Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 95 of 343
Found at i:31676548 original size:27 final size:27
Alignment explanation
Indices: 31676518--31676695 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
31676508 ATATTGAGCC
* * *
31676518 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
31676545 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
31676572 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
31676600 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
31676627 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
31676654 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
31676681 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31676696 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:31676611 original size:55 final size:55
Alignment explanation
Indices: 31676518--31676695 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
31676508 ATATTGAGCC
* * *
31676518 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
31676572 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
31676627 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
31676681 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31676696 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:31676657 original size:82 final size:81
Alignment explanation
Indices: 31676539--31676694 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
31676529 TGCTATACAA
* * *
31676539 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
31676604 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
31676621 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
31676685 CACTTAGTGC
65 CACTTAGTGC
31676695 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31731156 original size:29 final size:29
Alignment explanation
Indices: 31731113--31731171 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
31731103 AACCACTTAG
31731113 ACTAAGGTTCATTTCATATTAGTTTTATT
1 ACTAAGGTTCATTTCATATTAGTTTTATT
*
31731142 ACTAAGGTTCCTTTCATATTAGTTTTATT
1 ACTAAGGTTCATTTCATATTAGTTTTATT
31731171 A
1 A
31731172 ATACTAACCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (29 bp):
ACTAAGGTTCATTTCATATTAGTTTTATT
Found at i:31736639 original size:40 final size:40
Alignment explanation
Indices: 31736565--31736789 Score: 278
Period size: 40 Copynumber: 5.6 Consensus size: 40
31736555 AACCCAAGTA
* * *
31736565 CCTTCGGGATTTAG-CCGGATATAG-CAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
31736604 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
31736644 CCTTCGGGACTTAGCCCAGG-TATAGCAACCACTCA-CACAAATG
1 CCTTCGGGACTTAGCCC-GGATATAG---TCACT-AGCACAAATG
*
31736687 CCTTCGGGACTTCGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* ** *
31736727 CCTTCGGGAATTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
31736767 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
31736790 CATCCGAATA
Statistics
Matches: 163, Mismatches: 14, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 13 0.08
40 111 0.68
41 3 0.02
42 2 0.01
43 33 0.20
44 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:31736688 original size:83 final size:80
Alignment explanation
Indices: 31736565--31736789 Score: 319
Period size: 83 Copynumber: 2.8 Consensus size: 80
31736555 AACCCAAGTA
* * * * *
31736565 CCTTCGGGATTTAG-CCGGATATAGCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGAATTAGCCCGGATATAGAAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
31736629 TCACTAGCACAAATG
66 TCACTAGCACAAATG
* *
31736644 CCTTCGGGACTTAGCCCAGG-TATAGCAACCACTCACACAAATGCCTTCGGGACTTCGCCCGGAT
1 CCTTCGGGAATTAGCCC-GGATATAG-AA--ACTCACACAAATGCCTTCGGGACTTAGCCCGGAT
31736708 ATAGTCACTAGCACAAATG
62 ATAGTCACTAGCACAAATG
* *
31736727 CCTTCGGGAATTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGAATTAGCCCGGATATAGAAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
31736790 CATCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
79 13 0.10
80 41 0.32
81 3 0.02
82 3 0.02
83 70 0.54
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGAATTAGCCCGGATATAGAAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:31745611 original size:65 final size:65
Alignment explanation
Indices: 31745531--31745660 Score: 260
Period size: 65 Copynumber: 2.0 Consensus size: 65
31745521 TTTGTAAGCC
31745531 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
1 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
31745596 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
