGTTTTA
1 CTTTATTTTCAGATTTA
41788842 CTTT
1 CTTT
41788846 TGAAAGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (17 bp):
CTTTATTTTCAGATTTA
Found at i:41791441 original size:7 final size:7
Alignment explanation
Indices: 41791429--41791454 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
41791419 TTATCTTTAC
41791429 ATGCATA
1 ATGCATA
41791436 ATGCATA
1 ATGCATA
41791443 ATGCATA
1 ATGCATA
41791450 ATGCA
1 ATGCA
41791455 ACTTATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (7 bp):
ATGCATA
Found at i:41791930 original size:24 final size:23
Alignment explanation
Indices: 41791867--41791956 Score: 126
Period size: 24 Copynumber: 3.7 Consensus size: 23
41791857 CCTTTCTTTC
41791867 TTCAGCCATTGAAGATGTTTCTT
1 TTCAGCCATTGAAGATGTTTCTT
*
41791890 GTTCAGGCCCATTGAAGACGTTTTCTT
1 -TTCA-G-CCATTGAAGATG-TTTCTT
41791917 TTCAGCCATTGAAGATGTTTCTTT
1 TTCAGCCATTGAAGATGTTTC-TT
41791941 TTCAGCCATTGAAGAT
1 TTCAGCCATTGAAGAT
41791957 TTTGCTGACG
Statistics
Matches: 60, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
23 4 0.07
24 33 0.55
25 2 0.03
26 15 0.25
27 6 0.10
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (23 bp):
TTCAGCCATTGAAGATGTTTCTT
Found at i:41792022 original size:24 final size:24
Alignment explanation
Indices: 41791961--41792014 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
41791951 GAAGATTTTG
* * *
41791961 CTGACGACGCTTCTTTTTCAGTCA
1 CTGAAGACGTTTCTTTTTCAGCCA
*
41791985 TTGAAGACGTTTCTTTTTCAGCCA
1 CTGAAGACGTTTCTTTTTCAGCCA
41792009 CTGAAG
1 CTGAAG
41792015 TTGTTTCTGC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (24 bp):
CTGAAGACGTTTCTTTTTCAGCCA
Found at i:41793971 original size:36 final size:37
Alignment explanation
Indices: 41793914--41793993 Score: 101
Period size: 36 Copynumber: 2.2 Consensus size: 37
41793904 GAACGAGGAA
41793914 ATTAATATTTCAAATAATTTTTTATATTTATATAAATC
1 ATTAATATTTCAAATAATTTTTTATATTTA-ATAAATC
* * *
41793952 ATTAAT-TTTTAAAT-ATTTTTTATTTTTAATAATTC
1 ATTAATATTTCAAATAATTTTTTATATTTAATAAATC
*
41793987 ATGAATA
1 ATTAATA
41793994 AAAATGGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 11 0.30
36 13 0.35
37 7 0.19
38 6 0.16
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (37 bp):
ATTAATATTTCAAATAATTTTTTATATTTAATAAATC
Found at i:41796018 original size:25 final size:25
Alignment explanation
Indices: 41795984--41796038 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
41795974 GATGAATTTC
41795984 AAAATGTGGTTAACATGTTGCATGT
1 AAAATGTGGTTAACATGTTGCATGT
41796009 AAAATGTGGTTAACATGTTGCATGT
1 AAAATGTGGTTAACATGTTGCATGT
41796034 AAAAT
1 AAAAT
41796039 CAGTTCATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (25 bp):
AAAATGTGGTTAACATGTTGCATGT
Found at i:41796841 original size:283 final size:283
Alignment explanation
Indices: 41796334--41796904 Score: 1142
Period size: 283 Copynumber: 2.0 Consensus size: 283
41796324 AAATAAATGG
41796334 ATGATATAGAAGAATGTAAAGTGAGGAATCAGAATAGAGAAGTTCACAATAAAATATTAAAGGCA
1 ATGATATAGAAGAATGTAAAGTGAGGAATCAGAATAGAGAAGTTCACAATAAAATATTAAAGGCA
41796399 ACCTGTGTTGCAAAGAAATTATTGGTTTGACAGCATTTTGATTTCCAGCTATGCCCTTAAACCTT
66 ACCTGTGTTGCAAAGAAATTATTGGTTTGACAGCATTTTGATTTCCAGCTATGCCCTTAAACCTT
41796464 TTCAACTCATTCTCTTTCTTCCCACAATAGTCATGCATGTCAGCCAACGCAATTGCCACCATTTC
131 TTCAACTCATTCTCTTTCTTCCCACAATAGTCATGCATGTCAGCCAACGCAATTGCCACCATTTC
41796529 ACCACAAATGACATTTTGACAGTACGTGATAATATAAAAAACCCAAACCTCAATATCGCTAAAAA
196 ACCACAAATGACATTTTGACAGTACGTGATAATATAAAAAACCCAAACCTCAATATCGCTAAAAA
41796594 ATGTGAAGCATAGAAAAATCCTA
261 ATGTGAAGCATAGAAAAATCCTA
41796617 ATGATATAGAAGAATGTAAAGTGAGGAATCAGAATAGAGAAGTTCACAATAAAATATTAAAGGCA
1 ATGATATAGAAGAATGTAAAGTGAGGAATCAGAATAGAGAAGTTCACAATAAAATATTAAAGGCA
41796682 ACCTGTGTTGCAAAGAAATTATTGGTTTGACAGCATTTTGATTTCCAGCTATGCCCTTAAACCTT
66 ACCTGTGTTGCAAAGAAATTATTGGTTTGACAGCATTTTGATTTCCAGCTATGCCCTTAAACCTT
41796747 TTCAACTCATTCTCTTTCTTCCCACAATAGTCATGCATGTCAGCCAACGCAATTGCCACCATTTC
131 TTCAACTCATTCTCTTTCTTCCCACAATAGTCATGCATGTCAGCCAACGCAATTGCCACCATTTC
41796812 ACCACAAATGACATTTTGACAGTACGTGATAATATAAAAAACCCAAACCTCAATATCGCTAAAAA
196 ACCACAAATGACATTTTGACAGTACGTGATAATATAAAAAACCCAAACCTCAATATCGCTAAAAA
41796877 ATGTGAAGCATAGAAAAATCCTA
261 ATGTGAAGCATAGAAAAATCCTA
41796900 ATGAT
1 ATGAT
41796905 CATTGACCAA
Statistics
Matches: 288, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
283 288 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.28
Consensus pattern (283 bp):
ATGATATAGAAGAATGTAAAGTGAGGAATCAGAATAGAGAAGTTCACAATAAAATATTAAAGGCA
ACCTGTGTTGCAAAGAAATTATTGGTTTGACAGCATTTTGATTTCCAGCTATGCCCTTAAACCTT
TTCAACTCATTCTCTTTCTTCCCACAATAGTCATGCATGTCAGCCAACGCAATTGCCACCATTTC
ACCACAAATGACATTTTGACAGTACGTGATAATATAAAAAACCCAAACCTCAATATCGCTAAAAA
ATGTGAAGCATAGAAAAATCCTA
Found at i:41816414 original size:30 final size:30
Alignment explanation
Indices: 41816378--41816434 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
41816368 ATAGCATCAA
41816378 AATAAA-GCA-TTGAGAGTGTAAGAGTGGGAC
1 AATAAAGGCAGTTGAGAGTG-AA-AGTGGGAC
41816408 AATAAAGGCAGTTGAGAGTGAAAGTGG
1 AATAAAGGCAGTTGAGAGTGAAAGTGG
41816435 ACTTATTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 11 0.44
31 5 0.20
32 9 0.36
ACGTcount: A:0.40, C:0.05, G:0.35, T:0.19
Consensus pattern (30 bp):
AATAAAGGCAGTTGAGAGTGAAAGTGGGAC
Found at i:41823924 original size:22 final size:21
Alignment explanation
Indices: 41823899--41823940 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
41823889 GATAATTGGA
* *
41823899 ATAAATAATTGTCATGTTAATC
1 ATAAACAATTG-CATCTTAATC
41823921 ATAAACAATTGCATCTTAAT
1 ATAAACAATTGCATCTTAAT
41823941 TCCTTTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (21 bp):
ATAAACAATTGCATCTTAATC
Found at i:41837030 original size:148 final size:148
Alignment explanation
Indices: 41836762--41837057 Score: 423
Period size: 148 Copynumber: 2.0 Consensus size: 148
41836752 CATTGGAGGA
* * * *
41836762 ATTCTGTGTGAATTCTTAATTGTTGGTGGTTAGACTGGCTTAAGTGTGTTTGAAACGAAGGAATC
1 ATTCTGTGTGAATCCTCAATTGTTGGTGGTTAGACTGACTTAAGTGTGTTTGAAACAAAGGAATC
** ** *
41836827 GCTTAAGGTTGCACGCATTGTGAGACTAAAGTTCTAGCCCCGTGACACTTGTATCAACAATATTA
66 GCTTAAGGACGCACGCATTGCAAGACTAAAGTTCTAGCCCCATGACACTTGTATCAACAATATTA
41836892 AACTTTAGTAAGTGAGAT
131 AACTTTAGTAAGTGAGAT
* * * *
41836910 ATTCTGTGTGACTCCTCAATTGTTGGTGGTTAGATTGATTTAGGTGTGTTTGAAACAAAGGAATC
1 ATTCTGTGTGAATCCTCAATTGTTGGTGGTTAGACTGACTTAAGTGTGTTTGAAACAAAGGAATC
** * *
41836975 G-TCTAAGGACGCACGGTTTGCAAGATTAAAGTTCTAGTCCCATGACACTTGTATCAACAATATT
66 GCT-TAAGGACGCACGCATTGCAAGACTAAAGTTCTAGCCCCATGACACTTGTATCAACAATATT
41837039 AAACTTTAGTAAGTGAGAT
130 AAACTTTAGTAAGTGAGAT
41837058 GAAATTTCTT
Statistics
Matches: 130, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
147 1 0.01
148 129 0.99
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (148 bp):
ATTCTGTGTGAATCCTCAATTGTTGGTGGTTAGACTGACTTAAGTGTGTTTGAAACAAAGGAATC
GCTTAAGGACGCACGCATTGCAAGACTAAAGTTCTAGCCCCATGACACTTGTATCAACAATATTA
AACTTTAGTAAGTGAGAT
Found at i:41839217 original size:13 final size:13
Alignment explanation
Indices: 41839201--41839226 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41839191 TGTAAAAAAG
41839201 GAAGCAGAATTTT
1 GAAGCAGAATTTT
41839214 GAAGCAGAATTTT
1 GAAGCAGAATTTT
41839227 TAGCTTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (13 bp):
GAAGCAGAATTTT
Found at i:41843357 original size:18 final size:19
Alignment explanation
Indices: 41843312--41843403 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 19
41843302 TTACAAAAAA
*
41843312 AAAAAAAATCAAAATAATT
1 AAAAAAAATTAAAATAATT
*
41843331 AAAAAAAATTAAAATATTT
1 AAAAAAAATTAAAATAATT
* * *
41843350 ATAAAAATTTCAAAATTTTATT
1 AAAAAAAATT-AAAA--TAATT
** *
41843372 TTAAAAAATTAAAAAAAACTT
1 AAAAAAAATT-AAAATAA-TT
41843393 AAAAAAAATTA
1 AAAAAAAATTA
41843404 TAAAAAATAA
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
19 25 0.45
20 6 0.11
21 10 0.18
22 15 0.27
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.30
Consensus pattern (19 bp):
AAAAAAAATTAAAATAATT
Found at i:41843394 original size:11 final size:10
Alignment explanation
Indices: 41843374--41843411 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
41843364 ATTTTATTTT
41843374 AAAAAATTAA
1 AAAAAATTAA
41843384 AAAAAACTTAA
1 AAAAAA-TTAA
*
41843395 AAAAAATTAT
1 AAAAAATTAA
41843405 AAAAAAT
1 AAAAAAT
41843412 AAATATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAAAATTAA
Found at i:41843421 original size:21 final size:20
Alignment explanation
Indices: 41843374--41843428 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
41843364 ATTTTATTTT
41843374 AAAAAATTAAAAAAAACTTAA
1 AAAAAATTAAAAAAAAC-TAA
*
41843395 AAAAAATTATAAAAAA-TAA
1 AAAAAATTAAAAAAAACTAA
41843414 ATATAAAAGTTAAAA
1 A-A-AAAA-TTAAAA
41843429 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 4 0.14
20 1 0.03
21 19 0.66
22 5 0.17
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAAAATTAAAAAAAACTAA
Found at i:41846212 original size:2 final size:2
Alignment explanation
Indices: 41846205--41846231 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
41846195 CAAAAACTTC
41846205 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
41846232 CCCCACAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:41853720 original size:12 final size:12
Alignment explanation
Indices: 41853703--41853744 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
41853693 TCATGTTCAC
41853703 GAACATATAATT
1 GAACATATAATT
*
41853715 GAACATATTCA-T
1 GAACATA-TAATT
*
41853727 GAACATTTAATT
1 GAACATATAATT
41853739 GAACAT
1 GAACAT
41853745 GTTCACGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 2 0.08
12 21 0.84
13 2 0.08
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (12 bp):
GAACATATAATT
Found at i:41853730 original size:24 final size:24
Alignment explanation
Indices: 41853698--41853756 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
41853688 TTGTTTCATG
41853698 TTCACGAACATATAATTGAACATA
1 TTCACGAACATATAATTGAACATA
* * *
41853722 TTCATGAACATTTAATTGAACATG
1 TTCACGAACATATAATTGAACATA
41853746 TTCACGAACAT
1 TTCACGAACAT
41853757 GTTCATAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (24 bp):
TTCACGAACATATAATTGAACATA
Found at i:41853755 original size:36 final size:36
Alignment explanation
Indices: 41853715--41853791 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
41853705 ACATATAATT
* *
41853715 GAACATATTCATGAACATTTAATTGAACATGTTCAC
1 GAACATATTCATAAACATATAATTGAACATGTTCAC
*
41853751 GAACATGTTCATAAACATATAATTGAACATGTTCAC
1 GAACATATTCATAAACATATAATTGAACATGTTCAC
41853787 GAACA
1 GAACA
41853792 ATGTTAATGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.30
Consensus pattern (36 bp):
GAACATATTCATAAACATATAATTGAACATGTTCAC
Found at i:41863296 original size:3 final size:3
Alignment explanation
Indices: 41863288--41863313 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
41863278 TTAGCTTGAG
41863288 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
41863314 ACTTTTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:41866315 original size:5 final size:5
Alignment explanation
Indices: 41866275--41866314 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
41866265 AGATTGTATC
* *
41866275 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG GTGGG GTGGG
1 TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG TTGGG
41866315 GAGGGGGTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (5 bp):
TTGGG
Found at i:41871378 original size:23 final size:23
Alignment explanation
Indices: 41871347--41871698 Score: 447
Period size: 23 Copynumber: 15.3 Consensus size: 23
41871337 ATCTTAATTC
*
41871347 TTTAAGCACAAATCACATTACTA
1 TTTAAGCACAAATCACATTAATA
** *
41871370 AGTAAGCACAAAT-ATCAATAATA
1 TTTAAGCACAAATCA-CATTAATA
* *
41871393 TTTAAGTATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
41871416 TTTGAGTACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
41871439 TTTAATCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
41871462 CTTAAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
41871485 TTTGAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
41871508 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
41871531 TTTGAGTACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
