Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 38 of 290
Found at i:12171819 original size:17 final size:16
Alignment explanation
Indices: 12171793--12171828 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
12171783 AAAACATTGC
*
12171793 CATAAAGTGTTAAGGT
1 CATAAAGTGTGAAGGT
12171809 CATATAAGTGTGAAGGT
1 CATA-AAGTGTGAAGGT
12171826 CAT
1 CAT
12171829 GGTATCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (16 bp):
CATAAAGTGTGAAGGT
Found at i:12186747 original size:21 final size:21
Alignment explanation
Indices: 12186700--12186748 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
12186690 TTATAGGAAA
* *
12186700 AAAATATTTAATGGGAAATTTT
1 AAAA-ATTTAAGGGGAAATTAT
* *
12186722 GAAAATTTAAGGGGATATTAT
1 AAAAATTTAAGGGGAAATTAT
12186743 AAAAAT
1 AAAAAT
12186749 AGTCACTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (21 bp):
AAAAATTTAAGGGGAAATTAT
Found at i:12187029 original size:9 final size:8
Alignment explanation
Indices: 12187014--12187038 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12187004 TCTTAAAGTT
12187014 TAAAAAAA
1 TAAAAAAA
12187022 TAAAAAAA
1 TAAAAAAA
12187030 TAAAAAAA
1 TAAAAAAA
12187038 T
1 T
12187039 TTAAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:12187044 original size:16 final size:16
Alignment explanation
Indices: 12187014--12187070 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 16
12187004 TCTTAAAGTT
*
12187014 TAAAAAAATAAAAAAA
1 TAAAAAAATATAAAAA
*
12187030 TAAAAAAATTTAAAAA
1 TAAAAAAATATAAAAA
12187046 TCTAAAAAAAGTAT--AAA
1 --TAAAAAAA-TATAAAAA
12187063 TAAAAAAA
1 TAAAAAAA
12187071 CTAAAGCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 8 0.23
16 14 0.40
17 3 0.09
18 8 0.23
19 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (16 bp):
TAAAAAAATATAAAAA
Found at i:12189174 original size:39 final size:39
Alignment explanation
Indices: 12189120--12189199 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
12189110 TTACAATCAC
12189120 TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
1 TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
*
12189159 TAACATTCACCTAGCTTGTTTAACCTCTGCTAACTCTTG
1 TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
12189198 TA
1 TA
12189200 CCCTTGCTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (39 bp):
TAACATTCACCTAGCTAGTTTAACCTCTGCTAACTCTTG
Found at i:12189443 original size:11 final size:11
Alignment explanation
Indices: 12189427--12189451 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12189417 TGTCCGGCTC
12189427 AAACAAAAACA
1 AAACAAAAACA
12189438 AAACAAAAACA
1 AAACAAAAACA
12189449 AAA
1 AAA
12189452 TAAATAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (11 bp):
AAACAAAAACA
Found at i:12191075 original size:18 final size:18
Alignment explanation
Indices: 12191042--12191076 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12191032 TAATGTTCCA
* *
12191042 CTTATTATTATTTATTAT
1 CTTATTATCATATATTAT
12191060 CTTATTATCATATATTA
1 CTTATTATCATATATTA
12191077 CTCGCGTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
CTTATTATCATATATTAT
Found at i:12195110 original size:17 final size:17
Alignment explanation
Indices: 12195085--12195121 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
12195075 TGAGACACAC
*
12195085 TCCATAGAGTAGTTTTG
1 TCCACAGAGTAGTTTTG
12195102 TCCACAGAGTAGTTTTG
1 TCCACAGAGTAGTTTTG
12195119 TCC
1 TCC
12195122 TCAAGTGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (17 bp):
TCCACAGAGTAGTTTTG
Found at i:12196622 original size:13 final size:13
Alignment explanation
Indices: 12196591--12196632 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
12196581 CTTTGCCTAC
*
12196591 TTATTTTTTTATTT
1 TTATTTTATTA-TT
12196605 GTTATTTTATTATT
1 -TTATTTTATTATT
12196619 TTATTTTATTATT
1 TTATTTTATTATT
12196632 T
1 T
12196633 CCATAACTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 14 0.54
14 2 0.08
15 10 0.38
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (13 bp):
TTATTTTATTATT
Found at i:12196733 original size:18 final size:18
Alignment explanation
Indices: 12196710--12196744 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12196700 CCTTAAGTAG
12196710 TTATTTTT-TTATTTTATT
1 TTATTTTTATT-TTTTATT
12196728 TTATTTTTATTTTTTAT
1 TTATTTTTATTTTTTAT
12196745 CATCAGATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
TTATTTTTATTTTTTATT
Found at i:12197671 original size:21 final size:21
Alignment explanation
Indices: 12197642--12197690 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
12197632 AGATATTGAA
* *
12197642 GAAAGTAGTTTGTGAAATAAT
1 GAAAATAGTTTGCGAAATAAT
*
12197663 GAAAATAGTTTGCGAATTAAT
1 GAAAATAGTTTGCGAAATAAT
12197684 GAAAATA
1 GAAAATA
12197691 AAGGACTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (21 bp):
GAAAATAGTTTGCGAAATAAT
Found at i:12203693 original size:47 final size:47
Alignment explanation
Indices: 12203523--12203911 Score: 496
Period size: 47 Copynumber: 8.4 Consensus size: 47
12203513 CGGCCAAGAT
* * *
12203523 AAAGTGTATATATGAGATAAGGCCTAATAGTCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
12203570 AAA--G----TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
12203611 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
12203660 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * *
12203707 AAA--G----TATGTGATAAGGCCGAATGGCCAACGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
12203748 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
12203797 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * * *
12203844 AAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
12203891 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
12203912 TCCCGAAGGG
Statistics
Matches: 299, Mismatches: 27, Indels: 32
0.84 0.08 0.09
Matches are distributed among these distances:
41 71 0.24
43 2 0.01
45 2 0.01
47 144 0.48
49 80 0.27
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:12203769 original size:137 final size:137
Alignment explanation
Indices: 12203523--12203911 Score: 629
Period size: 137 Copynumber: 2.8 Consensus size: 137
12203513 CGGCCAAGAT
* *
12203523 AAAGTGTATATATGAGATAAGGCCTAATAGTCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
*
12203588 GAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGAT
66 GAATGGCCAACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGAT
12203653 GAATGTG
131 GAATGTG
12203660 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
*
12203725 GAATGGCCAACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
66 GAATGGCCAACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGAT
12203790 GAATGTG
131 GAATGTG
* *
12203797 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAC
1 AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--G----TATGTGAT
* * *
12203862 AGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
60 AAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATATATATGTGATAAG
12203912 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 9, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
137 182 0.77
139 1 0.00
141 10 0.04
142 1 0.00
143 43 0.18
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (137 bp):
AAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTATGTGATAAGGCC
GAATGGCCAACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATATGAT
GAATGTG
Found at i:12212581 original size:79 final size:78
Alignment explanation
Indices: 12212432--12212660 Score: 273
Period size: 79 Copynumber: 2.9 Consensus size: 78
12212422 GTCACATCTT
* * * *
12212432 ATGTAACTGTAGTGAATCACGATTA-CCTTTTCAGGTCAAATCCT-GCCACCTTAAGTTATCATA
1 ATGTAACCGTAGCGAATCA-GATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
* *
12212495 AGGAATCATGTATC
65 ATGAATCATATATC
* *
12212509 GTGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCATA
1 ATGTAACCGTAGCGAATCA-GATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
12212574 ATGAATCATATATC
65 ATGAATCATATATC
* ** * ** *
12212588 ATGGAACCGTAGCGAATCTAGATTACTGTTTTCAGGTAAAATCCTATCTGCCTTAAGTTACCGTA
1 ATGTAACCGTAGCGAATC-AGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATA
*
12212653 GTGAATCA
65 ATGAATCA
12212661 CGAATAAATC
Statistics
Matches: 130, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
77 21 0.16
78 19 0.15
79 89 0.68
80 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (78 bp):
ATGTAACCGTAGCGAATCAGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCATAA
TGAATCATATATC
Found at i:12212741 original size:40 final size:40
Alignment explanation
Indices: 12212626--12212802 Score: 167
Period size: 40 Copynumber: 4.4 Consensus size: 40
12212616 TTTTCAGGTA
** * * * * *
12212626 AAATCCTATCTGCCTTAAGTTACCGTAGTGAATCACGAAT
1 AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
* * *
12212666 AAATCCCATTCACTTTAAATTA-CAGTAGTGAATCAGGAAT
1 AAATCCTATCCACTTTAAATTACCA-TAGTGAATCAGGAAC
*
12212706 AAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAAC
1 AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
* * ** ***
12212746 AAAACCTATCCACTTTGAGGTATTTTAGTGAATCAGGAAC
1 AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
*
12212786 GAATCCTATCCACTTTA
1 AAATCCTATCCACTTTA
12212803 TATTCTCGAA
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 111 0.97
41 2 0.02
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (40 bp):
AAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAAC
Found at i:12213794 original size:18 final size:18
Alignment explanation
Indices: 12213764--12213841 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
12213754 CAGTCAGTCA
*
12213764 TCAGTATTAATCAGTTAT
1 TCAGTAATAATCAGTTAT
* *
12213782 TCAATAATAATCATTTAT
1 TCAGTAATAATCAGTTAT
* * * *
12213800 TCAGTGACAGTCAATTAT
1 TCAGTAATAATCAGTTAT
12213818 TCAGTAATAATCAGTTAT
1 TCAGTAATAATCAGTTAT
12213836 TCAGTA
1 TCAGTA
12213842 CCTTTATTTA
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (18 bp):
TCAGTAATAATCAGTTAT
Found at i:12214194 original size:16 final size:15
Alignment explanation
Indices: 12214173--12214229 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 15
12214163 AACTTTCAGT
12214173 TTTCAATCAGTATATA
1 TTTCAATCAG-ATATA
12214189 TTTCAATTATCAGATATA
1 TTTC-A--ATCAGATATA
12214207 TTCTCAATTCA-ATATA
1 TT-TCAA-TCAGATATA
12214223 TTTCAAT
1 TTTCAAT
12214230 TCACTTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
14 1 0.03
15 4 0.11
16 12 0.33
17 4 0.11
18 8 0.22
19 7 0.19
ACGTcount: A:0.37, C:0.14, G:0.04, T:0.46
Consensus pattern (15 bp):
TTTCAATCAGATATA
Found at i:12214213 original size:19 final size:18
Alignment explanation
Indices: 12214178--12214230 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
12214168 TCAGTTTTCA
12214178 ATCAGTATATATTTCAATT
1 ATCAG-ATATATTTCAATT
12214197 ATCAGATATATTCTCAA-T
1 ATCAGATATATT-TCAATT
12214215 -TCA-ATATATTTCAATT
1 ATCAGATATATTTCAATT
12214231 CACTTTATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 4 0.12
16 8 0.25
17 3 0.09
18 8 0.25
19 9 0.28
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (18 bp):
ATCAGATATATTTCAATT
Found at i:12217321 original size:11 final size:10
Alignment explanation
Indices: 12217305--12217338 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
12217295 TTATATATTA
12217305 AATAAATTAAT
1 AATAAA-TAAT
12217316 AATAAAATAAT
1 AAT-AAATAAT
12217327 AATAAATAAT
1 AATAAATAAT
12217337 AA
1 AA
12217339 AATATCTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.41
11 10 0.45
12 3 0.14
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:12219947 original size:14 final size:13
Alignment explanation
Indices: 12219919--12219955 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
12219909 ATCTTGGAAT
12219919 ATTAA-AACAATA
1 ATTAAGAACAATA
12219931 ATTAAGAACACATA
1 ATTAAGAACA-ATA
12219945 ATTAAGAACAA
1 ATTAAGAACAA