1 TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
31745661 AACAAATTAG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (65 bp):
TTATGCCGTCCATATTAAAACAAAGGGGTTATTTACCATTTAAAAGCCTTCACTTATAAACCAAT
Found at i:31752988 original size:47 final size:47
Alignment explanation
Indices: 31752923--31753362 Score: 745
Period size: 47 Copynumber: 9.3 Consensus size: 47
31752913 TCGTAGTGTA
31752923 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
31752970 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31753017 TATATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31753066 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
31753113 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31753160 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31753207 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31753254 TATATATGTGATAAGGCCTAACGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
31753301 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
31753348 TATAAATGTGATAAG
1 TATATATGTGATAAG
31753363 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 325 0.88
49 46 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:31753537 original size:37 final size:37
Alignment explanation
Indices: 31753481--31753559 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
31753471 CCGAGCTCTA
* * *
31753481 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
31753518 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
31753555 AAGAC
1 AAGAC
31753560 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:31760235 original size:22 final size:23
Alignment explanation
Indices: 31760210--31760257 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
31760200 CTGAATTTTT
31760210 TTCT-TTTTGCCCCT-GAATTGCA
1 TTCTGTTTT-CCCCTAGAATTGCA
* *
31760232 TTCTGTTTTCTCCTAGATTTGCA
1 TTCTGTTTTCCCCTAGAATTGCA
31760255 TTC
1 TTC
31760258 GACCACCATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.50
Consensus pattern (23 bp):
TTCTGTTTTCCCCTAGAATTGCA
Found at i:31771414 original size:47 final size:47
Alignment explanation
Indices: 31771360--31771489 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 47
31771350 GTGCGAATAA
* * * *
31771360 TACCTTGATTTGGCTACGGGGCATGATATAGGTATTTTGAGAGGAA-C
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGA-GAAGC
* * * * * *
31771407 TACCTTGATTTGGCTATGGGTCATGGTATAAGTACTCTGTGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGAGAAGC
*
31771454 TACCTTGATTTGGCTACGGGCCATGGCATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
31771490 TACCAATTGT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 2 0.03
47 67 0.97
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTGAGAGAAGC
Found at i:31772163 original size:136 final size:136
Alignment explanation
Indices: 31771919--31772186 Score: 464
Period size: 136 Copynumber: 2.0 Consensus size: 136
31771909 TTAGAGTCAT
* * * *
31771919 TTTGATATTTTTTGAGCTGTGATTGTTAGTCATGTGATTTGGCTTGTTAATGATGTAAATGTTGG
1 TTTGATATGTTTTGAGCTATGATTGTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
31771984 TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
66 TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
31772049 AAGGCA
131 AAGGCA
*
31772055 TTTGATATGTTTTGAGCTATGATTTTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
1 TTTGATATGTTTTGAGCTATGATTGTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
* * *
31772120 TATGTTTTTAGCCATTTATGTTGGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
66 TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
31772185 AA
131 AA
31772187 TGCCTTATAT
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 124 1.00
ACGTcount: A:0.26, C:0.06, G:0.22, T:0.45
Consensus pattern (136 bp):
TTTGATATGTTTTGAGCTATGATTGTTAGCCATGTGATTTAGCTTGTTAATGATGTAAATGTTGG
TATGTTCTTAGCCATTTAAGTTAGCTTAAGTTATGTGATTGATAAGTGATATATATGATGCATAT
AAGGCA
Found at i:31773274 original size:161 final size:161
Alignment explanation
Indices: 31773007--31773457 Score: 742
Period size: 161 Copynumber: 2.8 Consensus size: 161
31772997 CTCGAACCTC
* *
31773007 GTTTAAGCAAGTTTTAAGGTCTCGTAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
1 GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
* *
31773072 TGTGATATTGAATGTTTGATAATTGTTATATTGTTTGGTAATGCCTCGTAACCCTATTCT-AGCG
66 TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATTCTGA-CG
* * *
31773136 ATGGATACGGGTTAGGGGTATTACATTTTTTG
130 ATGAATACGGGTTAGGGGTATTACATTTATTA
