Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr8
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: 19593398
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1222752 characters in sequence are not A, C, G, or T
File 15 of 50
Found at i:7538150 original size:73 final size:73
Alignment explanation
Indices: 7538031--7538168 Score: 213
Period size: 73 Copynumber: 1.9 Consensus size: 73
7538021 TTAACTTTGG
* * * * *
7538031 GTATTGCGTGACTAACTTTGGGTATTACGTGACTAGTTTTTTATAAGGTATTGCGTGACTAGTTT
1 GTATTGCGTGACTAACTTTGAGTATTACGTAACTAATTTTTGATAAGGCATTGCGTGACTAGTTT
7538096 CTAATAAA
66 CTAATAAA
* *
7538104 GTATTGCGTGACTAACTTTGAGTATTGCGTAACTAATTTTTGATAAGGCATTGTGTGACTAGTTT
1 GTATTGCGTGACTAACTTTGAGTATTACGTAACTAATTTTTGATAAGGCATTGCGTGACTAGTTT
7538169 TTAACAAGAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
73 58 1.00
ACGTcount: A:0.25, C:0.11, G:0.22, T:0.41
Consensus pattern (73 bp):
GTATTGCGTGACTAACTTTGAGTATTACGTAACTAATTTTTGATAAGGCATTGCGTGACTAGTTT
CTAATAAA
Found at i:7538183 original size:73 final size:73
Alignment explanation
Indices: 7538033--7538190 Score: 201
Period size: 73 Copynumber: 2.2 Consensus size: 73
7538023 AACTTTGGGT
* * * * *
7538033 ATTGCGTGACTAACTTTGGGTATTACGTGACTAGTTTTTTATAAGGTATTGCGTGACTAGTTTCT
1 ATTGCGTGACTAACTTTGAGTATTACGTAACTAATTTTTGATAAGGCATTGCGTGACTAGTTTCT
* *
7538098 AATAAAGT
66 AACAAAGC
* * *
7538106 ATTGCGTGACTAACTTTGAGTATTGCGTAACTAATTTTTGATAAGGCATTGTGTGACTAGTTTTT
1 ATTGCGTGACTAACTTTGAGTATTACGTAACTAATTTTTGATAAGGCATTGCGTGACTAGTTTCT
7538171 AAC-AAGAC
66 AACAAAG-C
*
7538179 ATTGCATGACTA
1 ATTGCGTGACTA
7538191 GTTGATAAGC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
72 3 0.04
73 70 0.96
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (73 bp):
ATTGCGTGACTAACTTTGAGTATTACGTAACTAATTTTTGATAAGGCATTGCGTGACTAGTTTCT
AACAAAGC
Found at i:7538323 original size:21 final size:21
Alignment explanation
Indices: 7538293--7538338 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
7538283 GCAATATATA
* *
7538293 AAAACTAATCACGTAATGCCT
1 AAAACCAATCACGTAATGACT
7538314 AAAACCAATCACGTAATGACT
1 AAAACCAATCACGTAATGACT
7538335 AAAA
1 AAAA
7538339 ACTAGTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.20
Consensus pattern (21 bp):
AAAACCAATCACGTAATGACT
Found at i:7539179 original size:126 final size:126
Alignment explanation
Indices: 7538949--7539184 Score: 384
Period size: 126 Copynumber: 1.9 Consensus size: 126
7538939 ACTAAAACCA
*
7538949 TTTTAATTTGTTTGAAATTGTTTAAAGGATATTATTGTCAAGTTATACAAAAAACTGACTAAAAA
1 TTTTAATTTGTCTGAAATTGTTTAAAGGATATTATTGTCAAGTTATACAAAAAACTGACTAAAAA
*
7539014 CAGTTAAAATTATAGAGACGATTATTTTTTGAGTCACCTTTCTATAATTTCTCACAATTTT
66 CAGTTAAAATTATAGAGACGATCATTTTTTGAGTCACCTTTCTATAATTTCTCACAATTTT
* *
7539075 TTTTAATTTGTCTGAAATTGTTTAAAGGGTATTATTGTCAAGTTATACTAAAAACT-AGCTAAAA
1 TTTTAATTTGTCTGAAATTGTTTAAAGGATATTATTGTCAAGTTATACAAAAAACTGA-CTAAAA
* * * *
7539139 ACAGTTAAAATTATAGAGATGGTCATTTTTTTAGTTACCTTTCTAT
65 ACAGTTAAAATTATAGAGACGATCATTTTTTGAGTCACCTTTCTAT
7539185 GAAGGTCATT
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
125 1 0.01
126 100 0.99
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (126 bp):
TTTTAATTTGTCTGAAATTGTTTAAAGGATATTATTGTCAAGTTATACAAAAAACTGACTAAAAA
CAGTTAAAATTATAGAGACGATCATTTTTTGAGTCACCTTTCTATAATTTCTCACAATTTT
Found at i:7543188 original size:2 final size:2
Alignment explanation
Indices: 7543183--7543218 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7543173 CACATATACA
7543183 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7543219 CTCTTTGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7552156 original size:18 final size:17
Alignment explanation
Indices: 7552128--7552161 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
7552118 GAAGAAAGGA
*
7552128 GAATAATAAAAGTAAAT
1 GAATAATAAAAATAAAT
7552145 GAATACATAAAAATAAA
1 GAATA-ATAAAAATAAA
7552162 ATAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (17 bp):
GAATAATAAAAATAAAT
Found at i:7552164 original size:5 final size:5
Alignment explanation
Indices: 7552154--7552181 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7552144 TGAATACATA
7552154 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
7552182 GGAGATGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:7581573 original size:16 final size:17
Alignment explanation
Indices: 7581543--7581579 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
7581533 CTTTTTTATT
7581543 TATTTATATTATTTAAC
1 TATTTATATTATTTAAC
7581560 TATTTATA-TATTTAAC
1 TATTTATATTATTTAAC
7581576 TATT
1 TATT
7581580 GGGTGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTATATTATTTAAC
Found at i:7585076 original size:7 final size:7
Alignment explanation
Indices: 7585064--7585093 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
7585054 CTTTAAAAAT
7585064 GGTGAAA
1 GGTGAAA
7585071 GGTGAAA
1 GGTGAAA
7585078 GGTGAAA
1 GGTGAAA
*
7585085 GATGAAA
1 GGTGAAA
7585092 GG
1 GG
7585094 AATATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (7 bp):
GGTGAAA
Found at i:7589530 original size:22 final size:21
Alignment explanation
Indices: 7589499--7589539 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7589489 CACTCCCAGC
*
7589499 TTTGAATTTGAGTTATTCAAG
1 TTTGAATTTGAGTCATTCAAG
7589520 TTTGACATTTGAGTCATTCA
1 TTTGA-ATTTGAGTCATTCA
7589540 TGTTAGGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (21 bp):
TTTGAATTTGAGTCATTCAAG
Found at i:7592242 original size:15 final size:14
Alignment explanation
Indices: 7592215--7592245 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7592205 AAGAGGATGT
7592215 CAAAGGGAAAAAAA
1 CAAAGGGAAAAAAA
*
7592229 CAAAGGGTAAAAAA
1 CAAAGGGAAAAAAA
7592243 CAA
1 CAA
7592246 GATTTACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.10, G:0.19, T:0.03
Consensus pattern (14 bp):
CAAAGGGAAAAAAA
Found at i:7596435 original size:4 final size:4
Alignment explanation
Indices: 7596426--7596453 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
7596416 ACAGGAAATT
7596426 CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA
7596454 TATGTGTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:7596856 original size:16 final size:17
Alignment explanation
Indices: 7596827--7596860 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
7596817 ATTTGAAAAA
7596827 TCTCTCCATCCCTCCCTC
1 TCTCTCCA-CCCTCCCTC
7596845 TCTCTCCA-CCTCCCTC
1 TCTCTCCACCCTCCCTC
7596861 ACTCATAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.06, C:0.62, G:0.00, T:0.32
Consensus pattern (17 bp):
TCTCTCCACCCTCCCTC
Found at i:7602063 original size:26 final size:27
Alignment explanation
Indices: 7602023--7602176 Score: 87
Period size: 30 Copynumber: 5.4 Consensus size: 27
7602013 AAAAATATTT
* *
7602023 TATAATATTATAATTAAAATAAAAT-A
1 TATAATATAAGAATTAAAATAAAATAA
7602049 TATAATATAAGAATTAGAAATTAAAATAAAA
1 TATAATATAAGAATTA-AAA-TAAAAT--AA
* * *
7602080 TAAAATATAAGAAATTAAAATTTATATAA
1 TATAATATAAG-AATTAAAA-TAAAATAA
* * * *
7602109 TGTAGGTATAAGAAATTAAAATTTATATAA
1 TATA-ATATAAG-AATTAAAA-TAAAATAA
* * *
7602139 TGTAGGTAAAAGAAATTAAAATAAAAT-A
1 TATA-ATATAAG-AATTAAAATAAAATAA
7602167 TATAATATAA
1 TATAATATAA
7602177 AAAATTATAT
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
26 14 0.13
27 7 0.07
28 10 0.09
29 8 0.07
30 44 0.41
31 19 0.18
32 5 0.05
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (27 bp):
TATAATATAAGAATTAAAATAAAATAA
Found at i:7602087 original size:31 final size:33
Alignment explanation
Indices: 7602029--7602101 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
7602019 ATTTTATAAT
*
7602029 ATTATAATTAAAATAAAATATATAATATAAG-A
1 ATTAAAATTAAAATAAAATATATAATATAAGAA
7602061 ATTAGAAATTAAAATAAAATA-A-AATATAAGAA
1 ATTA-AAATTAAAATAAAATATATAATATAAGAA
7602093 ATTAAAATT
1 ATTAAAATT
7602102 TATATAATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
31 13 0.34
32 10 0.26
33 15 0.39
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (33 bp):
ATTAAAATTAAAATAAAATATATAATATAAGAA
Found at i:7602121 original size:30 final size:30
Alignment explanation
Indices: 7602085--7602160 Score: 143
Period size: 30 Copynumber: 2.5 Consensus size: 30
7602075 TAAAATAAAA
7602085 TATAAGAAATTAAAATTTATATAATGTAGG
1 TATAAGAAATTAAAATTTATATAATGTAGG
7602115 TATAAGAAATTAAAATTTATATAATGTAGG
1 TATAAGAAATTAAAATTTATATAATGTAGG
*
7602145 TAAAAGAAATTAAAAT
1 TATAAGAAATTAAAAT
7602161 AAAATATATA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (30 bp):
TATAAGAAATTAAAATTTATATAATGTAGG
Found at i:7602203 original size:27 final size:26
Alignment explanation
Indices: 7602173--7602232 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
7602163 AATATATAAT
*
7602173 ATAAAAAATTATATTAACAAAATAAAA
1 ATAAAAAA-TATAATAACAAAATAAAA
* *
7602200 ATAAAAAATATAATATCATAATAAAA
1 ATAAAAAATATAATAACAAAATAAAA
*
7602226 ATGAAAA
1 ATAAAAA
7602233 TAAAATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.70, C:0.03, G:0.02, T:0.25
Consensus pattern (26 bp):
ATAAAAAATATAATAACAAAATAAAA
Found at i:7602494 original size:15 final size:15