41871554 TTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* *
41871577 TTTGAGCACAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
41871600 TTTAAGCATAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
*
41871623 CTTAAGCACAAATCACATTAATA
1 TTTAAGCACAAATCACATTAATA
* * *
41871646 TTTAATCATAAATCATATTAATA
1 TTTAAGCACAAATCACATTAATA
*
41871669 TTTAAGTACAAATCACA-TAATA
1 TTTAAGCACAAATCACATTAATA
41871691 TTTAAGCA
1 TTTAAGCA
41871699 TAGATATAGA
Statistics
Matches: 278, Mismatches: 49, Indels: 5
0.84 0.15 0.02
Matches are distributed among these distances:
22 13 0.05
23 264 0.95
24 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (23 bp):
TTTAAGCACAAATCACATTAATA
Found at i:41872198 original size:129 final size:129
Alignment explanation
Indices: 41871964--41872225 Score: 506
Period size: 129 Copynumber: 2.0 Consensus size: 129
41871954 CTCACATTTA
*
41871964 CAAATAAATCATACTAATACACATACTTTAACACAATTTAAAATATACGTGTCATATGCAAGCAT
1 CAAATAAATCATACTAATACACATACTTTAACACAATTTAAAATATAAGTGTCATATGCAAGCAT
*
41872029 TACAATCAATTAGAGATCAATATTGGGCATTATTAGAACTTTTAAAAGAACATATAATTTTCCC
66 TACAATCAATTAGAGATCAATATTGGGCATTATTAAAACTTTTAAAAGAACATATAATTTTCCC
41872093 CAAATAAATCATACTAATACACATACTTTAACACAATTTAAAATATAAGTGTCATATGCAAGCAT
1 CAAATAAATCATACTAATACACATACTTTAACACAATTTAAAATATAAGTGTCATATGCAAGCAT
41872158 TACAATCAATTAGAGATCAATATTGGGCATTATTAAAACTTTTAAAAGAACATATAATTTTCCC
66 TACAATCAATTAGAGATCAATATTGGGCATTATTAAAACTTTTAAAAGAACATATAATTTTCCC
41872222 CAAA
1 CAAA
41872226 ATAGGGGCAC
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 131 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (129 bp):
CAAATAAATCATACTAATACACATACTTTAACACAATTTAAAATATAAGTGTCATATGCAAGCAT
TACAATCAATTAGAGATCAATATTGGGCATTATTAAAACTTTTAAAAGAACATATAATTTTCCC
Found at i:41873670 original size:80 final size:80
Alignment explanation
Indices: 41873518--41873883 Score: 480
Period size: 80 Copynumber: 4.6 Consensus size: 80
41873508 CGATCTTGGT
* * * **
41873518 ACCCAGTGCTTAGCAGATAAACTGCAAAAGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATAT
1 ACCCAATGCCTAGCGGATAAACCACAAAAGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATAT
* *
41873583 CCATCAAATCCTGGC
66 CCGTCAAATCCTAGC
* * * *
41873598 ACTCACTGCCTAGTGGATAAACCACAAAAGTGAACTCAGCTCTAGTTGGATTAACCAACAAATAT
1 ACCCAATGCCTAGCGGATAAACCACAAAAGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATAT
** * *
41873663 TTGTCAAATTCTGGC
66 CCGTCAAATCCTAGC
* * * * * *
41873678 ACCCAGTGCCTAGCGGATAAACCGCGAAAGTGAGCCCAACTCTAGTTGGATTGACCAACAAATAT
1 ACCCAATGCCTAGCGGATAAACCACAAAAGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATAT
41873743 CCGTCAAATCCTAGC
66 CCGTCAAATCCTAGC
* *
41873758 ACCCAATGCCTAGCGAATAAACCACAAAAGTGAGTTCAGCTCTAGTTGGATTAACCAACAAATAT
1 ACCCAATGCCTAGCGGATAAACCACAAAAGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATAT
41873823 CCGTCAAATCCTAGC
66 CCGTCAAATCCTAGC
* * * * *
41873838 ACCTAATGTCTAGCAGATAAACCACAAAAGTGAGCCCAACTCTAGT
1 ACCCAATGCCTAGCGGATAAACCACAAAAGTGAGCTCAGCTCTAGT
41873884 CAGTTAGACT
Statistics
Matches: 246, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 246 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.22
Consensus pattern (80 bp):
ACCCAATGCCTAGCGGATAAACCACAAAAGTGAGCTCAGCTCTAGTTGGATTAACCAACAAATAT
CCGTCAAATCCTAGC
Found at i:41875181 original size:2 final size:2
Alignment explanation
Indices: 41875174--41875198 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
41875164 ACAACCCTTT
41875174 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
41875199 CCAATTATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:41878560 original size:5 final size:5
Alignment explanation
Indices: 41878550--41878577 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
41878540 TGTGTTTATG
41878550 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
41878578 ATGTTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:41884102 original size:2 final size:2
Alignment explanation
Indices: 41884095--41884121 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
41884085 CCATTATCTA
41884095 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
41884122 AGCCAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:41889080 original size:26 final size:27
Alignment explanation
Indices: 41889049--41889104 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
41889039 TACTTTTTAC
* *
41889049 TTATTTGAAT-TTTAGTCTCTCTACTT
1 TTATTTCAATATTTAGTCCCTCTACTT
41889075 TTATTTCAATGAATTTAGTCCCTCTACTT
1 TTATTTCAAT--ATTTAGTCCCTCTACTT
41889104 T
1 T
41889105 ACAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.36
29 16 0.64
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (27 bp):
TTATTTCAATATTTAGTCCCTCTACTT
Found at i:41889334 original size:28 final size:27
Alignment explanation
Indices: 41889289--41889351 Score: 90
Period size: 28 Copynumber: 2.3 Consensus size: 27
41889279 CTGAATGTTG
*
41889289 AAATATAAAAATTAAAAGACTAAATTCGT
1 AAATAT-AAAAGTAAAAGACTAAATT-GT
*
41889318 AAATATAAAAGTAAAAGACTAAATTTT
1 AAATATAAAAGTAAAAGACTAAATTGT
41889345 AAATATA
1 AAATATA
41889352 CAAAAAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 8 0.25
28 18 0.56
29 6 0.19
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.29
Consensus pattern (27 bp):
AAATATAAAAGTAAAAGACTAAATTGT
Found at i:41893127 original size:81 final size:80
Alignment explanation
Indices: 41892992--41893183 Score: 260
Period size: 81 Copynumber: 2.4 Consensus size: 80
41892982 TTATCCTCCA
* * * * * * *
41892992 ACCGAGTCATAAGTTCTTTCATTTACAATAATTTTATACTCTTACCGAGTCATAAGTCTTCCTTT
1 ACCGAGACATAAG-TCTTCCTTTTA-AACAATCTTATGCT-TTACCGAGACATAAGTCTTCCTTT
41893057 T-AATCAATCTTATGCTCT
63 TAAAT-AATCTTATGCTCT
*
41893075 AATCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCTTTACCGAGACATAAGTCTTCCTTTTA
1 -ACCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCTTTACCGAGACATAAGTCTTCCTTTTA
41893140 AATAATCTTATGCTCT
65 AATAATCTTATGCTCT
41893156 ACCGAGACATAAGTCTTCCTTTTAAACA
1 ACCGAGACATAAGTCTTCCTTTTAAACA
41893184 CCAAGTCTTC
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 27 0.28
81 37 0.38
82 14 0.14
83 9 0.09
84 11 0.11
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (80 bp):
ACCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCTTTACCGAGACATAAGTCTTCCTTTTAA
ATAATCTTATGCTCT
Found at i:41893133 original size:40 final size:41
Alignment explanation
Indices: 41892992--41893183 Score: 253
Period size: 40 Copynumber: 4.7 Consensus size: 41
41892982 TTATCCTCCA
* * * * * *
41892992 ACCGAGTCATAAGTTCTTTCATTTACAATAATTTTATACTCTT
1 ACCGAGACATAAG-TCTTCCTTTTA-AACAATCTTATGCTCTT
* * *
41893035 ACCGAGTCATAAGTCTTCCTTTTAATCAATCTTATGCTCTA
1 ACCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCTCTT
*
41893076 ATCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCT-TT
1 ACCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCTCTT
*
41893116 ACCGAGACATAAGTCTTCCTTTTAAATAATCTTATGCTC-T
1 ACCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCTCTT
41893156 ACCGAGACATAAGTCTTCCTTTTAAACA
1 ACCGAGACATAAGTCTTCCTTTTAAACA
41893184 CCAAGTCTTC
Statistics
Matches: 134, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 65 0.49
41 47 0.35
42 9 0.07
43 13 0.10
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (41 bp):
ACCGAGACATAAGTCTTCCTTTTAAACAATCTTATGCTCTT
Found at i:41894496 original size:23 final size:23
Alignment explanation
Indices: 41894469--41894514 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
41894459 AACTCCGATG
41894469 AGTCGAGTCAAAAATTTATTTAT
1 AGTCGAGTCAAAAATTTATTTAT
41894492 AGTCGAGTCAAAAATTTATTTAT
1 AGTCGAGTCAAAAATTTATTTAT
41894515 CTTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (23 bp):
AGTCGAGTCAAAAATTTATTTAT
Found at i:41896545 original size:21 final size:21
Alignment explanation
Indices: 41896504--41896577 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
41896494 CGAGTTTTTA
41896504 GTATCGGTAGAAGTAAG--ACTT
1 GTATCGGTAGAA--AAGTCACTT
*
41896525 GTTTCGGTAGAAAAGTCACTT
1 GTATCGGTAGAAAAGTCACTT
* **
41896546 GTATCGATAGAATTGTCACTT
1 GTATCGGTAGAAAAGTCACTT
41896567 GTATCGGTAGA
1 GTATCGGTAGA
41896578 CGTTACCTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.07
21 42 0.93
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (21 bp):
GTATCGGTAGAAAAGTCACTT
Found at i:41899002 original size:24 final size:26
Alignment explanation
Indices: 41898970--41899031 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
41898960 CCTTTTCTCC
41898970 TTTTATTTTTACTC-AT-TTATTAAA
1 TTTTATTTTTACTCTATGTTATTAAA
* * *
41898994 TTTTCTTTTTATTCTATGTTTTTAAA
1 TTTTATTTTTACTCTATGTTATTAAA
41899020 TTTAATATTTTT
1 TTT--TATTTTT
41899032 CTATTATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 12 0.40
25 2 0.07
26 10 0.33
28 6 0.20
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (26 bp):
TTTTATTTTTACTCTATGTTATTAAA
Found at i:41901902 original size:28 final size:28
Alignment explanation
Indices: 41901819--41902130 Score: 149
Period size: 29 Copynumber: 10.9 Consensus size: 28
41901809 CCTAAAAGGT
* *
41901819 CCCTC-AACTATCCAAAAATCATATTTTAA
1 CCCTCAAACT-TCC-AAAATCACATTTTTA
* * *
41901848 CCC-CTAAACTTCTTAAAATTACATTTTTT
1 CCCTC-AAACTTC-CAAAATCACATTTTTA
* * *
41901877 CTC-CGAACTTTCAAAATCACATTTTTA
1 CCCTCAAACTTCCAAAATCACATTTTTA
*
41901904 CCCTCAAACTTCCAAAATCACATTTTCA
1 CCCTCAAACTTCCAAAATCACATTTTTA
*
41901932 TCCC-CAAACTTCTCAAAAATCTCATTTTTA
1 -CCCTCAAACTTC-C-AAAATCACATTTTTA
* * * *
41901962 CCCCTCAAAATTCTTAAAAATTACATTTTTG
1 -CCCTCAAACTTC--CAAAATCACATTTTTA
* * *
41901993 CCCTCGAACTTCTAAAAATCACATTTTTGG
1 CCCTCAAACTTC-CAAAATCACATTTTT-A
* * * *
41902023 CCCT-AAACTTCTTAAATTTACATTATTA
1 CCCTCAAACTTC-CAAAATCACATTTTTA
* * * *
41902051 TCCT-GAACTTCTAAAA--A-GTTTTTA
1 CCCTCAAACTTCCAAAATCACATTTTTA
* *
41902075 -CCTCAAATTTCCCAAAATGACATTTTTA
1 CCCTCAAACTT-CCAAAATCACATTTTTA
* *
41902103 CCCTTAAAACTTTCCAAAATTACATTTT
1 CCC-TCAAAC-TTCCAAAATCACATTTT
41902131 AATCCCAAAC
Statistics
Matches: 221, Mismatches: 44, Indels: 35
0.74 0.15 0.12
Matches are distributed among these distances:
23 3 0.01
24 9 0.04
25 6 0.03
27 20 0.09
28 50 0.23
29 58 0.26
30 53 0.24
31 21 0.10
32 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.37
Consensus pattern (28 bp):
CCCTCAAACTTCCAAAATCACATTTTTA
Found at i:41901942 original size:56 final size:58
Alignment explanation
Indices: 41901831--41902053 Score: 181
Period size: 56 Copynumber: 3.8 Consensus size: 58
41901821 CTCAACTATC
* * * * * * *
41901831 CAAAAATCATATTTTAACCC-CTAAACTTCTTAAAATTACATTTTTTCTCCGAACTT-T
1 CAAAAATCACATTTTTACCCTC-AAACTTCTCAAAATCACATTTTATCCCCAAACTTCT
41901888 C-AAAATCACATTTTTACCCTCAAACTTC-CAAAATCACATTTTCATCCCCAAACTTCT
1 CAAAAATCACATTTTTACCCTCAAACTTCTCAAAATCACATTTT-ATCCCCAAACTTCT
* * * * *
41901945 CAAAAATCTCATTTTTACCCCTCAAAATTCTTAAAAATTACATTTT-TGCCCTCGAACTTCT
1 CAAAAATCACATTTTTA-CCCTCAAACTTC-TCAAAATCACATTTTAT-CCC-CAAACTTCT
* * * *
41902006 -AAAAATCACATTTTTGGCCCT-AAACTTCTTAAATTTACATTATTATCC
1 CAAAAATCACATTTTT-ACCCTCAAACTTCTCAAAATCACATT-TTATCC
41902054 TGAACTTCTA
Statistics
Matches: 137, Mismatches: 17, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
55 12 0.09
56 32 0.23
57 4 0.03
58 25 0.18
59 22 0.16
60 22 0.16
61 20 0.15
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (58 bp):
CAAAAATCACATTTTTACCCTCAAACTTCTCAAAATCACATTTTATCCCCAAACTTCT
Found at i:41901958 original size:30 final size:31
Alignment explanation
Indices: 41901818--41902034 Score: 167
Period size: 30 Copynumber: 7.5 Consensus size: 31
41901808 GCCTAAAAGG
* *
41901818 TCCCTC-AACTATC-CAAAAATCATATTTTAA
1 TCCCTCAAACT-TCTCAAAAATCACATTTTTA
* * *
41901848 CCCCT-AAACTTCT-TAAAATTACATTTTT-
1 TCCCTCAAACTTCTCAAAAATCACATTTTTA
* *
41901876 TCTC-CGAACTT-TC-AAAATCACATTTTTA
1 TCCCTCAAACTTCTCAAAAATCACATTTTTA
*
41901904 -CCCTCAAACTTC-C-AAAATCACATTTTCA
1 TCCCTCAAACTTCTCAAAAATCACATTTTTA
*
41901932 TCCC-CAAACTTCTCAAAAATCTCATTTTTA
1 TCCCTCAAACTTCTCAAAAATCACATTTTTA
* * * *
41901962 CCCCTCAAAATTCTTAAAAATTACATTTTT-
1 TCCCTCAAACTTCTCAAAAATCACATTTTTA
* * *
41901992 GCCCTCGAACTTCT-AAAAATCACATTTTTG
1 TCCCTCAAACTTCTCAAAAATCACATTTTTA
*
41902022 GCCCT-AAACTTCT
1 TCCCTCAAACTTCT
41902035 TAAATTTACA
Statistics
Matches: 151, Mismatches: 24, Indels: 25
0.75 0.12 0.12
Matches are distributed among these distances:
27 16 0.11
28 36 0.24
29 38 0.25
30 40 0.26
31 21 0.14
ACGTcount: A:0.34, C:0.28, G:0.02, T:0.36
Consensus pattern (31 bp):
TCCCTCAAACTTCTCAAAAATCACATTTTTA
Found at i:41902045 original size:29 final size:29
Alignment explanation
Indices: 41901849--41902046 Score: 142
Period size: 28 Copynumber: 6.9 Consensus size: 29
41901839 ATATTTTAAC
*
41901849 CCCT-AAACTTCTTAAAATTACATTTTTT
1 CCCTCAAACTTCTTAAAATTACATTTTTG
* * * * *
41901877 CTC-CGAACTT-TCAAAATCACATTTTTA
1 CCCTCAAACTTCTTAAAATTACATTTTTG
* *
41901904 CCCTCAAACTTC-CAAAATCACATTTTCAT-
1 CCCTCAAACTTCTTAAAATTACATTTT--TG
* *
41901933 CCC-CAAACTTCTCAAAAATCT-CATTTTTAC
1 CCCTCAAACTTCT-TAAAAT-TACATTTTT-G
*
41901963 CCCTCAAAATTCTTAAAAATTACATTTTTG
1 CCCTCAAACTTCTT-AAAATTACATTTTTG
* * *
41901993 CCCTCGAACTTCTAAAAATCACATTTTTGG
1 CCCTCAAACTTCTTAAAATTACATTTTT-G
*
41902023 CCCT-AAACTTCTTAAATTTACATT
1 CCCTCAAACTTCTTAAAATTACATT
41902047 ATTATCCTGA
Statistics
Matches: 136, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
27 16 0.12
28 36 0.26
29 32 0.24
30 32 0.24
31 20 0.15
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
CCCTCAAACTTCTTAAAATTACATTTTTG
Found at i:41902536 original size:97 final size:96
Alignment explanation
Indices: 41902417--41902609 Score: 298
Period size: 97 Copynumber: 2.0 Consensus size: 96
41902407 AAAATATTTA
* * *
41902417 AAATCGAGGCAATATTCCTTTATTTCGGGTTTTGAAAATTTGTGCCTTAACTTACTAGGTGCG-A
1 AAATCGAGGCAACATTCCTTTATCTCGGGTTTTGAAAATTTGTGCC-TAACTTACTAGGCGCGAA
*
41902481 TTTTTCTTCAAATCAGGATAATCGAATACCCTT
65 TTTTT-TTCAAACCAGGATAATCGAATACCCTT
*
41902514 AAATCGAGGCAACATTCTTTTATCTCGGGTTTTGAAAATTTGTGCCTAACTTACTAGGCGCGAAT
1 AAATCGAGGCAACATTCCTTTATCTCGGGTTTTGAAAATTTGTGCCTAACTTACTAGGCGCGAAT
* *
41902579 TTTTTTCAAACCGGGATAATCGAATGCCCTT
66 TTTTTTCAAACCAGGATAATCGAATACCCTT
41902610 TTTCAAAGTT
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
96 39 0.44
97 49 0.56
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (96 bp):
AAATCGAGGCAACATTCCTTTATCTCGGGTTTTGAAAATTTGTGCCTAACTTACTAGGCGCGAAT
TTTTTTCAAACCAGGATAATCGAATACCCTT
Found at i:41904355 original size:17 final size:18
Alignment explanation
Indices: 41904312--41904357 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
41904302 AAGTTTTTTC
*
41904312 TAAAATTTAAACTTAATAA
1 TAAAA-TTAAATTTAATAA
*
41904331 -AAATTTAAATTTAA-AA
1 TAAAATTAAATTTAATAA
41904347 TAAAATTAAAT
1 TAAAATTAAAT
41904358 GTCCAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 2 0.09
17 18 0.78
18 3 0.13
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (18 bp):
TAAAATTAAATTTAATAA
Found at i:41904784 original size:24 final size:23
Alignment explanation
Indices: 41904752--41904800 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
41904742 AAAGGGATAT
41904752 AAACCCTGTTC-TGAAAATCAATAC
1 AAACCCTGTTCTTGAAAA--AATAC
41904776 AAACCCTGTTCTTGAAAAAATAC
1 AAACCCTGTTCTTGAAAAAATAC
41904799 AA
1 AA
41904801 CCCAACTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 7 0.29
24 11 0.46
25 6 0.25
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (23 bp):
AAACCCTGTTCTTGAAAAAATAC
Found at i:41906225 original size:58 final size:58
Alignment explanation
Indices: 41906162--41906520 Score: 329
Period size: 58 Copynumber: 6.2 Consensus size: 58
41906152 AGAAATTACC
* *
41906162 ATTTTACCCCCGAACTTTCCAAAATCCCA-TTATAACACAGATTTCACCAAAAATTAT
1 ATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACACAGATTTCACCAAAAATTAT
* * * *
41906219 ATTTTTACCCTCAAACTTTTCAAAATCCCA-TTATAACCCAGATTTCACCAAAAATTAT
1 A-TTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACACAGATTTCACCAAAAATTAT
* * * * * * *
41906277 CATTTTACCCTCGAACTTTTCAAAATCCCATTTTTAAAACCAAATTTCACTAAAAATTACC
1 -ATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACA-CAGATTTCACCAAAAATTA-T
* * * * * *
41906338 ATTTTAACCCTAAACTTTCCAAAATTCCATTTTTAACCCCA-ATTTCACC-AAAACTACC
1 ATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAA-CACAGATTTCACCAAAAATTA-T
* * *
41906396 ATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAATC-CCGATTTCACCAAAAAGTAT
1 ATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAA-CACAGATTTCACCAAAAATTAT
* * * * *
41906454 ATTTTGACCCCCAAACTTTCC-AAATTCTAATTTTGAC-CTAGATTTCACC-AAAATTACC
1 ATTTT-ACCCCCAAACTTTCCAAAATCCCATTTTTAACAC-AGATTTCACCAAAAATTA-T
41906512 ATTTTACCC
1 ATTTTACCC
41906521 TCGAAAGTCA
Statistics
Matches: 258, Mismatches: 33, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
57 14 0.05
58 161 0.62
59 34 0.13
60 49 0.19
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.34
Consensus pattern (58 bp):
ATTTTACCCCCAAACTTTCCAAAATCCCATTTTTAACACAGATTTCACCAAAAATTAT
Found at i:41906362 original size:29 final size:27
Alignment explanation
Indices: 41906154--41906428 Score: 108
Period size: 29 Copynumber: 9.4 Consensus size: 27
41906144 GACTGTTCAG
* *
41906154 AAATTACCATTTTACCCCCGAACTTTCCA
1 AAATT-CCATTTTA-ACCCAAACTTTCCA
* * * *
41906183 AAATCCCATTATAACACAGA-TTTCACCAA
1 AAATTCCATTTTAACCCAAACTTT--CC-A
** * *
41906212 AAATTATATTTTTACCCTCAAACTTTTCA
1 AAATTCCA-TTTTAACC-CAAACTTTCCA
* * *
41906241 AAATCCCATTATAACCCAGA-TTTCACCAA
1 AAATTCCATTTTAACCCAAACTTT--CC-A
* * * *
41906270 AAATTATCATTTTACCCTCGAACTTTTCA
1 AAATT-CCATTTTAACC-CAAACTTTCCA
* *
41906299 AAATCCCATTTTTAAAACCAAA-TTTCACTAA
1 AAATTCCA-TTTT-AACCCAAACTTTC-C--A
41906330 AAATTACCATTTTAACCCTAAACTTTCCA
1 AAATT-CCATTTTAACCC-AAACTTTCCA
*
41906359 AAATTCCATTTTTAACCCCAA-TTTCACCA
1 AAATTCCA-TTTTAACCCAAACTTT--CCA
* *
41906388 AAACTACCATTTTACCCCCAAACTTTCCA
1 AAA-TTCCATTTTA-ACCCAAACTTTCCA
41906417 AAATTCCATTTT
1 AAATTCCATTTT
41906429 TAATCCCGAT
Statistics
Matches: 179, Mismatches: 41, Indels: 53
0.66 0.15 0.19
Matches are distributed among these distances:
26 6 0.03
27 9 0.05
28 34 0.19
29 66 0.37
30 30 0.17
31 21 0.12
32 13 0.07
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.33
Consensus pattern (27 bp):
AAATTCCATTTTAACCCAAACTTTCCA
Found at i:41906429 original size:29 final size:29
Alignment explanation
Indices: 41906290--41906431 Score: 123
Period size: 29 Copynumber: 4.8 Consensus size: 29
41906280 TTTACCCTCG
* * **
41906290 AACTTTTCAAAATCCCATTTTTAAAACCA
1 AACTTTCCAAAATTCCATTTTTAACCCCA
*
41906319 AA-TTTCACTAAAAATTACCA-TTTTAACCCTA
1 AACTTTC-C--AAAATT-CCATTTTTAACCCCA
41906350 AACTTTCCAAAATTCCATTTTTAACCCC-
1 AACTTTCCAAAATTCCATTTTTAACCCCA
* *
41906378 AA-TTTCACCAAAACTACCA-TTTTACCCCCA
1 AACTTT--CCAAAA-TTCCATTTTTAACCCCA
41906408 AACTTTCCAAAATTCCATTTTTAA
1 AACTTTCCAAAATTCCATTTTTAA
41906432 TCCCGATTTC
Statistics
Matches: 91, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
27 3 0.03
28 12 0.13
29 44 0.48
30 6 0.07
31 19 0.21
32 7 0.08
ACGTcount: A:0.38, C:0.27, G:0.00, T:0.35
Consensus pattern (29 bp):
AACTTTCCAAAATTCCATTTTTAACCCCA
Found at i:41906446 original size:29 final size:29
Alignment explanation
Indices: 41906297--41906448 Score: 109
Period size: 29 Copynumber: 5.2 Consensus size: 29
41906287 TCGAACTTTT
* * *
41906297 CAAAATCCCATTTTTAAAACCAAATTTCAC
1 CAAAATTCCATTTTT-AACCCCAATTTCAC
* *
41906327 TAAAAATTACCA-TTTTAACCCTAAACTTT--C
1 -CAAAATT-CCATTTTTAACCC-CAA-TTTCAC
41906357 CAAAATTCCATTTTTAACCCCAATTTCAC
1 CAAAATTCCATTTTTAACCCCAATTTCAC
* *
41906386 CAAAACTACCA-TTTTACCCCCAAACTTT--C
1 CAAAA-TTCCATTTTTAACCCC-AA-TTTCAC
* *
41906415 CAAAATTCCATTTTTAATCCCGATTTCAC
1 CAAAATTCCATTTTTAACCCCAATTTCAC
41906444 CAAAA
1 CAAAA
41906449 AGTATATTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
27 6 0.06
28 10 0.10
29 50 0.51
30 11 0.11
31 15 0.15
32 6 0.06
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.32
Consensus pattern (29 bp):
CAAAATTCCATTTTTAACCCCAATTTCAC
Found at i:41919026 original size:201 final size:201
Alignment explanation
Indices: 41918680--41919730 Score: 1612
Period size: 201 Copynumber: 5.2 Consensus size: 201
41918670 GGAGTAGTTC
* *
41918680 AACAAGCAAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACACTCAACA--
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAA-ATG
* * ** *
41918743 CGAGCAAATCTTCGAACCCAGCTTCCAAATGAGACACTGAGAAGCAAGTCGAAGCAATAAAGAGG
65 CGAGCAAAACTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGG
* * *
41918808 TTAGCTTCCTAATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAAATCCAGAGAAGC
130 TTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
41918873 GAATTAA
195 GAATTAA
*
41918880 AACAAGCGAGGCAGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
*
41918945 GAGCAAAACTTTGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
66 GAGCAAAACTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
* *
41919010 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCATCTTCCTTAGGAGATCCAGAGAAGCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
41919075 AATTAA
196 AATTAA
*
41919081 AACAAGCGAGGCGGTTATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
41919146 GAGCAAAACTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
66 GAGCAAAACTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
* *
41919211 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTTGTCTTCTTGAGGAGATCCAGAGAAGCG
131 TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
41919276 AATTAA
196 AATTAA
* *
41919282 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGGATACCAACTCAACACTCAAATGC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
* * * *
41919347 GAGCAAAACTTCGAACTCGACTTCCTGATGAGA-GCTGAGAAGC-AGTTCGAAGCAATAAAATGG
66 GAGCAAAACTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAG-TCGAAGCAATAAAAAGG
*
41919410 TTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGTGGAGATCCAGAGAAGC
130 TTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
41919475 GAATTAA
195 GAATTAA
* * * * *
41919482 AACGAGCGAGGCGATCATCTTCCTGATGAGATATAGAGAAAAACACCAACTCAACGCTC-AATGC
1 AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
* * * * * * *
41919546 GAG-AAAATATTTGAACCCAGCTTCCTGATGAGACACTAAGAAGCAGGTCGAAACAATAAAATGG
66 GAGCAAAA-CTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGG
* *
41919610 TTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGC
130 TTAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGC
41919675 GAATTAA
195 GAATTAA
* ** * * *
41919682 AAC-AGATGATTACGGTCATCTTCCTGATGAGACACAGGGAAGAAGACCA
1 AACAAG-CGA-GGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCA
41919731 TGTCAATGAA
Statistics
Matches: 784, Mismatches: 59, Indels: 15
0.91 0.07 0.02
Matches are distributed among these distances:
198 4 0.01
199 33 0.04
200 302 0.39
201 445 0.57
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (201 bp):
AACAAGCGAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAAATGC
GAGCAAAACTTCGAACCCGGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGT
TAGCTTCCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCG
AATTAA
Found at i:41920499 original size:24 final size:23
Alignment explanation
Indices: 41920464--41920512 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
41920454 AAAGGGATAT
*
41920464 AAACCCTGTTC-TGAAAATCAATAC
1 AAACCCTATTCTTGAAAA--AATAC
41920488 AAACCCTATTCTTGAAAAAATAC
1 AAACCCTATTCTTGAAAAAATAC
41920511 AA
1 AA
41920513 CCCAACTCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 7 0.30
24 10 0.43
25 6 0.26
ACGTcount: A:0.47, C:0.22, G:0.06, T:0.24
Consensus pattern (23 bp):
AAACCCTATTCTTGAAAAAATAC
Found at i:41921957 original size:29 final size:29
Alignment explanation
Indices: 41921925--41922027 Score: 95
Period size: 29 Copynumber: 3.5 Consensus size: 29
41921915 GATTTCAACA
*
41921925 AAAATTATATTTTTACCCCCAAACTTTCC
1 AAAATTACATTTTTACCCCCAAACTTTCC
* * *
41921954 AAAATTCCATTTTTAACCCC-GA-TTTCATC
1 AAAATTACATTTTTACCCCCAAACTTTC--C
*
41921983 GAAAATTACCA-TTTTACCCCTAAACTTTCC
1 -AAAATTA-CATTTTTACCCCCAAACTTTCC
*
41922013 AAAATTCCATTTTTA
1 AAAATTACATTTTTA
41922028 ACCTCGATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
27 4 0.07
28 3 0.05
29 29 0.50
30 15 0.26
31 3 0.05
32 4 0.07
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTTACCCCCAAACTTTCC
Found at i:41922043 original size:29 final size:29
Alignment explanation
Indices: 41921952--41922122 Score: 111
Period size: 29 Copynumber: 5.8 Consensus size: 29
41921942 CCCAAACTTT
*
41921952 CCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAATTCCATTTTTAACCTCGATTTCA
* * **