* *
31773168 GTTTAAGCATGTTTTAAGGTCTCATAGACCTATTTAACGGACTTTGTGCATGTGAATGAATGAGA
1 GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
* * *
31773233 TGTGATATTGAAAGTTTGATAAATGTTATATTGTCTGGTAATGCTTCATAACCCTATTCTGACGA
66 TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATTCTGACGA
31773298 TGAATACGGGTTAGGGGTATTACATTTATTA
131 TGAATACGGGTTAGGGGTATTACATTTATTA
*
31773329 GTTTAAGCATGTTTTAAGGTCTCACAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
1 GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
* * *
31773394 TGTGATATTGAATGTTTGATAAATGTTATATTGTCCGGTAATGCCTTGTAACCCTATTATGACG
66 TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATTCTGACG
31773458 GCGGATACAG
Statistics
Matches: 268, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
161 267 1.00
162 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (161 bp):
GTTTAAGCATGTTTTAAGGTCTCATAAACCTATTTAAGGGACTTTGTGCATGTGAATGAATGAGA
TGTGATATTGAATGTTTGATAAATGTTATATTGTCTGGTAATGCCTCGTAACCCTATTCTGACGA
TGAATACGGGTTAGGGGTATTACATTTATTA
Found at i:31779233 original size:49 final size:48
Alignment explanation
Indices: 31779169--31779270 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
31779159 GGGACACGTT
* * *
31779169 CGTGTGAGGTGGCTTAAGCCGTGTTTAGAGTCTGCTAAATAGACACGGC
1 CGTGTGAGGTGGCTTAAGCCATG-TTACAATCTGCTAAATAGACACGGC
* * *
31779218 CGTGTG-GTGTGGCTTAGGCCATGTTACAATCTGTTAAATAGACACGGG
1 CGTGTGAG-GTGGCTTAAGCCATGTTACAATCTGCTAAATAGACACGGC
31779266 CGTGT
1 CGTGT
31779271 CAACTACACG
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 27 0.59
49 19 0.41
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.28
Consensus pattern (48 bp):
CGTGTGAGGTGGCTTAAGCCATGTTACAATCTGCTAAATAGACACGGC
Found at i:31780931 original size:30 final size:26
Alignment explanation
Indices: 31780876--31780932 Score: 69
Period size: 26 Copynumber: 2.0 Consensus size: 26
31780866 AAAATTATAT
*
31780876 TTTATTTTATTTTTTAAATTAAAAAA
1 TTTATTTTATTTTTAAAATTAAAAAA
31780902 TTTATTTTAATTATTTAAAAATTATAAAAA
1 TTTATTTT-ATT-TTT-AAAATTA-AAAAA
31780932 T
1 T
31780933 ATAAACTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 8 0.31
27 3 0.12
28 3 0.12
29 6 0.23
30 6 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TTTATTTTATTTTTAAAATTAAAAAA
Found at i:31785754 original size:12 final size:12
Alignment explanation
Indices: 31785737--31785762 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
31785727 AAAATAGGGC
31785737 TTTAGCGGCGTT
1 TTTAGCGGCGTT
31785749 TTTAGCGGCGTT
1 TTTAGCGGCGTT
31785761 TT
1 TT
31785763 ACCAAAAAAC
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:31786185 original size:7 final size:7
Alignment explanation
Indices: 31786155--31786254 Score: 51
Period size: 7 Copynumber: 14.1 Consensus size: 7
31786145 GTAATATATA
31786155 TAGGGTT
1 TAGGGTT
* *
31786162 TATGATT
1 TAGGGTT
31786169 T-GGAGTT
1 TAGG-GTT
31786176 TAGGGTT
1 TAGGGTT
*
31786183 TAGGGTG
1 TAGGGTT
*
31786190 TGGGGTT
1 TAGGGTT
* *
31786197 TATGATT
1 TAGGGTT
**
31786204 TA-ATTGT
1 TAGGGT-T
31786211 TAGGGTTT
1 TAGGG-TT
* *
31786219 TGGGGAT
1 TAGGGTT
*
31786226 TAAGGTT
1 TAGGGTT
31786233 TAGGGTT
1 TAGGGTT
31786240 TAGGGTT
1 TAGGGTT
*
31786247 TAAGGTT
1 TAGGGTT
31786254 T
1 T
31786255 TAAGTGTTCA
Statistics
Matches: 67, Mismatches: 21, Indels: 10
0.68 0.21 0.10
Matches are distributed among these distances:
6 2 0.03
7 57 0.85
8 7 0.10
9 1 0.01
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:31786251 original size:21 final size:21
Alignment explanation
Indices: 31786155--31786280 Score: 76
Period size: 21 Copynumber: 5.9 Consensus size: 21
31786145 GTAATATATA
* *
31786155 TAGGGTTTATGATTT-GGAGTT
1 TAGGGTTTAAGGTTTAGG-GTT
* * *
31786176 TAGGGTTTAGGGTGTGGGGTT
1 TAGGGTTTAAGGTTTAGGGTT
* * *
31786197 TATGATTTAA-TTGTTAGGGTTT
1 TAGGGTTTAAGGT-TTAGGG-TT
* *
31786219 TGGGGATTAAGGTTTAGGGTT
1 TAGGGTTTAAGGTTTAGGGTT
*
31786240 TAGGGTTTAAGGTTTTAAGTGTT
1 TAGGGTTTAAGG-TTT-AGGGTT
* *
31786263 CATGGTTTAAGGTTTAGG
1 TAGGGTTTAAGGTTTAGG
31786281 TCGGTTTAAT
Statistics
Matches: 79, Mismatches: 20, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
20 1 0.01
21 40 0.51
22 22 0.28
23 16 0.20
ACGTcount: A:0.19, C:0.01, G:0.36, T:0.44
Consensus pattern (21 bp):
TAGGGTTTAAGGTTTAGGGTT
Found at i:31786278 original size:7 final size:7
Alignment explanation
Indices: 31786225--31786278 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
31786215 GTTTTGGGGA
31786225 TTAAGGT
1 TTAAGGT
*
31786232 TTAGGGT