Alignment explanation
Indices: 7602456--7602501 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
7602446 TGTTATTTTC
* *
7602456 CTTGCAATAACATTG
1 CTTGCAATCACATTA
7602471 CTTGCAATCACATTA
1 CTTGCAATCACATTA
*
7602486 CTTGCAATCATATTA
1 CTTGCAATCACATTA
7602501 C
1 C
7602502 CTATAATCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (15 bp):
CTTGCAATCACATTA
Found at i:7614255 original size:14 final size:14
Alignment explanation
Indices: 7614213--7614256 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
7614203 TTTACTGTTA
7614213 TTTTATTTTAAT-AT
1 TTTTA-TTTAATAAT
7614227 TTTTAATTTAA-AAT
1 TTTT-ATTTAATAAT
7614241 TTTTATTTAATAAT
1 TTTTATTTAATAAT
7614255 TT
1 TT
7614257 CTACTCGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 6 0.22
14 20 0.74
15 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTATTTAATAAT
Found at i:7618975 original size:60 final size:61
Alignment explanation
Indices: 7618797--7619031 Score: 178
Period size: 61 Copynumber: 3.9 Consensus size: 61
7618787 TTTTTTTTAG
* * * * * * **
7618797 CTCCTAAACTTAATTTAGG-CTTAACTTATCTAAAAAAAAGTTCAATTTTGAAATTTTGAAA
1 CTCCTAAACTTAATCTAGGTCTGATC-TATCTCATAACAAGTTTGATTTTGAAATTTTGAAA
* * * * *
7618858 TTCCTAAACTTAATCTAGGTTTGATCTATCTCATAATAGGTTTTA-TTTGAAATTTTTG-AA
1 CTCCTAAACTTAATCTAGGTCTGATCTATCTCATAACAAGTTTGATTTTGAAA-TTTTGAAA
* *
7618918 CTCCTAAACTTAATTTTAGGTCT-A-CATATCTC-TAAGCAAGTTTGATTTTGAAATTTTGTAA
1 CTCCTAAACTTAA-TCTAGGTCTGATC-TATCTCATAA-CAAGTTTGATTTTGAAATTTTGAAA
* * * * * *
7618979 TTCTTAGACTTAACCTAGG-CTTGATCTATCTCAAAACAGGTTTGATTTTGAAA
1 CTCCTAAACTTAATCTAGGTC-TGATCTATCTCATAACAAGTTTGATTTTGAAA
7619032 CCTTCTAAAC
Statistics
Matches: 139, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
59 5 0.04
60 44 0.32
61 84 0.60
62 6 0.04
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (61 bp):
CTCCTAAACTTAATCTAGGTCTGATCTATCTCATAACAAGTTTGATTTTGAAATTTTGAAA
Found at i:7631314 original size:3 final size:3
Alignment explanation
Indices: 7631300--7631337 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
7631290 TATCTACTCC
*
7631300 ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7631338 TATTATTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:7631832 original size:16 final size:16
Alignment explanation
Indices: 7631813--7631854 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
7631803 ATAACAATAT
7631813 CAAAACATTAAATGCA
1 CAAAACATTAAATGCA
* *
7631829 CAAAACAAT-AATGTA
1 CAAAACATTAAATGCA
7631844 CAAAA-ATTAAA
1 CAAAACATTAAA
7631855 GAAAATATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 2 0.09
15 12 0.55
16 8 0.36
ACGTcount: A:0.62, C:0.14, G:0.05, T:0.19
Consensus pattern (16 bp):
CAAAACATTAAATGCA
Found at i:7637767 original size:28 final size:28
Alignment explanation
Indices: 7637701--7637770 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
7637691 AAGGTTATGG
7637701 TTGAACCTTGAAAAAGCAATGGTTATAC
1 TTGAACCTTGAAAAAGCAATGGTTATAC
* *
7637729 TT-AATCTTTGAAAAAGCAGTGGTTATAC
1 TTGAA-CCTTGAAAAAGCAATGGTTATAC
7637757 TTGAACCTTGAAAA
1 TTGAACCTTGAAAA
7637771 TGCATAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (28 bp):
TTGAACCTTGAAAAAGCAATGGTTATAC
Found at i:7639275 original size:16 final size:17
Alignment explanation
Indices: 7639254--7639285 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7639244 TGACCCTCAA
7639254 AATAATT-TTTTTATTT
1 AATAATTATTTTTATTT
7639270 AATAATTATTTTTATT
1 AATAATTATTTTTATT
7639286 CCTCAAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATAATTATTTTTATTT
Found at i:7646659 original size:20 final size:20
Alignment explanation
Indices: 7646634--7646671 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
7646624 AACGTGGAAG
7646634 TGTAGACACTAAATTATAGC
1 TGTAGACACTAAATTATAGC
7646654 TGTAGACACTAAATTATA
1 TGTAGACACTAAATTATA
7646672 AACAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (20 bp):
TGTAGACACTAAATTATAGC
Found at i:7648918 original size:14 final size:14
Alignment explanation
Indices: 7648889--7648929 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
7648879 NNNNNNNNNN
*
7648889 AAATATATAAAATAA
1 AAATATATAATA-AA
7648904 AAATAGTATAATAAA
1 AAATA-TATAATAAA
7648919 AAATATATAAT
1 AAATATATAAT
7648930 TTTTGTTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (14 bp):
AAATATATAATAAA
Found at i:7649030 original size:3 final size:3
Alignment explanation
Indices: 7649018--7649106 Score: 55
Period size: 3 Copynumber: 30.3 Consensus size: 3
7649008 AATGTAAAGT
* * *
7649018 ATA A-A ATA ATA ATA ATA ATA AGAA ATA AGA ATA A-A A-A AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
* *
7649060 ATA ATGA AAA AT- ATA ATA A-A ATA AAA ATA ATA ATTA ATTA ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA ATA ATA
7649106 A
1 A
7649107 CTAAAAAATA
Statistics
Matches: 69, Mismatches: 9, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
2 12 0.17
3 46 0.67
4 11 0.16
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:7653090 original size:13 final size:13
Alignment explanation
Indices: 7653072--7653125 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
7653062 ATGGAAAAGA
7653072 ATATAAAAAATAT
1 ATATAAAAAATAT
*
7653085 ATATAAAAAATAG
1 ATATAAAAAATAT
* *
7653098 AAATAGAAAATAT
1 ATATAAAAAATAT
*
7653111 AGTAGAATAAAATAT
1 A-TATAA-AAAATAT
7653126 GTAATTGTCA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
13 23 0.72
14 2 0.06
15 7 0.22
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (13 bp):
ATATAAAAAATAT
Found at i:7653122 original size:28 final size:27
Alignment explanation
Indices: 7653069--7653124 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 27
7653059 TACATGGAAA
*
7653069 AGAATATAAAAAATATATATAAAAAAT
1 AGAATATAAAAAATATATAGAAAAAAT
*
7653096 AGAA-ATAGAAAATATAGTAGAATAAAAT
1 AGAATATAAAAAATATA-TAGAA-AAAAT
7653124 A
1 A
7653125 TGTAATTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 8 0.32
28 6 0.24
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.23
Consensus pattern (27 bp):
AGAATATAAAAAATATATAGAAAAAAT
Found at i:7660352 original size:60 final size:60
Alignment explanation
Indices: 7660249--7660373 Score: 196
Period size: 60 Copynumber: 2.1 Consensus size: 60
7660239 GTGCACCTTG
* * * * * *
7660249 TATAGAATATGTCGTGATAAAGCCAACTTTCATTTTCAGTCATCATGGTAATGTTGAGGT
1 TATAGAATATGTCATGACAAAGCCAACTTTCATCTTCAATCATCATAGCAATGTTGAGGT
7660309 TATAGAATATGTCATGACAAAGCCAACTTTCATCTTCAATCATCATAGCAATGTTGAGGT
1 TATAGAATATGTCATGACAAAGCCAACTTTCATCTTCAATCATCATAGCAATGTTGAGGT
7660369 TATAG
1 TATAG
7660374 CGAATGACAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (60 bp):
TATAGAATATGTCATGACAAAGCCAACTTTCATCTTCAATCATCATAGCAATGTTGAGGT
Found at i:7663082 original size:19 final size:21
Alignment explanation
Indices: 7663058--7663104 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7663048 ATTTTAATTC
*
7663058 TAAAATA-TATT-TAAAATAT
1 TAAAATATTATTATAAAATAA
7663077 TAAAATATTATTATAAAATAA
1 TAAAATATTATTATAAAATAA
7663098 TAAAATA
1 TAAAATA
7663105 ATAATTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 7 0.28
20 4 0.16
21 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAATATTATTATAAAATAA
Found at i:7673878 original size:11 final size:11
Alignment explanation
Indices: 7673862--7673893 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
7673852 CAGACACGAC
7673862 AAACACGTTTA
1 AAACACGTTTA
7673873 AAACACGTTT-
1 AAACACGTTTA
7673883 AAACACGTTTA
1 AAACACGTTTA
7673894 CTTAATCGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (11 bp):
AAACACGTTTA
Found at i:7673921 original size:18 final size:18
Alignment explanation
Indices: 7673895--7673933 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
7673885 ACACGTTTAC
*
7673895 TTAATCGTGT-TATCGTGT
1 TTAAACGTGTATA-CGTGT
7673913 TTAAACGTGTATACGTGT
1 TTAAACGTGTATACGTGT
7673931 TTA
1 TTA
7673934 TTAACCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (18 bp):
TTAAACGTGTATACGTGT
Found at i:7674185 original size:9 final size:9
Alignment explanation
Indices: 7674168--7674215 Score: 69
Period size: 9 Copynumber: 5.3 Consensus size: 9
7674158 ATATTTTTAT
7674168 TTAATCGTG
1 TTAATCGTG
*
7674177 TTAAACGTG
1 TTAATCGTG
*
7674186 TTAATCTTG
1 TTAATCGTG
7674195 TTAATCGTG
1 TTAATCGTG
*
7674204 TTAAACGTG
1 TTAATCGTG
7674213 TTA
1 TTA
7674216 TTAATCATGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (9 bp):
TTAATCGTG
Found at i:7676200 original size:19 final size:20
Alignment explanation
Indices: 7676176--7676214 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
7676166 TTTATACTTA
7676176 GTTTTCCATTTTTT-TCCTT
1 GTTTTCCATTTTTTCTCCTT
7676195 GTTTTCCATTTTTTCTCCTT
1 GTTTTCCATTTTTTCTCCTT
7676215 TATTGTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.05, C:0.23, G:0.05, T:0.67
Consensus pattern (20 bp):
GTTTTCCATTTTTTCTCCTT
Found at i:7676594 original size:75 final size:75
Alignment explanation
Indices: 7676464--7676615 Score: 288
Period size: 75 Copynumber: 2.0 Consensus size: 75
7676454 AGAGAAAAAA
7676464 TTGAACAAAAACTTGATTTATACTTATTTTTCTTATTTATCCCTTATCTTCTTCTTTTCCTCCCT