41921981 TCGAAAATTACCA-TTTTACCCCTAAACTTT--
1 -CCAAAATT-CCATTTTTA-ACCTCGA-TTTCA
41922011 CCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAATTCCATTTTTAACCTCGATTTCA
* ** * *
41922040 CCAAAAAGTATATTTTGACCCTCGAACTTT--
1 CC-AAAATTCCATTTTTAACCTCG-A-TTTCA
* *
41922070 CCAAAATTCCAATTTTAACCCCGATTTCA
1 CCAAAATTCCATTTTTAACCTCGATTTCA
*
41922099 CCAAAATTACCA-TTTTACCCTCGA
1 CCAAAATT-CCATTTTTAACCTCGA
41922123 AATTAAAAAA
Statistics
Matches: 106, Mismatches: 23, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
27 6 0.06
28 8 0.08
29 46 0.43
30 33 0.31
31 7 0.07
32 6 0.06
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.34
Consensus pattern (29 bp):
CCAAAATTCCATTTTTAACCTCGATTTCA
Found at i:41922075 original size:118 final size:116
Alignment explanation
Indices: 41921868--41922118 Score: 367
Period size: 118 Copynumber: 2.1 Consensus size: 116
41921858 GATTGTTTAG
* *
41921868 AAATTACCATTTTACCCCCGAACTTTCAAAAATCCCATTATAACCTAGATTTCAACAAAAATTAT
1 AAATTACCATTTTACCCCCAAACTTTCAAAAATCCCATTATAACCTAGATTTCAACAAAAAGTAT
* * *
41921933 ATTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCGA
66 ATTTTGACCCCCAAACTTTCCAAAATTCCAATTTTAACCCCGATTTCA-CCA
* * * * * *
41921985 AAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAAGTA
1 AAATTACCATTTTACCCCCAAACTTTCAAAAATCCCA-TTATAACCTAGATTTCAACAAAAAGTA
* *
41922050 TATTTTGACCCTCGAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCA
65 TATTTTGACCCCCAAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCA
41922102 AAATTACCATTTTACCC
1 AAATTACCATTTTACCC
41922119 TCGAAATTAA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
117 52 0.43
118 68 0.57
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (116 bp):
AAATTACCATTTTACCCCCAAACTTTCAAAAATCCCATTATAACCTAGATTTCAACAAAAAGTAT
ATTTTGACCCCCAAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCA
Found at i:41922085 original size:30 final size:29
Alignment explanation
Indices: 41921984--41922149 Score: 109
Period size: 29 Copynumber: 5.7 Consensus size: 29
41921974 GATTTCATCG
*
41921984 AAAATTACCATTTTACCC-CTAAACTTT-CC
1 AAAATTACCATTTTACCCTC-GAA-TTTACC
*
41922013 AAAATT-CCATTTTTAACCTCG-ATTTCACC
1 AAAATTACCA-TTTTACCCTCGAATTT-ACC
* *
41922042 AAAAAGTA-TATTTTGACCCTCGAACTTT-CC
1 -AAAATTACCATTTT-ACCCTCGAA-TTTACC
41922072 AAAATT-CCAATTTTAACCC-CG-ATTTCACC
1 AAAATTACC-ATTTT-ACCCTCGAATTT-ACC
* *
41922101 AAAATTACCATTTTACCCTCGAAATTA-A
1 AAAATTACCATTTTACCCTCGAATTTACC
*
41922129 AAAATTACCATTTCACCCTCG
1 AAAATTACCATTTTACCCTCG
41922150 GGCATCCAAA
Statistics
Matches: 110, Mismatches: 11, Indels: 33
0.71 0.07 0.21
Matches are distributed among these distances:
27 6 0.05
28 29 0.26
29 42 0.38
30 29 0.26
31 1 0.01
32 3 0.03
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCGAATTTACC
Found at i:41922114 original size:59 final size:58
Alignment explanation
Indices: 41921868--41922123 Score: 284
Period size: 59 Copynumber: 4.4 Consensus size: 58
41921858 GATTGTTTAG
* * * ** *
41921868 AAATTACCATTTTACCCCCGAACTTT-CAAAAATCCCATTATAACCTAGATTTCAACAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAATTTTAACCCCGATTTC-ACCA
* * * *
41921926 AAATTA-TATTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCATCGA
1 AAATTACCA-TTTTACCCCCGAACTTTCCAAAATTCCAATTTTAACCCCGATTTCA-CCA
** * *
41921985 AAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACC-A
* * *
41922044 AAAGTA-TATTTTGACCCTCGAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCA
1 AAATTACCATTTT-ACCCCCGAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCA
*
41922102 AAATTACCATTTTACCCTCGAA
1 AAATTACCATTTTACCCCCGAA
41922124 ATTAAAAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
57 1 0.01
58 44 0.26
59 123 0.73
60 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.34
Consensus pattern (58 bp):
AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAATTTTAACCCCGATTTCACCA
Found at i:41930319 original size:31 final size:31
Alignment explanation
Indices: 41930281--41930341 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
41930271 ACTGAAAATT
*
41930281 GGTTATCAAGTTAACCAAGGAGTTTGATGAC
1 GGTTATCAAGTTAACCAAAGAGTTTGATGAC
41930312 GGTTATCAAGTTAACCAAAGAGTTTGATGA
1 GGTTATCAAGTTAACCAAAGAGTTTGATGA
41930342 TGTCACATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (31 bp):
GGTTATCAAGTTAACCAAAGAGTTTGATGAC
Found at i:41932887 original size:78 final size:78
Alignment explanation
Indices: 41932773--41933502 Score: 798
Period size: 78 Copynumber: 9.3 Consensus size: 78
41932763 GAAGATTCCG
* * * * * * * *
41932773 ATCTTTTACCCCGAGCCTGGAGTAAATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
*
41932838 TCATCATCAGTAA
66 TCATCATCAGCAA
* * ** * *
41932851 ATCTCTTACCTCGAGCTTGGGGCAAATTATAACCATTCAATCTTTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
** * **
41932916 TCATCAAGATTCCG
66 TCATCATCA-GCAA
* * * * *
41932930 ATCTTTTACCCCGAGCTTGGGGCAAATTGCAGCCATTCAATCTTTTACCCCGAGCCTAGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
*
41932995 TCATCATCAACAA
66 TCATCATCAGCAA
* * * *
41933008 ATCTCTTACCTCGAGCTTGGGGCAGGTTGCAACCATTCGATCTTTTACCCCGAGCCTAGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
* *
41933073 TCACCATCAGCCA
66 TCATCATCAGCAA
* * * * * *
41933086 ATCTTTTACCCCGAGCTTGGGGCAGATTGTAACCATTAGATCTTTTACCCTGAGCTTTGGGTAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
* *
41933151 TCACCATCAGCTA
66 TCATCATCAGCAA
* * *
41933164 ATCTCTTACCCTGAGCTTGGGGCAGATTGCAACCATCCGATCTTTTACCCCGAGCTTAGGACAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
**
41933229 TCATCATCAATAA
66 TCATCATCAGCAA
* ** * *
41933242 ATCTCTTACCCCGAGCCTAAGGTAGATTGCAACCATTCAATCTTTTACCCCGAGCTTAGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
*
41933307 TCATCTTCAGCAA
66 TCATCATCAGCAA
* ** **
41933320 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTCTTACCCTAAGCTT-GAGATAG
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAG-GGCAG
* *
41933384 ATCACCATCAGCCA
65 ATCATCATCAGCAA
* * * * * ** *
41933398 ATCTCTTACCTCTAGCCTGAGGCAGATTGCAACCATTCGATCTCTTACCTTGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
41933463 TCATCATCAG-ACA
66 TCATCATCAGCA-A
* * *
41933476 ATCTCTTACTCCGATCATGGGGCAGAT
1 ATCTCTTACCCCGAGCTTGGGGCAGAT
41933503 GGCAGTCATT
Statistics
Matches: 548, Mismatches: 100, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
77 1 0.00
78 479 0.87
79 68 0.12
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCTTAGGGCAGA
TCATCATCAGCAA
Found at i:41933363 original size:39 final size:39
Alignment explanation
Indices: 41932771--41933463 Score: 349
Period size: 39 Copynumber: 17.7 Consensus size: 39
41932761 TTGAAGATTC
* * * * *
41932771 CGATCTTTTACCCCGAGCCTGGAGTAAATTGCAGCCATT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * *
41932810 CGATCTTTTACCCCGAGCTTGGGGTAGA-T-CATCATCAGT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCA--ACCATT
** * * * **
41932849 AAATCTCTTACCTCGAGCTTGGGGCAAATTATAACCATT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * * *
41932888 CAATCTTTTACCCCGAGCCTAGGGCAGATCAT-CAA-GATT
1 CGATCTTTTACCCCGAGCTTGGGGCAGAT--TGCAACCATT
* *
41932927 CCGATCTTTTACCCCGAGCTTGGGGCAAATTGCAGCCATT
1 -CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * * * *
41932967 CAATCTTTTACCCCGAGCCTAGGGCAGA-T-C-ATCATCAA
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCAT--T
* * * *
41933005 CAAATCTCTTACCTCGAGCTTGGGGCAGGTTGCAACCATT
1 C-GATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * * ** * * **
41933045 CGATCTTTTACCCCGAGCCTAGGGTAGATCACCATCAGC
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* *
41933084 CAATCTTTTACCCCGAGCTTGGGGCAGATTGTAACCATT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * * *
41933123 AGATCTTTTACCCTGAGCTTTGGGTAGA-T-C-ACCA-T
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * *
41933158 CAGCTAATCTCTTACCCTGAGCTTGGGGCAGATTGCAACCATC
1 C-G---ATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * * *
41933201 CGATCTTTTACCCCGAGCTTAGGACAGA-T-CATCATCAAT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCA--ACCATT
** * * ** *
41933240 AAATCTCTTACCCCGAGCCTAAGGTAGATTGCAACCATT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * *
41933279 CAATCTTTTACCCCGAGCTTAGGGCAGA-T-C-ATC-TT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
*
41933314 CAGCAAATCTCTTACCCCGAGCTTGGGGCAGATTGCAACCATT
1 C-G---ATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* ** * ** ** * * **
41933357 CGATCTCTTACCCTAAGCTTGAGATAGATCACCATCAGC
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* * * * * *
41933396 CAATCTCTTACCTCTAGCCTGAGGCAGATTGCAACCATT
1 CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
* **
41933435 CGATCTCTTACCTTGAGCTTGGGGCAGAT
1 CGATCTTTTACCCCGAGCTTGGGGCAGAT
41933464 CATCATCAGA
Statistics
Matches: 486, Mismatches: 133, Indels: 70
0.71 0.19 0.10
Matches are distributed among these distances:
35 4 0.01
36 10 0.02
37 6 0.01
38 7 0.01
39 400 0.82
40 36 0.07
41 7 0.01
42 12 0.02
43 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (39 bp):
CGATCTTTTACCCCGAGCTTGGGGCAGATTGCAACCATT
Found at i:41933960 original size:7 final size:7
Alignment explanation
Indices: 41933921--41933967 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
41933911 AAATTTTTTT
*
41933921 ATTTTAA
1 ATTTAAA
41933928 ATTT-AA
1 ATTTAAA
41933934 ATTTAAA
1 ATTTAAA
41933941 ATTTAAA
1 ATTTAAA
*
41933948 TTATTTCAA
1 --ATTTAAA
41933957 ATTTAAA
1 ATTTAAA
41933964 ATTT
1 ATTT
41933968 GAAAGTTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.17
7 23 0.66
9 6 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (7 bp):
ATTTAAA
Found at i:41935995 original size:30 final size:30
Alignment explanation
Indices: 41935949--41936215 Score: 244
Period size: 30 Copynumber: 9.0 Consensus size: 30
41935939 AGAAATCATA
*
41935949 TTTTGACCCTCAAACTTCTCAAAAATTACAT
1 TTTTG-CCCTTAAACTTCTCAAAAATTACAT
* *
41935980 TTTTGCCCTTGAACTTC-CAAAAA-TACTT
1 TTTTGCCCTTAAACTTCTCAAAAATTACAT
* *
41936008 TTTTACCCTCT-AACTTCTCAAAAAGTACAT
1 TTTTGCCCT-TAAACTTCTCAAAAATTACAT
* *
41936038 TTTTGCCCTTGAACTT-TCAAAAATCACAT
1 TTTTGCCCTTAAACTTCTCAAAAATTACAT
** *
41936067 TTTCACCCCTAAACTTCTCAAAAATTACAT
1 TTTTGCCCTTAAACTTCTCAAAAATTACAT
*
41936097 TTTTGTCCC-TAAACTTC-CAAAAATCACAT
1 TTTTG-CCCTTAAACTTCTCAAAAATTACAT
* * *
41936126 TTTTACCCTCAAACTTCTTAAAAATTACAT
1 TTTTGCCCTTAAACTTCTCAAAAATTACAT
* * **
41936156 TTTTG-CCTCCAAATTTC-CAAAAATCGCAT
1 TTTTGCCCT-TAAACTTCTCAAAAATTACAT
** * *
41936185 TTTTATCCTTATATTTCTCAAAAATTACAT
1 TTTTGCCCTTAAACTTCTCAAAAATTACAT
41936215 T
1 T
41936216 ATTATCCCGA
Statistics
Matches: 195, Mismatches: 30, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
28 21 0.11
29 81 0.42
30 85 0.44
31 8 0.04
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTTGCCCTTAAACTTCTCAAAAATTACAT
Found at i:41936025 original size:58 final size:59
Alignment explanation
Indices: 41935936--41936249 Score: 347
Period size: 59 Copynumber: 5.4 Consensus size: 59
41935926 CCTTAAATTG
* * * *
41935936 TCCAGAAATCATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTGCCCTTGAACT
1 TCCAAAAATCACATTTTTACCCTCTAACTTCTCAAAAATTACATTTTTGCCCTTGAACT
* *
41935995 TCCAAAAAT-ACTTTTTTACCCTCTAACTTCTCAAAAAGTACATTTTTGCCCTTGAACT
1 TCCAAAAATCACATTTTTACCCTCTAACTTCTCAAAAATTACATTTTTGCCCTTGAACT
* * *
41936053 TTCAAAAATCACATTTTCACCC-CTAAACTTCTCAAAAATTACATTTTTGTCCC-TAAACT
1 TCCAAAAATCACATTTTTACCCTCT-AACTTCTCAAAAATTACATTTTTG-CCCTTGAACT
* * ** *
41936112 TCCAAAAATCACATTTTTACCCTCAAACTTCTTAAAAATTACATTTTTG-CCTCCAAATT
1 TCCAAAAATCACATTTTTACCCTCTAACTTCTCAAAAATTACATTTTTGCCCT-TGAACT
* * *
41936171 TCCAAAAATCGCATTTTTATCCT-TATATTTCTCAAAAATTACATTATTAT-CCC--GAACT
1 TCCAAAAATCACATTTTTACCCTCTA-ACTTCTCAAAAATTACATT-TT-TGCCCTTGAACT
* *
41936229 TCTAAAAATCACGTTTTTACC
1 TCCAAAAATCACATTTTTACC
41936250 TTAAATTTTC
Statistics
Matches: 217, Mismatches: 28, Indels: 21
0.82 0.11 0.08
Matches are distributed among these distances:
57 2 0.01
58 75 0.35
59 131 0.60
60 6 0.03
61 3 0.01
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.37
Consensus pattern (59 bp):
TCCAAAAATCACATTTTTACCCTCTAACTTCTCAAAAATTACATTTTTGCCCTTGAACT
Found at i:41936112 original size:59 final size:57
Alignment explanation
Indices: 41935941--41936323 Score: 321
Period size: 59 Copynumber: 6.6 Consensus size: 57
41935931 AATTGTCCAG