12219956 ATCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:12221083 original size:10 final size:10
Alignment explanation
Indices: 12221064--12221095 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
12221054 TTTTAGGATT
12221064 TTAT-TTTAA
1 TTATCTTTAA
12221073 TTATCTTTAA
1 TTATCTTTAA
12221083 TTATCTTTAA
1 TTATCTTTAA
12221093 TTA
1 TTA
12221096 AATGTATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:12227697 original size:14 final size:13
Alignment explanation
Indices: 12227669--12227705 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
12227659 ATCCTAGAAT
12227669 ATTAA-AACAATA
1 ATTAAGAACAATA
12227681 ATTAAGAACACATA
1 ATTAAGAACA-ATA
12227695 ATTAAGAACAA
1 ATTAAGAACAA
12227706 ATCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:12228081 original size:13 final size:13
Alignment explanation
Indices: 12228063--12228102 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
12228053 GCTCGACAGG
12228063 GACACGCCCGTGT
1 GACACGCCCGTGT
* *
12228076 GACACGTCTGTGT
1 GACACGCCCGTGT
12228089 GACACGCCCGTGT
1 GACACGCCCGTGT
12228102 G
1 G
12228103 CGACTGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:12230323 original size:30 final size:30
Alignment explanation
Indices: 12230289--12230348 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
12230279 ACTTAATAAG
12230289 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
12230319 CAAATTCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
12230349 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:12234892 original size:44 final size:44
Alignment explanation
Indices: 12234829--12234917 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
12234819 ATCAAATTAG
12234829 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
1 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
12234873 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
1 AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
12234917 A
1 A
12234918 CTTCGAACAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.16, G:0.20, T:0.27
Consensus pattern (44 bp):
AAGTATAGTCATATTTGACATGATTATCACGAGCTGAAGAACGC
Found at i:12235011 original size:15 final size:15
Alignment explanation
Indices: 12234993--12235046 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
12234983 TCAAAGATAG
12234993 AGAAACCCAGAATAA
1 AGAAACCCAGAATAA
**
12235008 AGAAATACAGAATAA
1 AGAAACCCAGAATAA
* * *
12235023 AGAGATCCAGGATAA
1 AGAAACCCAGAATAA
12235038 AGAAACCCA
1 AGAAACCCA
12235047 AGATACGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (15 bp):
AGAAACCCAGAATAA
Found at i:12235051 original size:15 final size:15
Alignment explanation
Indices: 12234974--12235051 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
12234964 ATAAAACCGA
*
12234974 ATAAAGAAATCAAAG
1 ATAAAGAAATCCAAG
* *
12234989 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
*
12235003 AATAAAGAAATAC-AG
1 -ATAAAGAAATCCAAG
* *
12235018 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
12235034 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
12235049 ATA
1 ATA
12235052 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.59, C:0.13, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:12239592 original size:4 final size:4
Alignment explanation
Indices: 12239583--12239618 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
12239573 TTTGAATGTA
12239583 TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG
12239619 CTATATTCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:12239905 original size:13 final size:13
Alignment explanation
Indices: 12239887--12239912 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12239877 GCCATTCGGG
12239887 TGCAAGGGAGGCA
1 TGCAAGGGAGGCA
12239900 TGCAAGGGAGGCA
1 TGCAAGGGAGGCA
12239913 GTCCTCGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.46, T:0.08
Consensus pattern (13 bp):
TGCAAGGGAGGCA
Found at i:12240346 original size:44 final size:42
Alignment explanation
Indices: 12240280--12240442 Score: 130
Period size: 44 Copynumber: 3.7 Consensus size: 42
12240270 TGCATTCAAC
** *
12240280 CTACTGCAACTTTAGGAGGATAAGAATTGTCA-CTTCAATCTTCT
1 CTACTGCAACTCCAGGA-GATAAG-ATTGT-AGCTTCAATCTACT
* * *
12240324 CTACTGCAACTTCAGGTAGATAAGATTATTAGCTTCAGTCTACT
1 CTACTGCAACTCCAGG-AGATAAGATT-GTAGCTTCAATCTACT
* * * * * *
12240368 CCACTACAACTCCAGGGAAAGAAGATTCGTATCTTCAATCTGCT
1 CTACTGCAACTCCA-GGAGATAAGATT-GTAGCTTCAATCTACT
12240412 CTACTGCAACTCCAGAGAGATAAGACTTGTA
1 CTACTGCAACTCCAG-GAGATAAGA-TTGTA
12240443 ACTTGTAGTA
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
43 5 0.05
44 85 0.89
45 5 0.05
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (42 bp):
CTACTGCAACTCCAGGAGATAAGATTGTAGCTTCAATCTACT
Found at i:12240642 original size:44 final size:44
Alignment explanation
Indices: 12240594--12240944 Score: 219
Period size: 44 Copynumber: 8.0 Consensus size: 44
12240584 ATAAAACTTG
*
12240594 TAACTTCAACCTGCTCTACTGCAACTTCAAGGAGATAACG-TTTA
1 TAACTTCAATCTGCTCTACTGCAACTTCAAGGAGATAA-GATTTA
* * * * * ** *
12240638 TAACTTTAATTTGCTTTGCTGTAA-TTTTAGAGAGATAAGATTTCC
1 TAACTTCAATCTGCTCTACTGCAACTTCAAG-GAGATAAGATTT-A
* * * * *
12240683 TATCTTCAATCTGCTCTACTGCATCTTCAGGGGGATAAGATTTG
1 TAACTTCAATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTA
* * * *
12240727 TAACTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGGA-TTA
1 TAACTTCAATCTGCTCTACTGCAACTTCAAGGAGATAA-GATTTA
** * * * * * *
12240771 TAGTTTTAATCCGCT-TTCTACAATTTC-AGAGAGATAAGATTTGC
1 TAACTTCAATCTGCTCTACTGCAACTTCAAG-GAGATAAGATTT-A
* * * * * * *
12240815 TATCTTTAATCTGCTCCACTGCATCTTCAGGGAGATAGGATTTG
1 TAACTTCAATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTA
* * * *
12240859 TAACTTTAATCTGCTCCACTGCAAC-TCTAGGGAGATAAGATTAA
1 TAACTTCAATCTGCTCTACTGCAACTTC-AAGGAGATAAGATTTA
** * * *
12240903 TGGCTTCAATATGCTCCATTGCAACTTCAAGGAGATAAGATT
1 TAACTTCAATCTGCTCTACTGCAACTTCAAGGAGATAAGATT
12240945 CGCCATAGTC
Statistics
Matches: 235, Mismatches: 60, Indels: 24
0.74 0.19 0.08
Matches are distributed among these distances:
42 3 0.01
43 24 0.10
44 154 0.66
45 50 0.21
46 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (44 bp):
TAACTTCAATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTA
Found at i:12240843 original size:132 final size:132
Alignment explanation
Indices: 12240591--12240901 Score: 417
Period size: 132 Copynumber: 2.3 Consensus size: 132
12240581 GATATAAAAC
* * * * * **
12240591 TTGTAACTTCAACCTGCTCTACTGCAACTTCAAGGAGATAACGTTTATAACTTTAATTTGCTTTG
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA-GATTATAACTTTAATCCGCTTTG
** * * *
12240656 CTGTAATTTTAGAGAGATAAGATTTCCTATCTTCAATCTGCTCTACTGCATCTTCAGGGGGATAA
65 CTACAATTTCAGAGAGATAAGATTTCCTATCTTCAATCTGCTCCACTGCATCTTCAGGGAGATAA
12240721 GAT
130 GAT
* **
12240724 TTGTAACTTCAATCTGCTCCACTACAACTTTAGGGAGATAAGGATTATAGTTTTAATCCGCTTT-
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA-GATTATAACTTTAATCCGCTTTG
* * *
12240788 CTACAATTTCAGAGAGATAAGATTTGCTATCTTTAATCTGCTCCACTGCATCTTCAGGGAGATAG
65 CTACAATTTCAGAGAGATAAGATTTCCTATCTTCAATCTGCTCCACTGCATCTTCAGGGAGATAA
12240853 GAT
130 GAT
* *
12240856 TTGTAACTTTAATCTGCTCCACTGCAACTCTAGGGAGATAAGATTA
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
12240902 ATGGCTTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
131 5 0.03
132 98 0.63
133 53 0.34
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (132 bp):
TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTATAACTTTAATCCGCTTTGC
TACAATTTCAGAGAGATAAGATTTCCTATCTTCAATCTGCTCCACTGCATCTTCAGGGAGATAAG
AT
Found at i:12247099 original size:12 final size:12
Alignment explanation
Indices: 12247082--12247107 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
12247072 TTCCCATATT
12247082 AATGAACTTTTC
1 AATGAACTTTTC
12247094 AATGAACTTTTC
1 AATGAACTTTTC
12247106 AA
1 AA
12247108 ATGCGATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (12 bp):
AATGAACTTTTC
Found at i:12248637 original size:19 final size:20
Alignment explanation
Indices: 12248621--12248663 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
12248611 TTATGAAACT
*
12248621 TAATGCATATG-ATGAAATA
1 TAATGAATATGAATGAAATA
12248640 TAATGAATATGAATGAAATA
1 TAATGAATATGAATGAAATA
12248660 -AATG
1 TAATG
12248664 CAAAAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.51, C:0.02, G:0.16, T:0.30
Consensus pattern (20 bp):
TAATGAATATGAATGAAATA
Found at i:12250082 original size:86 final size:86
Alignment explanation
Indices: 12249986--12250158 Score: 346
Period size: 86 Copynumber: 2.0 Consensus size: 86
12249976 TGGTGTAGCC
12249986 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACCTTTTCTACCTTCCAA
1 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACCTTTTCTACCTTCCAA
12250051 AAGTAGCTATAGAACCATGCT
66 AAGTAGCTATAGAACCATGCT
12250072 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACCTTTTCTACCTTCCAA
1 ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACCTTTTCTACCTTCCAA
12250137 AAGTAGCTATAGAACCATGCT
66 AAGTAGCTATAGAACCATGCT
12250158 A
1 A
12250159 ACAAAAGTTG
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 87 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (86 bp):
ACTAATTCTTTCAATGGAGAGTAGTCTTGGAGAATACTAGATAAGAGACCTTTTCTACCTTCCAA
AAGTAGCTATAGAACCATGCT
Found at i:12251784 original size:819 final size:819
Alignment explanation
Indices: 12250208--12251850 Score: 3277
Period size: 819 Copynumber: 2.0 Consensus size: 819
12250198 TTCTACGGTA
*
12250208 TGCATTCAAAGATATGAAAGTTTCGACCAAGATTTTTGGAATAGGCATAACCCTTTTATCAAGCC
1 TGCATTCAAAGATATGAAAGTTTCGACCAAGATTTTCGGAATAGGCATAACCCTTTTATCAAGCC
12250273 GGTCAAACAAATTTGAAACTACCTCATCTATATGTCCTAATGCTTTCGGGAAAATAACCAGCCTG
66 GGTCAAACAAATTTGAAACTACCTCATCTATATGTCCTAATGCTTTCGGGAAAATAACCAGCCTG
12250338 TAAATGCTCAAAGCGAAGACGTCGACTCTTTTCTTTGTGTTTGGATATGCCAAGATCAAATCCCA
131 TAAATGCTCAAAGCGAAGACGTCGACTCTTTTCTTTGTGTTTGGATATGCCAAGATCAAATCCCA
12250403 TAAACTTTTCCAATGGATGCATTTACCATATCTTTTTTGCTTGATCCAGTCTGCAACCCGTTGCT
196 TAAACTTTTCCAATGGATGCATTTACCATATCTTTTTTGCTTGATCCAGTCTGCAACCCGTTGCT
12250468 CACTCATCCCCGTGAGGCTCATTAGTTTTTTTAAGAAAGTTTGGACGTTAGCGGCTTTGGAATAA
261 CACTCATCCCCGTGAGGCTCATTAGTTTTTTTAAGAAAGTTTGGACGTTAGCGGCTTTGGAATAA
12250533 ACCTTTTCGGCTCGAATCTTCGGGCAACGAAGCAAGGTCGTGTACTCTTCCACGGTAGGTATCAA
326 ACCTTTTCGGCTCGAATCTTCGGGCAACGAAGCAAGGTCGTGTACTCTTCCACGGTAGGTATCAA
12250598 ATCTACCTTCCCGAAAGTAAAGCAATTGCAGGCAAGATTCTAATAATGGGCGAGAGCTCAAAACA
391 ATCTACCTTCCCGAAAGTAAAGCAATTGCAGGCAAGATTCTAATAATGGGCGAGAGCTCAAAACA
12250663 AGTGTTTATCCATCTTAGCATCGAATAAATATGGTAGATCACCATACTTACAGTAGAATAATTAT
456 AGTGTTTATCCATCTTAGCATCGAATAAATATGGTAGATCACCATACTTACAGTAGAATAATTAT
12250728 TTGGTTTCGTCTTCCCATTGGTCCCATATTTCTTTCAACTCTTAGAGATTATTTTGATTCACACT
521 TTGGTTTCGTCTTCCCATTGGTCCCATATTTCTTTCAACTCTTAGAGATTATTTTGATTCACACT
12250793 GATACGAGTGAAATCCCATAATTCTGACACGTACCCCACTGTCAGATTATCACCCTTCTTTAGTT
586 GATACGAGTGAAATCCCATAATTCTGACACGTACCCCACTGTCAGATTATCACCCTTCTTTAGTT
12250858 GTGTTTTCTCAGACCATATTCGGATAGTCGCATTATCTTCCACTTTATCAAGAAATCCATTCTCC
651 GTGTTTTCTCAGACCATATTCGGATAGTCGCATTATCTTCCACTTTATCAAGAAATCCATTCTCC
12250923 ATGAAAAACTCTCTATTTAGTAACTGAACGTGAATCAACACCTTTTTTTATGATGAAAATGCCAT
716 ATGAAAAACTCTCTATTTAGTAACTGAACGTGAATCAACACCTTTTTTTATGATGAAAATGCCAT
12250988 GCAATCACATTCAAAACAAAACAAAACAAGTCAGTACAT
781 GCAATCACATTCAAAACAAAACAAAACAAGTCAGTACAT
12251027 TGCATTCAAAGATATGAAAGTTTCGACCAAGATTTTCGGAATAGGCATAACCCTTTTATCAAGCC
1 TGCATTCAAAGATATGAAAGTTTCGACCAAGATTTTCGGAATAGGCATAACCCTTTTATCAAGCC
12251092 GGTCAAACAAATTTGAAACTACCTCATCTATATGTCCTAATGCTTTCGGGAAAATAACCAGCCTG
66 GGTCAAACAAATTTGAAACTACCTCATCTATATGTCCTAATGCTTTCGGGAAAATAACCAGCCTG
12251157 TAAATGCTCAAAGCGAAGACGTCGACTCTTTTCTTTGTGTTTGGATATGCCAAGATCAAATCCCA
131 TAAATGCTCAAAGCGAAGACGTCGACTCTTTTCTTTGTGTTTGGATATGCCAAGATCAAATCCCA
12251222 TAAACTTTTCCAATGGATGCATTTACCATATCTTTTTTGCTTGATCCAGTCTGCAACCCGTTGCT