1 TTGAACAAAAACTTGATTTATACTTATTTTTCTTATTTATCCCTTATCTTCTTCTTTTCCTCCCT
7676529 CCTTTACTGC
66 CCTTTACTGC
7676539 TNTGAACAAAAACTTGATTTATACTTA-TTTTCTTATTTATCCCTTATCTTCTTCTTTTCCTCCC
1 T-TGAACAAAAACTTGATTTATACTTATTTTTCTTATTTATCCCTTATCTTCTTCTTTTCCTCCC
7676603 TCCTTTACTGC
65 TCCTTTACTGC
7676614 TT
1 TT
7676616 CTTTTCTTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
74 1 0.01
75 50 0.66
76 25 0.33
ACGTcount: A:0.20, C:0.25, G:0.04, T:0.51
Consensus pattern (75 bp):
TTGAACAAAAACTTGATTTATACTTATTTTTCTTATTTATCCCTTATCTTCTTCTTTTCCTCCCT
CCTTTACTGC
Found at i:7702587 original size:2 final size:2
Alignment explanation
Indices: 7702580--7702628 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
7702570 NNNNNNNNNN
7702580 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7702622 AT TT AT A
1 AT AT AT A
7702629 CATGCATATC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7703134 original size:16 final size:15
Alignment explanation
Indices: 7703096--7703135 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
7703086 CTTCTTTTCT
7703096 TTTCTCTCTCTTCAC
1 TTTCTCTCTCTTCAC
7703111 TTTC-CTCTC-TCAC
1 TTTCTCTCTCTTCAC
*
7703124 TTTCGCTCTCTT
1 TTTCTCTCTCTT
7703136 GCCGCCACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 8 0.35
14 10 0.43
15 5 0.22
ACGTcount: A:0.05, C:0.40, G:0.03, T:0.53
Consensus pattern (15 bp):
TTTCTCTCTCTTCAC
Found at i:7703214 original size:79 final size:76
Alignment explanation
Indices: 7703112--7703278 Score: 271
Period size: 79 Copynumber: 2.2 Consensus size: 76
7703102 TCTCTTCACT
*
7703112 TTCCTCTCTCACTTTCGCTCTCTTGCCGCCACTCTCTCTATCTTCTCCTTAAGCTTTTCTTTTTT
1 TTCCTCTCTCTCTTTCGCTCTCTTGCCGCCACTCTCTCTATCTTCTCCTTAAGCTTTTCTTTTTT
7703177 TTTCTTCCTCATTC
66 TTT-TT-CTC-TTC
*
7703191 TTCCTCTCTCTCTTTCTCTCTCTTGCCGCCACTCTCTCTATCTTCTCCTTAAGCTTTTCTTTTTT
1 TTCCTCTCTCTCTTTCGCTCTCTTGCCGCCACTCTCTCTATCTTCTCCTTAAGCTTTTCTTTTTT
* *
7703256 TTTTTTTCTTT
66 TTTTTCTCTTC
7703267 TTCCTCTCTCTC
1 TTCCTCTCTCTC
7703279 CCACCCATAA
Statistics
Matches: 84, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
76 14 0.17
77 2 0.02
78 2 0.02
79 66 0.79
ACGTcount: A:0.06, C:0.36, G:0.04, T:0.54
Consensus pattern (76 bp):
TTCCTCTCTCTCTTTCGCTCTCTTGCCGCCACTCTCTCTATCTTCTCCTTAAGCTTTTCTTTTTT
TTTTTCTCTTC
Found at i:7706654 original size:60 final size:60
Alignment explanation
Indices: 7706538--7706654 Score: 157
Period size: 60 Copynumber: 1.9 Consensus size: 60
7706528 ATTTTTAAAC
* **
7706538 ATTTTGAGTATTTTGAAGTGATTTTTGATACACGAAGAAAAATTATTAAGTGTTTTGTGT
1 ATTTTAAGTATTTTGAAGTGATTTTTGATACACGAAGAAAAATTATTAAGCATTTTGTGT
* *
7706598 ATTTTAAGTATTTT-AGAGTGATTTTTGATACATGAATAAAAACTT-TTAAGCATTTTG
1 ATTTTAAGTATTTTGA-AGTGATTTTTGATACACGAAGAAAAA-TTATTAAGCATTTTG
7706655 AGCATTCTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 1 0.02
60 47 0.94
61 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.45
Consensus pattern (60 bp):
ATTTTAAGTATTTTGAAGTGATTTTTGATACACGAAGAAAAATTATTAAGCATTTTGTGT
Found at i:7706789 original size:22 final size:22
Alignment explanation
Indices: 7706763--7706844 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
7706753 GTTTTAGTGA
*
7706763 TTTTTAAGTATTATGTAATTAG
1 TTTTTAAGTATTACGTAATTAG
** * *
7706785 TTTTTGGGTATTACGTGACTAG
1 TTTTTAAGTATTACGTAATTAG
* *
7706807 TTTTAAAGCATTACGTAATTAG
1 TTTTTAAGTATTACGTAATTAG
**
7706829 TTTTTAAACATTACGT
1 TTTTTAAGTATTACGT
7706845 GACTGATTGA
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (22 bp):
TTTTTAAGTATTACGTAATTAG
Found at i:7706968 original size:22 final size:22
Alignment explanation
Indices: 7706906--7706958 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
7706896 GGCATTATTA
*
7706906 AAAAATCAGTCACGTAATGCAT
1 AAAAATCAGTCACGTAATGCTT
*
7706928 AAAAATCAGTCATGTAATGCTT
1 AAAAATCAGTCACGTAATGCTT
7706950 AAAAATCAG
1 AAAAATCAG
7706959 AGACGCAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.47, C:0.15, G:0.13, T:0.25
Consensus pattern (22 bp):
AAAAATCAGTCACGTAATGCTT
Found at i:7707054 original size:22 final size:22
Alignment explanation
Indices: 7707003--7707062 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 22
7706993 TCAGTCTCAC
* * *
7707003 AATACCTAAAAATTAA-GATAT
1 AATACCTAAAAACTAATAATAA
**
7707024 AATGTCTAAAAACTAATAATAA
1 AATACCTAAAAACTAATAATAA
*
7707046 AATACCTAATAACTAAT
1 AATACCTAAAAACTAAT
7707063 TGATTTGCTT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (22 bp):
AATACCTAAAAACTAATAATAA
Found at i:7710737 original size:22 final size:22
Alignment explanation
Indices: 7710712--7710763 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
7710702 GTGACTTAAT
*
7710712 CATTACGTCTTTGGAACTTAGA
1 CATTACGTCTTTAGAACTTAGA
* *
7710734 CATTACATCTTTAGAACTTAGG
1 CATTACGTCTTTAGAACTTAGA
7710756 CATTACGT
1 CATTACGT
7710764 GATTGGTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (22 bp):
CATTACGTCTTTAGAACTTAGA
Found at i:7710809 original size:22 final size:21
Alignment explanation
Indices: 7710751--7710810 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
7710741 TCTTTAGAAC
*
7710751 TTAGGCATTACGTGATTGGTT
1 TTAGGCATTACGTGACTGGTT
* * * *
7710772 TTAGGTATTTCATGACTGATTT
1 TTAGGCATTACGTGACTG-GTT
*
7710794 TTAGGCATTGCGTGACT
1 TTAGGCATTACGTGACT
7710811 TAGGCATCGT
Statistics
Matches: 30, Mismatches: 8, Indels: 1
0.77 0.21 0.03
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.20, C:0.12, G:0.25, T:0.43
Consensus pattern (21 bp):
TTAGGCATTACGTGACTGGTT
Found at i:7710903 original size:76 final size:75
Alignment explanation
Indices: 7710755--7710903 Score: 174
Period size: 76 Copynumber: 2.0 Consensus size: 75
7710745 TAGAACTTAG
* * * * * *
7710755 GCATTACGTGATTGGTTTTAGGTATTTCATGACTGATTTTTAGGCATTGCGTGACTTAGGCATCG
1 GCATTACATGATTGGTTGTAGGCATTACATGACTGATTTTTAGGCATTACGTGACTTAGGCATCA
* *
7710820 TGTGACTGAA
66 CGAGACTGAA
* *
7710830 GCATTACATGATTGAGTTGTAGGCATTACGTGACT-AGTTTTTAGGCATTATGTGACTTAGGCAT
1 GCATTACATGATTG-GTTGTAGGCATTACATGACTGA-TTTTTAGGCATTACGTGACTTAGGCAT
*
7710894 TACGAGACTG
64 CACGAGACTG
7710904 CCTTTTAAGC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
75 14 0.23
76 47 0.77
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.37
Consensus pattern (75 bp):
GCATTACATGATTGGTTGTAGGCATTACATGACTGATTTTTAGGCATTACGTGACTTAGGCATCA
CGAGACTGAA
Found at i:7715279 original size:61 final size:61
Alignment explanation
Indices: 7715184--7715348 Score: 231
Period size: 61 Copynumber: 2.7 Consensus size: 61
7715174 CAGCTCATGT
* * * *
7715184 GCATCATTACCGGCATGTGCATTGCCCATTCCGCACATGCATTATTGTAAATATCACAACA
1 GCATCATTACCAGCATGTGCACTGCCCACTCCGCACATGCATGATTGTAAATATCACAACA
* * * *
7715245 GCATCATTACCAGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTGAATATCACGACA
1 GCATCATTACCAGCATGTGCACTGCCCACTCCGCACATGCATGATTGTAAATATCACAACA
* * *
7715306 ACATCATTCCCAGCATGTGCACTACCCACTCCGCACATGCATG
1 GCATCATTACCAGCATGTGCACTGCCCACTCCGCACATGCATG
7715349 TTTACATCAA
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 92 1.00
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.24
Consensus pattern (61 bp):
GCATCATTACCAGCATGTGCACTGCCCACTCCGCACATGCATGATTGTAAATATCACAACA
Found at i:7715982 original size:23 final size:23
Alignment explanation
Indices: 7715936--7715983 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7715926 TTTCTAAATA
* *
7715936 ATTTCCACCCAAATCCATCTTAT
1 ATTTCCACACAAATCCATCATAT
7715959 ATTTCCACACATAATCCA-CATAT
1 ATTTCCACACA-AATCCATCATAT
7715982 AT
1 AT
7715984 GGCAGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTTCCACACAAATCCATCATAT
Found at i:7722364 original size:61 final size:61
Alignment explanation
Indices: 7722268--7722491 Score: 324
Period size: 61 Copynumber: 3.7 Consensus size: 61
7722258 CAGCTCATGT
* * * *
7722268 GCATCATTACTGGCATGTGCACTACCCACTCCGCACATGCACGATTGTAAATATCACAACA
1 GCATCATTACTGACATGTGCACTGCCCACTCCGCACATGCACGATTGTGAATATCACGACA
* * * *
7722329 ACATCATTATTGGCATGTGCACTGCCCACTTCGCACATGCAC-AGTTGTGAATATCACGACA
1 GCATCATTACTGACATGTGCACTGCCCACTCCGCACATGCACGA-TTGTGAATATCACGACA
* * *
7722390 GCATCATTACCGACATGTGCACTGCCCACTCCGCACATGCACGGTTGTGAATATCACGATA
1 GCATCATTACTGACATGTGCACTGCCCACTCCGCACATGCACGATTGTGAATATCACGACA
*
7722451 GCATCATTACTAACATGTGCACTGCCCACTCCGCACATGCA
1 GCATCATTACTGACATGTGCACTGCCCACTCCGCACATGCA
7722492 TGTTTACATC
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
60 1 0.01
61 145 0.99
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (61 bp):
GCATCATTACTGACATGTGCACTGCCCACTCCGCACATGCACGATTGTGAATATCACGACA
Found at i:7723129 original size:23 final size:23
Alignment explanation
Indices: 7723083--7723130 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
7723073 TTTCTAAATA
* *
7723083 ATTTCCACCCAAATCCATCTTAT
1 ATTTCCACACAAATCCATCATAT
7723106 ATTTCCACACATAATCCA-CATAT
1 ATTTCCACACA-AATCCATCATAT
7723129 AT
1 AT
7723131 GGCAGCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.33
Consensus pattern (23 bp):
ATTTCCACACAAATCCATCATAT
Found at i:7729181 original size:22 final size:22
Alignment explanation