* * * *
41935941 AAATCATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTTGCCCTTGAACTTCCAA
1 AAATCACATTTTTACCCT-AAACTTCTCAAAAATTACATTTTTGCCC-TAAACTTTCAA
* * * *
41936000 AAAT-ACTTTTTTACCCTCTAACTTCTCAAAAAGTACATTTTTGCCCTTGAACTTTCAA
1 AAATCACATTTTTACCCT-AAACTTCTCAAAAATTACATTTTTGCCC-TAAACTTTCAA
* *
41936058 AAATCACATTTTCACCCCTAAACTTCTCAAAAATTACATTTTTGTCCCTAAACTTCCAA
1 AAATCACATTTTTA-CCCTAAACTTCTCAAAAATTACATTTTTG-CCCTAAACTTTCAA
* *
41936117 AAATCACATTTTTACCCTCAAACTTCTTAAAAATTACATTTTTGCCTCCAAA-TTTCCAA
1 AAATCACATTTTTACCCT-AAACTTCTCAAAAATTACATTTTTGCC-CTAAACTTT-CAA
* * * * *
41936176 AAATCGCATTTTTATCCTTATATTTCTCAAAAATTACATTATTAT-CCC-GAAC-TTCTAA
1 AAATCACATTTTTA-CCCTAAACTTCTCAAAAATTACATT-TT-TGCCCTAAACTTTC-AA
* * * * * * * *
41936234 AAATCACGTTTTTACCTTAAA-TTTTCCCAAAATGAAATTTTTACCCCTAAAACTTTCCA
1 AAATCACATTTTTACCCTAAACTTCT-CAAAAATTACATTTTT-GCCCT-AAACTTTCAA
* * *
41936293 AAATTACATTTTAACCCTAAAC-TCTCTAAAA
1 AAATCACATTTTTACCCTAAACTTCTCAAAAA
41936324 CTTTATTTTC
Statistics
Matches: 269, Mismatches: 37, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
55 1 0.00
56 5 0.02
57 20 0.07
58 83 0.31
59 142 0.53
60 17 0.06
61 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (57 bp):
AAATCACATTTTTACCCTAAACTTCTCAAAAATTACATTTTTGCCCTAAACTTTCAA
Found at i:41936221 original size:30 final size:30
Alignment explanation
Indices: 41935956--41936304 Score: 220
Period size: 30 Copynumber: 11.9 Consensus size: 30
41935946 ATATTTTGAC
**
41935956 CCTCAAACTTCTCAAAAATTACATTTTTGC
1 CCTCAAACTTCTCAAAAATTACATTTTTAT
** * *
41935986 CCTTGAACTTC-CAAAAA-TACTTTTTTAC
1 CCTCAAACTTCTCAAAAATTACATTTTTAT
* * **
41936014 CCTCTAACTTCTCAAAAAGTACATTTTTGC
1 CCTCAAACTTCTCAAAAATTACATTTTTAT
** * *
41936044 CCTTGAACTT-TCAAAAATCACATTTTCA-
1 CCTCAAACTTCTCAAAAATTACATTTTTAT
* *
41936072 CCCCTAAACTTCTCAAAAATTACATTTTTGT
1 CCTC-AAACTTCTCAAAAATTACATTTTTAT
* *
41936103 CC-CTAAACTTC-CAAAAATCACATTTTTAC
1 CCTC-AAACTTCTCAAAAATTACATTTTTAT
* *
41936132 CCTCAAACTTCTTAAAAATTACATTTTT-G
1 CCTCAAACTTCTCAAAAATTACATTTTTAT
* **
41936161 CCTCCAAATTTC-CAAAAATCGCATTTTTAT
1 CCT-CAAACTTCTCAAAAATTACATTTTTAT
* * * *
41936191 CCTTATATTTCTCAAAAATTACATTATTAT
1 CCTCAAACTTCTCAAAAATTACATTTTTAT
* * *
41936221 CC-CGAACTTCT-AAAAATCACGTTTTTA-
1 CCTCAAACTTCTCAAAAATTACATTTTTAT
* * * * * *
41936248 CCTTAAA-TTTTCCCAAAATGAAATTTTTACC
1 CCTCAAACTTCT-CAAAAATTACATTTTTA-T
* *
41936279 CCTAAAACTT-TCCAAAATTACATTTT
1 CCTCAAACTTCTCAAAAATTACATTTT
41936305 AACCCTAAAC
Statistics
Matches: 250, Mismatches: 53, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
27 5 0.02
28 35 0.14
29 94 0.38
30 105 0.42
31 9 0.04
32 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
CCTCAAACTTCTCAAAAATTACATTTTTAT
Found at i:41936701 original size:97 final size:97
Alignment explanation
Indices: 41936588--41936781 Score: 309
Period size: 97 Copynumber: 2.0 Consensus size: 97
41936578 AAAATATTTA
* *
41936588 AAATCGAGGTAATATTCCTTTATTTC-GAGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGA
1 AAATCGAGGCAATATTCCTTTATCTCAG-GTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGA
* * **
41936652 TTTTTCTTCAAACTGGGATAATCGAATACCCTT
65 ATTTTCTTCAAACCGAAATAATCGAATACCCTT
*
41936685 AAATCGAGGCAATATTCCTTTATCTCAGGTTTTGAAAATTTGTTCCTTAACTTACTAGGCGCGAA
1 AAATCGAGGCAATATTCCTTTATCTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAA
41936750 TTTTCTTCAAACCGAAATAATCGAATACCCTT
66 TTTTCTTCAAACCGAAATAATCGAATACCCTT
41936782 TTTCAAAGTT
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
97 88 0.99
98 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (97 bp):
AAATCGAGGCAATATTCCTTTATCTCAGGTTTTGAAAATTTGTGCCTTAACTTACTAGGCGCGAA
TTTTCTTCAAACCGAAATAATCGAATACCCTT
Found at i:41941006 original size:112 final size:110
Alignment explanation
Indices: 41940809--41941131 Score: 372
Period size: 112 Copynumber: 2.9 Consensus size: 110
41940799 AATGTGGGTC
* * * * **
41940809 ATTTTTAATCTTTTCATTCATGCAAGTTTTACCTCCAATAAAATTTAATTTTATCCGCCTTGCGA
1 ATTTTTAATCTTTTCATTCATGTAAGCTTTGCCTCCAAT-AAATTTAATTTTATCCACCTT-AAA
41940874 ACC-TGTTCAAGCATTTTTGCATTGAAATAACGGTAAGTGGACCAATG
64 ACCTTGTTCAAGCATTTTTGCATTGAAATAACGGTAA-TGGACCAATG
* *
41940921 ATTTTTAATCTTTTCATTCATGTAACCTTTGCCTCCAATACAATTTAATTTTATCCACCTTATAA
1 ATTTTTAATCTTTTCATTCATGTAAGCTTTGCCTCCAATA-AATTTAATTTTATCCACCTTAAAA
* * *
41940986 CCTTGTTCAAGCATGTTTGCATTGAAATAACAGTTAATGGACTAATG
65 CCTTGTTCAAGCATTTTTGCATTGAAATAAC-GGTAATGGACCAATG
* * * *
41941033 ATTCTT-CTC-ATTCA--CAT-T-AGCTTTGCCTCCAATAAGATTCAATTTTATCCACCTTAAAA
1 ATTTTTAATCTTTTCATTCATGTAAGCTTTGCCTCCAATAA-ATTTAATTTTATCCACCTTAAAA
* * *
41941092 ACTTTTTCAAGCATTTTTGCATTGAAATGACGGTTAATGG
65 CCTTGTTCAAGCATTTTTGCATTGAAATAACGG-TAATGG
41941132 TCTAACGATA
Statistics
Matches: 185, Mismatches: 21, Indels: 16
0.83 0.09 0.07
Matches are distributed among these distances:
105 2 0.01
106 69 0.37
107 1 0.01
108 3 0.02
110 4 0.02
111 7 0.04
112 95 0.51
113 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (110 bp):
ATTTTTAATCTTTTCATTCATGTAAGCTTTGCCTCCAATAAATTTAATTTTATCCACCTTAAAAC
CTTGTTCAAGCATTTTTGCATTGAAATAACGGTAATGGACCAATG
Found at i:41941836 original size:50 final size:50
Alignment explanation
Indices: 41941686--41941869 Score: 171
Period size: 50 Copynumber: 3.7 Consensus size: 50
41941676 ACCTTAGAAT
* * *
41941686 ATATAATGGGAAAGATTGAGGCCACAACGGCGAATCCAGTACCATG-AAG
1 ATATAATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAAAG
* * * * * * *
41941735 ATATGAA-GGGAAAG-GTGAAGGTCGTAACGACGAACTCGATA-CATTAGAAG
1 ATAT-AATGGGAAAGATTG-AGGCCGCAACGGCGAATTCGGTACCATGA-AAG
41941785 ATATAATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAAAG
1 ATATAATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAAAG
* * * *
41941835 ATGTGAT-AGAAAGGATTGAGGCCGCAACGGTGAAT
1 ATATAATGGGAAA-GATTGAGGCCGCAACGGCGAAT
41941870 CTTGTACCAT
Statistics
Matches: 106, Mismatches: 21, Indels: 15
0.75 0.15 0.11
Matches are distributed among these distances:
48 5 0.05
49 32 0.30
50 63 0.59
51 6 0.06
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.18
Consensus pattern (50 bp):
ATATAATGGGAAAGATTGAGGCCGCAACGGCGAATTCGGTACCATGAAAG
Found at i:41942401 original size:78 final size:78
Alignment explanation
Indices: 41942204--41942710 Score: 746
Period size: 78 Copynumber: 6.5 Consensus size: 78
41942194 AAGATATTAT
* * ** * *
41942204 CCAATCTCTTACCTCGATCATGGGGCAGATTGAAGATATCATCCAATCTCTTACCCCGATAATAG
1 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAG----CATCCAATCTTTTACCCTAATCAGAG
*
41942269 GGCAGATTGAAGTCA-A
62 GGCAGATTGAAGACACA
* * *
41942285 CCAATCTCTTACCCTGATCATAGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAGGGCA
1 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
41942350 GATTGAAGACACA
66 GATTGAAGACACA
* * *
41942363 CTAATCTCTTACCTCGATCATGGGGCGGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
1 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
41942428 GATTGAAGACACA
66 GATTGAAGACACA
* * *
41942441 CCAATCTCTTACCCCGATTATTGGGCAGATTGAAGCATCCAATCTTTTAGCCTAATCAGAGGGCA
1 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
41942506 GATTGAAGACACA
66 GATTGAAGACACA
41942519 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
1 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
41942584 GATTGAAGACACA
66 GATTGAAGACACA
* * * * *
41942597 CCAATCTCTTATCTCGATTAAGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGACA
1 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
41942662 GATTGAAGACACA
66 GATTGAAGACACA
* * * *
41942675 CCGATCTTTTACCCCAATCACGGGGCAGATTGAAGC
1 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGC
41942711 TACTATCTCA
Statistics
Matches: 388, Mismatches: 37, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
77 34 0.09
78 322 0.83
81 32 0.08
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (78 bp):
CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCA
GATTGAAGACACA
Found at i:41944974 original size:104 final size:104
Alignment explanation
Indices: 41944763--41944973 Score: 264
Period size: 104 Copynumber: 2.0 Consensus size: 104
41944753 GTAATTTTCT
* * * *
41944763 AAATCGAGGCAATATTCTTTTATTTTAGGGTATTCGAGAAATTGTACCCTAACGTGTTAGGTATG
1 AAATCGAGGCAATATTCTTTTATTTTAGGGAACTCAAGAAATTATACCCTAACGTGTTAGGTATG
* * *
41944828 ATTTTTCTTTGAACCTAAGTAATTGAATATCCTATTTAA
66 ATTTTTCCTTAAACCTAAATAATTGAATATCCTATTTAA
* * * * *
41944867 AAATCGAGGCAATGTT-TTTTTTATTTAGGGAACTCAAGAAATTATGCTCTAACGTG-TCGGATA
1 AAATCGAGGCAATATTCTTTTAT-TTTAGGGAACTCAAGAAATTATACCCTAACGTGTTAGG-TA
*
41944930 TGATTTTTTCCTTAAACCTAAATAATTGAATATCTTATTTAA
64 TGA-TTTTTCCTTAAACCTAAATAATTGAATATCCTATTTAA
41944972 AA
1 AA
41944974 TTGATAAATG
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
103 8 0.09
104 47 0.52
105 36 0.40
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (104 bp):
AAATCGAGGCAATATTCTTTTATTTTAGGGAACTCAAGAAATTATACCCTAACGTGTTAGGTATG
ATTTTTCCTTAAACCTAAATAATTGAATATCCTATTTAA
Found at i:41947806 original size:16 final size:16
Alignment explanation
Indices: 41947785--41947822 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
41947775 TTTGATTCTT
*
41947785 TGTAATGAAATAGAGC
1 TGTAATAAAATAGAGC
*
41947801 TGTAATAAAATAGGGC
1 TGTAATAAAATAGAGC
41947817 TGTAAT
1 TGTAAT
41947823 CAGTAATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.24, T:0.29
Consensus pattern (16 bp):
TGTAATAAAATAGAGC
Found at i:41948006 original size:25 final size:26
Alignment explanation
Indices: 41947972--41948023 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
41947962 TAGGTAGATG
*
41947972 ATTATTATT-ATTA-AATTTTAATAAA
1 ATTATTATTAAATATAA-TTTAATAAA
41947997 ATTATTATTAAATATAATTTAATAAA
1 ATTATTATTAAATATAATTTAATAAA
41948023 A
1 A
41948024 ATAATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
26 13 0.54
27 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTATTATTAAATATAATTTAATAAA
Found at i:41948062 original size:58 final size:57
Alignment explanation
Indices: 41947981--41948150 Score: 193
Period size: 58 Copynumber: 2.9 Consensus size: 57
41947971 GATTATTATT
*
41947981 ATTAAATTTTAATAAAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
1 ATTAAATTTTAATATAATTATTATTAAATATAATTTAATAAAAAT-ATAAATAATTTA
* * * * *
41948039 ATTATATTTTAACATAATAATTATTAAATACAATTTAAT-AAAATATATATAATTTA
1 ATTAAATTTTAATATAATTATTATTAAATATAATTTAATAAAAATATAAATAATTTA
* *
41948095 A-TAACAGTTTTAGTATAATTATTATTAAAATATAAATTAA-AAAAATCATAATATAA
1 ATTAA-A-TTTTAATATAATTATTATT-AAATATAATTTAATAAAAAT-ATAA-ATAA
41948151 ACCTACTTTA
Statistics
Matches: 93, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
55 2 0.02
56 13 0.14
57 21 0.23
58 50 0.54
59 3 0.03
60 4 0.04
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (57 bp):
ATTAAATTTTAATATAATTATTATTAAATATAATTTAATAAAAATATAAATAATTTA
Found at i:41953603 original size:140 final size:140
Alignment explanation
Indices: 41953347--41953627 Score: 499
Period size: 140 Copynumber: 2.0 Consensus size: 140
41953337 TTCCATATGC
* *
41953347 ATAAGTACCTTGTAAAGATTTTTTCCAAACATGTTAAGTACTTCAAATGTCACAAATTGGTCGAC
1 ATAAGTACCTTGTAAAGATTTTTGCCAAACATGTTAAGTACTTCAAATGTCACAAATTGGTCAAC
* * *
41953412 CATAGAACAAAAAATGTTATAACTCCAAACTACTCGAACTACTTCATCATTCAGAGCATTTCAAA
66 CATAGAACAAAAAATGTTATAACTCCAAACAACTCAAACTACTTCAACATTCAGAGCATTTCAAA
*
41953477 ATTCAGGAAT
131 ATTAAGGAAT
*
41953487 ATAAGTACCTTGTAAAGATTTTTGCCGAACATGTTAAGTACTTCAAATGTCACAAATTGGTCAAC
1 ATAAGTACCTTGTAAAGATTTTTGCCAAACATGTTAAGTACTTCAAATGTCACAAATTGGTCAAC
41953552 CATAGAACAAAAAATGTTATAACTCCAAACAACTCAAACTACTTCAACATTCAGAGCATTTCAAA
66 CATAGAACAAAAAATGTTATAACTCCAAACAACTCAAACTACTTCAACATTCAGAGCATTTCAAA
41953617 ATTAAGGAAT
131 ATTAAGGAAT
41953627 A
1 A
41953628 GAGAGATAAT
Statistics
Matches: 134, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
140 134 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (140 bp):
ATAAGTACCTTGTAAAGATTTTTGCCAAACATGTTAAGTACTTCAAATGTCACAAATTGGTCAAC
CATAGAACAAAAAATGTTATAACTCCAAACAACTCAAACTACTTCAACATTCAGAGCATTTCAAA
ATTAAGGAAT
Found at i:41954791 original size:67 final size:67
Alignment explanation
Indices: 41954683--41954815 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
41954673 CAATCTACCG
* *
41954683 CAACAAAAGGGAGCCTGATCAAGCATGCAACAAAATACATTGTACAGCCGGCTTGACATATTTTC
1 CAACAAAAGGGAGCCTGATCAAGCATGCAACAAAATACATTGTACAGCAGGCTTAACATATTTTC