1 TTAAGGT
*
31786239 TTAGGGT
1 TTAAGGT
31786246 TTAAGGTT
1 TTAAGG-T
31786254 TTAAGTGT
1 TTAAG-GT
* *
31786262 TCATGGT
1 TTAAGGT
31786269 TTAAGGT
1 TTAAGGT
31786276 TTA
1 TTA
31786279 GGTCGGTTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 28 0.72
8 10 0.26
9 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (7 bp):
TTAAGGT
Found at i:31791568 original size:241 final size:242
Alignment explanation
Indices: 31791145--31791632 Score: 906
Period size: 241 Copynumber: 2.0 Consensus size: 242
31791135 ATGAATTAAT
*
31791145 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTCCAACCTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTCCAACCTT
*
31791210 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAT
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
31791275 CTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
31791340 AAAAAGACTT-GAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
* * *
31791386 TTTATTACCATATAGCTTGCTTGTTCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTCCAACCTT
31791451 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
31791516 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
31791581 AAAAAGACTTGGAAAAAAGTTCTATCGATCTCATTTACTATTGAATA
196 AAAAAGACTTGGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
31791628 TTTAT
1 TTTAT
31791633 ATAACCTTAA
Statistics
Matches: 239, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
241 199 0.83
242 40 0.17
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (242 bp):
TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATAACTGACATTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGATGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:31791847 original size:9 final size:9
Alignment explanation
Indices: 31791820--31791986 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
31791810 ATTGATCATT
*
31791820 ACTTAAATA
1 ACTTACATA
*
31791829 AATTACATA
1 ACTTACATA
*
31791838 ACTTAAATA
1 ACTTACATA
* *
31791847 ACTCATATA
1 ACTTACATA
31791856 ACTTACATA
1 ACTTACATA
*
31791865 ATTTACATAACA
1 ACTTACAT---A
31791877 ACTTACATA
1 ACTTACATA
*
31791886 ACTCACATA
1 ACTTACATA
31791895 ACTTACATA
1 ACTTACATA
*
31791904 ATTTACATAACA
1 ACTTACAT---A
31791916 ACTTACATA
1 ACTTACATA
*
31791925 ACTCACATA
1 ACTTACATA
31791934 ACTTACATA
1 ACTTACATA
*
31791943 ATTTACATA
1 ACTTACATA
*
31791952 ACTCACATA
1 ACTTACATA
*
31791961 ACGTACATAACA
1 ACTTACAT---A
31791973 ACTTACATA
1 ACTTACATA
31791982 ACTTA
1 ACTTA
31791987 ACTAATACAT
Statistics
Matches: 127, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
9 103 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:31791887 original size:48 final size:47
Alignment explanation
Indices: 31791831--31791987 Score: 170
Period size: 48 Copynumber: 3.3 Consensus size: 47
31791821 CTTAAATAAA
* * *
31791831 TTACATAACTTAAATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * * *
31791879 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAACTACATA-ACAAC
* * * *
31791927 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAAC-TACATAACAAC
31791975 TTACATAACTTAA
1 TTACATAACTTAA
31791988 CTAATACATG
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTAAATAACTTACATAACTTACATAACTACATAACAAC
Found at i:31791890 original size:39 final size:39
Alignment explanation
Indices: 31791837--31791953 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
31791827 TAAATTACAT
* *
31791837 AACTTAAATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
31791876 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
31791915 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
31791954 TCACATAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:31791972 original size:57 final size:57
Alignment explanation
Indices: 31791820--31791984 Score: 183
Period size: 57 Copynumber: 2.9 Consensus size: 57
31791810 ATTGATCATT
* * * * *
31791820 ACTTAAATAAATTACATAACTTAAATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
31791877 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
31791934 ACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
31791985 TAACTAATAC
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
57 71 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:31791982 original size:39 final size:37
Alignment explanation
Indices: 31791820--31791971 Score: 193
Period size: 39 Copynumber: 4.1 Consensus size: 37
31791810 ATTGATCATT
* * * *