Indices: 7729122--7729181 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
7729112 CGGTGCCTAC
*
7729122 AACCCAGTCACACAATAGTTAA
1 AACCCAGTCACACAATACTTAA
* * * *
7729144 AAACCATTTACGCAATACTTAA
1 AACCCAGTCACACAATACTTAA
*
7729166 AACCCAGTCACCCAAT
1 AACCCAGTCACACAAT
7729182 GTCTAAAAAC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.43, C:0.30, G:0.07, T:0.20
Consensus pattern (22 bp):
AACCCAGTCACACAATACTTAA
Found at i:7729248 original size:22 final size:22
Alignment explanation
Indices: 7729209--7729250 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7729199 GCAATGCCTA
*
7729209 AGTCACTTAAAGTCTAAAAACC
1 AGTCACATAAAGTCTAAAAACC
* *
7729231 AGTCACATAATGTTTAAAAA
1 AGTCACATAAAGTCTAAAAA
7729251 TCAGATACGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.26
Consensus pattern (22 bp):
AGTCACATAAAGTCTAAAAACC
Found at i:7729346 original size:22 final size:22
Alignment explanation
Indices: 7729315--7729372 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
7729305 TAAGTCATGT
* *
7729315 AATGCCTAAAACCCAAACACAC
1 AATGCTTAAAAACCAAACACAC
* **
7729337 AATGCTTAAAAACTAGTCACAC
1 AATGCTTAAAAACCAAACACAC
7729359 AATGCCTTAAAAAC
1 AATG-CTTAAAAAC
7729373 AGAAATGCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (22 bp):
AATGCTTAAAAACCAAACACAC
Found at i:7732902 original size:2 final size:2
Alignment explanation
Indices: 7732895--7732920 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7732885 TTTGTGCAAG
7732895 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
7732921 GATGGCTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:7735289 original size:156 final size:157
Alignment explanation
Indices: 7734974--7735290 Score: 449
Period size: 156 Copynumber: 2.0 Consensus size: 157
7734964 TTATATGTAA
7734974 AAAAATTTGAATAATTAATGAATAAAACTTTCTCAATTCAATACTTGGATAAGCAGTAGGAAGTG
1 AAAAATTTGAATAATTAATGAATAAAACTTTCTCAATTCAATACTTGGATAAGCAGTAGGAAGTG
* * * * * *
7735039 ACAATAGGGATTGGATATCTTCGTACAATATTAAAATGCGCAAAGAATGGAGCACGTGTACCATT
66 ACAATAGGAATTGGATATCTTCGCACAATATTAAAATGCGCAAAGAACGAAGCACGAGTACCATC
7735104 ATGAAGGGGCTAGAAGCTGGTAGAGTT
131 ATGAAGGGGCTAGAAGCTGGTAGAGTT
* * *
7735131 AAAAA-TTGAATAATTAATGAATAAAACTTTCTTAGTTCAATACTTGGATAAGGAGTAGGAAGTG
1 AAAAATTTGAATAATTAATGAATAAAACTTTCTCAATTCAATACTTGGATAAGCAGTAGGAAGTG
* * * ** * **
7735195 TCAATAGGAATTGGATTTCTTCGCACAATATTAAAAATGTGTGAAGAACGAAGCATGAGTATTAT
66 ACAATAGGAATTGGATATCTTCGCACAATATT-AAAATGCGCAAAGAACGAAGCACGAGTACCAT
*
7735260 CATGAAGGTGCTAGAAGCTGGTAGA-TT
130 CATGAAGGGGCTAGAAGCTGGTAGAGTT
7735287 AAAA
1 AAAA
7735291 TAGTTTTGTA
Statistics
Matches: 141, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
156 90 0.64
157 51 0.36
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (157 bp):
AAAAATTTGAATAATTAATGAATAAAACTTTCTCAATTCAATACTTGGATAAGCAGTAGGAAGTG
ACAATAGGAATTGGATATCTTCGCACAATATTAAAATGCGCAAAGAACGAAGCACGAGTACCATC
ATGAAGGGGCTAGAAGCTGGTAGAGTT
Found at i:7736657 original size:13 final size:13
Alignment explanation
Indices: 7736639--7736686 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
7736629 AGATTTAAAC
7736639 TTTATTTATGTAA
1 TTTATTTATGTAA
* *
7736652 TTTATTTATTTAT
1 TTTATTTATGTAA
*
7736665 TTATATTTGGTGTAA
1 TT-TATTT-ATGTAA
7736680 TTTATTT
1 TTTATTT
7736687 TTTTGTAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 13 0.46
14 10 0.36
15 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (13 bp):
TTTATTTATGTAA
Found at i:7738311 original size:133 final size:134
Alignment explanation
Indices: 7738162--7738402 Score: 340
Period size: 133 Copynumber: 1.8 Consensus size: 134
7738152 GATGTATACC
* * * * *
7738162 GAGGGGCATGGTAGCTGAGCTATATGTCATGTGGATATATTGATATGAATTGTTACT-TTGTGCA
1 GAGGGGCACGGTAGCTGAGCTACATGTCATGTGCATATATTGATATGAATTGTCACTGTTATGCA
* * * * *
7738226 CTGAGGGATATGGTAGTTGAGCCACATGTCATGTTAATATATTAATATAATTTGTTATTGTTGTG
66 CTGAGGGACATGGTAGCTGAGCAAAATGTCATGTGAATATATTAATATAATTTGTTATTGTTGTG
7738291 CATT
131 CATT
* *
7738295 GAGGGGCACGGTAGCTGAGCTACATGTCATGTGCATATATTGATATGAGTTGTCATTGTTATGCA
1 GAGGGGCACGGTAGCTGAGCTACATGTCATGTGCATATATTGATATGAATTGTCACTGTTATGCA
* * *
7738360 TTGAGGGGCATGGTAGCTGAGCAAAATGTCATGTGGATATATT
66 CTGAGGGACATGGTAGCTGAGCAAAATGTCATGTGAATATATT
7738403 GATGTCATGA
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
133 51 0.55
134 41 0.45
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (134 bp):
GAGGGGCACGGTAGCTGAGCTACATGTCATGTGCATATATTGATATGAATTGTCACTGTTATGCA
CTGAGGGACATGGTAGCTGAGCAAAATGTCATGTGAATATATTAATATAATTTGTTATTGTTGTG
CATT
Found at i:7738314 original size:67 final size:66
Alignment explanation
Indices: 7738162--7738405 Score: 301
Period size: 67 Copynumber: 3.7 Consensus size: 66
7738152 GATGTATACC
* *
7738162 GAGGGGCATGGTAGCTGAGCTATATGTCATGTGGATATATTGATATGAATTGTTACT-TTGTGCA
1 GAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTGATAT-AATTGTTATTGTTGTGCA
*
7738226 CT
65 TT
** * * ** *
7738228 GAGGGATATGGTAGTTGAGCCACATGTCATGTTAATATATTAATATAATTTGTTATTGTTGTGCA
1 GAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTGATATAA-TTGTTATTGTTGTGCA
7738293 TT
65 TT
* * * * *
7738295 GAGGGGCACGGTAGCTGAGCTACATGTCATGTGCATATATTGATATGAGTTGTCATTGTTATGCA
1 GAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTGATAT-AATTGTTATTGTTGTGCA
7738360 TT
65 TT
* *
7738362 GAGGGGCATGGTAGCTGAGCAAAATGTCATGTGGATATATTGAT
1 GAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTGAT
7738406 GTCATGACCT
Statistics
Matches: 150, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
65 2 0.01
66 45 0.30
67 102 0.68
68 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.36
Consensus pattern (66 bp):
GAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTGATATAATTGTTATTGTTGTGCAT
T
Found at i:7740310 original size:67 final size:67
Alignment explanation
Indices: 7740201--7740590 Score: 443
Period size: 67 Copynumber: 5.8 Consensus size: 67
7740191 TAAAATTGAT
7740201 ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTA
1 ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTA
7740266 AC
66 AC
* * *
7740268 ATGAATTGTTATTATTATGCACTGAGGGGCATGGTAGTTGAGCTACATGTCATGTGGATATATTA
1 ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTA
7740333 AC
66 AC
* * * *
7740335 ATGAATTGTTATTATTATGCACTGAGGGGCATGGTAGCTAAGCTACATGTCATATGGATATATTA
1 ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTA
*
7740400 AG
66 AC
* ** * **
7740402 ATGAATTGTTATTGTTGTGCTCCAAGGGGCATGGGAGCAAAGCTACATGTCATGTGGATGTGGAT
1 ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTACATGTC------ATGTGGAT
* *
7740467 ATATTGAT
60 ATATTAAC
* * * *
7740475 ATGAGTTGTTATTGTTGTGCACTAAGGGGCATGGTAGTTGAGCTACAAT-TCATATGGATATATT
1 ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTAC-ATGTCATGTGGATATATT
* *
7740539 GAT
65 AAC
* * *
7740542 ATGAATTG---TTG-TG-G-ACTGAGGGGCATGGTAGCTAAGTTACAAGTCATGT
1 ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTACATGTCATGT
7740591 AATTATATTA
Statistics
Matches: 283, Mismatches: 32, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
60 1 0.00
61 27 0.10
62 1 0.00
63 2 0.01
64 3 0.01
67 193 0.68
73 54 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (67 bp):
ATGAATTGTTATTGTTGTGCACTGAGGGGCATGGTAGCTGAGCTACATGTCATGTGGATATATTA
AC
Found at i:7749509 original size:35 final size:35
Alignment explanation
Indices: 7749456--7749557 Score: 111
Period size: 35 Copynumber: 2.9 Consensus size: 35
7749446 ATTCCTTAAG
* ***
7749456 AAGCCCAGTTAACTTAATTATTTAATTTAATCAATT
1 AAGCCCA-ATAACTTAATTAAACAATTTAATCAATT
*
7749492 AAGCCCAATAACTTAATTAAACAATTTAATTAATT
1 AAGCCCAATAACTTAATTAAACAATTTAATCAATT
*
7749527 AGGCCC---AACTTAATTAAACAATTTTAATCAA
1 AAGCCCAATAACTTAATTAAACAA-TTTAATCAA
7749558 GTGCTTGAGA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
32 15 0.26
33 8 0.14
35 28 0.48
36 7 0.12
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (35 bp):
AAGCCCAATAACTTAATTAAACAATTTAATCAATT
Found at i:7753264 original size:19 final size:19
Alignment explanation
Indices: 7753227--7753269 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
7753217 TGATTAGCAT
* *
7753227 GCATAACATTTAATATATC
1 GCATAAAATTAAATATATC
*
7753246 GCATAAAATTAAATCTATC
1 GCATAAAATTAAATATATC
*
7753265 ACATA
1 GCATA
7753270 CTGTTCTACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (19 bp):
GCATAAAATTAAATATATC
Found at i:7754957 original size:180 final size:180
Alignment explanation
Indices: 7754746--7755073 Score: 482
Period size: 180 Copynumber: 1.8 Consensus size: 180
7754736 TTAATAGCCT
* *
7754746 AAATCAGCTTGTTTGGCCATGAAAATTTCCAAAAATAATCCTCATTGAACATTTTAATAAAGATA
1 AAATCAGCATGTTTAGCCATGAAAATTTCCAAAAATAATCCTCATTGAACATTTTAATAAAGATA
*
7754811 ATTTTTCT-GAAATTTTTCAGAATTAATCTT-CAAGACTTTAC-TGTCAATTAAAACTGAAGTTC
66 ATTTTTCTGGAAA-TTTTCAGAATTAAT-TTCCAAGACTTT-CTTGTCAATTAAAACTGAAATTC
*
7754873 ATGCCAAAACTGCGAGCTGGATAGATTTATATTTGCACCGATTTTCTTACTTG
128 ATGCCAAAACAGCGAGCTGGATAGATTTATATTTGCACCGATTTTCTTACTTG
* * * *
7754926 AAATCAGCATGTTTAGCCATGATATTTTCCAAAAATAATCCTTATTGAACATTTTAATATAGATA