196 TAAACTTTTCCAATGGATGCATTTACCATATCTTTTTTGCTTGATCCAGTCTGCAACCCGTTGCT
12251287 CACTCATCCCCGTGAGGCTCATTAGTTTTTTTAAGAAAGTTTGGACGTTAGCGGCTTTGGAATAA
261 CACTCATCCCCGTGAGGCTCATTAGTTTTTTTAAGAAAGTTTGGACGTTAGCGGCTTTGGAATAA
12251352 ACCTTTTCGGCTCGAATCTTCGGGCAACGAAGCAAGGTCGTGTACTCTTCCACGGTAGGTATCAA
326 ACCTTTTCGGCTCGAATCTTCGGGCAACGAAGCAAGGTCGTGTACTCTTCCACGGTAGGTATCAA
12251417 ATCTACCTTCCCGAAAGTAAAGCAATTGCAGGCAAGATTCTAATAATGGGCGAGAGCTCAAAACA
391 ATCTACCTTCCCGAAAGTAAAGCAATTGCAGGCAAGATTCTAATAATGGGCGAGAGCTCAAAACA
12251482 AGTGTTTATCCATCTTAGCATCGAATAAATATGGTAGATCACCATACTTACAGTAGAATAATTAT
456 AGTGTTTATCCATCTTAGCATCGAATAAATATGGTAGATCACCATACTTACAGTAGAATAATTAT
12251547 TTGGTTTCGTCTTCCCATTGGTCCCATATTTCTTTCAACTCTTAGAGATTATTTTGATTCACACT
521 TTGGTTTCGTCTTCCCATTGGTCCCATATTTCTTTCAACTCTTAGAGATTATTTTGATTCACACT
12251612 GATACGAGTGAAATCCCATAATTCTGACACGTACCCCACTGTCAGATTATCACCCTTCTTTAGTT
586 GATACGAGTGAAATCCCATAATTCTGACACGTACCCCACTGTCAGATTATCACCCTTCTTTAGTT
12251677 GTGTTTTCTCAGACCATATTCGGATAGTCGCATTATCTTCCACTTTATCAAGAAATCCATTCTCC
651 GTGTTTTCTCAGACCATATTCGGATAGTCGCATTATCTTCCACTTTATCAAGAAATCCATTCTCC
12251742 ATGAAAAACTCTCTATTTAGTAACTGAACGTGAATCAACACCTTTTTTTATGATGAAAATGCCAT
716 ATGAAAAACTCTCTATTTAGTAACTGAACGTGAATCAACACCTTTTTTTATGATGAAAATGCCAT
12251807 GCAATCACATTCAAAACAAAACAAAACAAGTCAGTACAT
781 GCAATCACATTCAAAACAAAACAAAACAAGTCAGTACAT
12251846 TGCAT
1 TGCAT
12251851 ACCAAGCTAG
Statistics
Matches: 823, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
819 823 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (819 bp):
TGCATTCAAAGATATGAAAGTTTCGACCAAGATTTTCGGAATAGGCATAACCCTTTTATCAAGCC
GGTCAAACAAATTTGAAACTACCTCATCTATATGTCCTAATGCTTTCGGGAAAATAACCAGCCTG
TAAATGCTCAAAGCGAAGACGTCGACTCTTTTCTTTGTGTTTGGATATGCCAAGATCAAATCCCA
TAAACTTTTCCAATGGATGCATTTACCATATCTTTTTTGCTTGATCCAGTCTGCAACCCGTTGCT
CACTCATCCCCGTGAGGCTCATTAGTTTTTTTAAGAAAGTTTGGACGTTAGCGGCTTTGGAATAA
ACCTTTTCGGCTCGAATCTTCGGGCAACGAAGCAAGGTCGTGTACTCTTCCACGGTAGGTATCAA
ATCTACCTTCCCGAAAGTAAAGCAATTGCAGGCAAGATTCTAATAATGGGCGAGAGCTCAAAACA
AGTGTTTATCCATCTTAGCATCGAATAAATATGGTAGATCACCATACTTACAGTAGAATAATTAT
TTGGTTTCGTCTTCCCATTGGTCCCATATTTCTTTCAACTCTTAGAGATTATTTTGATTCACACT
GATACGAGTGAAATCCCATAATTCTGACACGTACCCCACTGTCAGATTATCACCCTTCTTTAGTT
GTGTTTTCTCAGACCATATTCGGATAGTCGCATTATCTTCCACTTTATCAAGAAATCCATTCTCC
ATGAAAAACTCTCTATTTAGTAACTGAACGTGAATCAACACCTTTTTTTATGATGAAAATGCCAT
GCAATCACATTCAAAACAAAACAAAACAAGTCAGTACAT
Found at i:12253579 original size:12 final size:11
Alignment explanation
Indices: 12253552--12253596 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
12253542 TATAAAAAGG
*
12253552 ATAAAAAATA-
1 ATAAATAATAT
12253562 ATAAATAGATAT
1 ATAAATA-ATAT
12253574 ATAAATAA-AT
1 ATAAATAATAT
12253584 A-AAATAATAT
1 ATAAATAATAT
12253594 ATA
1 ATA
12253597 TGAAATCTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 6 0.20
10 12 0.40
11 5 0.17
12 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (11 bp):
ATAAATAATAT
Found at i:12256401 original size:102 final size:104
Alignment explanation
Indices: 12256225--12256433 Score: 253
Period size: 102 Copynumber: 2.0 Consensus size: 104
12256215 AAAATGAGCA
* *
12256225 TTCTTATTTTTAGGGATTCGAGACATCATACCCTAACTTACGGGACATGATTCTCTTCCCAATTA
1 TTCTTATTTTCAGGGATTCGAGACATCATACCCTAACTTACAGGACATGATTCTCTTCCCAATTA
*
12256290 ACTCAAAATATGAAG-A-TATCATAAAATTTGATTTAAT
66 ACTCAAAATACGAAGAATTATCATAAAATTTGATTTAAT
* * * * * * * * *
12256327 TTCTTATTTTCGGGGATTCGAGACATCGTTCCTTAATTTACAAGG-CGTGATTTTCTTCTCGATT
1 TTCTTATTTTCAGGGATTCGAGACATCATACCCTAACTTAC-AGGACATGATTCTCTTCCCAATT
*
12256391 AACTCAAAATACGAAGACATTTTTCATAAAATTTGATTTAAT
65 AACTCAAAATACGAAGA-A-TTATCATAAAATTTGATTTAAT
12256433 T
1 T
12256434 AGCGATATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
102 65 0.73
103 2 0.02
104 1 0.01
106 21 0.24
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (104 bp):
TTCTTATTTTCAGGGATTCGAGACATCATACCCTAACTTACAGGACATGATTCTCTTCCCAATTA
ACTCAAAATACGAAGAATTATCATAAAATTTGATTTAAT
Found at i:12260947 original size:20 final size:21
Alignment explanation
Indices: 12260924--12260967 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
12260914 TCGTTATTTA
*
12260924 TTTTATCTTTTTA-ATTTAAT
1 TTTTATCTTTTTAGAATTAAT
*
12260944 TTTTATTTTTTTAGAATTAAT
1 TTTTATCTTTTTAGAATTAAT
12260965 TTT
1 TTT
12260968 AAGTTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATCTTTTTAGAATTAAT
Found at i:12260974 original size:22 final size:20
Alignment explanation
Indices: 12260931--12260983 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
12260921 TTATTTTATC
* *
12260931 TTTTTAATTTAATTTTTATT
1 TTTTTAAATTAATTTTAATT
12260951 TTTTTAGAATTAATTTTAAGTT
1 TTTTTA-AATTAATTTTAA-TT
12260973 TTCTTTAAATT
1 TT-TTTAAATT
12260984 GGGAAAAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 6 0.21
21 10 0.36
22 8 0.29
23 4 0.14
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTTAAATTAATTTTAATT
Found at i:12261119 original size:21 final size:21
Alignment explanation
Indices: 12261086--12261133 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
12261076 CTTGTAACAG
*
12261086 CGAAAAACTTGAAATTTTATA
1 CGAAAAACCTGAAATTTTATA
* *
12261107 CGAAATACCTGAATTTTTATA
1 CGAAAAACCTGAAATTTTATA
12261128 -GAAAAA
1 CGAAAAA
12261134 GTTTGGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.31
Consensus pattern (21 bp):
CGAAAAACCTGAAATTTTATA
Found at i:12262772 original size:29 final size:29
Alignment explanation
Indices: 12262730--12262796 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
12262720 TATAAAGATC
* * *
12262730 AGATCAAATTAGTTCTTTTACTATT-AAA
1 AGATCAATTTAGTTCATGTACTATTGAAA
12262758 TAGATCAATTTAGTTCATGTACTATTGAAA
1 -AGATCAATTTAGTTCATGTACTATTGAAA
*
12262788 AAATCAATT
1 AGATCAATT
12262797 GAGGTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 30 0.91
30 3 0.09
ACGTcount: A:0.40, C:0.10, G:0.09, T:0.40
Consensus pattern (29 bp):
AGATCAATTTAGTTCATGTACTATTGAAA
Found at i:12263500 original size:11 final size:11
Alignment explanation
Indices: 12263484--12263509 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12263474 CAATTAACCT
12263484 GTTAGCTGTTA
1 GTTAGCTGTTA
12263495 GTTAGCTGTTA
1 GTTAGCTGTTA
12263506 GTTA
1 GTTA
12263510 ATCTATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.08, G:0.27, T:0.46
Consensus pattern (11 bp):
GTTAGCTGTTA
Found at i:12268979 original size:15 final size:15
Alignment explanation
Indices: 12268959--12268993 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
12268949 AAAAAAGAGC
12268959 AAAAAAATTCCAACA
1 AAAAAAATTCCAACA
*
12268974 AAAAAAATTCCAGCA
1 AAAAAAATTCCAACA
12268989 AAAAA
1 AAAAA
12268994 TTTTTCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.17, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAATTCCAACA
Found at i:12280888 original size:72 final size:72
Alignment explanation
Indices: 12280770--12281282 Score: 570
Period size: 72 Copynumber: 7.1 Consensus size: 72
12280760 TTTTACTTCC
* * *
12280770 GTTTTCAAAATTCAGCTCATATTGCGAGAAATGAGTTGAGCCTCAAGAAACGTTGAGATAATTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
*
12280835 AATTTAT
66 AATTTCT
*
12280842 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCGTCAAGACACGTTGAGGTAATTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
12280907 AATTTCT
66 AATTTCT
*
12280914 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCTTCAAGACACGTTGAGGTAATTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
12280979 AATTTCT
66 AATTTCT
* * *
12280986 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTC
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
12281051 AATTTCT
66 AATTTCT
* * * *
12281058 GTTTTTCAAACAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
1 G-TTTT----C--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
*
12281123 T-ATGTC--TTTC-
59 TAATTTCAATTTCT
**** * ** * * *
12281133 --AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT
1 GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
12281196 AATTTCT
66 AATTTCT
* * * *** * * ** *
12281203 GTTGTCAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCTTCAGGTCACACGCCGAGGTATT
1 GTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTAAT
*
12281268 TTCAATTTCC
63 TTCAATTTCT
12281278 GTTTT
1 GTTTT
12281283 TCAATTTCTA
Statistics
Matches: 388, Mismatches: 37, Indels: 29
0.85 0.08 0.06
Matches are distributed among these distances:
66 48 0.12
67 3 0.01
69 4 0.01
72 207 0.53
73 42 0.11
75 25 0.06
76 4 0.01
77 1 0.00
78 3 0.01
79 51 0.13
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (72 bp):
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTC
AATTTCT
Found at i:12281360 original size:92 final size:91
Alignment explanation
Indices: 12281209--12281378 Score: 234
Period size: 92 Copynumber: 1.8 Consensus size: 91
12281199 TTCTGTTGTC
* *
12281209 AAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCTTCAGGTCACACGCCGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCTT-AGGTCACACGCCGAGCTATTTTCAAT
*
12281274 TTCCGTTTTTCAATTTCTACCTTTCAA
65 TTCCGTCTTTCAATTTCTACCTTTCAA
* * * *
12281301 AAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAG-CTTAGG-TCACACGCCGAGCTATTTTCAA
*
12281365 TTTCTGTCTTTCAA
64 TTTCCGTCTTTCAA
12281379 AAAAATCAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
91 2 0.03
92 63 0.93
93 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.32
Consensus pattern (91 bp):
AAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCTTAGGTCACACGCCGAGCTATTTTCAATT
TCCGTCTTTCAATTTCTACCTTTCAA
Found at i:12281481 original size:80 final size:77
Alignment explanation
Indices: 12281279--12281647 Score: 284
Period size: 77 Copynumber: 4.8 Consensus size: 77
12281269 TCAATTTCCG
* * * *
12281279 TTTTTCAATTTCTACCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGAT
* * *
12281344 CACGCGCTGAGCTA
64 CACACACTGAGATA
*
12281358 -TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT-AGATC
12281422 ACACACTGAGATA
65 ACACACTGAGATA
* * * * ** *
12281435 TTTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGA
** *
12281500 TCACA-TGTCGAGGTA
63 TCACACACT-GAGATA
** * * * * *
12281515 -TTTTCAAAATCTGT-TTTC--AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTTGGCTC
1 TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTAGATC
*** *
12281576 ACGTGCTGAGCTA
65 ACACACTGAGATA
* * **** *
12281589 -TTTTCAATTTCTGGTTTTTTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTT
1 TTTTTCAATTTCT-ATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTT
12281648 TTTAATTTCT
Statistics
Matches: 240, Mismatches: 39, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
74 55 0.23
75 3 0.01
76 10 0.04
77 61 0.25
78 47 0.20
79 1 0.00
80 61 0.25
81 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (77 bp):
TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTAGATCA
CACACTGAGATA
Found at i:12281487 original size:157 final size:155
Alignment explanation
Indices: 12281279--12281567 Score: 393
Period size: 157 Copynumber: 1.9 Consensus size: 155
12281269 TCAATTTCCG
* * * *
12281279 TTTTTCAATTTCTACCTTTCAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTTCAATTTATACCTTTCAAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGCT
* ** *
12281344 CACGCG-CTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAG
66 CACACGTC-GAGCTATTTTCAAAATCTGT-TTTC--AAAAATCAACTCATATTGCGAGAAGTGAG
12281408 TTGAGCTTCAGATCACACACTGAGATATT
127 TTGAGCTTCAGATCACACACTGAGATATT
** * *
12281437 TTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGT
1 TTTTTCAATTTATACCTTTCAAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGCT
* * *
12281501 CACATGTCGAGGTATTTTCAAAATCTGTTTTCAAAAATCAACTCATATTGTGAGAAGTGAGTTGA
66 CACACGTCGAGCTATTTTCAAAATCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
12281566 GC
131 GC
12281568 CTTGGCTCAC