41954748 CA
66 CA
*
41954750 CAACAAAAGGGAGCCTGATCAAGCATGCAACAAAATGCATTGTACAGCAGGCTTAACATATTTTC
1 CAACAAAAGGGAGCCTGATCAAGCATGCAACAAAATACATTGTACAGCAGGCTTAACATATTTTC
41954815 C
66 C
41954816 CTAAATCAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (67 bp):
CAACAAAAGGGAGCCTGATCAAGCATGCAACAAAATACATTGTACAGCAGGCTTAACATATTTTC
CA
Found at i:41957566 original size:14 final size:15
Alignment explanation
Indices: 41957547--41957575 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41957537 CGAAAAGTAA
41957547 AAAAATTT-AAAAAT
1 AAAAATTTGAAAAAT
41957561 AAAAATTTGAAAAAT
1 AAAAATTTGAAAAAT
41957576 GAATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AAAAATTTGAAAAAT
Found at i:41957719 original size:19 final size:19
Alignment explanation
Indices: 41957692--41957742 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
41957682 TATTGTTTCT
41957692 TTTTATTATT-TTCTCACTA
1 TTTTATTATTATT-TCACTA
*
41957711 TTTTGTTATTATTTCACTA
1 TTTTATTATTATTTCACTA
*
41957730 TTATATTATTATT
1 TTTTATTATTATT
41957743 ATTTTATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 26 0.93
20 2 0.07
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTATTATTATTTCACTA
Found at i:41957723 original size:11 final size:11
Alignment explanation
Indices: 41957664--41957749 Score: 68
Period size: 11 Copynumber: 7.8 Consensus size: 11
41957654 TGCTTTCTTC
41957664 TTATTATTATTA
1 TTATT-TTATTA
*
41957676 TTATTTTATTG
1 TTATTTTATTA
41957687 TT-TCTTT-TTA
1 TTAT-TTTATTA
* *
41957697 TTATTTTCTCA
1 TTATTTTATTA
* *
41957708 CTATTTTGTTA
1 TTATTTTATTA
* *
41957719 TTATTTCACTA
1 TTATTTTATTA
*
41957730 TTATATTATTA
1 TTATTTTATTA
41957741 TTATTTTAT
1 TTATTTTAT
41957750 AGTTATTATT
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
10 8 0.14
11 44 0.77
12 5 0.09
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:41963561 original size:14 final size:14
Alignment explanation
Indices: 41963530--41963568 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
41963520 AATATATATA
41963530 TAAAAAAATTTAAAAT
1 TAAAAAAA-TT-AAAT
*
41963546 TACAAAAATTAAAT
1 TAAAAAAATTAAAT
41963560 TAAAAAAAT
1 TAAAAAAAT
41963569 AAACAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 2 0.10
16 7 0.33
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (14 bp):
TAAAAAAATTAAAT
Found at i:41964874 original size:17 final size:17
Alignment explanation
Indices: 41964852--41964910 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
41964842 AAGAATATAA
*
41964852 AAGGTTGAGGAAGATGG
1 AAGGTTAAGGAAGATGG
41964869 AAGGTTAAAGGTCAAG--GG
1 AAGGTT-AAGG--AAGATGG
41964887 -AGGTTAAGGAAGATGG
1 AAGGTTAAGGAAGATGG
41964903 AAGGTTAA
1 AAGGTTAA
41964911 AAGTCAAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 3 0.09
16 6 0.17
17 18 0.51
18 5 0.14
20 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.41, T:0.19
Consensus pattern (17 bp):
AAGGTTAAGGAAGATGG
Found at i:41964897 original size:34 final size:34
Alignment explanation
Indices: 41964853--41964917 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
41964843 AGAATATAAA
* *
41964853 AGGTTGAGGAAGATGGAAGGTTAAAGGTCAAGGG
1 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGG
41964887 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAA
1 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAA
41964918 AGAAGATGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.40, C:0.03, G:0.38, T:0.18
Consensus pattern (34 bp):
AGGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGG
Found at i:41965078 original size:15 final size:15
Alignment explanation
Indices: 41965058--41965095 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
41965048 GAAAAAAGAG
41965058 TACATAATCCTTTGA
1 TACATAATCCTTTGA
41965073 TACATAATCCTTTGA
1 TACATAATCCTTTGA
41965088 TACATAAT
1 TACATAAT
41965096 ATATCACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.39
Consensus pattern (15 bp):
TACATAATCCTTTGA
Found at i:41969774 original size:34 final size:34
Alignment explanation
Indices: 41969730--41969794 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
41969720 AGAATATAAA
* *
41969730 AGGTTGAGGAAGATGAAAGGTTAAAGGTCAAGAG
1 AGGTTAAGGAAGATGAAAGGTTAAAAGTCAAGAG
*
41969764 AGGTTAAGGAAGATGGAAGGTTAAAAGTCAA
1 AGGTTAAGGAAGATGAAAGGTTAAAAGTCAA
41969795 AGAAGATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.43, C:0.03, G:0.35, T:0.18
Consensus pattern (34 bp):
AGGTTAAGGAAGATGAAAGGTTAAAAGTCAAGAG
Found at i:41969784 original size:17 final size:17
Alignment explanation
Indices: 41969729--41969787 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
41969719 AAGAATATAA
* *
41969729 AAGGTTGAGGAAGATGA
1 AAGGTTAAGGAAGATGG
41969746 AAGGTTAAAGGTCAAGA--G
1 AAGGTT-AAGG--AAGATGG
41969764 -AGGTTAAGGAAGATGG
1 AAGGTTAAGGAAGATGG
41969780 AAGGTTAA
1 AAGGTTAA
41969788 AAGTCAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
14 4 0.12
16 5 0.15
17 18 0.53
18 3 0.09
20 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (17 bp):
AAGGTTAAGGAAGATGG
Found at i:41971581 original size:6 final size:6
Alignment explanation
Indices: 41971570--41971599 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
41971560 TTTCATTGGA
41971570 GCACCC GCACCC GCACCC GCACCC GCACCC
1 GCACCC GCACCC GCACCC GCACCC GCACCC
41971600 ATAAAGCATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.67, G:0.17, T:0.00
Consensus pattern (6 bp):
GCACCC
Found at i:41988954 original size:59 final size:56
Alignment explanation
Indices: 41988788--41988954 Score: 167
Period size: 59 Copynumber: 2.9 Consensus size: 56
41988778 AATCGAATTT
** * * *
41988788 AAAAAAAATTATGTATTAAATTAAAAAAAGTCT-AAGTTCAGATATTAAATTGAGTA
1 AAAAAAAATTAAATA-TAAATTAAAAAAAATATCAAGTTCAGGTATTAAATTGAGTA
* * *
41988844 AAAAAAAATTAAATATCAAATTAAAAAATAATATCAAGTTCAAGCAATAAATT-AGGTA
1 AAAAAAAATTAAATAT-AAATTAAAAAA-AATATCAAGTTCAGGTATTAAATTGA-GTA
* *
41988902 AAAAAAAGTTTAGATACTAAATTAGAAAAAAATATCAAGTTCAGGTATTAAAT
1 AAAAAAA-ATTAAATA-TAAATTA-AAAAAAATATCAAGTTCAGGTATTAAAT
41988955 ATTATATTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
55 1 0.01
56 24 0.26
57 4 0.04
58 24 0.26
59 32 0.35
60 6 0.07
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (56 bp):
AAAAAAAATTAAATATAAATTAAAAAAAATATCAAGTTCAGGTATTAAATTGAGTA
Found at i:41990331 original size:15 final size:15
Alignment explanation
Indices: 41990294--41990336 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
41990284 TACAAACTTT
*
41990294 TAAAATATATAGATTA
1 TAAAATATTTA-ATTA
*
41990310 T-ATATATTTAATTA
1 TAAAATATTTAATTA
41990324 TAAAATATTTAAT
1 TAAAATATTTAAT
41990337 ATGCATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.22
15 17 0.74
16 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
TAAAATATTTAATTA
Found at i:41992281 original size:119 final size:120
Alignment explanation
Indices: 41991950--41992315 Score: 691
Period size: 120 Copynumber: 3.1 Consensus size: 120
41991940 AAAAAGATTA
41991950 AATTTAAAATTTGATATTACTAGTTACTTTCACCTTTTTTTTTTGCGTGAAACATGTTCAACTTT
1 AATTTAAAATTTGATATTACTAGTTACTTTCACCTTTTTTTTTTGCGTGAAACATGTTCAACTTT
41992015 AAAAAAA-AATTAAATAAAACAGTGACGTCAGGTCATTTATATCTTTTTTCTAAT
66 AAAAAAATAATTAAATAAAACAGTGACGTCAGGTCATTTATATCTTTTTTCTAAT
*
41992069 AATTTTAAAATTTGATATTACTAGTTACTTTCACCTTTTTTTTTTGCGTGAAACATATTCAACTT
1 AA-TTTAAAATTTGATATTACTAGTTACTTTCACCTTTTTTTTTTGCGTGAAACATGTTCAACTT
*
41992134 TAAAAAAATAATTAAATAAAACAATGACGTCAGGTCATTTATATCTTTTTTCTAAT
65 TAAAAAAATAATTAAATAAAACAGTGACGTCAGGTCATTTATATCTTTTTTCTAAT
41992190 AATTTAAAATTTGATATTACTAGTTACTTTCACC-TTTTTTTTTGCGTGAAACATGTTCAACTTT
1 AATTTAAAATTTGATATTACTAGTTACTTTCACCTTTTTTTTTTGCGTGAAACATGTTCAACTTT
41992254 AAAAAAATAATTAAATAAAACAGTGACGTCAGGTCATTTATATCTTTTTTCTAAT
66 AAAAAAATAATTAAATAAAACAGTGACGTCAGGTCATTTATATCTTTTTTCTAAT
41992309 AATTTAA
1 AATTTAA
41992316 TATCACATCA
Statistics
Matches: 241, Mismatches: 4, Indels: 4
0.97 0.02 0.02
Matches are distributed among these distances:
119 92 0.38
120 101 0.42
121 48 0.20
ACGTcount: A:0.36, C:0.12, G:0.08, T:0.43
Consensus pattern (120 bp):
AATTTAAAATTTGATATTACTAGTTACTTTCACCTTTTTTTTTTGCGTGAAACATGTTCAACTTT
AAAAAAATAATTAAATAAAACAGTGACGTCAGGTCATTTATATCTTTTTTCTAAT
Found at i:41996374 original size:14 final size:14
Alignment explanation
Indices: 41996355--41996381 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41996345 AACAATTTAT
41996355 TATTAATTCAAATA
1 TATTAATTCAAATA
41996369 TATTAATTCAAAT
1 TATTAATTCAAAT
41996382 TAGTTATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAATTCAAATA
Found at i:42001601 original size:62 final size:62
Alignment explanation
Indices: 42001504--42001758 Score: 404
Period size: 62 Copynumber: 4.1 Consensus size: 62
42001494 TGAAAAATGA
* * * * *
42001504 AAAGGTCCGATGTCTTTATGATGTCATGAGTATTACATGAGAAATGAATCCTTTTACGAATT
1 AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATT
* *
42001566 AAAGGTTCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTTTTACGGATT
1 AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATT
* *
42001628 AAAGGTTCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATAAATCCTATTACGGATT
1 AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATT
* *
42001690 AAAGGTCCGATGTCTTTGAG-TATCGTGAGTATTACATGAGAAATGAAACCTATTACGGATT
1 AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATT
42001751 AAAGGTCC
1 AAAGGTCC
42001759 AACGTCGGGA
Statistics
Matches: 182, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
61 47 0.26
62 135 0.74
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.34
Consensus pattern (62 bp):
AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTACGGATT
Found at i:42003372 original size:9 final size:9
Alignment explanation
Indices: 42003358--42003387 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
42003348 GAAAGTTACT
*
42003358 ATTTCAACC
1 ATTTCAACA
42003367 ATTTCAACA
1 ATTTCAACA
42003376 ATTTCAACA
1 ATTTCAACA
42003385 ATT
1 ATT
42003388 AGCAGTAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.37
Consensus pattern (9 bp):
ATTTCAACA
Found at i:42003986 original size:17 final size:17
Alignment explanation
Indices: 42003961--42004001 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
42003951 CCAGCAAAGT
42003961 TTAAATTTATTTTAAAA
1 TTAAATTTATTTTAAAA
* *
42003978 TTAAGTTTATTTTAAAT
1 TTAAATTTATTTTAAAA
42003995 TTAAATT
1 TTAAATT
42004002 GAAAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TTAAATTTATTTTAAAA
Found at i:42006069 original size:15 final size:15
Alignment explanation
Indices: 42006049--42006078 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42006039 TTAATACCCA
*
42006049 CGACTCGATCCGATC
1 CGACTCGACCCGATC
42006064 CGACTCGACCCGATC
1 CGACTCGACCCGATC
42006079 TAAGATCCGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.43, G:0.20, T:0.17
Consensus pattern (15 bp):
CGACTCGACCCGATC
Found at i:42006524 original size:29 final size:29
Alignment explanation
Indices: 42006464--42006540 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 29
42006454 CAAACTGTCC
*** **
42006464 AAAAATTATATTTTAACCTTGAAACTTTT
1 AAAAATTATATTTTAACCCCAAAACTCCT
42006493 AAAAATTATATTTTAACCCCAAAACTCCT
1 AAAAATTATATTTTAACCCCAAAACTCCT
* * *
42006522 AAAAAGTACATTTTTACCC
1 AAAAATTATATTTTAACCC
42006541 TCGAAATTCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATTATATTTTAACCCCAAAACTCCT
Found at i:42006605 original size:19 final size:20
Alignment explanation
Indices: 42006579--42006619 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
42006569 CCTAAAATTT
* *
42006579 CAAAAAATCCATTTTTACCC
1 CAAAAATTCCATTTTGACCC
42006599 CAAAAATTCCATTTTGACCC
1 CAAAAATTCCATTTTGACCC
42006619 C
1 C
42006620 GAAACTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.32, G:0.02, T:0.29
Consensus pattern (20 bp):
CAAAAATTCCATTTTGACCC
Found at i:42006606 original size:29 final size:29
Alignment explanation
Indices: 42006493--42006603 Score: 100
Period size: 29 Copynumber: 3.8 Consensus size: 29
42006483 TGAAACTTTT
** * * * *
42006493 AAAAATTATATTTTAACCCCAAAACTCCT
1 AAAAATTCCATTTTTACCCCAAAATTTCA
* * *
42006522 AAAAAGTACATTTTTACCCTCGAAA-TTCA
1 AAAAATTCCATTTTTACCC-CAAAATTTCA
*
42006551 AAAAATTCCATTTTTGACCCTAAAATTTCA
1 AAAAATTCCATTTTT-ACCCCAAAATTTCA
42006581 AAAAA-TCCATTTTTACCCCAAAA