1 AAATCAGCATGTTTAGCCATGAAAATTTCCAAAAATAATCCTCATTGAACATTTTAATAAAGATA
* * *
7754991 ATTTTTTTGGAAATTTTCAGAGTTAATTTCCTAGACTTTCTTGTCAATTAAAACTGAAATTCATG
66 ATTTTTCTGGAAATTTTCAGAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
* * *
7755056 TCATAACAGTGAGCTGGA
131 CCAAAACAGCGAGCTGGA
7755074 CTGTTTTCAC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
179 3 0.02
180 124 0.95
181 4 0.03
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.38
Consensus pattern (180 bp):
AAATCAGCATGTTTAGCCATGAAAATTTCCAAAAATAATCCTCATTGAACATTTTAATAAAGATA
ATTTTTCTGGAAATTTTCAGAATTAATTTCCAAGACTTTCTTGTCAATTAAAACTGAAATTCATG
CCAAAACAGCGAGCTGGATAGATTTATATTTGCACCGATTTTCTTACTTG
Found at i:7762083 original size:15 final size:15
Alignment explanation
Indices: 7762063--7762118 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
7762053 AAGCACCAAA
*
7762063 AGCAGCGGCAGTAGC
1 AGCAGCAGCAGTAGC
7762078 AGCAGCAGCAGTAGC
1 AGCAGCAGCAGTAGC
* * *
7762093 TGCAGGAGCATTAGC
1 AGCAGCAGCAGTAGC
**
7762108 AATAGCAGCAG
1 AGCAGCAGCAG
7762119 CAGGTATGTG
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.34, T:0.11
Consensus pattern (15 bp):
AGCAGCAGCAGTAGC
Found at i:7764208 original size:2 final size:2
Alignment explanation
Indices: 7764201--7764225 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7764191 AATGTCCTTT
7764201 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7764226 TTCTACATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7774858 original size:2 final size:2
Alignment explanation
Indices: 7774799--7774846 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
7774789 CAAAACTAAT
7774799 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7774839 TA TA -A TA T
1 TA TA TA TA T
7774847 TTTCATATAT
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7775358 original size:2 final size:2
Alignment explanation
Indices: 7775351--7775414 Score: 57
Period size: 2 Copynumber: 34.5 Consensus size: 2
7775341 AATTGATTTC
*
7775351 AT AT AT AT AT AT AT AT AT AT A- AT AC A- AT A- AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
7775389 AT AT AC AT AT AT TT A- AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
7775415 AGCATTACTA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
1 5 0.10
2 45 0.90
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7777370 original size:14 final size:13
Alignment explanation
Indices: 7777348--7777398 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
7777338 TCTTTGGAGC
*
7777348 TTTTCTTTAAACTT
1 TTTTTTTTAAA-TT
7777362 TTTTTTTT-AATT
1 TTTTTTTTAAATT
**
7777374 TTTTTTAAAAATT
1 TTTTTTTTAAATT
7777387 TATTTTTTTAAA
1 T-TTTTTTTAAA
7777399 AGCTTCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 8 0.27
13 7 0.23
14 15 0.50
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTTTTTAAATT
Found at i:7790429 original size:20 final size:19
Alignment explanation
Indices: 7790396--7790434 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
7790386 GTATTTTGAC
7790396 TATACATAGTTATTATTATT
1 TATACATAGTTATT-TTATT
7790416 TATACATA-TGTATTTTATT
1 TATACATAGT-TATTTTATT
7790435 CATTTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (19 bp):
TATACATAGTTATTTTATT
Found at i:7791920 original size:14 final size:15
Alignment explanation
Indices: 7791901--7791930 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7791891 TCATGGTTGG
7791901 TTTGT-GGTTTTTTT
1 TTTGTGGGTTTTTTT
7791915 TTTGTGGGTTTTTTT
1 TTTGTGGGTTTTTTT
7791930 T
1 T
7791931 GGTTTGAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (15 bp):
TTTGTGGGTTTTTTT
Found at i:7792196 original size:15 final size:16
Alignment explanation
Indices: 7792176--7792211 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
7792166 TGTCTCATTA
7792176 TTTTATTTTA-TATTT
1 TTTTATTTTATTATTT
7792191 TTTTATTTTATTATTT
1 TTTTATTTTATTATTT
7792207 TTTTA
1 TTTTA
7792212 AATGGGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTATTTTATTATTT
Found at i:7792868 original size:40 final size:40
Alignment explanation
Indices: 7792810--7792888 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
7792800 TTGTGAAAGA
*
7792810 CACCAATCATGGCGAGGTTGAAAACCCCACTAAGGTGAAT
1 CACCAATCATGGCAAGGTTGAAAACCCCACTAAGGTGAAT
* *
7792850 CACCAATCTTGGTAAGGTTGAAAACCCCACTAAGGTGAA
1 CACCAATCATGGCAAGGTTGAAAACCCCACTAAGGTGAA
7792889 ACATAGCCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (40 bp):
CACCAATCATGGCAAGGTTGAAAACCCCACTAAGGTGAAT
Found at i:7795471 original size:40 final size:40
Alignment explanation
Indices: 7795413--7795491 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
7795403 TTGTGAAAGA
*
7795413 CACCAATCGTGGCGAGGTTGAAAACCACACTAAGGTGAAT
1 CACCAATCGTGGCAAGGTTGAAAACCACACTAAGGTGAAT
* * *
7795453 CACCAATCTTGGTAAGGTTGAAAACCCCACTAAGGTGAA
1 CACCAATCGTGGCAAGGTTGAAAACCACACTAAGGTGAA
7795492 AAATAGCCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (40 bp):
CACCAATCGTGGCAAGGTTGAAAACCACACTAAGGTGAAT
Found at i:7796824 original size:6 final size:6
Alignment explanation
Indices: 7796813--7796860 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
7796803 TTGCTCGTTA
* *
7796813 TCTCCT TCTCCT TCTCCT CCTCCTCCT CCTCCT TCTCCT TCTTCT TCT
1 TCTCCT TCTCCT TCTCCT --T-CTCCT TCTCCT TCTCCT TCTCCT TCT
7796861 TCTAAGCAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 30 0.83
8 1 0.03
9 5 0.14
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
TCTCCT
Found at i:7799501 original size:9 final size:9
Alignment explanation
Indices: 7799475--7799504 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
7799465 ATAATAATTA
7799475 TAATTATAT
1 TAATTATAT
7799484 TAATTATAT
1 TAATTATAT
7799493 TAATTATAT
1 TAATTATAT
7799502 TAA
1 TAA
7799505 AAATATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAATTATAT
Found at i:7799510 original size:18 final size:18
Alignment explanation
Indices: 7799475--7799510 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7799465 ATAATAATTA
**
7799475 TAATTATATTAATTATAT
1 TAATTATATTAAAAATAT
7799493 TAATTATATTAAAAATAT
1 TAATTATATTAAAAATAT
7799511 ATAAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTATATTAAAAATAT
Found at i:7799522 original size:17 final size:16
Alignment explanation
Indices: 7799500--7799543 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
7799490 TATTAATTAT
7799500 ATTAAAAATATATAAAA
1 ATTAAAAATA-ATAAAA
7799517 ATTAAAAA-AATAAAA
1 ATTAAAAATAATAAAA
* *
7799532 GTAAAAAATAAT
1 ATTAAAAATAAT
7799544 TAATAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 12 0.50
16 4 0.17
17 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (16 bp):
ATTAAAAATAATAAAA
Found at i:7800047 original size:17 final size:18
Alignment explanation
Indices: 7800027--7800060 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7800017 TGTTATATTA
*
7800027 TTTTT-ATTTTAATAAAT
1 TTTTTAATTTCAATAAAT
7800044 TTTTTAATTTCAATAAA
1 TTTTTAATTTCAATAAA
7800061 AAAATCTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAATTTCAATAAAT
Found at i:7802674 original size:15 final size:15
Alignment explanation
Indices: 7802644--7802681 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
7802634 AAATTTTACT
7802644 AAGAAAAACCTAATG
1 AAGAAAAACCTAATG
*
7802659 -AGAAAAACCTTGATG
1 AAGAAAAACC-TAATG
7802674 AAGAAAAA
1 AAGAAAAA
7802682 AAGTATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 9 0.45
15 4 0.20
16 7 0.35
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.13
Consensus pattern (15 bp):
AAGAAAAACCTAATG
Found at i:7806409 original size:27 final size:26
Alignment explanation
Indices: 7806356--7806415 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
7806346 ATCCATCTAG
* * *
7806356 GTTAAAGTATCTATCCACTTCTGGTA
1 GTTAAAGTATCCATCCACTTATAGTA
7806382 GTTAAAGATATCCATCCACTTATAGTA
1 GTTAAAG-TATCCATCCACTTATAGTA
*
7806409 GATAAAG
1 GTTAAAG
7806416 GTATTCTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (26 bp):
GTTAAAGTATCCATCCACTTATAGTA
Found at i:7806941 original size:60 final size:60
Alignment explanation
Indices: 7806873--7806985 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
7806863 ATGTTCAATC
* * *
7806873 CGATTTAATAAATTAATAGACAAAATATGATATAGATTACATGATAGCAAATTCACATTG
1 CGATTTAATAAATCAAGAGACAAAATATAATATAGATTACATGATAGCAAATTCACATTG
* *
7806933 CGATTTAATAAATCAAGAGACAAAATATAATATATATTATATGATAGCAAATT
1 CGATTTAATAAATCAAGAGACAAAATATAATATAGATTACATGATAGCAAATT
7806986 TATATTAAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.32
Consensus pattern (60 bp):
CGATTTAATAAATCAAGAGACAAAATATAATATAGATTACATGATAGCAAATTCACATTG
Found at i:7808607 original size:17 final size:17
Alignment explanation
Indices: 7808587--7808621 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7808577 TTAAATTTAA
* *
7808587 ATATCTTTTAATAAAAT
1 ATATCTTATAAAAAAAT
7808604 ATATCTTATAAAAAAAT
1 ATATCTTATAAAAAAAT
7808621 A
1 A
7808622 CCATGTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATCTTATAAAAAAAT
Found at i:7810086 original size:20 final size:20
Alignment explanation
Indices: 7810061--7810101 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7810051 AATCCCAAAG