Statistics
Matches: 115, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
154 33 0.29
156 4 0.03
157 60 0.52
158 18 0.16
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (155 bp):
TTTTTCAATTTATACCTTTCAAAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAGCCTCGGCT
CACACGTCGAGCTATTTTCAAAATCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
GCTTCAGATCACACACTGAGATATT
Found at i:12282033 original size:29 final size:30
Alignment explanation
Indices: 12282000--12282098 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 30
12281990 AATTAATAAA
* * *
12282000 AAATTGCATTTTGACCCCTAAACTTT-TTT
1 AAATTACATTTTGAACCCTAAACTTTCCTT
* * *
12282029 AAATTTCACTTAGAACCCTAAACTTTCCTT
1 AAATTACATTTTGAACCCTAAACTTTCCTT
* * *
12282059 AAATTACATTTT-AACCTTAAA-TTTTCTAA
1 AAATTACATTTTGAACCCTAAACTTTCCT-T
12282088 AAATTACATTT
1 AAATTACATTT
12282099 AGCCCCAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.09
29 41 0.72
30 11 0.19
ACGTcount: A:0.35, C:0.19, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTACATTTTGAACCCTAAACTTTCCTT
Found at i:12282335 original size:15 final size:15
Alignment explanation
Indices: 12282315--12282349 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
12282305 AAAAAAGAGC
12282315 AAAAAAATTCCAACA
1 AAAAAAATTCCAACA
*
12282330 AAAAAAATTCCAGCA
1 AAAAAAATTCCAACA
12282345 AAAAA
1 AAAAA
12282350 TTTTTCAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.69, C:0.17, G:0.03, T:0.11
Consensus pattern (15 bp):
AAAAAAATTCCAACA
Found at i:12284712 original size:29 final size:29
Alignment explanation
Indices: 12284679--12284745 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
12284669 TCATAATGAC
* *
12284679 TAGATTAAACTATTCCCTCTATTATTAAA
1 TAGATTAAACTAGTCCCTATATTATTAAA
* **
12284708 TAGATCAATTTAGTCCCTATATTATTAAA
1 TAGATTAAACTAGTCCCTATATTATTAAA
* *
12284737 AAAATTAAA
1 TAGATTAAA
12284746 TAATTCCAAG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.39
Consensus pattern (29 bp):
TAGATTAAACTAGTCCCTATATTATTAAA
Found at i:12285160 original size:13 final size:14
Alignment explanation
Indices: 12285137--12285172 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
12285127 GAAGAACAGT
*
12285137 AACATCAAAAACCA
1 AACATCAAAAACAA
12285151 AACA-CAAAAACAA
1 AACATCAAAAACAA
12285164 AACATCAAA
1 AACATCAAA
12285173 CCTTCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.69, C:0.25, G:0.00, T:0.06
Consensus pattern (14 bp):
AACATCAAAAACAA
Found at i:12294260 original size:63 final size:62
Alignment explanation
Indices: 12294182--12294315 Score: 153
Period size: 62 Copynumber: 2.1 Consensus size: 62
12294172 ACATCCTGCC
* * * * *
12294182 ACACGGCCTGGGCACAAGCCCATGTGCCTTGGTTGTATGGTTTT-TAAGTACAAACAGTGAGTT
1 ACACGGCCTAGGCACAAGCCCATGT-CCCTAGCTGTATGGTTTTAT-ACTACAAACAGTGAGTT
* * * * *
12294245 ACATGGCCTAGGCACACGCTCGTGTCCCTAGCTGTGTGGTTTTATACTACAAACAGTGAGTT
1 ACACGGCCTAGGCACAAGCCCATGTCCCTAGCTGTATGGTTTTATACTACAAACAGTGAGTT
12294307 ACACGGCCT
1 ACACGGCCT
12294316 GGAAACAAGC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
62 38 0.64
63 21 0.36
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (62 bp):
ACACGGCCTAGGCACAAGCCCATGTCCCTAGCTGTATGGTTTTATACTACAAACAGTGAGTT
Found at i:12298355 original size:34 final size:34
Alignment explanation
Indices: 12298312--12298381 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
12298302 TACATGTATT
*
12298312 ATTCCAATTCAGATATAGTTCAGATCAGATTCGA
1 ATTCCAATTCAGATATAGTTCAGATCAAATTCGA
*
12298346 ATTCCAATTCATATATAGTTCAGATCAAATTCGA
1 ATTCCAATTCAGATATAGTTCAGATCAAATTCGA
12298380 AT
1 AT
12298382 GCAATGTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (34 bp):
ATTCCAATTCAGATATAGTTCAGATCAAATTCGA
Found at i:12300161 original size:15 final size:15
Alignment explanation
Indices: 12300141--12300170 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12300131 AAAATGTCAA
12300141 GTATCGATACCTTAG
1 GTATCGATACCTTAG
*
12300156 GTATCGATACTTTAG
1 GTATCGATACCTTAG
12300171 TGCCAAAAAT
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:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (15 bp):
GTATCGATACCTTAG
Found at i:12302670 original size:17 final size:17
Alignment explanation
Indices: 12302645--12302692 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
12302635 AAAAATAGAT
12302645 TCAAA-TTTAAAATTAC
1 TCAAACTTTAAAATTAC
*
12302661 TCAAACTTT-AAATAAC
1 TCAAACTTTAAAATTAC
*
12302677 TCAAAACTTCAAAATT
1 TC-AAACTTTAAAATT
12302693 TGAAATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 13 0.50
17 9 0.35
18 4 0.15
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (17 bp):
TCAAACTTTAAAATTAC
Found at i:12305888 original size:28 final size:27
Alignment explanation
Indices: 12305856--12306268 Score: 158
Period size: 26 Copynumber: 15.7 Consensus size: 27
12305846 TGTTATTTAT
*
12305856 TTATTTATTTTAAACTTTTTTTCATACA
1 TTATTTATTTTAAA-TTTTTTTCATATA
*
12305884 TTATTTATTTTAAATTGTTTT-AT-TA
1 TTATTTATTTTAAATTTTTTTCATATA
* * *
12305909 TTATTTACTTT-AA-GTTTTTCACATA
1 TTATTTATTTTAAATTTTTTTCATATA
* ** *
12305934 TTATGTATTTTAAA-TCATTTCAAACTA
1 TTATTTATTTTAAATTTTTTTCATA-TA
**
12305961 TTATCCATTTTAAA--TTTTT-ATATA
1 TTATTTATTTTAAATTTTTTTCATATA
* * *
12305985 TTAATTATTTTAAATTATTTT-ACATA
1 TTATTTATTTTAAATTTTTTTCATATA
* *
12306011 TTATTTATTTTAAATATTTTTTTATATG
1 TTATTTATTTTAAAT-TTTTTTCATATA
*
12306039 CTATTTATTTTAAACTATTTTATAT-ATATA
1 TTATTTATTTTAAA-T-TTTT-T-TCATATA
* *
12306069 TTTTATCTATTTTAAA-TTTTTT-ATATG
1 --TTATTTATTTTAAATTTTTTTCATATA
* *** *
12306096 TTATTTA-CTTAAACGATTTT-ATATG
1 TTATTTATTTTAAATTTTTTTCATATA
* *
12306121 TTAACTT-TTTTAAATTCTTTT--T-TA
1 TT-ATTTATTTTAAATTTTTTTCATATA
* ***
12306145 TTATTTATTGTAAACCCTTTT-AT-TA
1 TTATTTATTTTAAATTTTTTTCATATA
*
12306170 TTATTAATTTTAAGA----TTTCATATA
1 TTATTTATTTTAA-ATTTTTTTCATATA
* * ** * *
12306194 TTACTTATATTAAGCTTATGT-ATATA
1 TTATTTATTTTAAATTTTTTTCATATA
*
12306220 TATATATTATTTTAAATTTATTTTTCACATA
1 T-TAT-TTATTTTAAA-TT-TTTTTCATATA
*
12306251 TTATTT-TTTTAAACTTTT
1 TTATTTATTTTAAATTTTT
12306269 CATATGTTAT
Statistics
Matches: 295, Mismatches: 60, Indels: 62
0.71 0.14 0.15
Matches are distributed among these distances:
22 3 0.01
23 9 0.03
24 47 0.16
25 56 0.19
26 57 0.19
27 35 0.12
28 46 0.16
29 13 0.04
30 11 0.04
31 6 0.02
32 12 0.04
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (27 bp):
TTATTTATTTTAAATTTTTTTCATATA
Found at i:12305920 original size:25 final size:28
Alignment explanation
Indices: 12305856--12305921 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
12305846 TGTTATTTAT
*
12305856 TTATTTATTTTAAACTTTTTTTCATACA
1 TTATTTATTTTAAACTTGTTTTCATACA
*
12305884 TTATTTATTTTAAA-TTGTTTT-AT-TA
1 TTATTTATTTTAAACTTGTTTTCATACA
*
12305909 TTATTTACTTTAA
1 TTATTTATTTTAA
12305922 GTTTTTCACA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
25 13 0.37
26 2 0.06
27 6 0.17
28 14 0.40
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (28 bp):
TTATTTATTTTAAACTTGTTTTCATACA
Found at i:12305999 original size:51 final size:51
Alignment explanation
Indices: 12305917--12306030 Score: 124
Period size: 51 Copynumber: 2.2 Consensus size: 51
12305907 TATTATTTAC
*
12305917 TTTAAGTTTTTCACATATTATGTATTTTAAATCATTTCAAACTATTATCCAT
1 TTTAAATTTTTCACATATTATGTATTTTAAATCATTTCAAA-TATTATCCAT
* * * * **
12305969 TTTAAATTTTT-ATATATTAAT-TATTTTAAATTATTTTACATATTATTTAT
1 TTTAAATTTTTCACATATT-ATGTATTTTAAATCATTTCAAATATTATCCAT
12306019 TTTAAATATTTT
1 TTTAAAT-TTTT
12306031 TTTATATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
50 15 0.28
51 26 0.49
52 12 0.23
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (51 bp):
TTTAAATTTTTCACATATTATGTATTTTAAATCATTTCAAATATTATCCAT
Found at i:12306058 original size:14 final size:14
Alignment explanation
Indices: 12306012--12306058 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
12306002 TTTTACATAT
12306012 TATTTATTTTAAA-
1 TATTTATTTTAAAC
*
12306025 TATTT-TTTTATATGC
1 TATTTATTTTA-A-AC
12306040 TATTTATTTTAAAC
1 TATTTATTTTAAAC
12306054 TATTT
1 TATTT
12306059 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
12 5 0.18
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (14 bp):
TATTTATTTTAAAC
Found at i:12306060 original size:26 final size:25
Alignment explanation
Indices: 12305856--12306263 Score: 181
Period size: 25 Copynumber: 15.6 Consensus size: 25
12305846 TGTTATTTAT
* *
12305856 TTATTTATTTTAAACTTTTTTTCATACA
1 TTATTTATTTTAAA--TATTTT-ATATA
*
12305884 TTATTTATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAA-TATTTTATATA
* * *
12305909 TTATTTACTTTAAGT-TTTTCACATA
1 TTATTTATTTTAAATATTTT-ATATA
* * *
12305934 TTATGTATTTTAAATCATTTCAAACTA
1 TTATTTATTTTAAAT-ATTTTATA-TA
**
12305961 TTATCCATTTTAAAT-TTTTATATA
1 TTATTTATTTTAAATATTTTATATA
* *
12305985 TTAATTATTTTAAATTATTTTACATA
1 TTATTTATTTTAAA-TATTTTATATA
*
12306011 TTATTTATTTTAAATATTTTTTTATA
1 TTATTTATTTTAAATA-TTTTATATA
12306037 TGCTATTTATTTTAAACTATTTTATATA
1 T--TATTTATTTTAAA-TATTTTATATA
* *
12306065 TATATTTTATCTATTTTAAATTTTTTATATG
1 T-TA---T-T-TATTTTAAATATTTTATATA
* * *
12306096 TTATTTA-CTTAAACGATTTTATATG
1 TTATTTATTTTAAA-TATTTTATATA
* *
12306121 TTAACTT-TTTTAAAT-TCTTT-TTTA
1 TT-ATTTATTTTAAATAT-TTTATATA
* **
12306145 TTATTTATTGTAAACCCTTTTAT-TA
1 TTATTTATTTTAAA-TATTTTATATA
* * *
12306170 TTATTAATTTT-AAGATTTCATATA
1 TTATTTATTTTAAATATTTTATATA
* * * *
12306194 TTACTTATATTAAGCT-TATGTATATA
1 TTATTTATTTTAA-ATAT-TTTATATA
*
12306220 TATATATTATTTTAAATTTATTTTTCACATA
1 T-TAT-TTATTTTAAA--TA-TTTT-ATATA
12306251 TTATTT-TTTTAAA
1 TTATTTATTTTAAA
12306264 CTTTTCATAT
Statistics
Matches: 292, Mismatches: 53, Indels: 70
0.70 0.13 0.17
Matches are distributed among these distances:
23 12 0.04
24 43 0.15
25 67 0.23
26 51 0.17
27 29 0.10
28 51 0.17
29 5 0.02
30 8 0.03
31 17 0.06
32 9 0.03
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.59
Consensus pattern (25 bp):
TTATTTATTTTAAATATTTTATATA
Found at i:12306366 original size:24 final size:26
Alignment explanation
Indices: 12306330--12306381 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
12306320 ACATTATTTT
12306330 ATTGTTTTGTATATTAATGATTTTAA
1 ATTGTTTTGTATATTAATGATTTTAA
* *
12306356 ATTG-TTT-TATATTATTTATTTTAA
1 ATTGTTTTGTATATTAATGATTTTAA
12306380 AT
1 AT
12306382 CGCTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 17 0.71
25 3 0.12
26 4 0.17
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (26 bp):
ATTGTTTTGTATATTAATGATTTTAA
Found at i:12307868 original size:6 final size:6
Alignment explanation
Indices: 12307859--12307907 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
12307849 CTATATCTAT
*
12307859 TTTTGC TTTTGC TTTTTC TTTTGC TTTTGC TTTTGC TTTTG- TTTTGC
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC
12307906 TT
1 TT
12307908 ATGATTGCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTGC
Found at i:12308449 original size:19 final size:19
Alignment explanation
Indices: 12308408--12308451 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
12308398 GTCTTTTTTT
*
12308408 TGCATTCATTTCATGCATT
1 TGCATTCATTTCATGCATA
*
12308427 TGCATTGCATTTCAT-CGTA
1 TGCATT-CATTTCATGCATA
12308446 TGCATT
1 TGCATT
12308452 AAATTTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (19 bp):
TGCATTCATTTCATGCATA
Found at i:12312739 original size:45 final size:44
Alignment explanation
Indices: 12312683--12312794 Score: 127
Period size: 45 Copynumber: 2.5 Consensus size: 44
12312673 CACCAGTCTT
* *
12312683 ATCTTCCTGAAGTAGCAAGGGAGCAAAATGAAGATTGTAGATCCC
1 ATCTCCCTGAAGTAGCAAGGGAGCAAAATGAAG-TTGAAGATCCC
* **
12312728 ATCTCCCTGAAGTAGC-AGTGGAGCAAATTGAAGTTGAAGATCTT
1 ATCTCCCTGAAGTAGCAAG-GGAGCAAAATGAAGTTGAAGATCCC
* * *
12312772 ATCTCCTTGAAGTTGCAATGGAG
1 ATCTCCCTGAAGTAGCAAGGGAG
12312795 TAGATCAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
44 28 0.49
45 29 0.51