1 AAAAATTCCATTTTTACCCCAAAA
42006604 ATTCCATTTT
Statistics
Matches: 68, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
28 8 0.12
29 43 0.63
30 17 0.25
ACGTcount: A:0.43, C:0.23, G:0.03, T:0.32
Consensus pattern (29 bp):
AAAAATTCCATTTTTACCCCAAAATTTCA
Found at i:42006612 original size:49 final size:49
Alignment explanation
Indices: 42006551--42006648 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
42006541 TCGAAATTCA
* *
42006551 AAAAATTCCATTTTTGA-CCCTAAAATTTCAAAAAATCCATTTTTACCCC
1 AAAAATTCCA-TTTTGACCCCGAAAATTTCAAAAAATACATTTTTACCCC
* *
42006600 AAAAATTCCATTTTGACCCCGAAACTTTCAAAAATTACATTTTTACCCC
1 AAAAATTCCATTTTGACCCCGAAAATTTCAAAAAATACATTTTTACCCC
42006649 GAGATGTCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 6 0.14
49 38 0.86
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.34
Consensus pattern (49 bp):
AAAAATTCCATTTTGACCCCGAAAATTTCAAAAAATACATTTTTACCCC
Found at i:42010021 original size:48 final size:47
Alignment explanation
Indices: 42009939--42010104 Score: 214
Period size: 45 Copynumber: 3.6 Consensus size: 47
42009929 ACCTTTTTTC
* * * *
42009939 TATCTTCTTGAAGCTCCT-T-ATCAGCATCACCATCTGATAAGTAAA
1 TATCATCTTGAAGCTCCTCTCATCATCGTCACCATCTGATAAGTTAA
42009984 TATCATCTTGAAGCTCCTTCTCATCATCGTCACCATCTGATAAGTTAA
1 TATCATCTTGAAGCTCC-TCTCATCATCGTCACCATCTGATAAGTTAA
* * **
42010032 TATCATCTTGGAGCTCCTC-C-TCATTGTCATTATCTGATAAGTTAA
1 TATCATCTTGAAGCTCCTCTCATCATCGTCACCATCTGATAAGTTAA
42010077 TATCATCTTGAAGCTCCTCATCATCATC
1 TATCATCTTGAAGCTCCTC-TCATCATC
42010105 ACCACCTCTA
Statistics
Matches: 105, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
45 56 0.53
46 2 0.02
47 4 0.04
48 43 0.41
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (47 bp):
TATCATCTTGAAGCTCCTCTCATCATCGTCACCATCTGATAAGTTAA
Found at i:42010264 original size:15 final size:14
Alignment explanation
Indices: 42010244--42010273 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
42010234 ATCTCTCTCA
42010244 CCCTCACCACCATCT
1 CCCTCACCACC-TCT
42010259 CCCTCACCACCTCT
1 CCCTCACCACCTCT
42010273 C
1 C
42010274 TCACCCTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.63, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTCACCACCTCT
Found at i:42010287 original size:18 final size:18
Alignment explanation
Indices: 42010225--42010288 Score: 80
Period size: 18 Copynumber: 3.7 Consensus size: 18
42010215 CCTTATCCGA
* *
42010225 ACCCTAACCATCTCTCTC
1 ACCCTCACCACCTCTCTC
*
42010243 ACCCTCACCACC-ATCT-
1 ACCCTCACCACCTCTCTC
42010259 -CCCTCACCACCTCTCTC
1 ACCCTCACCACCTCTCTC
42010276 ACCCTCACCACCT
1 ACCCTCACCACCT
42010289 TTACTGCTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 11 0.28
16 3 0.08
17 3 0.08
18 22 0.56
ACGTcount: A:0.20, C:0.58, G:0.00, T:0.22
Consensus pattern (18 bp):
ACCCTCACCACCTCTCTC
Found at i:42010367 original size:30 final size:30
Alignment explanation
Indices: 42010327--42010414 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
42010317 CATCTCCCTC
* * *
42010327 ACCCTTACCACCCTTACTGCCAACATCCAA
1 ACCCTCACCACCCTTACTACCAACAACCAA
*
42010357 ACCCTCACCACCCTTACCACCAACAACCAA
1 ACCCTCACCACCCTTACTACCAACAACCAA
* * * *
42010387 ATCCTCACCACCTTTACTTCCCACAACC
1 ACCCTCACCACCCTTACTACCAACAACC
42010415 TCACCACCCT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.31, C:0.50, G:0.01, T:0.18
Consensus pattern (30 bp):
ACCCTCACCACCCTTACTACCAACAACCAA
Found at i:42015481 original size:49 final size:46
Alignment explanation
Indices: 42015392--42015492 Score: 130
Period size: 49 Copynumber: 2.1 Consensus size: 46
42015382 CAATATAATG
** * * *
42015392 GTTTTGCCTTTTAACTTAATGAGTAAATATTTATCTAAATGATGTA
1 GTTTTGCCTTTTAACTTAAAAAGTAAAAATTTATCAAAATGACGTA
42015438 GTTTTGCCTTTTAACTTTAGAAAATGTAAAAATTTATCAAAATGACGTA
1 GTTTTGCCTTTTAAC-TTA-AAAA-GTAAAAATTTATCAAAATGACGTA
42015487 GTTTTG
1 GTTTTG
42015493 TTTTTTCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
46 15 0.32
47 3 0.06
48 2 0.04
49 27 0.57
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.44
Consensus pattern (46 bp):
GTTTTGCCTTTTAACTTAAAAAGTAAAAATTTATCAAAATGACGTA
Found at i:42028469 original size:30 final size:31
Alignment explanation
Indices: 42028415--42028488 Score: 123
Period size: 30 Copynumber: 2.4 Consensus size: 31
42028405 ATTAAAATTA
*
42028415 TTTAATAATTTTATTATTTCAAAAATATAAT
1 TTTAATAATTTTATTATTTCAAAAAAATAAT
*
42028446 TTTAATAATTTTA-TATTTTAAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAAATAAT
42028476 TTTAATAATTTTA
1 TTTAATAATTTTA
42028489 AAAATCATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 28 0.68
31 13 0.32
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTAATAATTTTATTATTTCAAAAAAATAAT
Found at i:42028473 original size:21 final size:23
Alignment explanation
Indices: 42028449--42028492 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
42028439 ATATAATTTT
42028449 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
42028470 AATAATTTTAATAATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
42028493 TCATTTATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.43
22 2 0.10
23 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:42028493 original size:21 final size:20
Alignment explanation
Indices: 42028449--42028492 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 20
42028439 ATATAATTTT
42028449 AATAATTTTATATTTTAAAAA
1 AATAATTTTATATTTT-AAAA
42028470 AATAATTTTAATAATTTTAAAA
1 AATAATTTT-AT-ATTTTAAAA
42028492 A
1 A
42028493 TCATTTATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 7 0.33
23 5 0.24
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATAATTTTATATTTTAAAA
Found at i:42028872 original size:16 final size:16
Alignment explanation
Indices: 42028853--42028885 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
42028843 TATAAAGAGT
42028853 TATTTCATAAAGGACC
1 TATTTCATAAAGGACC
42028869 TATTTCATAAAGGACC
1 TATTTCATAAAGGACC
42028885 T
1 T
42028886 GTGAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (16 bp):
TATTTCATAAAGGACC
Found at i:42029059 original size:23 final size:23
Alignment explanation
Indices: 42029011--42029069 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
42029001 TTATCTGTCT
*
42029011 TTGTGGCACGCTTTTCCTCAGTC
1 TTGTGGCACGCTTTTCCTCAGCC
* *
42029034 TTGTGGTACGCTTTTCCTCTGCC
1 TTGTGGCACGCTTTTCCTCAGCC
* *
42029057 TTGTAGCATGCTT
1 TTGTGGCACGCTT
42029070 CTGCCTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.08, C:0.27, G:0.22, T:0.42
Consensus pattern (23 bp):
TTGTGGCACGCTTTTCCTCAGCC
Found at i:42029418 original size:19 final size:18
Alignment explanation
Indices: 42029394--42029434 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
42029384 TGATGTTTCG
*
42029394 TTTTTTTTATTTTTTTAGT
1 TTTTTTTTATTTTGTTA-T
*
42029413 TTTTTTTTGTTTTGTTAT
1 TTTTTTTTATTTTGTTAT
42029431 TTTT
1 TTTT
42029435 CTGCTACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (18 bp):
TTTTTTTTATTTTGTTAT
Found at i:42029425 original size:18 final size:19
Alignment explanation
Indices: 42029393--42029434 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
42029383 CTGATGTTTC
42029393 GTTTTTTTTATTTTT-TTA
1 GTTTTTTTTATTTTTGTTA
42029411 GTTTTTTTT-TGTTTTGTTA
1 GTTTTTTTTAT-TTTTGTTA
42029430 -TTTTT
1 GTTTTT
42029435 CTGCTACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.05
18 18 0.82
19 3 0.14
ACGTcount: A:0.07, C:0.00, G:0.10, T:0.83
Consensus pattern (19 bp):
GTTTTTTTTATTTTTGTTA
Found at i:42032473 original size:30 final size:30
Alignment explanation
Indices: 42032439--42032568 Score: 111
Period size: 30 Copynumber: 4.3 Consensus size: 30
42032429 AATCAAAATT
* *
42032439 CAAATTTTTAGAAAGTTCGAGGGTCAAACC
1 CAAATTTTTGGAAAGTTCGAGGGTCAAAAC
* *
42032469 CAAATTTTTTGAAAAGTTCGGGGGTCAAAAC
1 CAAA-TTTTTGGAAAGTTCGAGGGTCAAAAC
** ** * *
42032500 TTAATTTTTGGAAAGTTTAAGGGTTAAATC
1 CAAATTTTTGGAAAGTTCGAGGGTCAAAAC
* *
42032530 TAAATTTTTGGATAA-TTTGAGGGTCAAAA-
1 CAAATTTTTGGA-AAGTTCGAGGGTCAAAAC
42032559 CATAATTTTT
1 CA-AATTTTT
42032569 TTGATAGTTT
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
29 1 0.01
30 53 0.66
31 26 0.32
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (30 bp):
CAAATTTTTGGAAAGTTCGAGGGTCAAAAC
Found at i:42032536 original size:61 final size:60
Alignment explanation
Indices: 42032441--42032568 Score: 148
Period size: 61 Copynumber: 2.1 Consensus size: 60
42032431 TCAAAATTCA
* * * *
42032441 AATTTTTAGAAAGTTCGAGGGTCAAACCCAAATTTTTTGAAAAGTTCGGGGGTCAAAACTT
1 AATTTTTAGAAAGTTCAAGGGTCAAACCCAAATTTTTGGAAAA-TTCGAGGGTCAAAACAT
* * * * * * *
42032502 AATTTTTGGAAAGTTTAAGGGTTAAATCTAAATTTTTGGATAATTTGAGGGTCAAAACAT
1 AATTTTTAGAAAGTTCAAGGGTCAAACCCAAATTTTTGGAAAATTCGAGGGTCAAAACAT
42032562 AATTTTT
1 AATTTTT
42032569 TTGATAGTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
60 21 0.38
61 35 0.62
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (60 bp):
AATTTTTAGAAAGTTCAAGGGTCAAACCCAAATTTTTGGAAAATTCGAGGGTCAAAACAT
Found at i:42032590 original size:31 final size:31
Alignment explanation
Indices: 42032490--42032599 Score: 102
Period size: 31 Copynumber: 3.6 Consensus size: 31
42032480 AAAAGTTCGG
* * *
42032490 GGGTCAAAACTTAA-TTTTTGGA-AAGTTTAA
1 GGGTTAAAACATAATTTTTTGGATAA-TTTGA
* *
42032520 GGGTTAAATC-TAAATTTTTGGATAATTTGA
1 GGGTTAAAACATAATTTTTTGGATAATTTGA
* * *
42032550 GGGTCAAAACATAATTTTTTTGATAGTTTG-
1 GGGTTAAAACATAATTTTTTGGATAATTTGA
42032580 GAGGTTAAAACATAATTTTT
1 G-GGTTAAAACATAATTTTT
42032600 AAATAAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 3 0.04
30 29 0.43
31 35 0.52
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.41
Consensus pattern (31 bp):
GGGTTAAAACATAATTTTTTGGATAATTTGA
Found at i:42034322 original size:39 final size:39
Alignment explanation
Indices: 42034270--42034349 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
42034260 TGGGATGAAT
* * *
42034270 GTTTCAATTTGCCTCATGGTCGGGGTATGAGATTGGATG
1 GTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATG
* *
42034309 GTTTCACTCTGCCTCATGATCGGGGTAAGATATTGGATG
1 GTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATG
42034348 GT
1 GT
42034350 GTCTTCAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.35
Consensus pattern (39 bp):
GTTTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATG
Found at i:42034695 original size:123 final size:123
Alignment explanation
Indices: 42034508--42035464 Score: 1142
Period size: 123 Copynumber: 7.8 Consensus size: 123
42034498 TTTGGCCTAA
* *
42034508 TTCTCTGTATCTCATCA-AGAAGAT-AGGGTTTGAAGTTTCACTCGCATTAAGCTTCGCTTTATT
1 TTCTCTGTATCTCATCAGA-AAGATGA-GGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATT
* *
42034571 GTTTTGATCTACTTCTTTGTATCTCATCAAGAAGATGACCATTTCATTGTTTTGACCCAC
64 GTTTTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCACTTCATTGTTTTGACCCAC
* * * * *
42034631 TTCTCTGTATCTCATCAGAAAAATGAGGTTTGAAGTTTAACTCGCATTAATCTTTGCTTCATTGT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGT
* * * *
42034696 TTCGGTCTACTTCTTTGTATCTCGTCAGGAAGATGACCATTTCATTGTTTTGACCCAC
66 TTTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCACTTCATTGTTTTGACCCAC
* * * * *
42034754 TACTCTGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCGCATTGAGTTTCGCTTCATTGT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGT
* * * *
42034819 TTTGGTCTACTTCTCTGTATCTCATCAAGAAAATGACCACTTCATTATTTTGACCCAA
66 TTTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCACTTCATTGTTTTGACCCAC
* * * *
42034877 TTCTCTTTATCTCATCAGGAAGATCAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGT
* * * * * *
42034942 TTTGGTCTACTTC-GTATACCTTAAT-AGGAAGATGACCACTTCATTATTTTGACCCAC
66 TTTGGTCTACTTCTTTGTATC-TCATCAAGAAGATGACCACTTCATTGTTTTGACCCAC
* * * * * * * *
42034999 TTCTTTGTATCTCATTAGAAAGATGGGGTTTGAAATTTCACTCATATTGAGCTTCGCTTTATTAT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGT
* * * *
42035064 TTTGGTCAACTT-TTCTGTATCTCATAAAAAAGATGACCACATT-ATTATTTTGACCCAC
66 TTTGGTCTACTTCTT-TGTATCTCATCAAGAAGATGACCAC-TTCATTGTTTTGACCCAC
* * * * * * *
42035122 TTCTCTATATTTCTTCA-AGAAGATGAGGCTTGAAGTTTCACTCATATTGAGCTTCGCTTC-CTG
1 TTCTCTGTATCTCATCAGA-AAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTG
* * * * * *
42035185 TTTTGGTTTACTTCTTTGTATTTTATCAGGAAGATGACCACTTCATTGTTTAGTCCCAC
65 TTTTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCACTTCATTGTTTTGACCCAC
* * *