7810061 ATAATAATAACCTTTGATGA
1 ATAATAATAACCTTTGATGA
* *
7810081 ATAATAATCACTTTTGATGA
1 ATAATAATAACCTTTGATGA
7810101 A
1 A
7810102 AAATGTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (20 bp):
ATAATAATAACCTTTGATGA
Found at i:7815779 original size:82 final size:82
Alignment explanation
Indices: 7815642--7815811 Score: 322
Period size: 82 Copynumber: 2.1 Consensus size: 82
7815632 CCTCCAAAAG
*
7815642 CTTATTTTTAATATTCTGAAAGTAAAAAAGGCAAATAAAACTAATAAGAAACCTAAGTCGACATG
1 CTTATTTTTAATATTCTGAAAGTAAAAAAGGCAAATAAAACTAACAAGAAACCTAAGTCGACATG
7815707 CATACACGGTATACCAA
66 CATACACGGTATACCAA
7815724 CTTATTTTTAATATTCTGAAAGTAAAAAAGGCAAATAAAACTAACAAGAAACCTAAGTCGACATG
1 CTTATTTTTAATATTCTGAAAGTAAAAAAGGCAAATAAAACTAACAAGAAACCTAAGTCGACATG
*
7815789 CATATACGGTATACCAA
66 CATACACGGTATACCAA
7815806 CTTATT
1 CTTATT
7815812 ATCATATTAC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.45, C:0.16, G:0.12, T:0.27
Consensus pattern (82 bp):
CTTATTTTTAATATTCTGAAAGTAAAAAAGGCAAATAAAACTAACAAGAAACCTAAGTCGACATG
CATACACGGTATACCAA
Found at i:7836117 original size:16 final size:17
Alignment explanation
Indices: 7836084--7836117 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7836074 ATCCTAAATC
*
7836084 AACTAAAATTAGTAAAA
1 AACTAAAATTAATAAAA
*
7836101 AACTAAATTTAATAAAA
1 AACTAAAATTAATAAAA
7836118 TACAATTCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (17 bp):
AACTAAAATTAATAAAA
Found at i:7839793 original size:23 final size:22
Alignment explanation
Indices: 7839767--7839823 Score: 53
Period size: 23 Copynumber: 2.5 Consensus size: 22
7839757 GTTTATATAA
7839767 TGTTTAGGGTAGAGTTT-GTATGG
1 TGTTTAGGGTAGAGTTTAGT-T-G
* * *
7839790 TGTTGAAGGTAGTGTTTAGGTTG
1 TGTTTAGGGTAGAGTTTA-GTTG
7839813 TGTTTAGGGTA
1 TGTTTAGGGTA
7839824 TATGATATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
23 24 0.89
24 1 0.04
25 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.39, T:0.44
Consensus pattern (22 bp):
TGTTTAGGGTAGAGTTTAGTTG
Found at i:7839883 original size:11 final size:11
Alignment explanation
Indices: 7839864--7839949 Score: 95
Period size: 11 Copynumber: 7.8 Consensus size: 11
7839854 CATGTGAATC
7839864 ATAGTGTTTAT
1 ATAGTGTTTAT
*
7839875 ATTGTGTTTAT
1 ATAGTGTTTAT
7839886 ATAGTGTTTAT
1 ATAGTGTTTAT
7839897 ATAGTGTTTCAT
1 ATAGTGTTT-AT
7839909 ATAGTGTTTA-
1 ATAGTGTTTAT
* *
7839919 A-GGTGTTTAGG
1 ATAGTGTTTA-T
* *
7839930 GTAGTGTTCAT
1 ATAGTGTTTAT
7839941 ATAGTGTTT
1 ATAGTGTTT
7839950 CAAGTTGAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 8
0.78 0.11 0.10
Matches are distributed among these distances:
9 7 0.11
10 1 0.02
11 37 0.60
12 17 0.27
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (11 bp):
ATAGTGTTTAT
Found at i:7846677 original size:62 final size:62
Alignment explanation
Indices: 7846586--7846725 Score: 167
Period size: 62 Copynumber: 2.3 Consensus size: 62
7846576 TATCGATAGA
7846586 TGTCATCTATCGATAGCTACCGAGGCTGTCTTGCTCTCAAGTGA-AAAGCTATCGATAAATGT
1 TGTCATCTATCGATAGCTACCGAGGCTGTCTTGCTCTCAAGTGATAAA-CTATCGATAAATGT
* * *** * **
7846648 TGTCATCTATCGATAGTTATCG-GGTCTGTCTTGCTCTGGGGTGATAAATTATCGATGGATGT
1 TGTCATCTATCGATAGCTACCGAGG-CTGTCTTGCTCTCAAGTGATAAACTATCGATAAATGT
*
7846710 TGTCATCTATTGATAG
1 TGTCATCTATCGATAG
7846726 ATGAATGAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
61 2 0.03
62 62 0.93
63 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (62 bp):
TGTCATCTATCGATAGCTACCGAGGCTGTCTTGCTCTCAAGTGATAAACTATCGATAAATGT
Found at i:7849549 original size:16 final size:18
Alignment explanation
Indices: 7849516--7849552 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
7849506 TAAGCAAAAA
7849516 TAAATATTTATAAAATTT
1 TAAATATTTATAAAATTT
*
7849534 TAAA-ATTT-TAATATTT
1 TAAATATTTATAAAATTT
7849550 TAA
1 TAA
7849553 TAAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 4 0.22
18 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAATATTTATAAAATTT
Found at i:7849562 original size:19 final size:19
Alignment explanation
Indices: 7849514--7849565 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
7849504 TTTAAGCAAA
7849514 AATAAATATTTATAAAATTTT
1 AATAAATA-TT-TAAAATTTT
*
7849535 -A-AAAT-TTTAATATTTT
1 AATAAATATTTAAAATTTT
7849551 AATAAATATTTAAAA
1 AATAAATATTTAAAA
7849566 ATATTATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
18 4 0.15
19 10 0.38
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAAATATTTAAAATTTT
Found at i:7849577 original size:27 final size:27
Alignment explanation
Indices: 7849511--7849571 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 27
7849501 AAGTTTAAGC
7849511 AAAAATA--AATA-TTT-ATAAAATTT
1 AAAAATATTAATATTTTAATAAAATTT
* *
7849534 TAAAATTTTAATATTTTAATAAATATTT
1 AAAAATATTAATATTTTAATAAA-ATTT
7849562 AAAAATATTA
1 AAAAATATTA
7849572 TGTTTTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
23 5 0.17
25 4 0.14
26 3 0.10
27 5 0.17
28 12 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
AAAAATATTAATATTTTAATAAAATTT
Found at i:7849844 original size:15 final size:15
Alignment explanation
Indices: 7849826--7849871 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
7849816 TTCCCAACAG
7849826 TCACATTCCTAGCAA
1 TCACATTCCTAGCAA
* *
7849841 TCACATTCCCAACAA
1 TCACATTCCTAGCAA
*
7849856 TCACATTCCTTGCAA
1 TCACATTCCTAGCAA
7849871 T
1 T
7849872 ATACAAACCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.33, C:0.35, G:0.04, T:0.28
Consensus pattern (15 bp):
TCACATTCCTAGCAA
Found at i:7849849 original size:30 final size:30
Alignment explanation
Indices: 7849815--7849871 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
7849805 GTAAAGTTAT
*
7849815 ATTCCCAACAGTCACATTCCTAGCAATCAC
1 ATTCCCAACAATCACATTCCTAGCAATCAC
*
7849845 ATTCCCAACAATCACATTCCTTGCAAT
1 ATTCCCAACAATCACATTCCTAGCAAT
7849872 ATACAAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.26
Consensus pattern (30 bp):
ATTCCCAACAATCACATTCCTAGCAATCAC
Found at i:7853052 original size:181 final size:181
Alignment explanation
Indices: 7852764--7853234 Score: 541
Period size: 180 Copynumber: 2.6 Consensus size: 181
7852754 AGCAAGCCAT
* ** * * *
7852764 GGTTTTGAATTTTTTTTGACAGCCAAAAACATTTCCTAAAATCCTGGAAAA-TTACTATGGAAT-
1 GGTTTTGAATTTTTTTTCACAGCCAAAAACACCTCCTAAAATCCT-GAAAATTTATTCTGAAATA
* * * * * * *
7852827 TTTTCCATAAGTTTTCTATTAAGGA-AAATTTAATTGGGAATTAAATTCCTGA-TTTTATGCCAC
65 GTTT-CATGAGTTATCTA-TCAGGATAAATTTTATTAGGAATTAAATTCCTAAGTTTTA-GCCA-
* * *
7852890 CAAATAGCCTCAAAAGGAAGACAAAACCGAA-ACTGCCT-CTGCAGATAAAGGTCAC
126 CAAAGAACCTCAAAAGGAAGAAAAAACC-AATACTGCCTCCTGCAGATAAAGGTCAC
7852945 GGTTTTGAATTTTTTTTCACAGCCAAAAACACCTCCTAAAATCCTGAAAATTTATTCTGAAATAG
1 GGTTTTGAATTTTTTTTCACAGCCAAAAACACCTCCTAAAATCCTGAAAATTTATTCTGAAATAG
* * *
7853010 TTTCATGAGTTATATATCAGGATAAATTTTATTAGAAATTAAATTCCTAAGTTTTAGTCACAAAG
66 TTTCATGAGTTATCTATCAGGATAAATTTTATTAGGAATTAAATTCCTAAGTTTTAGCCACAAAG
** ** *
7853075 AATTTCAAAAGGACTAAAAAACCAATTCTGCCTCCTGCAGATAAAGGTCAC
131 AACCTCAAAAGGAAGAAAAAACCAATACTGCCTCCTGCAGATAAAGGTCAC
*
7853126 GGTTTTTGAA--TTTTTTCA-ATGGCC-AAATCACCTCCTAAAATCCTGAAAATTTATTCTGAAA
1 GG-TTTTGAATTTTTTTTCACA--GCCAAAAACACCTCCTAAAATCCTGAAAATTTATTCTGAAA
* *
7853187 TAGTTACATGAGTTATCTATCAGGATAAATTTT-TTTGGAATTAAATTC
63 TAGTTTCATGAGTTATCTATCAGGATAAATTTTATTAGGAATTAAATTC
7853235 TTAAAGATAC
Statistics
Matches: 252, Mismatches: 29, Indels: 20
0.84 0.10 0.07
Matches are distributed among these distances:
179 16 0.06
180 112 0.44
181 109 0.43
182 15 0.06
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (181 bp):
GGTTTTGAATTTTTTTTCACAGCCAAAAACACCTCCTAAAATCCTGAAAATTTATTCTGAAATAG
TTTCATGAGTTATCTATCAGGATAAATTTTATTAGGAATTAAATTCCTAAGTTTTAGCCACAAAG
AACCTCAAAAGGAAGAAAAAACCAATACTGCCTCCTGCAGATAAAGGTCAC
Found at i:7854582 original size:58 final size:57
Alignment explanation
Indices: 7854492--7854611 Score: 195
Period size: 58 Copynumber: 2.1 Consensus size: 57
7854482 CATAATCATC
* * *
7854492 CAAAGTAGTTTGCATGTGATAGATTTATTTTATGCAATTTAATAAATGTTATGCAATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATACAATTTAATAAATGCTATGC-ATG
*
7854550 CAAAGTAGTATGCATGTGATAGATTTATTTTATACGATTTAATAAATGCTATGCATG
1 CAAAGTAGTATGCATGTGATAGATTTATTTTATACAATTTAATAAATGCTATGCATG
7854607 CAAAG
1 CAAAG
7854612 ATGAGACCCT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 8 0.14
58 50 0.86
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (57 bp):
CAAAGTAGTATGCATGTGATAGATTTATTTTATACAATTTAATAAATGCTATGCATG
Found at i:7861220 original size:18 final size:18
Alignment explanation
Indices: 7861197--7861237 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
7861187 TATACATAGG
7861197 AAAAATGAAATATATGAA
1 AAAAATGAAATATATGAA
7861215 AAAAATGAAATATATGAA
1 AAAAATGAAATATATGAA
7861233 AAAAA
1 AAAAA
7861238 ATGTGAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (18 bp):
AAAAATGAAATATATGAA
Found at i:7862089 original size:8 final size:8
Alignment explanation
Indices: 7862079--7862123 Score: 56
Period size: 8 Copynumber: 5.5 Consensus size: 8
7862069 TACAAAAAAT
*
7862079 AATATAAT