31791820 ACTTAAATAAATTACAT-AACTTAAATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
31791856 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
31791895 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
31791934 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
31791970 AC
1 AC
31791972 AACTTACATA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 73 0.68
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:31797558 original size:21 final size:21
Alignment explanation
Indices: 31797534--31797577 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
31797524 CTTAGAGCGA
*
31797534 AGGCAGCAACGAGGGAGGCGG
1 AGGCAGCAACGAAGGAGGCGG
*
31797555 AGGCAGCAGCGAAGGAGGCGG
1 AGGCAGCAACGAAGGAGGCGG
31797576 AG
1 AG
31797578 CAGAACAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.52, T:0.00
Consensus pattern (21 bp):
AGGCAGCAACGAAGGAGGCGG
Found at i:31797918 original size:43 final size:43
Alignment explanation
Indices: 31797871--31798032 Score: 200
Period size: 43 Copynumber: 3.7 Consensus size: 43
31797861 ACTGGGCAAA
* * * *
31797871 TTAGCGGCGTTTTTTAAAAAAGCGCTGCTAAAGATCCTGGTCT
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTGGTCT
* *
31797914 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCTTAGTCT
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTGGTCT
* **
31797957 TTAGCAGCGTTTTTTGTGGAAGCGCCGCTAAAGGTCCTGGTCT
1 TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTGGTCT
*
31798000 TTAGCGGCGCTTTTTTCTGAA-AAACGCCGCTAA
1 TTAGCGGCG--TTTTT-TGAAGAAGCGCCGCTAA
31798033 TTTTTGTGGC
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
43 83 0.82
45 16 0.16
46 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTGAAGAAGCGCCGCTAAAGGTCCTGGTCT
Found at i:31798224 original size:41 final size:40
Alignment explanation
Indices: 31798163--31798319 Score: 197
Period size: 41 Copynumber: 3.8 Consensus size: 40
31798153 CCTGTAGTGA
* * * *
31798163 TAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAGTTGGGGCAA
1 TAGCGGCG-CTTTTGGTAAAACGCCGCTAAAA-TTGGAGCAT
* *
31798205 TAGCGGTGCTTTTGGTAAAACGTCGCTAAAATTCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAATT-GGAGCAT
* *
31798246 TAGCGGCGCTTTTGGTAAAACGACGCTAAAACTCGGAGCAT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAA-TTGGAGCAT
*
31798287 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAATT
1 TAGCGGCGCTTTTGGTAAAACGCCGCTAAAATT
31798320 CATATAACCC
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.03
41 90 0.89
42 8 0.08
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (40 bp):
TAGCGGCGCTTTTGGTAAAACGCCGCTAAAATTGGAGCAT
Found at i:31798267 original size:82 final size:83
Alignment explanation
Indices: 31798163--31798320 Score: 219
Period size: 82 Copynumber: 1.9 Consensus size: 83
31798153 CCTGTAGTGA
* * * * * * * *
31798163 TAGCGGCGTTTTTTGTTAAAACGCCGCTAAAAGTTGGGGCAATAGCGGTGCTTTTGGTAAAACGT
1 TAGCGGCGTCTTTTGGTAAAACGACGCTAAAACTCGGAGCAATAGCGGCGCTTTTGGTAAAACGC
31798228 CGCTAAAATTCGGAGCAT
66 CGCTAAAATTCGGAGCAT
* *
31798246 TAGCGGCG-CTTTTGGTAAAACGACGCTAAAACTCGGAGCATTAGCGGCGTTTTTGGTAAAACGC
1 TAGCGGCGTCTTTTGGTAAAACGACGCTAAAACTCGGAGCAATAGCGGCGCTTTTGGTAAAACGC
31798310 CGCTAAAATTC
66 CGCTAAAATTC
31798321 ATATAACCCC
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
82 57 0.88
83 8 0.12
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (83 bp):
TAGCGGCGTCTTTTGGTAAAACGACGCTAAAACTCGGAGCAATAGCGGCGCTTTTGGTAAAACGC
CGCTAAAATTCGGAGCAT
Found at i:31798402 original size:37 final size:37
Alignment explanation
Indices: 31798359--31798430 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
31798349 AAAAATCATG
* * *
31798359 AACACTAATCTATAACTCCTAAAATACTAAACCCCTA
1 AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
* *
31798396 AACACTAAACCATAACTTCTAAAACCCTAAACCCC
1 AACACTAAACCATAACTCCTAAAACACTAAACCCC
31798431 AAAAAACGTC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (37 bp):
AACACTAAACCATAACTCCTAAAACACTAAACCCCTA
Found at i:31798555 original size:7 final size:7
Alignment explanation
Indices: 31798543--31798606 Score: 65
Period size: 7 Copynumber: 9.0 Consensus size: 7
31798533 TTTATTTTTT
*
31798543 GGTTTAC
1 GGTTTAA
31798550 GGTTTAA
1 GGTTTAA
**
31798557 TATTTAA
1 GGTTTAA
31798564 GGTTTAA
1 GGTTTAA
* *
31798571 GGTCTAT
1 GGTTTAA
31798578 GGTTTAA
1 GGTTTAA
*
31798585 GGTTTTAT
1 GG-TTTAA
31798593 GGTTTAA
1 GGTTTAA
31798600 GGTTTAA
1 GGTTTAA
31798607 TGGCCATGGG
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
7 39 0.87
8 6 0.13