42035244 TTCTCTGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGT
* *
42035309 TTTGGTCTACTTCTCTGTATCTCAT-AAGGAAGATAACCACTTCATTGTTTTGACCCAC
66 TTTGGTCTACTTCTTTGTATCTCATCAA-GAAGATGACCACTTCATTGTTTTGACCCAC
* *
42035367 TTCTCTATATCTCATCAGGAAA-ATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTA
1 TTCTCTGTATCTCATCA-GAAAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTG
** * * * *
42035431 TTTTGACCCACTACTCTGTATCTCATCAGGAAGA
65 TTTTGGTCTACTTCTTTGTATCTCATCAAGAAGA
42035465 CGAGCTTTAA
Statistics
Matches: 718, Mismatches: 101, Indels: 30
0.85 0.12 0.04
Matches are distributed among these distances:
121 2 0.00
122 200 0.28
123 508 0.71
124 8 0.01
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.40
Consensus pattern (123 bp):
TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGT
TTTGGTCTACTTCTTTGTATCTCATCAAGAAGATGACCACTTCATTGTTTTGACCCAC
Found at i:42035102 original size:245 final size:246
Alignment explanation
Indices: 42034508--42035435 Score: 1197
Period size: 245 Copynumber: 3.8 Consensus size: 246
42034498 TTTGGCCTAA
* * *
42034508 TTCTCTGTATCTCATCA-AGAAGAT-AGGGTTTGAAGTTTCACTCGCATTAAGCTTCGCTTTATT
1 TTCTCTGTATCTCATCAGA-AAGATGA-GGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
* * * * * *
42034571 GTTTTGATCTACTTCTTTGTATCTCATCAAGAAGATGACCATTTCATTGTTTTGACCCACTTCTC
64 GTTTTGGTCTACTTCTCTGTATCTCATAAAAAAGATGACCACTTCATTATTTTGACCCACTTCTC
* * * * * * *
42034636 TGTATCTCATCAGAAAAATGAGGTTTGAAGTTTAACTCGCATTAATCTTTGCTTCATTGTTTCGG
129 TATATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGTTTTGG
** *
42034701 TCTACTTCTTTGTA-TCTCGTCAGGAAGATGACCATTTCATTGTTTTGACCCAC
194 TCTACTTCTTTGTACT-TAATCAGGAAGATGACCACTTCATTGTTTTGACCCAC
* * * *
42034754 TACTCTGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCGCATTGAGTTTCGCTTCATTGT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGT
* *
42034819 TTTGGTCTACTTCTCTGTATCTCATCAAGAAA-ATGACCACTTCATTATTTTGACCCAATTCTCT
66 TTTGGTCTACTTCTCTGTATCTCAT-AAAAAAGATGACCACTTCATTATTTTGACCCACTTCTCT
* * * *
42034883 TTATCTCATCAGGAAGATCAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGTTTTGGT
130 ATATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGTTTTGGT
* * *
42034948 CTACTTC-GTATACCTTAAT-AGGAAGATGACCACTTCATTATTTTGACCCAC
195 CTACTTCTTTGTA-CTTAATCAGGAAGATGACCACTTCATTGTTTTGACCCAC
* * * * * * *
42034999 TTCTTTGTATCTCATTAGAAAGATGGGGTTTGAAATTTCACTCATATTGAGCTTCGCTTTATTAT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGT
* *
42035064 TTTGGTCAACTTTTCTGTATCTCATAAAAAAGATGACCACATT-ATTATTTTGACCCACTTCTCT
66 TTTGGTCTACTTCTCTGTATCTCATAAAAAAGATGACCAC-TTCATTATTTTGACCCACTTCTCT
* * * * * * * *
42035128 ATATTTCTTCAAGAAGATGAGGCTTGAAGTTTCACTCATATTGAGCTTCGCTTC-CTGTTTTGGT
130 ATATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGTTTTGGT
* * * * *
42035192 TTACTTCTTTGTATTTTATCAGGAAGATGACCACTTCATTGTTTAGTCCCAC
195 CTACTTCTTTGTACTTAATCAGGAAGATGACCACTTCATTGTTTTGACCCAC
* *
42035244 TTCTCTGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATTGT
1 TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGT
** * *
42035309 TTTGGTCTACTTCTCTGTATCTCATAAGGAAGATAACCACTTCATTGTTTTGACCCACTTCTCTA
66 TTTGGTCTACTTCTCTGTATCTCATAAAAAAGATGACCACTTCATTATTTTGACCCACTTCTCTA
*
42035374 TATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTATTTTG
131 TATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGTTTTG
42035436 ACCCACTACT
Statistics
Matches: 587, Mismatches: 84, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
244 26 0.04
245 375 0.64
246 181 0.31
247 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (246 bp):
TTCTCTGTATCTCATCAGAAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTGT
TTTGGTCTACTTCTCTGTATCTCATAAAAAAGATGACCACTTCATTATTTTGACCCACTTCTCTA
TATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTGTTTTGGTC
TACTTCTTTGTACTTAATCAGGAAGATGACCACTTCATTGTTTTGACCCAC
Found at i:42035451 original size:368 final size:368
Alignment explanation
Indices: 42034506--42035456 Score: 1230
Period size: 368 Copynumber: 2.6 Consensus size: 368
42034496 TATTTGGCCT
* * * *
42034506 AATTCTCTGTATCTCATCAAGAAGATAGGGTTTGAAGTTTCACTCGCATTAAGCTTCGCTTTATT
1 AATTCTCTGTATCTCATCAGGAAGATA-GGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
* * *
42034571 GTTTTGATCTACTTCTTTGTATCTCATCAA-GAAGATGACCATTTCATTGTTTTGACCCACTTCT
65 GTTTTGGTCTACTTCTCTGTATCTCAT-AAGGAAGATGACCACTTCATTGTTTTGACCCACTTCT
* * * * * * *
42034635 CTGTATCTCATCAGAAAAATGAGGTTTGAAGTTTAACTCGCATTAATCTTTGCTTCATTGTTTCG
129 CTGTATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTATTTTG
* * * * ** * * *
42034700 GTCTACTTCTTTGTATCTCGTCAGGAAGATGACCATTTCATTGTTTTGACCCACTACTCTGTATC
194 GTCAACTTCTCTGTATCTCATAAAAAAGATGACCAATTCATTATTTTGACCCACTACTCTATATC
* * * * *
42034765 TCATCAGGAAGATGAGGTTTGAAGTTTCACTCGCATTGAGTTTCGCTTCATTGTTTTGGTCTACT
259 TCATCAAGAAGATGAGGCTTGAAGTTTCACTCACATTGAGCTTCGCTTCACTGTTTTGGTCTACT
*
42034830 TCTCTGTATCTCATCAAGAAAATGACCACTTCATTATTTTGACCC
324 TCTCTGTATCTCATCAAGAAAATGACCACTTCATTATTTAGACCC
*
42034875 AATTCTCTTTATCTCATCAGGAAGATCAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
1 AATTCTCTGTATCTCATCAGGAAGAT-AGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
* * * * *
42034940 GTTTTGGTCTACTTC-GTATACCTTA-ATAGGAAGATGACCACTTCATTATTTTGACCCACTTCT
65 GTTTTGGTCTACTTCTCTGTATCTCATA-AGGAAGATGACCACTTCATTGTTTTGACCCACTTCT
* * * * * * *
42035003 TTGTATCTCATTA-GAAAGATGGGGTTTGAAATTTCACTCATATTGAGCTTCGCTTTATTATTTT
129 CTGTATCTCATCAGGAAA-ATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTATTTT
* *
42035067 GGTCAACTTTTCTGTATCTCATAAAAAAGATGACCACATT-ATTATTTTGACCCACTTCTCTATA
193 GGTCAACTTCTCTGTATCTCATAAAAAAGATGACCA-ATTCATTATTTTGACCCACTACTCTATA
* * * *
42035131 TTTCTTCAAGAAGATGAGGCTTGAAGTTTCACTCATATTGAGCTTCGCTTC-CTGTTTTGGTTTA
257 TCTCATCAAGAAGATGAGGCTTGAAGTTTCACTCACATTGAGCTTCGCTTCACTGTTTTGGTCTA
* * * * * * *
42035195 CTTCTTTGTATTTTATCAGGAAGATGACCACTTCATTGTTTAGTCCC
322 CTTCTCTGTATCTCATCAAGAAAATGACCACTTCATTATTTAGACCC
* *
42035242 ACTTCTCTGTATCTCATCAGGAAGATGAGGTTTGAAGTTTCACTCACATTGAGCTTCACTTCATT
1 AATTCTCTGTATCTCATCAGGAAGAT-AGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATT
*
42035307 GTTTTGGTCTACTTCTCTGTATCTCATAAGGAAGATAACCACTTCATTGTTTTGACCCACTTCTC
65 GTTTTGGTCTACTTCTCTGTATCTCATAAGGAAGATGACCACTTCATTGTTTTGACCCACTTCTC
* *
42035372 TATATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTATTTTGA
130 TGTATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTATTTTGG
* * *
42035437 CCCACTACTCTGTATCTCAT
195 TCAACTTCTCTGTATCTCAT
42035457 CAGGAAGACG
Statistics
Matches: 497, Mismatches: 77, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
366 1 0.00
367 130 0.26
368 286 0.58
369 79 0.16
370 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (368 bp):
AATTCTCTGTATCTCATCAGGAAGATAGGTTTGAAGTTTCACTCACATTGAGCTTCGCTTCATTG
TTTTGGTCTACTTCTCTGTATCTCATAAGGAAGATGACCACTTCATTGTTTTGACCCACTTCTCT
GTATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACATTAAGCTTCGCTTCATTATTTTGGT
CAACTTCTCTGTATCTCATAAAAAAGATGACCAATTCATTATTTTGACCCACTACTCTATATCTC
ATCAAGAAGATGAGGCTTGAAGTTTCACTCACATTGAGCTTCGCTTCACTGTTTTGGTCTACTTC
TCTGTATCTCATCAAGAAAATGACCACTTCATTATTTAGACCC
Found at i:42035539 original size:75 final size:75
Alignment explanation
Indices: 42035348--42035531 Score: 251
Period size: 75 Copynumber: 2.5 Consensus size: 75
42035338 AAGATAACCA
* * * * *
42035348 CTTCATTGTTTTGACCCACTTCTCTATATCTCATCAGGAAAATGAGGTTTGAAGTTTCACTCACA
1 CTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCACA
42035413 TTAAGCTTCG
66 TTAAGCTTCG
* * *
42035423 CTTCATTATTTTGACCCACTACTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCGCA
1 CTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCACA
*
42035488 TTGAGCTTCG
66 TTAAGCTTCG
** * *
42035498 CTTCATTGTTTTGGTCTATTTCTCTGTATCTCAT
1 CTTCATTGTTTTGACCCACTTCTCTGTATCTCAT
42035532 TAAGAAGATA
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (75 bp):
CTTCATTGTTTTGACCCACTTCTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCACA
TTAAGCTTCG
Found at i:42035620 original size:105 final size:105
Alignment explanation
Indices: 42035438--42035632 Score: 300
Period size: 105 Copynumber: 1.9 Consensus size: 105
42035428 TTATTTTGAC
*
42035438 CCACTACTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCGCATTGAGCTTCGCTTCA
1 CCACTACTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCACATTGAGCTTCGCTTCA
* *
42035503 TTGTTTTGGTCTATTTCTCTGTATCTCATTAAGAAGATAA
66 TTGTTTTGGTCTACTTCTCTATATCTCATTAAGAAGATAA
* * * * * * *
42035543 CCACTACTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTTACTCATATTGAGCTTCGCTTCC
1 CCACTACTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCACATTGAGCTTCGCTTCA
42035608 TTGTTTTGGTCTACTTCTCTATATC
66 TTGTTTTGGTCTACTTCTCTATATC
42035633 CTATCAGGAA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
105 80 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (105 bp):
CCACTACTCTGTATCTCATCAGGAAGACGAGCTTTAAAGTTTCACTCACATTGAGCTTCGCTTCA
TTGTTTTGGTCTACTTCTCTATATCTCATTAAGAAGATAA
Found at i:42035765 original size:123 final size:122
Alignment explanation
Indices: 42035543--42036638 Score: 1121
Period size: 123 Copynumber: 8.9 Consensus size: 122
42035533 AAGAAGATAA
* * *
42035543 CCACTACTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTTACTCATATTGAGCTTCGCTTCC
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
* * *
42035608 TTGTTTTGGTCTACTTCTCTATATC-CTATCAGGAAGATGACCACTTCATTATTTTGAC
66 TTGATTTGGTCCACTTCTCTGTATCTC-AT-AGGAAGATGACCACTTCATTATTTTGAC
* * * ** *
42035666 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTAAAGTTTCACTCGTATTGAGCTCCATTTTG
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
* ** * * *
42035731 TTGATTTAGTGAACTTCTCTGTATCTCACTAGGAAGATTACCGCTTCATTGTTTTGAC
66 TTGATTTGGTCCACTTCTCTGTATCTCA-TAGGAAGATGACCACTTCATTATTTTGAC
* * * * * *
42035789 CCACTTCTCTGAATCTCATTAAGAAGTTGAGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCA
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
* * * * * *
42035854 TTGTTTTGGTCTACTTCTCTTTATCTCATTAGGAAGATGATCAGTTCATTGTTTTGA-
66 TTGATTTGGTCCACTTCTCTGTATCTCA-TAGGAAGATGACCACTTCATTATTTTGAC
* * * *
42035911 CCATTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTGCGCTTCA
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
* * * * * *
42035976 TT-ATTTTGGTCTACTTCTTTTTATCTTATTAGGAAGATGACCACTCCATTGTTTTGAC
66 TTGA-TTTGGTCCACTTCTCTGTATCTCA-TAGGAAGATGACCACTTCATTATTTTGAC
* * * * *
42036034 CCACTTTTTTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCTTATTAAGCTTCGCTTCA
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
** * * *
42036099 TT-ATTTTGGTTTACTTCTCTATATCTCATCAGGAAGATGACTACTTCATTATTTTAAC
66 TTGA-TTTGGTCCACTTCTCTGTATCTCAT-AGGAAGATGACCACTTCATTATTTTGAC
* * ** * * * * *
42036157 CCTCTTCTCTTTATCTCATTTGAAAGATAGGGTTTGAAGTTTCACTTACATTGAGCTCCGCTTCG
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
* * * * *
42036222 TTGATTTAGTCCACTTCTCTATATCTCATTAGGAAGATGACCGCTTTATTGTTTTGAC
66 TTGATTTGGTCCACTTCTCTGTATCTCA-TAGGAAGATGACCACTTCATTATTTTGAC
* * *
42036280 CCACTTCTCTGTATCTCATCAGGAAGATAGGGTTTAAAGTTTCACTCATATTGAGCTTCTCTTTC
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGC-TTC
* * * * *
42036345 -TTGTTTTGGT-CACTTCTTTGTATCTCATTAGGAAGATGATCA-TTGTATTATTTTGAT
65 GTTGATTTGGTCCACTTCTCTGTATCTCA-TAGGAAGATGACCACTT-CATTATTTTGAC
** * * * * * * *
42036402 TGACTTCTCTATATCTCATTAGGAAAATGGGGTTTGAAGTTTCACTCGTATTGAGCTCCACTTTG
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
* * * ** *
42036467 TTGATTTAGTCCATTTCTTTGTATCTCATCAGGAAGATGACTGCTTCATTATTTTGAT
66 TTGATTTGGTCCACTTCTCTGTATCTCAT-AGGAAGATGACCACTTCATTATTTTGAC
* * * * * * *
42036525 CCA-TTTTTTGTATCTCATTATGAAGATGAGGTTTAAAGTTTCACTCAAATTGAGCTAT-GCTTC
1 CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCT-TCGCTTC
* * *
42036588 GTTAATTTGGTCCACTTCTTTGTATCTCATCAGGAAGATGACCGCTTCATT
65 GTTGATTTGGTCCACTTCTCTGTATCTCAT-AGGAAGATGACCACTTCATT
42036639 TGTTTTGATC
Statistics
Matches: 815, Mismatches: 144, Indels: 29
0.82 0.15 0.03
Matches are distributed among these distances:
121 4 0.00
122 300 0.37
123 502 0.62
124 9 0.01
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (122 bp):
CCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTCGCTTCG
TTGATTTGGTCCACTTCTCTGTATCTCATAGGAAGATGACCACTTCATTATTTTGAC
Done.