1 AATATAAA
7862087 AATAATAAA
1 AAT-ATAAA
7862096 AATATAAA
1 AATATAAA
7862104 AATATATAA
1 AATATA-AA
7862113 AATA-AAA
1 AATATAAA
7862120 AATA
1 AATA
7862124 GTATAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
7 6 0.18
8 15 0.44
9 13 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AATATAAA
Found at i:7862101 original size:17 final size:17
Alignment explanation
Indices: 7862079--7862145 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 17
7862069 TACAAAAAAT
7862079 AATATAATAATAATAAA
1 AATATAATAATAATAAA
*
7862096 AATATAAAAATATATAAA
1 AATATAATAATA-ATAAA
* *
7862114 ATAAAAAATAGTATAATAAA
1 A-ATATAATA--ATAATAAA
7862134 AA-ATAATAATAA
1 AATATAATAATAA
7862146 AATTTTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 4 0.10
17 11 0.27
18 11 0.27
19 6 0.15
20 6 0.15
21 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (17 bp):
AATATAATAATAATAAA
Found at i:7862136 original size:22 final size:21
Alignment explanation
Indices: 7862072--7862139 Score: 59
Period size: 24 Copynumber: 3.1 Consensus size: 21
7862062 GATTGCTTAC
*
7862072 AAAAAATAATATAAT-AATAAT
1 AAAAAAT-ATATAATAAAAAAT
*
7862093 -AAAAATATAAAAATATATAAAAT
1 AAAAAATAT-ATAATA-A-AAAAT
7862116 AAAAAATAGTATAATAAAAAAT
1 AAAAAATA-TATAATAAAAAAT
7862138 AA
1 AA
7862140 TAATAAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
19 2 0.05
20 10 0.26
22 8 0.21
23 5 0.13
24 12 0.32
25 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.25
Consensus pattern (21 bp):
AAAAAATATATAATAAAAAAT
Found at i:7862272 original size:27 final size:27
Alignment explanation
Indices: 7862242--7862321 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
7862232 TGTAAAGTAC
*
7862242 GAAAAAATAATAATTAGAAATAAAATA
1 GAAAAAATAATAATTAAAAATAAAATA
* * *
7862269 GAAAATATGATAATAAAAAATAAAATA
1 GAAAAAATAATAATTAAAAATAAAATA
*
7862296 AAATGAAAATAATAATTAAATAATAA
1 GAA--AAAATAATAATTAAA-AATAA
7862322 TAAAACAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 25 0.60
29 12 0.29
30 5 0.12
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (27 bp):
GAAAAAATAATAATTAAAAATAAAATA
Found at i:7862293 original size:20 final size:20
Alignment explanation
Indices: 7862243--7862295 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
7862233 GTAAAGTACG
7862243 AAAAAATAATAAT-TAGAAAT
1 AAAAAATAA-AATATAGAAAT
* *
7862263 AAAATAGAAAATAT-GATAAT
1 AAAAAATAAAATATAGA-AAT
7862283 AAAAAATAAAATA
1 AAAAAATAAAATA
7862296 AAATGAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 5 0.19
20 22 0.81
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.23
Consensus pattern (20 bp):
AAAAAATAAAATATAGAAAT
Found at i:7862304 original size:6 final size:5
Alignment explanation
Indices: 7862245--7862331 Score: 50
Period size: 5 Copynumber: 15.8 Consensus size: 5
7862235 AAAGTACGAA
**
7862245 AAAAT AATAATT AGAAAT AAAAT AGAAAAT ATGAT AATAA- AAAAT AAAAT
1 AAAAT AA-AA-T A-AAAT AAAAT --AAAAT AAAAT AA-AAT AAAAT AAAAT
* *
7862295 AAAAT GAAAAT AATAAT TAAAT AATAAT AAAAC AAAA
1 AAAAT -AAAAT AA-AAT AAAAT AA-AAT AAAAT AAAA
7862332 AAATAGACAA
Statistics
Matches: 65, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
4 2 0.03
5 34 0.52
6 19 0.29
7 9 0.14
8 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (5 bp):
AAAAT
Found at i:7862306 original size:23 final size:24
Alignment explanation
Indices: 7862245--7862333 Score: 66
Period size: 22 Copynumber: 4.0 Consensus size: 24
7862235 AAAGTACGAA
*
7862245 AAAATAATAATTAGAAAT--AAAAT
1 AAAATAATAATGA-AAATAAAAAAT
* *
7862268 AGAA-AAT-ATGATAATAAAAAAT
1 AAAATAATAATGAAAATAAAAAAT
*
7862290 AAAATAA-AATGAAAAT-AATAAT
1 AAAATAATAATGAAAATAAAAAAT
* *
7862312 TAAATAATAAT-AAAACAAAAAA
1 AAAATAATAATGAAAATAAAAAA
7862334 ATAGACAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
20 3 0.06
21 3 0.06
22 26 0.51
23 19 0.37
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.22
Consensus pattern (24 bp):
AAAATAATAATGAAAATAAAAAAT
Found at i:7862316 original size:17 final size:16
Alignment explanation
Indices: 7862259--7862331 Score: 53
Period size: 17 Copynumber: 4.5 Consensus size: 16
7862249 TAATAATTAG
7862259 AAATAAAATAGAAAATA
1 AAATAAAAT-GAAAATA
**
7862276 TGATAATAA--AAAATA
1 AAATAA-AATGAAAATA
7862291 AAATAAAATGAAAATA
1 AAATAAAATGAAAATA
*
7862307 ATAATTAAAT-AATAATA
1 A-AATAAAATGAA-AATA
*
7862324 AAACAAAA
1 AAATAAAA
7862332 AAATAGACAA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.05
15 10 0.23
16 14 0.32
17 16 0.36
18 2 0.05
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (16 bp):
AAATAAAATGAAAATA
Found at i:7874160 original size:38 final size:38
Alignment explanation
Indices: 7874095--7874582 Score: 552
Period size: 38 Copynumber: 12.7 Consensus size: 38
7874085 CACAAAAGAA
* * *
7874095 AAAAGGTTTCATTACCTCAGTTTTGAGGAGTTCATTTTT
1 AAAA-GTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
7874134 AAAATTTTTG-TGTCCTCAGTTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTG-CCTCAGCTTTGAGGAGTTCATTTTT
*
7874172 AAAAGTTTCGTTGCTTCAGCTTTGAGGAGTTCA-TTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
7874209 AAAAGTTTCGTT-CCTCAACTTTGAGGAGTTCA-TTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
* * *
7874245 AAAAGTTTCATCGCCTCAACTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
7874283 AAAAAAAAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 -------AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
** * * *
7874328 TTATGTTACGTTGCCTCAACTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
** * * **
7874366 TTATGTTACGTTGCCTCAATTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
7874404 AAAAGTTTCGTTACCTCAGCTTTGAGGAGTTCATTTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCA-TTTTT
** *
7874443 AAAAAGTTTCGTTGCCTCAATTTTGAGAAGTTCATTTTT
1 -AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
7874482 AAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
*
7874520 AAAAGTTTCGTTGCCTCAGCTTTGAGGAATTCATTTTT
1 AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
** * *
7874558 TTAAGTTACGTTGCCTCAACTTTGA
1 AAAAGTTTCGTTGCCTCAGCTTTGA
7874583 AGAGCCTCAT
Statistics
Matches: 392, Mismatches: 44, Indels: 27
0.85 0.10 0.06
Matches are distributed among these distances:
36 32 0.08
37 37 0.09
38 244 0.62
39 16 0.04
40 29 0.07
45 34 0.09
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (38 bp):
AAAAGTTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTT
Found at i:7874505 original size:154 final size:153
Alignment explanation
Indices: 7874095--7874582 Score: 574
Period size: 154 Copynumber: 3.2 Consensus size: 153
7874085 CACAAAAGAA
** * *
7874095 AAAAGGTTTCATTACCTCAGTTTTGAGGAGTTCA-TTTTT-AAAATTTTTG-TGTCCTCAGTTTT
1 AAAA-GTTTCATTACCTCAACTTTGAGGAGTTCATTTTTTAAAAAGTTTCGTTG-CCTCAGTTTT
*
7874157 GAGGAGTTCATTTTTAAAAGTTTCGTTGCTTCAGCTTTGAGGAGTTCA-TTTTAAAAGTTTCGTT
64 GAGGAGTTCATTTTTAAAAG-TTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTT
7874221 -CCTCAACTTTGAGGAGTTCA-TTTT
128 GCCTCAACTTTGAGGAGTTCATTTTT
** * * *
7874245 AAAAGTTTCATCGCCTCAACTTTGAGGAGTTCATTTTTAAAAAAAAAAAGTCTCGTTGCCTCAGC
1 AAAAGTTTCATTACCTCAACTTTGAGGAGTTCATTTTT-----TAAAAAGTTTCGTTGCCTCAGT
** * * ** * *
7874310 TTTGAGGAGTTCATTTTTTTATGTTACGTTGCCTCAACTTTGAGGAGTTCATTTTTTTATGTTAC
61 TTTGAGGAGTTCATTTTTAAAAGTT-CGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTC
*
7874375 GTTGCCTCAATTTTGAGGAGTTCATTTTT
125 GTTGCCTCAACTTTGAGGAGTTCATTTTT
* * *
7874404 AAAAGTTTCGTTACCTCAGCTTTGAGGAGTTCATTTTTTAAAAAGTTTCGTTGCCTCAATTTTGA
1 AAAAGTTTCATTACCTCAACTTTGAGGAGTTCATTTTTTAAAAAGTTTCGTTGCCTCAGTTTTGA
*
7874469 GAAGTTCATTTTTAAAAGTCTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGC
66 GGAGTTCATTTTTAAAAGT-TCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGC
* *
7874534 CTCAGCTTTGAGGAATTCATTTTT
130 CTCAACTTTGAGGAGTTCATTTTT
** * * *
7874558 TTAAGTTACGTTGCCTCAACTTTGA
1 AAAAGTTTCATTACCTCAACTTTGA
7874583 AGAGCCTCAT
Statistics
Matches: 281, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
149 25 0.09
150 8 0.03
154 118 0.42
155 3 0.01
156 56 0.20
157 14 0.05
158 19 0.07
159 38 0.14
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.43
Consensus pattern (153 bp):
AAAAGTTTCATTACCTCAACTTTGAGGAGTTCATTTTTTAAAAAGTTTCGTTGCCTCAGTTTTGA
GGAGTTCATTTTTAAAAGTTCGTTGCCTCAGCTTTGAGGAGTTCATTTTTAAAAGTTTCGTTGCC
TCAACTTTGAGGAGTTCATTTTT
Found at i:7875851 original size:19 final size:17
Alignment explanation
Indices: 7875808--7875846 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
7875798 TATACATAGG
*
7875808 AAAAATGAAATATATGA
1 AAAAATGTAATATATGA
7875825 AAAAATGTAATATATGA
1 AAAAATGTAATATATGA
7875842 AAAAA
1 AAAAA
7875847 AATGTGAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (17 bp):
AAAAATGTAATATATGA
Found at i:7876703 original size:17 final size:17
Alignment explanation
Indices: 7876681--7876734 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
7876671 TACAAAAAAT
7876681 AATATAATAATAATAAA
1 AATATAATAATAATAAA
*
7876698 AATATAAAAATAGATAAA
1 AATATAATAATA-ATAAA
* *
7876716 ATAAAAAATAATAATAAA
1 A-ATATAATAATAATAAA
7876734 A
1 A