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (44 bp):
ATCTCCCTGAAGTAGCAAGGGAGCAAAATGAAGTTGAAGATCCC
Found at i:12312784 original size:44 final size:44
Alignment explanation
Indices: 12312679--12312794 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 44
12312669 AAGCCACCAG
*
12312679 TCTTATCTTCCTGAAGTAGCAAG-GGAGCAAAATGAAGATTGTAGA
1 TCTTATC-TCCTGAAGTAGC-AGTGGAGCAAAATGAAGATTGAAGA
** *
12312724 TCCCATCTCCCTGAAGTAGCAGTGGAGCAAATTGAAG-TTGAAGA
1 TCTTATCT-CCTGAAGTAGCAGTGGAGCAAAATGAAGATTGAAGA
* *
12312768 TCTTATCTCCTTGAAGTTGCAATGGAG
1 TCTTATCTCC-TGAAGTAGCAGTGGAG
12312795 TAGATCAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.03
44 29 0.48
45 29 0.48
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCTGAAGTAGCAGTGGAGCAAAATGAAGATTGAAGA
Found at i:12315499 original size:5 final size:5
Alignment explanation
Indices: 12315491--12315519 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
12315481 GCCCAACCCA
12315491 AAAAC AAAAC AAAAC AAAAC AAAA- AAAAC
1 AAAAC AAAAC AAAAC AAAAC AAAAC AAAAC
12315520 CCTAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (5 bp):
AAAAC
Found at i:12316572 original size:3 final size:3
Alignment explanation
Indices: 12316564--12316843 Score: 134
Period size: 3 Copynumber: 93.7 Consensus size: 3
12316554 ATCATTTTAC
* *
12316564 TTA TTA TTA TTA TTA TTA TTTA GTTA -TA TTA CTA TTA TTG TTA -TA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
12316609 TTA TCA TTA TTA TTA TGA CTA TTA TTA TTA CTA CTA CTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** **
12316657 TTA ACA -TA TTA TTA TTA TTA TTA TTA TT- TTA CCA -TA TTA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
12316701 TCCTA TT- TT- TTA TATA TTA TTA TTG TTA TTA ACA TATA TTA TTA TTAA
1 T--TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT-A
* * * * *
12316749 TGTA CTA TTA GTT- TCTA TTA TTA TTA TTA TTA CTA ATA TCA CTA TTA
1 T-TA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * *
12316796 TCA TT- TT- TTA TCA CCA TCA TTA TTT TTA TTTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
12316839 TTA TT
1 TTA TT
12316844 TATTTATTCG
Statistics
Matches: 213, Mismatches: 44, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
2 20 0.09
3 170 0.80
4 21 0.10
5 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:12316599 original size:19 final size:17
Alignment explanation
Indices: 12316571--12316684 Score: 67
Period size: 17 Copynumber: 6.6 Consensus size: 17
12316561 TACTTATTAT
*
12316571 TATTATTATTATTTAGTTA
1 TATTACTATTA-TT-GTTA
12316590 TATTACTATTATTGTTA
1 TATTACTATTATTGTTA
*
12316607 TATTA-TCATTATT-AT-
1 TATTACT-ATTATTGTTA
* *
12316622 TATGACTATTATTATTA
1 TATTACTATTATTGTTA
*
12316639 CTACTACTATTATT-TT-
1 -TATTACTATTATTGTTA
*
12316655 TATTAACATATTATTATTA
1 TATT-AC-TATTATTGTTA
*
12316674 TTATTATTATT
1 -TATTACTATT
12316685 TTACCATATT
Statistics
Matches: 77, Mismatches: 8, Indels: 21
0.73 0.08 0.20
Matches are distributed among these distances:
15 13 0.17
16 6 0.08
17 24 0.31
18 19 0.25
19 11 0.14
20 4 0.05
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTACTATTATTGTTA
Found at i:12316697 original size:22 final size:21
Alignment explanation
Indices: 12316672--12316747 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
12316662 ATATTATTAT
*
12316672 TATTATTATTATTTTACCATA
1 TATTATTATTATTTTAACATA
**
12316693 TTATTATT-TCCTATTTT-TTATA
1 -TATTATTAT--TATTTTAACATA
*
12316715 TATTATTATTGTTATTAACATA
1 TATTATTATTATT-TTAACATA
12316737 TATTATTATTA
1 TATTATTATTA
12316748 ATGTACTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
20 3 0.07
21 10 0.23
22 24 0.56
23 6 0.14
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.61
Consensus pattern (21 bp):
TATTATTATTATTTTAACATA
Found at i:12316850 original size:11 final size:11
Alignment explanation
Indices: 12316815--12316851 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
12316805 ATCACCATCA
12316815 TTATT-TTTAT
1 TTATTATTTAT
12316825 TTATTATTT-T
1 TTATTATTTAT
12316835 ATTATTATTTAT
1 -TTATTATTTAT
12316847 TTATT
1 TTATT
12316852 CGTACCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.25
11 17 0.71
12 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:12320375 original size:22 final size:22
Alignment explanation
Indices: 12320350--12320393 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
12320340 AAGGCTAGTC
*
12320350 AGAGCAAAATTGAAGAA-TTAAA
1 AGAG-AAAATAGAAGAACTTAAA
*
12320372 AGAGAAGATAGAAGAACTTAAA
1 AGAGAAAATAGAAGAACTTAAA
12320394 GCAGCGCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.20, T:0.16
Consensus pattern (22 bp):
AGAGAAAATAGAAGAACTTAAA
Found at i:12329982 original size:40 final size:40
Alignment explanation
Indices: 12329937--12330128 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
12329927 ATAACCACAA
* * *
12329937 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
12329977 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
12330017 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
12330057 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
12330097 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
12330129 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:12330021 original size:80 final size:80
Alignment explanation
Indices: 12329908--12330127 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 80
12329898 ACCCAAGTTT
* * * * * * * * *
12329908 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
*
12329971 CAACTCGCACAAATGC
66 C-ACTAGCACAAATGC
* * *
12329987 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAA
* *
12330051 TCACTAGCATAAATGC
65 GCACTAGCACAAATGC
* *
12330067 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
12330128 TCATTCAAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 12 0.10
80 98 0.84
81 7 0.06
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAG
CACTAGCACAAATGC
Found at i:12721908 original size:24 final size:26
Alignment explanation
Indices: 12721880--12721927 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
12721870 CCGCTGAATC
*
12721880 GGGAATCA-CACTTAGC-ACCCCTCG
1 GGGAATCAGCACATAGCAACCCCTCG
12721904 GGGAATCAGCACATAGCAACCCCT
1 GGGAATCAGCACATAGCAACCCCT
12721928 TTCACATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.38
25 7 0.33
26 6 0.29
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
GGGAATCAGCACATAGCAACCCCTCG
Found at i:12722185 original size:103 final size:103
Alignment explanation
Indices: 12721846--12722206 Score: 560
Period size: 104 Copynumber: 3.6 Consensus size: 103
12721836 TTAACCGTTT
* * **
12721846 TGGTGGATCTCGCACTTAGCACCACCGCTGAATC-GGGAATCA-CACTTAGC-ACCCCTCGGGGA
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
12721908 ATCAGCACATAGCAA-CCCCTTTCACATTTCAAAGATA
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
12721945 TGGTGGAT-ATCG--CATAGCACCACCAATGAA-CCGGGAATCAGCACTTAGCAACCCCTCGGGG
1 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
12722006 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
12722045 TGGTGGATCACGCACATATCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
*
12722110 AATCAGCACATAGCAACCCCCTTTTACATTTCAAAGATA
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
**
12722149 TGGTGGATCACGCACATAGCACCACC-ATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
12722207 TTATATACAA
Statistics
Matches: 242, Mismatches: 10, Indels: 16
0.90 0.04 0.06
Matches are distributed among these distances:
96 1 0.00
97 23 0.10
98 8 0.03
99 37 0.15
100 32 0.13
101 1 0.00
102 17 0.07
103 56 0.23
104 67 0.28
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATCACGCACATAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:12722561 original size:29 final size:30
Alignment explanation
Indices: 12722533--12722588 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
12722523 ACCACCAACT
12722533 TTTTG-AAAATTACAATTTTG-CCCCAAAC
1 TTTTGCAAAATTACAATTTTGTCCCCAAAC
* *
12722561 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGTCCCCAA
12722589 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.21
29 13 0.54
30 6 0.25
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGTCCCCAAAC
Found at i:12723527 original size:12 final size:12
Alignment explanation
Indices: 12723489--12723544 Score: 51
Period size: 12 Copynumber: 4.4 Consensus size: 12
12723479 TTTCTGCATT
12723489 TATATTATTAT-
1 TATATTATTATG
12723500 TATTATTATTAGTG
1 TA-TATTATTA-TG
*
12723514 TATATTTTTATG
1 TATATTATTATG
*
12723526 TACATATATGTATG
1 TATAT-TAT-TATG
12723540 TATAT
1 TATAT
12723545 ACTTTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 2 0.06
12 14 0.39
13 10 0.28
14 10 0.28
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (12 bp):
TATATTATTATG
Found at i:12723753 original size:16 final size:16
Alignment explanation
Indices: 12723727--12723764 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12723717 TTCATTCCAT
*
12723727 TATTATTACTATTATTA
1 TATT-TTACTATCATTA
12723744 TATTTTACTATCATTA
1 TATTTTACTATCATTA
12723760 T-TTTT
1 TATTTT
12723765 CATACGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (16 bp):
TATTTTACTATCATTA
Found at i:12723887 original size:16 final size:16
Alignment explanation
Indices: 12723866--12723897 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12723856 CTATTGTTAC
12723866 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
12723882 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
12723898 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:12723905 original size:3 final size:3
Alignment explanation
Indices: 12723897--12724014 Score: 71
Period size: 3 Copynumber: 38.7 Consensus size: 3
12723887 TTCTCATCAC
* * *
12723897 TAT TAT TAT AATT TAT CAT TAT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
12723943 CTAA TAT CAT CAT TAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA-
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT
*
12723989 GAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
12724015 GCACTACTTT
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
2 5 0.06
3 72 0.82
4 11 0.12
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:12724058 original size:12 final size:13
Alignment explanation
Indices: 12724023--12724060 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
12724013 TAGCACTACT
12724023 TTTATTACTATTA
1 TTTATTACTATTA
*
12724036 TTTAATA-TATTA
1 TTTATTACTATTA
12724048 TTT-TTACTATTA
1 TTTATTACTATTA
12724060 T
1 T
12724061 CGTCATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTACTATTA
Found at i:12727979 original size:21 final size:22
Alignment explanation
Indices: 12727934--12727979 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12727924 TTCTTTGGGA
*
12727934 TTGAATTCTTTTTATTTAAGAT
1 TTGAATTCTTTTTATTCAAGAT
* *
12727956 TTGAATTTTTTTTCTTCAAG-T
1 TTGAATTCTTTTTATTCAAGAT
12727977 TTG
1 TTG
12727980 TCCCTGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (22 bp):
TTGAATTCTTTTTATTCAAGAT
Found at i:12739196 original size:205 final size:205
Alignment explanation
Indices: 12738845--12740144 Score: 2073
Period size: 205 Copynumber: 6.4 Consensus size: 205
12738835 CAGATGTTAT
*
12738845 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAGCAAATCGAAGACATA-CT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
12738909 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
*
12738974 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGTAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
12739039 AGATGATTTC
196 AGATGATTTC
* *
12739049 ACTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGTTTACAAGGAGCAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
12739114 GATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATAATTTGTCGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * *
12739179 AGAATAAATCGAAGTTTGGCATATTCACTTTGATGGATAGCAGACACATAGCAGATCTCACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
12739244 AGATGATTTC
196 AGATGATTTC
*
12739254 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAAACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* * *
12739319 AATTTGGCTTTCACGTGATTACGATGAATCAAATCTAAGATGATTTGTCGTCTCTATATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
12739384 AGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
12739449 AGATGATTTC
196 AGATGATTTC
*
12739459 ACTGAAGCAGATCCAAGATAGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
* *
12739524 GATTTGGCTTTCACATGATTACGATGAAGCAAATCTAAGATGATTTGTCATCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* *
12739589 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAACAGACACATAGCAGATCTCGCCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
*
12739654 AGATTATTTC
196 AGATGATTTC
12739664 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
1 ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
*
12739729 GATTTGGCTTTCAC--G--T--GA--AAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCAG
66 GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
* * * ** * * *
12739786 AGAACAAATCGAAGTCTAGCATCTCCACTTCAATGGAGAGCAGATACATAGCATATCTGACCTTC
131 AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
*
12739851 AGATG-TTTAT
196 AGATGATTT-C
* * *
12739861 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTATAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
*
12739926 TGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTGGTCTCTGTATTGTCA
65 TGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCA
* * ** * *
12739991 GAGAACAAATCGAAGTCTGGCATCTCCACTTCAATGGAGAGCAGATACATAGCAGATCTAACCTT
130 GAGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTT
*
12740056 CAGATG-TTTAT
195 CAGATGATTT-C
* *
12740067 ACTGAAGCAAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATCGAAGACATAGC
1 ACTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGC
* *
12740132 AGATTTGACTTTC
65 TGATTTGGCTTTC
12740145 GGATGTTCCC
Statistics
Matches: 1029, Mismatches: 56, Indels: 20
0.93 0.05 0.02
Matches are distributed among these distances:
196 3 0.00
197 104 0.10
198 68 0.07
199 2 0.00
200 1 0.00
201 1 0.00
202 1 0.00
203 1 0.00
204 63 0.06
205 601 0.58
206 184 0.18
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (205 bp):
ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCT
GATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGATTTGTCGTCTCTGTATTGTCAG
AGAACAAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGACACATAGCAGATCTCACCTTC
AGATGATTTC
Found at i:12740332 original size:44 final size:44
Alignment explanation
Indices: 12740262--12740511 Score: 199
Period size: 44 Copynumber: 5.7 Consensus size: 44
12740252 GATCTAAGAT
* * *
12740262 GATTTGGCATCTCC-GT-ATTATCAGGGAACAAGTTGAAAACAACA
1 GATTTGGCATC-CCTGTGCTTAT-AGGGAACAAGTTGAAGATAACA
* **
12740306 GATTTGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGTA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAGATAACA
** * * * * **
12740350 GAACTGACATTCCTGTGCTTA-CGGTGAAGC-AGATCGAAGATTTCA
1 GATTTGGCATCCCTGTGCTTATAGG-GAA-CAAG-TTGAAGATAACA
*
12740395 GCA--TGGAATCCCTGTGCTTATAGGGAACAAGTTGAAGATAACA
1 G-ATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAACA
* * * *
12740438 GATTTGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGACAGCA
1 GATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAACA
* *
12740482 GATTTGGCATCCCTGTGTTTATGGGGAACA
1 GATTTGGCATCCCTGTGCTTATAGGGAACA
12740512 GATCGAAGAA
Statistics
Matches: 168, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
42 1 0.01
43 17 0.10
44 129 0.77
45 20 0.12
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAACA
Found at i:12740520 original size:44 final size:44
Alignment explanation
Indices: 12740304--12740527 Score: 208
Period size: 44 Copynumber: 5.1 Consensus size: 44
12740294 TTGAAAACAA
12740304 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAG
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAG
* ** * * * **
12740348 TAGAACTGACATTCCTGTGCTTA-CGGTGAAGCAGATCGAAGATTT
1 CAGATTTGGCATCCCTGTGCTTATAGG-GAA-CAGATCGAAGATAG
* * *
12740393 CAGCA--TGGAATCCCTGTGCTTATAGGGAACA-AGTTGAAGATAA
1 CAG-ATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAG
* * * *
12740436 CAGATTTGGCATCCCTGTGTTTATAAGGAACA-AGTTGAAGACAG
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAG
* *
12740480 CAGATTTGGCATCCCTGTGTTTATGGGGAACAGATCGAAGA-AG
1 CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAG
12740523 CAGAT
1 CAGAT
12740528 CAAGAACTCA
Statistics
Matches: 148, Mismatches: 24, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
42 2 0.01
43 21 0.14
44 107 0.72
45 17 0.11
46 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (44 bp):
CAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAG
Found at i:12740996 original size:24 final size:25
Alignment explanation
Indices: 12740962--12741029 Score: 93
Period size: 25 Copynumber: 2.7 Consensus size: 25
12740952 TATTTTGGAG
12740962 AGAAGAGA-TTTTTTTTTAGATTCA
1 AGAAGAGATTTTTTTTTTAGATTCA
*
12740986 AGAAGATATTTTTTTTTTAGATTCA
1 AGAAGAGATTTTTTTTTTAGATTCA
* *
12741011 AGAGGGGATTTTTCTTTTT
1 AGAAGAGATTTTT-TTTTT
12741030 TTTTTTTGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 7 0.18
25 26 0.68
26 5 0.13
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.50
Consensus pattern (25 bp):
AGAAGAGATTTTTTTTTTAGATTCA
Found at i:12741623 original size:3 final size:3
Alignment explanation
Indices: 12741615--12741641 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
12741605 TGTATTTCTA
12741615 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
12741642 ATGGTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:12741769 original size:16 final size:15
Alignment explanation
Indices: 12741738--12741780 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
12741728 CCTTCATTCC
*
12741738 ATTATTATTATTACT
1 ATTATTATTTTTACT
12741753 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
12741769 ATCATTATTTTT
1 ATTATTATTTTT
12741781 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:12741904 original size:16 final size:16
Alignment explanation
Indices: 12741883--12741914 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12741873 CTATTGTTAC
12741883 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
12741899 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
12741915 ATTATTATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:12741922 original size:3 final size:3
Alignment explanation
Indices: 12741914--12742027 Score: 56
Period size: 3 Copynumber: 37.7 Consensus size: 3
12741904 TTCTCATCAC
* * * *
12741914 TAT TAT TAT AATT TAT CAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
12741960 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
12742005 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
12742028 GCACTACTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
2 7 0.08
3 66 0.79
4 11 0.13
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:12742071 original size:12 final size:13
Alignment explanation
Indices: 12742036--12742073 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
12742026 TAGCACTACT
12742036 TTTATTACTATTA
1 TTTATTACTATTA
*
12742049 TTTAATA-TATTA
1 TTTATTACTATTA
12742061 TTT-TTACTATTA
1 TTTATTACTATTA
12742073 T
1 T
12742074 CGTCATATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 2 0.09
12 14 0.64
13 6 0.27
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTATTACTATTA
Found at i:12743399 original size:10 final size:10
Alignment explanation
Indices: 12743371--12743400 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
12743361 CTAACATTCA
*
12743371 CTCTCTCTCT
1 CTCTCTCTTT
12743381 CTCTCTCTTT
1 CTCTCTCTTT
12743391 CTCTCTCTTT
1 CTCTCTCTTT
12743401 TTACTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (10 bp):
CTCTCTCTTT
Found at i:12746006 original size:21 final size:22
Alignment explanation
Indices: 12745961--12746006 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12745951 TTCTTTGGGA
*
12745961 TTGAATTCTTTTTATTTAAGAT
1 TTGAATTCTTTTTATTCAAGAT
* *
12745983 TTGAATTTTTTTTCTTCAAG-T
1 TTGAATTCTTTTTATTCAAGAT
12746004 TTG
1 TTG
12746007 TCCCTGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.61
Consensus pattern (22 bp):
TTGAATTCTTTTTATTCAAGAT
Found at i:12775469 original size:14 final size:15
Alignment explanation
Indices: 12775445--12775479 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
12775435 TATATATATT
12775445 ACCATATAAATACTA
1 ACCATATAAATACTA
12775460 ACCATA-AAATACTA
1 ACCATATAAATACTA
12775474 ATCCAT
1 A-CCAT
12775480 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:12776178 original size:41 final size:40
Alignment explanation
Indices: 12776136--12776353 Score: 190
Period size: 41 Copynumber: 5.3 Consensus size: 40
12776126 AACATAGAGC
** * *
12776136 CCTATATAAAACACCGGCATAAAGCCTGCTAGGCACAAAG
1 CCTATATAATCCACCGGCATCAAGCCTGCTAGGCATAAAG
* * * *
12776176 CCCGAT-TCATTTCACCGGCA-CAAAGCCTGCTAGACATAAAG
1 -CCTATAT-AATCCACCGGCATC-AAGCCTGCTAGGCATAAAG
** * *
12776217 TCGGA-ATTAATTCACCGGCATCAAGCCTGCTAGGCATTAAG
1 -CCTATA-TAATCCACCGGCATCAAGCCTGCTAGGCATAAAG
* *
12776258 CCTGAGATAATCCACCGGCATCAAGCCTGCTAGGCATTAAG
1 CCT-ATATAATCCACCGGCATCAAGCCTGCTAGGCATAAAG
* *
12776299 CCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAG
1 CCT-ATATAATCCACCGGCATCAAGCCTGCTAGGCATAAAG
*
12776340 CCTGAAATAATCCA
1 CCT-ATATAATCCA
12776354 AGTCTAAAAT
Statistics
Matches: 154, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
40 2 0.01
41 149 0.97
42 3 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (40 bp):
CCTATATAATCCACCGGCATCAAGCCTGCTAGGCATAAAG
Found at i:12776274 original size:82 final size:81
Alignment explanation
Indices: 12776147--12776353 Score: 254
Period size: 82 Copynumber: 2.5 Consensus size: 81
12776137 CTATATAAAA
* ** * * * *
12776147 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATTCATTTCACCGGCA-CAAAGCCTGCTAGAC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAT-AATCCACCGGCATC-AAGCCTGCTAGAC
* * *
12776211 ATAAAGTCGGAATTAATT
64 ATAAAGCCGGAAATAATC
*
12776229 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAGATAATCCACCGGCATCAAGCCTGCTAGGCA
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGA-ATAATCCACCGGCATCAAGCCTGCTAGACA
* *
12776294 TTAAGCCTGAAATAATC
65 TAAAGCCGGAAATAATC
12776311 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTG-AATAATCCA
12776354 AGTCTAAAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
82 106 0.97
83 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (81 bp):
CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAATAATCCACCGGCATCAAGCCTGCTAGACAT
AAAGCCGGAAATAATC
Found at i:12776341 original size:57 final size:57
Alignment explanation
Indices: 12776296--12776410 Score: 185
Period size: 57 Copynumber: 2.0 Consensus size: 57
12776286 GCTAGGCATT
* *
12776296 AAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCC
1 AAGCCTAAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAGAATCC
* * *
12776353 AAGTCTAAAATAATTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCC
1 AAGCCTAAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAGAATCC
12776410 A
1 A
12776411 CCGGCATCAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.21
Consensus pattern (57 bp):
AAGCCTAAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAGAATCC
Found at i:12776376 original size:123 final size:128
Alignment explanation
Indices: 12776248--12776574 Score: 398
Period size: 139 Copynumber: 2.5 Consensus size: 128
12776238 CAAGCCTGCT
*
12776248 AGGCATTAAGCCTGAGATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
1 AGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