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (7 bp):
GGTTTAA
Found at i:31798595 original size:15 final size:15
Alignment explanation
Indices: 31798559--31798609 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
31798549 CGGTTTAATA
*
31798559 TTTAAGGTTTAAGG-
1 TTTATGGTTTAAGGT
*
31798573 TCTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
31798588 TTTATGGTTTAAGGT
1 TTTATGGTTTAAGGT
*
31798603 TTAATGG
1 TTTATGG
31798610 CCATGGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.24, C:0.02, G:0.27, T:0.47
Consensus pattern (15 bp):
TTTATGGTTTAAGGT
Found at i:31798605 original size:14 final size:14
Alignment explanation
Indices: 31798543--31798605 Score: 72
Period size: 14 Copynumber: 4.4 Consensus size: 14
31798533 TTTATTTTTT
*
31798543 GGTTTACGGTTTAA
1 GGTTTATGGTTTAA
** *
31798557 TATTTAAGGTTTAA
1 GGTTTATGGTTTAA
*
31798571 GGTCTATGGTTTAA
1 GGTTTATGGTTTAA
31798585 GGTTTTATGGTTTAA
1 GG-TTTATGGTTTAA
31798600 GGTTTA
1 GGTTTA
31798606 ATGGCCATGG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.48
Consensus pattern (14 bp):
GGTTTATGGTTTAA
Found at i:31799211 original size:7 final size:7
Alignment explanation
Indices: 31799201--31799254 Score: 99
Period size: 7 Copynumber: 7.6 Consensus size: 7
31799191 AAATAAACTC
31799201 AAAATTT
1 AAAATTT
31799208 AAAAATTT
1 -AAAATTT
31799216 AAAATTT
1 AAAATTT
31799223 AAAATTT
1 AAAATTT
31799230 AAAATTT
1 AAAATTT
31799237 AAAATTT
1 AAAATTT
31799244 AAAATTT
1 AAAATTT
31799251 AAAA
1 AAAA
31799255 ATAAAAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
7 39 0.85
8 7 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:31799221 original size:15 final size:15
Alignment explanation
Indices: 31799201--31799312 Score: 111
Period size: 15 Copynumber: 7.6 Consensus size: 15
31799191 AAATAAACTC
31799201 AAAATTTAAAAATTT
1 AAAATTTAAAAATTT
31799216 AAAATTT-AAAATTT
1 AAAATTTAAAAATTT
31799230 AAAATTT-AAAATTT
1 AAAATTTAAAAATTT
**
31799244 AAAATTTAAAAATAA
1 AAAATTTAAAAATTT
* * **
31799259 AAAAATAAAAAATAA
1 AAAATTTAAAAATTT
* * **
31799274 AAAAATAAAAAATAA
1 AAAATTTAAAAATTT
*
31799289 AAAACTTAAAAATTT
1 AAAATTTAAAAATTT
31799304 AAAATTTAA
1 AAAATTTAA
31799313 TATTTTAGTC
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
14 28 0.32
15 59 0.68
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATTTAAAAATTT
Found at i:31799261 original size:7 final size:7
Alignment explanation
Indices: 31799251--31799292 Score: 66
Period size: 7 Copynumber: 5.7 Consensus size: 7
31799241 TTTAAAATTT
31799251 AAAAATAA
1 AAAAAT-A
31799259 AAAAATA
1 AAAAATA
31799266 AAAAATAA
1 AAAAAT-A
31799274 AAAAATA
1 AAAAATA
31799281 AAAAATA
1 AAAAATA
31799288 AAAAA
1 AAAAA
31799293 CTTAAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 20 0.61
8 13 0.39
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:31799261 original size:21 final size:21
Alignment explanation
Indices: 31799201--31799261 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
31799191 AAATAAACTC
31799201 AAAATTTAAAAATTTAAAATTT
1 AAAATTTAAAAA-TTAAAATTT
*
31799223 AAAATTTAAAATTTAAAATTT
1 AAAATTTAAAAATTAAAATTT
*
31799244 AAAATTTAAAAATAAAAA
1 AAAATTTAAAAATTAAAA
31799262 AATAAAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 25 0.69
22 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATTTAAAAATTAAAATTT
Found at i:31799399 original size:19 final size:18
Alignment explanation
Indices: 31799377--31799417 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
31799367 CCAAAAGAAA
*
31799377 AAAAATAAAAAAATATGTT
1 AAAAATAAAAAAAAAT-TT
31799396 AAAAATAAAAAAAAATTT
1 AAAAATAAAAAAAAATTT
31799414 AAAA
1 AAAA
31799418 TTAATCTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (18 bp):
AAAAATAAAAAAAAATTT
Found at i:31803443 original size:43 final size:43
Alignment explanation
Indices: 31803381--31803635 Score: 358
Period size: 43 Copynumber: 6.0 Consensus size: 43
31803371 GTGTGTGTGT
*
31803381 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
*
31803424 GCGTTTGCGAAAAAGGCGCCGCT--AGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
* *
31803465 GCGTTTGCGAAAAAAGCGCCACTGAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
*** *
31803508 GC-TTT--TTTAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
* ** *
31803548 GCGTTTGAGAAAACTGCGCCGCTAAAGGTTATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
*
31803591 GCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
1 GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