7876735 TTTTTGTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 11 0.35
18 12 0.39
19 8 0.26
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AATATAATAATAATAAA
Found at i:7876891 original size:6 final size:5
Alignment explanation
Indices: 7876832--7876995 Score: 80
Period size: 5 Copynumber: 29.8 Consensus size: 5
7876822 AAAGTACGAA
**
7876832 AAAAT AATAATT AGAAAT AAAAT AGAAAAT ATGAT AATAA- AAAAT AAAAT
1 AAAAT AA-AA-T A-AAAT AAAAT --AAAAT AAAAT AA-AAT AAAAT AAAAT
* * *
7876882 AAAAT GAAAAT AATAAT TAAAT AATAAT AAANT -AATT AGAAAT AAAAT
1 AAAAT -AAAAT AA-AAT AAAAT AA-AAT AAAAT AAAAT A-AAAT AAAAT
** *
7876930 AGAAAAT ATGAT AATAAT AAAAAT AAAAT AAAAT GAAAAT AATAAT TAAAT
1 --AAAAT AAAAT AA-AAT -AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT
*
7876981 AATAAT AAAAC AAAA
1 AA-AAT AAAAT AAAA
7876996 AAATAGACAA
Statistics
Matches: 124, Mismatches: 16, Indels: 38
0.70 0.09 0.21
Matches are distributed among these distances:
4 5 0.04
5 60 0.48
6 42 0.34
7 16 0.13
8 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:7876903 original size:17 final size:16
Alignment explanation
Indices: 7876872--7876995 Score: 69
Period size: 17 Copynumber: 7.6 Consensus size: 16
7876862 ATGATAATAA
7876872 AAAATAAAAT-AAAAT
1 AAAATAAAATGAAAAT
*
7876887 GAAAATAATAAT-TAAAT
1 -AAAATAA-AATGAAAAT
* *
7876904 AATAATAAANT--AATT
1 AA-AATAAAATGAAAAT
7876919 AGAAATAAAATAGAAAAT
1 A-AAATAAAAT-GAAAAT
** *
7876937 ATGATAATAATAAAAAT
1 AAAATAA-AATGAAAAT
7876954 AAAATAAAATGAAAAT
1 AAAATAAAATGAAAAT
*
7876970 AATAATTAAAT-AATAAT
1 AA-AATAAAATGAA-AAT
*
7876987 AAAACAAAA
1 AAAATAAAA
7876996 AAATAGACAA
Statistics
Matches: 85, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
15 11 0.13
16 29 0.34
17 38 0.45
18 7 0.08
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.24
Consensus pattern (16 bp):
AAAATAAAATGAAAAT
Found at i:7876927 original size:75 final size:76
Alignment explanation
Indices: 7876837--7876989 Score: 283
Period size: 77 Copynumber: 2.0 Consensus size: 76
7876827 ACGAAAAAAT
7876837 AATAATTAGAAATAAAATAGAAAATATGATAAT-A-AAAAATAAAATAAAATGAAAATAATAATT
1 AATAATTAGAAATAAAATAGAAAATATGATAATAATAAAAATAAAATAAAATGAAAATAATAATT
7876900 AAATAATAATA
66 AAATAATAATA
7876911 AANTAATTAGAAATAAAATAGAAAATATGATAATAATAAAAATAAAATAAAATGAAAATAATAAT
1 AA-TAATTAGAAATAAAATAGAAAATATGATAATAATAAAAATAAAATAAAATGAAAATAATAAT
7876976 TAAATAATAATA
65 TAAATAATAATA
7876988 AA
1 AA
7876990 ACAAAAAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
74 2 0.03
75 31 0.41
76 1 0.01
77 42 0.55
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.25
Consensus pattern (76 bp):
AATAATTAGAAATAAAATAGAAAATATGATAATAATAAAAATAAAATAAAATGAAAATAATAATT
AAATAATAATA
Found at i:7876959 original size:11 final size:11
Alignment explanation
Indices: 7876831--7876996 Score: 72
Period size: 11 Copynumber: 14.5 Consensus size: 11
7876821 TAAAGTACGA
7876831 AAAAATAATAATT
1 AAAAATAA-AA-T
*
7876844 AGAAATAAAAT
1 AAAAATAAAAT
7876855 AGAAAATATGATAAT
1 A-AAAATA--A-AAT
7876870 AAAAAATAAAAT
1 -AAAAATAAAAT
7876882 -AAAATGAAAAT
1 AAAAAT-AAAAT
* *
7876893 AATAATTAAAT
1 AAAAATAAAAT
* *
7876904 AATAATAAANT
1 AAAAATAAAAT
*
7876915 --AATTAGAAAT
1 AAAAATA-AAAT
*
7876925 AAAATAGAAAAT
1 AAAA-ATAAAAT
**
7876937 -ATGATAATAAT
1 AAAAATAA-AAT
7876948 AAAAATAAAAT
1 AAAAATAAAAT
7876959 -AAAATGAAAAT
1 AAAAAT-AAAAT
* *
7876970 AATAATTAAAT
1 AAAAATAAAAT
* *
7876981 AATAATAAAAC
1 AAAAATAAAAT
7876992 AAAAA
1 AAAAA
7876997 AATAGACAAT
Statistics
Matches: 117, Mismatches: 21, Indels: 32
0.69 0.12 0.19
Matches are distributed among these distances:
9 3 0.03
10 16 0.14
11 49 0.42
12 29 0.25
13 9 0.08
14 1 0.01
15 9 0.08
16 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:7876988 original size:33 final size:34
Alignment explanation
Indices: 7876921--7876995 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 34
7876911 AANTAATTAG
*
7876921 AAATAAAATAGAAAATATGATAA-T-AATAAAAATA
1 AAATAAAAT-GAAAATA-GATAATTAAATAATAATA
7876955 AAATAAAATGAAAATA-ATAATTAAATAATAATA
1 AAATAAAATGAAAATAGATAATTAAATAATAATA
*
7876988 AAACAAAA
1 AAATAAAA
7876996 AAATAGACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 4 0.11
32 1 0.03
33 23 0.62
34 9 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (34 bp):
AAATAAAATGAAAATAGATAATTAAATAATAATA
Found at i:7876996 original size:28 final size:28
Alignment explanation
Indices: 7876940--7877000 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
7876930 AGAAAATATG
**
7876940 ATAATAATAAAAATAAAATAAAATGAAA
1 ATAATAATAAAAATAAAATAAAACAAAA
*
7876968 ATAATAAT-TAAATAATAATAAAACAAAA
1 ATAATAATAAAAATAA-AATAAAACAAAA
7876996 A-AATA
1 ATAATA
7877001 GACAATTACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (28 bp):
ATAATAATAAAAATAAAATAAAACAAAA
Found at i:7878745 original size:17 final size:18
Alignment explanation
Indices: 7878706--7878746 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
7878696 GAGTATGTAT
* *
7878706 ATTTAGATTGAGATATAA
1 ATTTAAATTGACATATAA
7878724 A-TTAAATTGACAT-TAA
1 ATTTAAATTGACATATAA
7878740 ATTTAAA
1 ATTTAAA
7878747 AAATTATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 4 0.20
17 15 0.75
18 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (18 bp):
ATTTAAATTGACATATAA
Found at i:7891401 original size:25 final size:25
Alignment explanation
Indices: 7891367--7891432 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
7891357 AAGAACATAA
7891367 AATCCCTATAATTATGATGA-TTCT
1 AATCCCTATAATTATGATGATTTCT
** *
7891391 CAATCCCTATAATCGTGGTGATTTCT
1 -AATCCCTATAATTATGATGATTTCT
*
7891417 AATTCCTATAATTATG
1 AATCCCTATAATTATG
7891433 TTTATTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 30 0.88
26 4 0.12
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (25 bp):
AATCCCTATAATTATGATGATTTCT
Found at i:7895985 original size:25 final size:24
Alignment explanation
Indices: 7895927--7895987 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
7895917 AAGAAAATAA
7895927 AATCCTATAATCATGATGATTCTC
1 AATCCTATAATCATGATGATTCTC
7895951 AATCCTTATAATCAT-AGTGATT-TC
1 AATCC-TATAATCATGA-TGATTCTC
7895975 TAATTCCTATAAT
1 -AA-TCCTATAAT
7895988 TACATTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
24 8 0.24
25 22 0.67
26 3 0.09
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.41
Consensus pattern (24 bp):
AATCCTATAATCATGATGATTCTC
Found at i:7898600 original size:18 final size:19
Alignment explanation
Indices: 7898574--7898611 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
7898564 CCCTAGCTAT
7898574 AAGAGAGAGAGA-AAAAAA
1 AAGAGAGAGAGAGAAAAAA
*
7898592 AAGATAGAGAGAGAAAAAA
1 AAGAGAGAGAGAGAAAAAA
7898611 A
1 A
7898612 CGAAAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (19 bp):
AAGAGAGAGAGAGAAAAAA
Found at i:7898894 original size:94 final size:92
Alignment explanation
Indices: 7898794--7898970 Score: 230
Period size: 93 Copynumber: 1.9 Consensus size: 92
7898784 GAGGTCCAAG
* *
7898794 GTTCAAACCTTAATAAAAACACAT-TATTTTGGAAAAGAAGATAATGACATGACACTACCATGTC
1 GTTCAAACCTCAACAAAAACACATATATTTTGGAAAA-AA-A-AATGACATGACACTACCATGTC
*
7898858 ACTTTAATATGCTGACGTGGCAATTCTAAA
63 ACTTTAACATGCTGACGTGGCAATTCTAAA
* * * * *
7898888 GTTCAAATCTCAACAAAAGCCCATAATATTTTGGATAAAAAAATGACGTGACACTACCATGTCAC
1 GTTCAAACCTCAACAAAAACACAT-ATATTTTGGAAAAAAAAATGACATGACACTACCATGTCAC
*
7898953 TTTGACATGCTGACGTGG
65 TTTAACATGCTGACGTGG
7898971 TAATGCAACA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
93 39 0.54
94 20 0.28
95 2 0.03
96 11 0.15
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (92 bp):
GTTCAAACCTCAACAAAAACACATATATTTTGGAAAAAAAAATGACATGACACTACCATGTCACT
TTAACATGCTGACGTGGCAATTCTAAA
Found at i:7902858 original size:107 final size:107
Alignment explanation
Indices: 7902661--7902875 Score: 405
Period size: 107 Copynumber: 2.0 Consensus size: 107
7902651 TGAAATCCTA
*
7902661 ATTTGATCACTGATTATAATATATATATATATATATGTAGACCGATCCTTGGGTTGTAAAATAGA
1 ATTTAATCACTGATTATAATATATATATATATATATGTAGACCGATCCTTGGGTTGTAAAATAGA
7902726 AAAAGTTTCTGGATTTTGTCCACATTTATAATCAAATTTATG
66 AAAAGTTTCTGGATTTTGTCCACATTTATAATCAAATTTATG
7902768 NATTTAATCAC-GATTATAATATATATATATATATATGTAGACCGATCCTTGGGTTGTAAAATAG
1 -ATTTAATCACTGATTATAATATATATATATATATATGTAGACCGATCCTTGGGTTGTAAAATAG
7902832 AAAAAGTTTCTGGATTTTGTCCACATTTATAATCAAATTTATG
65 AAAAAGTTTCTGGATTTTGTCCACATTTATAATCAAATTTATG
7902875 A
1 A
7902876 AACAATTAAG
Statistics
Matches: 106, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
106 1 0.01
107 96 0.91
108 9 0.08
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (107 bp):
ATTTAATCACTGATTATAATATATATATATATATATGTAGACCGATCCTTGGGTTGTAAAATAGA
AAAAGTTTCTGGATTTTGTCCACATTTATAATCAAATTTATG
Found at i:7903134 original size:5 final size:5
Alignment explanation
Indices: 7903121--7903151 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
7903111 AGATCGAAAA
*
7903121 GCAAT GCAAC GCAAT GCAAT GCAAT GCAAT G
1 GCAAT GCAAT GCAAT GCAAT GCAAT GCAAT G
7903152 GTGTCAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (5 bp):
GCAAT
Done.