* * *
12776313 CCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA-AGTC-TAAAATAATTCACCGGCA
66 CCGGCATCAAGCCTGCTAGACATTAAGCCTGAAATAATCCACAGGCAT-AAAGAATT---C-G--
12776376 TCAAGCCTG
124 -CAA--C-G
12776385 CTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
1 --AGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATC
* * * ** *
12776450 CACCGGCATCAAGCCTGCTAGACATTAAGCCTGAGATAATCCACCGGCATCAAG----C-CTGCT
64 CACCGGCATCAAGCCTGCTAGACATTAAGCCTGAAATAATCCACAGGCATAAAGAATTCGCAACG
12776510 AGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
1 AGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
12776575 AGTCTAAAAT
Statistics
Matches: 176, Mismatches: 10, Indels: 20
0.85 0.05 0.10
Matches are distributed among these distances:
123 65 0.37
126 1 0.01
128 1 0.01
133 1 0.01
139 103 0.59
140 4 0.02
141 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (128 bp):
AGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
CCGGCATCAAGCCTGCTAGACATTAAGCCTGAAATAATCCACAGGCATAAAGAATTCGCAACG
Found at i:12776381 original size:98 final size:98
Alignment explanation
Indices: 12776264--12776451 Score: 367
Period size: 98 Copynumber: 1.9 Consensus size: 98
12776254 TAAGCCTGAG
12776264 ATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGC
1 ATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGC
12776329 TAGGCATTAAGCCTGAAATAATCCAAGTCTAAA
66 TAGGCATTAAGCCTGAAATAATCCAAGTCTAAA
*
12776362 ATAATTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGC
1 ATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGC
12776427 TAGGCATTAAGCCTGAAATAATCCA
66 TAGGCATTAAGCCTGAAATAATCCA
12776452 CCGGCATCAA
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.21
Consensus pattern (98 bp):
ATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGC
TAGGCATTAAGCCTGAAATAATCCAAGTCTAAA
Found at i:12776405 original size:41 final size:41
Alignment explanation
Indices: 12776360--12776574 Score: 403
Period size: 41 Copynumber: 5.2 Consensus size: 41
12776350 TCCAAGTCTA
*
12776360 AAATAATTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
1 AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
12776401 AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
1 AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
*
12776442 AAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTG
1 AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
*
12776483 AGATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
1 AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
12776524 AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
1 AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
12776565 AAATAATCCA
1 AAATAATCCA
12776575 AGTCTAAAAT
Statistics
Matches: 169, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 169 1.00
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (41 bp):
AAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTG
Found at i:12776433 original size:57 final size:57
Alignment explanation
Indices: 12776315--12776621 Score: 153
Period size: 57 Copynumber: 5.2 Consensus size: 57
12776305 ATAATCCACC
* * * *** *
12776315 GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA-AGTC-TAAAATAATTC-A
1 GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCAT-CAAGCCTGCTA
12776370 CCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA
1 --GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA
* * * ** * ** *
12776429 GGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAG-AT-AATCC
1 GGCATCAAGCCTG-------CTA--GGCATTAAGCCTGAAATA-ATCCA-CC-G-GCATCAAGCC
* *
12776492 -AC-C
53 TGCTA
12776495 GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA
1 GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA
* * *** * * * *
12776552 GGCATTAAGCCTG-AAATAATCCAAGTCTAAAATAATTCACCGGCATCAAGCCTGCTA
1 GGCATCAAGCCTGCTAGGCAT-TAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA
*
12776609 GGCATTAAGCCTG
1 GGCATCAAGCCTG
12776622 AAAATCTCAT
Statistics
Matches: 191, Mismatches: 38, Indels: 42
0.70 0.14 0.15
Matches are distributed among these distances:
53 1 0.01
54 3 0.02
55 6 0.03
56 7 0.04
57 122 0.64
58 6 0.03
59 4 0.02
64 2 0.01
66 26 0.14
67 4 0.02
68 6 0.03
69 3 0.02
70 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.19, T:0.21
Consensus pattern (57 bp):
GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTA
Found at i:12776459 original size:180 final size:180
Alignment explanation
Indices: 12776186--12776533 Score: 599
Period size: 180 Copynumber: 1.9 Consensus size: 180
12776176 CCCGATTCAT
* * *
12776186 TTCACCGGCACAAAGCCTGCTAGACATAAAGTCGGAATTAATTCACCGGCATCAAGCCTGCTAGG
1 TTCACCGGCACAAAGCCTGCTAGACATAAAGCCGGAAATAATCCACCGGCATCAAGCCTGCTAGG
* *
12776251 CATTAAGCCTGAGATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCG
66 CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAAATAATCCACCG
12776316 GCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCAAGTCTAAAATAA
131 GCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCAAGTCTAAAATAA
* * *
12776366 TTCACCGGCATC-AAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAG
1 TTCACCGGCA-CAAAGCCTGCTAGACATAAAGCCGGAAATAATCCACCGGCATCAAGCCTGCTAG
*
12776430 GCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAGATAATCCACC
65 GCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAAATAATCCACC
12776495 GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
130 GGCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCA
12776534 CCGGCATCAA
Statistics
Matches: 158, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
180 157 0.99
181 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (180 bp):
TTCACCGGCACAAAGCCTGCTAGACATAAAGCCGGAAATAATCCACCGGCATCAAGCCTGCTAGG
CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAAATAATCCACCG
GCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCAAGTCTAAAATAA
Found at i:12776530 original size:221 final size:222
Alignment explanation
Indices: 12776147--12776624 Score: 800
Period size: 221 Copynumber: 2.2 Consensus size: 222
12776137 CTATATAAAA
* ** * * * *
12776147 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCG-ATTCATTTCACCGGCACAAAGCCTGCTAGAC
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATCAATCCACCGGCACAAAGCCTGCTAGAC
* * * *
12776211 ATAAAGTCGGAATTAATTCACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAGATAATCCACCGG
66 ATAAAGCCGGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAGATAATCCACCGG
12776276 CATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGC
131 CATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGC
12776341 CTGAAATAATCCAAGTCTAAAATAATT
196 CTGAAATAATCCAAGTCTAAAATAATT
*
12776368 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAAT-AATCCACCGGCATC-AAGCCTGCTAGG
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATCAATCCACCGGCA-CAAAGCCTGCTAGA
* *
12776431 CATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAGATAATCCACCG
65 CATAAAGCCGGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAGATAATCCACCG
12776496 GCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAG
130 GCATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAG
12776561 CCTGAAATAATCCAAGTCTAAAATAATT
195 CCTGAAATAATCCAAGTCTAAAATAATT
12776589 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
1 CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAA
12776625 ATCTCATATA
Statistics
Matches: 241, Mismatches: 14, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
221 238 0.99
222 3 0.01
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.20
Consensus pattern (222 bp):
CACCGGCATCAAGCCTGCTAGGCATTAAGCCTGAAATCAATCCACCGGCACAAAGCCTGCTAGAC
ATAAAGCCGGAAATAATCCACCGGCATCAAGCCTGCTAGACATTAAGCCTGAGATAATCCACCGG
CATCAAGCCTGCTAGGCATTAAGCCTGAAATAATCCACCGGCATCAAGCCTGCTAGGCATTAAGC
CTGAAATAATCCAAGTCTAAAATAATT
Found at i:12776861 original size:64 final size:63
Alignment explanation
Indices: 12776739--12776919 Score: 253
Period size: 64 Copynumber: 2.9 Consensus size: 63
12776729 GCAAACAAAC
* *
12776739 ATTCGAACCACATATGT-AT-AATTTACA-ACATTAAAATTCAGCACAAAGAA-TTTGTAACCTA
1 ATTCGAACCACATATGTAATAAAATT-CATACATT-AAATTCAGCTC-AAGAACTTTGTAACCTA
12776800 T
63 T
12776801 ATTCGAACCACATATGTAAGTAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
1 ATTCGAACCACATATGTAA-TAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
* *
12776865 ATTTGAACCACATATGTATATAAAATTCATACATTAAATACAGCTCAAGAACTTT
1 ATTCGAACCACATATGTA-ATAAAATTCATACATTAAATTCAGCTCAAGAACTTT
12776920 AAATATATAT
Statistics
Matches: 109, Mismatches: 4, Indels: 10
0.89 0.03 0.08
Matches are distributed among these distances:
62 17 0.16
63 6 0.06
64 76 0.70
65 10 0.09
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (63 bp):
ATTCGAACCACATATGTAATAAAATTCATACATTAAATTCAGCTCAAGAACTTTGTAACCTAT
Found at i:12779110 original size:40 final size:40
Alignment explanation
Indices: 12779055--12779132 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
12779045 TGCGGTACCT
*
12779055 TATGGTGTGTAGGGATGGATGAGACGATTGTATCCCCATA
1 TATGGTGTGCAGGGATGGATGAGACGATTGTATCCCCATA
* * * *
12779095 TATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCA
1 TATGGTGTGCAGGGATGGATGAGACGATTGTATCCCCA
12779133 CATAGTGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.21, C:0.14, G:0.35, T:0.31
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGAGACGATTGTATCCCCATA
Found at i:12783866 original size:31 final size:31
Alignment explanation
Indices: 12783831--12783891 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
12783821 CTTGTCACTT
12783831 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTATTCACTGATCAG
* * *
12783862 GTAGCCGGAGCTACCATTTTTCACTGATCA
1 GTAGCCGAAGCTACCACTATTCACTGATCA
12783892 AATTACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTATTCACTGATCAG
Found at i:12784345 original size:208 final size:208
Alignment explanation
Indices: 12783985--12784388 Score: 486
Period size: 208 Copynumber: 1.9 Consensus size: 208
12783975 TTTCCTCATT
* * **
12783985 GAAATACCATACCTACATTTCATAACTCGGTATAGAGAACATCATACCTACTTTTCATGCTCGGT
1 GAAATACCATACCTACATTTCACAACTCGGTATAGAGAACACCATACCTACTTTTCAAACTCGGT
* * * * * *
12784050 ATGGAAAATACCATACCTATATTTCATAACTCAGTATAGACGATGCCATACTTACGTATCATAGC
66 ATGGAAAATACCATACCTACATTTCACAACTCAGTATAGACGATACCATACCTACGTATCACAAC
** * * * * *
12784115 TCAGTATGGACGACGTCATACCTACGTTTCATAGCTCGGTATGGACGATGCCATACCTACGTTTC
131 TCAGTATGGACGACACCATACCTACGTTTCACAACTCAGTATGGACGATACCATACCTACATTTC
12784180 ATAGCTCAGTATG
196 ATAGCTCAGTATG
** * ** *
12784193 GAAATACCATACCTATGTTTCACAACTCGGTATGGTTAATACCATACCTA-TGTTTCAAACTCGG
1 GAAATACCATACCTACATTTCACAACTCGGTATAGAGAACACCATACCTACT-TTTCAAACTCGG
** * * * * *
12784257 TATGGATGATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACAA
65 TATGGAAAATACCATACCTACATTTCACAACTCAGTATAGACGATACCATACCTACGTATCACAA
* * * *
12784322 CTCGGTATGGATGATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATACCTACATTT
130 CTCAGTATGGACGACACCATACCTACGTTTCACAACTCAGTATGGACGATACCATACCTACATTT
12784387 CA
195 CA
12784389 CACTTTGCCA
Statistics
Matches: 161, Mismatches: 34, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
207 1 0.01
208 160 0.99
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (208 bp):
GAAATACCATACCTACATTTCACAACTCGGTATAGAGAACACCATACCTACTTTTCAAACTCGGT
ATGGAAAATACCATACCTACATTTCACAACTCAGTATAGACGATACCATACCTACGTATCACAAC
TCAGTATGGACGACACCATACCTACGTTTCACAACTCAGTATGGACGATACCATACCTACATTTC
ATAGCTCAGTATG
Found at i:12784402 original size:35 final size:35
Alignment explanation
Indices: 12783988--12784390 Score: 411
Period size: 35 Copynumber: 11.6 Consensus size: 35
12783978 CCTCATTGAA
* * *
12783988 ATACCATACCTACATTTCATAACTCGGTATAGA-G
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* ** **
12784022 A-ACATCATACCTACTTTTCA-TGCTCGGTATGGAAA