31803634 GC
1 GC
31803636 ATTTTTTTCA
Statistics
Matches: 185, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
40 31 0.17
41 42 0.23
42 3 0.02
43 109 0.59
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (43 bp):
GCGTTTGCGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCG
Found at i:31803560 original size:83 final size:85
Alignment explanation
Indices: 31803381--31803635 Score: 347
Period size: 83 Copynumber: 3.0 Consensus size: 85
31803371 GTGTGTGTGT
* * *
31803381 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAGGCGCCGC
1 GCGTTTGAGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG-AAAAAAAGCGCCGC
31803446 T--AGGTCATGGTCTTTAGCG
65 TAAAGGTCATGGTCTTTAGCG
* * * ***
31803465 GCGTTTGCGAAAAAAGCGCCACTGAAGGTCATGGTCTTTAGCGGC-TTT-TTTAAAAGCGCCGCT
1 GCGTTTGAGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAAAAAAAGCGCCGCT
*
31803528 AAAGGTCCTGGTCTTTAGCG
66 AAAGGTCATGGTCTTTAGCG
** *
31803548 GCGTTTGAGAAAACTGCGCCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGCAAAAAAAGCGCCGC
1 GCGTTTGAGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTG-AAAAAAAGCGCCGC
31803613 TAAAGGTCATGGTCTTTAGCG
65 TAAAGGTCATGGTCTTTAGCG
31803634 GC
1 GC
31803636 ATTTTTTTCA
Statistics
Matches: 148, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
81 11 0.07
83 59 0.40
84 45 0.30
86 33 0.22
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.26
Consensus pattern (85 bp):
GCGTTTGAGAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAAAAAAAGCGCCGCT
AAAGGTCATGGTCTTTAGCG
Found at i:31803641 original size:126 final size:124
Alignment explanation
Indices: 31803392--31803641 Score: 401
Period size: 126 Copynumber: 2.0 Consensus size: 124
31803382 CGTTTGTGAA
*
31803392 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAGGCGCCGCTAGGTCATGGT
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAGAAAAAGGCGCCGCTAGGTCATGGT
* * *
31803457 CTTTAGCGGCGTTTGCGAAAAAAGCGCCACTGAAGGTCATGGTCTTTAGCGGCTTTTTT
66 CTTTAGCGGCGTTTGCAAAAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTTT
* ** *
31803516 AAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGAGAAAACTGCGCCGCTAAAGGTTATG
1 AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAGAAAAAGGCGCCGCT--AGGTCATG
*
31803581 GTCTTTAGCGGCGTTTGCAAAAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCATTTTT
64 GTCTTTAGCGGCGTTTGCAAAAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTTT
31803642 TTCAAAAAAA
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
124 51 0.44
126 64 0.56
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (124 bp):
AAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGGCGTTTGAGAAAAAGGCGCCGCTAGGTCATGGT
CTTTAGCGGCGTTTGCAAAAAAAGCGCCACTAAAGGTCATGGTCTTTAGCGGCATTTTT
Found at i:31807748 original size:46 final size:46
Alignment explanation
Indices: 31807668--31807794 Score: 227
Period size: 46 Copynumber: 2.7 Consensus size: 46
31807658 GGTAAAGTGT
31807668 CGATGCCATGTCCCAGACATAGTCTTACACTAGCTTACGTCTCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACGTCTCGAGGC
*
31807716 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGC
31807762 CGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
31807795 CACACACAAA
Statistics
Matches: 78, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
46 59 0.76
47 14 0.18
48 5 0.06
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGC
Found at i:31812796 original size:21 final size:22
Alignment explanation
Indices: 31812770--31812817 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
31812760 TCTTCTTCCT
31812770 ATTTGAAT-AACCCACCGAAGC
1 ATTTGAATCAACCCACCGAAGC
*
31812791 ATTTG-ATCACCCCACCGAAGC
1 ATTTGAATCAACCCACCGAAGC
31812812 ATTTGA
1 ATTTGA
31812818 TAGGGTAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (22 bp):
ATTTGAATCAACCCACCGAAGC
Found at i:31815249 original size:46 final size:46
Alignment explanation
Indices: 31815176--31815396 Score: 168
Period size: 46 Copynumber: 4.7 Consensus size: 46
31815166 GGTAAAGTGT
* *
31815176 CGATGCCATGTCCCAGATATGGTCTTACACT-GACTATCATCTCTTA-GC
1 CGATG-CATGTCCTAGACAT-GTCTTACACTAG-CT-TCATCTCTTAGGC
* *
31815224 CGATGCATGTCCTAGACATGTCTTACACTAGCTTACGTCTC-GAGGC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTT-CATCTCTTAGGC
* *
31815270 CGATGCATGTCCTAGACATGTTTTACACTAGC-TCA-CGTCTTAATGC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTTCATC-TCTT-AGGC
* * * * * *
31815316 CGATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAT-GT-GGT