1 ATAC--CATACCTACGTTTCACAACTCGGTATGGATG
** * * * *
12784057 ATACCATACCTATATTTCATAACTCAGTATAGACG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* * * * * * *
12784092 ATGCCATACTTACGTATCATAGCTCAGTATGGACG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
*** * * *
12784127 ACGTCATACCTACGTTTCATAGCTCGGTATGGACG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* * * * *
12784162 ATGCCATACCTACGTTTCATAGCTCAGTATGGA-A
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
* * *
12784196 ATACCATACCTATGTTTCACAACTCGGTATGGTTA
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
*
12784231 ATACCATACCTATGTTTCA-AACTCGGTATGGATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
12784265 ATACCATACCTACGTTTCACAACTCGGTATGGATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
12784300 ATACCATACCTACGTTTCACAACTCGGTATGGATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
*
12784335 ATACCATACCTACGTTTCACAACTCAGTATGGATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATG
*
12784370 ATACCATACCTACATTTCACA
1 ATACCATACCTACGTTTCACA
12784391 CTTTGCCATG
Statistics
Matches: 322, Mismatches: 40, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
33 2 0.01
34 82 0.25
35 236 0.73
36 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (35 bp):
ATACCATACCTACGTTTCACAACTCGGTATGGATG
Found at i:12784402 original size:70 final size:69
Alignment explanation
Indices: 12783988--12784392 Score: 411
Period size: 69 Copynumber: 5.8 Consensus size: 69
12783978 CCTCATTGAA
* * * * **
12783988 ATACCATACCTACATTTCATAACTCGGTATAGA-GA-ACATCATACCTACTTTTCATGCTCGGTA
1 ATACCATACCTACGTTTCACAACTCGGTATGGATGATAC--CATACCTACGTTTCACACTCGGTA
**
12784051 TGGAAA
64 TGGATG
** * * * * * * * * *
12784057 ATACCATACCTATATTTCATAACTCAGTATAGACGATGCCATACTTACGTATCATAGCTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACA-CTCGGTAT
*
12784122 GGACG
65 GGATG
*** * * * * * *
12784127 ACGTCATACCTACGTTTCATAGCTCGGTATGGACGATGCCATACCTACGTTTCATAGCTCAGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACA-CTCGGTAT
*
12784192 GGA-A
65 GGATG
* * * * *
12784196 ATACCATACCTATGTTTCACAACTCGGTATGGTTAATACCATACCTATGTTTCAAACTCGGTATG
1 ATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACACTCGGTATG
12784261 GATG
66 GATG
12784265 ATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACAACTCGGTAT
1 ATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCAC-ACTCGGTAT
12784330 GGATG
65 GGATG
* *
12784335 ATACCATACCTACGTTTCACAACTCAGTATGGATGATACCATACCTACATTTCACACT
1 ATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACACT
12784393 TTGCCATGGA
Statistics
Matches: 289, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
68 10 0.03
69 141 0.49
70 137 0.47
71 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (69 bp):
ATACCATACCTACGTTTCACAACTCGGTATGGATGATACCATACCTACGTTTCACACTCGGTATG
GATG
Found at i:12789837 original size:31 final size:32
Alignment explanation
Indices: 12789786--12789857 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 32
12789776 TTAAAAAAAC
* *
12789786 AATTTAACTCTTTTTAAAAAAGTTAATAGTCA
1 AATTTAACTCTTTTTAAAAAAGTTAAGAGCCA
* * *
12789818 AATTTAA-TTTTTTTTAAAAAGTTGAGAGCCA
1 AATTTAACTCTTTTTAAAAAAGTTAAGAGCCA
12789849 AATTTAACT
1 AATTTAACT
12789858 AAAAAAATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 26 0.76
32 8 0.24
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (32 bp):
AATTTAACTCTTTTTAAAAAAGTTAAGAGCCA
Found at i:12800494 original size:18 final size:18
Alignment explanation
Indices: 12800471--12800524 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
12800461 ACAAGTGGTG
12800471 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
12800489 GT-G-G--AGT-AGG-TA
1 GTGGAGCAAGTGTGGCTA
12800501 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
12800519 GTGGAG
1 GTGGAG
12800525 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 4 0.14
13 3 0.11
14 4 0.14
16 4 0.14
17 3 0.11
18 10 0.36
ACGTcount: A:0.22, C:0.07, G:0.48, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:12800507 original size:30 final size:30
Alignment explanation
Indices: 12800466--12800564 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
12800456 TAGGTACAAG
12800466 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
* *
12800496 AGGTAGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
*
12800526 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
12800556 TGGTGGTGG
1 TGGTGGTGG
12800565 CAAAGGCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.17, C:0.05, G:0.51, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
Found at i:12800554 original size:18 final size:17
Alignment explanation
Indices: 12800465--12800554 Score: 56
Period size: 18 Copynumber: 5.7 Consensus size: 17
12800455 GTAGGTACAA
*
12800465 GTGGTGGTGGAGCAAGT
1 GTGGTAGTGGAGCAAGT
12800482 GTGGCTAGT-G-G--AGT
1 GTGG-TAGTGGAGCAAGT
*
12800496 -AGGTAGTGGAGCAAGT
1 GTGGTAGTGGAGCAAGT
12800512 GTGGCTAGT-G-G--AGT
1 GTGG-TAGTGGAGCAAGT
*
12800526 -TGGTGGTGGAGCAAGT
1 GTGGTAGTGGAGCAAGT
12800542 GTGGTTAGTGGAG
1 GTGG-TAGTGGAG
12800555 TTGGTGGTGG
Statistics
Matches: 55, Mismatches: 5, Indels: 25
0.65 0.06 0.29
Matches are distributed among these distances:
12 7 0.13
13 7 0.13
14 8 0.15
16 8 0.15
17 11 0.20
18 14 0.25
ACGTcount: A:0.19, C:0.06, G:0.50, T:0.26
Consensus pattern (17 bp):
GTGGTAGTGGAGCAAGT
Found at i:12801374 original size:13 final size:13
Alignment explanation
Indices: 12801343--12801376 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
12801333 TTGGTTTTTT
*
12801343 TTTTGAAAACTAA
1 TTTTGAAAACAAA
12801356 -TTTGAAAACAAA
1 TTTTGAAAACAAA
12801368 TTTTGAAAA
1 TTTTGAAAA
12801377 TACTTCGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (13 bp):
TTTTGAAAACAAA
Found at i:12801728 original size:73 final size:73
Alignment explanation
Indices: 12801528--12802044 Score: 754
Period size: 73 Copynumber: 7.1 Consensus size: 73
12801518 AGAAAAAAAT
* *
12801528 AAATTGAAAATACCTCAGCATGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAATTACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTT
12801592 TTGA-AAAGCAG
63 TTGACAAA-CAG
* ** * *
12801603 AACTTGAAAAGCACCTCAGCGTGCCCTGAAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT
1 AAATTG-AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
12801668 GACAAACAG
65 GACAAACAG
* * *
12801677 AAATTTAAATTACCTCAGCGTGCCATGAGGCTCAACTCACCTCTCACAATATGAGTTG-TGTTTT
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTT
12801741 GACAAACAG
65 GACAAACAG
12801750 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
12801815 ACAAACAA
66 ACAAACAG
*
12801823 AAATTGAAATTACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
12801888 ACAAACAG
66 ACAAACAG
*
12801896 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
12801961 ACAAACAG
66 ACAAACAG
* * * ** * * *
12801969 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCACAATATGAGTTAAATTTTG
1 AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
12802034 A-AAATAG
66 ACAAACAG
12802041 AAAT
1 AAAT
12802045 AAAGACATCA
Statistics
Matches: 405, Mismatches: 32, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
72 10 0.02
73 325 0.80
74 15 0.04
75 11 0.03
76 44 0.11
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (73 bp):
AAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
ACAAACAG
Found at i:12813177 original size:18 final size:18
Alignment explanation
Indices: 12813154--12813197 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
12813144 GTGGAGTAGG
12813154 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
12813172 TAGTGGAGCAAGTGTGGC
1 TAGTGGAGCAAGTGTGGC
12813190 TAGTGGAG
1 TAGTGGAG
12813198 TTGGTGGTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.09, G:0.45, T:0.23
Consensus pattern (18 bp):
TAGTGGAGCAAGTGTGGC
Found at i:12813185 original size:48 final size:48
Alignment explanation
Indices: 12813126--12813227 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
12813116 ACAAGTGGTG
* *
12813126 GTGGACCAAGTGTGGCTAGTGGAGTAGGTAGTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTAGTGAAGCAAGTGTGGCTA
* * *
12813174 GTGGAGCAAGTGTGGCTAGTGGAGTTGGTGGTGAAGCAAGTGTGGTTA
1 GTGGAGCAAGTGTGGCTAGTGGAGTAGGTAGTGAAGCAAGTGTGGCTA
12813222 GTGGAG
1 GTGGAG
12813228 TTGGTGATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.22, C:0.08, G:0.46, T:0.25
Consensus pattern (48 bp):
GTGGAGCAAGTGTGGCTAGTGGAGTAGGTAGTGAAGCAAGTGTGGCTA
Found at i:12814154 original size:81 final size:83
Alignment explanation
Indices: 12814059--12814438 Score: 275
Period size: 91 Copynumber: 4.7 Consensus size: 83
12814049 CGACTTGTGG
* * * *
12814059 CCCGAGGCTCAACTCATCTCTCGCAATATGAATTAATTTTTG-AAAATATCAATTG-AAGAAATT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAGAAATT
*
12814122 GAAAATACCTCAGCGTGT
66 GAAAATACCTCAGCATGT
** *
12814140 CTTGAGGCTAAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTG--------A
12814205 AAGAAATTGAAAATACCTCAGCATGT
58 AAGAAATTGAAAATACCTCAGCATGT
* * *
12814231 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT------T-TGAAA-AG-CAGAACT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAT-AAATTGAAAGAAAT
* *
12814287 TGAAAAGCACCTCAGCTTG-
65 TGAAAA-TACCTCAGCATGT
* * * * *
12814306 CCCTGAGGTTCAACTCACCTTTCGTAATATGAGTTGATTTTTG------A-CAA---ACAGAAAT
1 CCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAGAAAT
* *
12814361 TGAAATTACCTCAGCGTGT
65 TGAAAATACCTCAGCATGT
* * * *
12814380 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-TGTTTTGACAAACAGAAATTGAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGAAAAATATAAATTGAAA
12814439 TTACCTCAGT
Statistics
Matches: 241, Mismatches: 30, Indels: 54
0.74 0.09 0.17
Matches are distributed among these distances:
72 1 0.00
73 44 0.18
74 13 0.05
75 16 0.07
76 45 0.19
79 1 0.00
80 2 0.01
81 36 0.15
82 12 0.05
83 2 0.01
84 2 0.01
85 4 0.02
91 63 0.26
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (83 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAGAAATT
GAAAATACCTCAGCATGT
Found at i:12814408 original size:73 final size:73
Alignment explanation
Indices: 12814206--12814743 Score: 735
Period size: 73 Copynumber: 7.3 Consensus size: 73
12814196 AAAAAAAAAA
* *
12814206 AGAAATTGAAAATACCTCAGCATGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AGAAATTGAAATTACCTCAGCGTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--T
12814270 TTTTGA-AAAGC
63 TTTTGACAAA-C
* ** * * * *
12814281 AGAACTTGAAAAGCACCTCAGCTTGCCCTGAGGTTCAACTCACCTTTCGTAATATGAGTTGATTT
1 AGAAATTG-AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
12814346 TTGACAAAC
65 TTGACAAAC
*
12814355 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-TGTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT
12814419 TTGACAAAC
65 TTGACAAAC
* * *
12814428 AGAAATTGAAATTACCTCAGTGTGCCCTGAGGCTCAACCCACCTCTCTCAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
12814493 TGACAAAC
66 TGACAAAC
* * * * *
12814501 AGAAATTGAAATTACCTCAGCATGACCTGAGACTCAACTCACCTCTCGTAATATGACTTG-TGTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT
12814565 TTGACAAAC
65 TTGACAAAC
* * *
12814574 AGAAATTGAAATTACCTCAGCGTGCCCTGAGACTCAACTCACCTATCGCAATATGAGTT-TTGTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT
12814638 TTGACAAAC
65 TTGACAAAC
* *
12814647 AGAAATTGAAATTACCTCAGCATGCCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
12814712 TGACAAAC
66 TGACAAAC
* * *
12814720 AAAAATTGAAATTATCTCAACGTG
1 AGAAATTGAAATTACCTCAGCGTG
12814744 TCTACTGGAG
Statistics
Matches: 414, Mismatches: 41, Indels: 18
0.88 0.09 0.04
Matches are distributed among these distances:
72 2 0.00
73 339 0.82
74 17 0.04
75 13 0.03
76 43 0.10
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (73 bp):
AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGACAAAC
Done.