1 CGATG-CATGTCCTAGACAT-GTCTTACACTAGCT-TCAT-CTCTTAGGC
* *
31815364 TGATGCATGTCCTAGACATTTCTTACACTAGCT
1 CGATGCATGTCCTAGACATGTCTTACACTAGCT
31815397 CACACACAAA
Statistics
Matches: 140, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.02
45 3 0.02
46 70 0.50
47 37 0.26
48 21 0.15
50 4 0.03
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (46 bp):
CGATGCATGTCCTAGACATGTCTTACACTAGCTTCATCTCTTAGGC
Found at i:31817598 original size:18 final size:18
Alignment explanation
Indices: 31817575--31817611 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31817565 TTTTAAAGAT
31817575 ATATTTAATTGCTTAACA
1 ATATTTAATTGCTTAACA
31817593 ATATTTAATTGCTTAACA
1 ATATTTAATTGCTTAACA
31817611 A
1 A
31817612 GGACTTGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATTTAATTGCTTAACA
Found at i:31826138 original size:93 final size:93
Alignment explanation
Indices: 31826024--31826193 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
31826014 CCCATAAGCG
* *
31826024 AACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31826089 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
* *
31826117 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
31826182 GAGTTCGGATGC
66 GAGTTCGGATGC
31826194 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:31826190 original size:46 final size:46
Alignment explanation
Indices: 31826015--31826190 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
31826005 TGTAACCCGC
* * * * *
31826015 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
31826061 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
31826111 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
31826154 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31826191 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
44 1 0.01
46 61 0.55
47 28 0.25
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:31826209 original size:46 final size:46
Alignment explanation
Indices: 31826064--31826202 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
31826054 TTCGCATCCA
31826064 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* ** * * *
31826112 TCA-CAAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
31826157 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
31826203 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 27 0.37
47 29 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:31828884 original size:23 final size:24
Alignment explanation
Indices: 31828817--31828886 Score: 61
Period size: 26 Copynumber: 2.8 Consensus size: 24
31828807 TGCAAATTTG
31828817 TACTTGTTTTAAATCTCTTCATATAT
1 TACTTGTTTTAAAT-T-TTCATATAT
* * *
31828843 TATTTATTTTGAACCATTTTTAT-TAT
1 TACTTGTTTT-AA--ATTTTCATATAT
31828869 TACTTGTTTTAAATTTTC
1 TACTTGTTTTAAATTTTC
31828887 TTCCCTATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
23 5 0.14
25 2 0.06
26 19 0.54
27 6 0.17
28 1 0.03
29 2 0.06
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (24 bp):
TACTTGTTTTAAATTTTCATATAT
Found at i:31839483 original size:24 final size:24
Alignment explanation
Indices: 31839439--31839484 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31839429 AAGCTCATGT
* *
31839439 GAGCCAATAACGAGTAGCTCTGAA
1 GAGCCAATAACGAGAAACTCTGAA
*
31839463 GAGCCATTAACGAGAAACTCTG
1 GAGCCAATAACGAGAAACTCTG
31839485 GATAACCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (24 bp):
GAGCCAATAACGAGAAACTCTGAA
Found at i:31839948 original size:21 final size:21
Alignment explanation
Indices: 31839923--31839964 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31839913 TAAATTTAGC
*
31839923 TCAATTTAATAAAATTCATAT
1 TCAATTCAATAAAATTCATAT
**
31839944 TCAATTCAATTCAATTCATAT
1 TCAATTCAATAAAATTCATAT
31839965 CTTAGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAATTCAATAAAATTCATAT
Found at i:31839955 original size:10 final size:11
Alignment explanation
Indices: 31839935--31839964 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
31839925 AATTTAATAA
31839935 AATTCATATTC
1 AATTCATATTC
31839946 AATTCA-ATTC
1 AATTCATATTC
31839956 AATTCATAT
1 AATTCATAT
31839965 CTTAGGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (11 bp):
AATTCATATTC
Found at i:31841396 original size:46 final size:48
Alignment explanation
Indices: 31841332--31841545 Score: 205
Period size: 47 Copynumber: 4.6 Consensus size: 48
31841322 AAAGCCAGTA
* *
31841332 TAAGACCATGTCTGGGACATGGCATCGGAATTGAGACAAGAGCTAGT-
1 TAAGACCATGTCTGGGACATGGCATCGGACTCGAGACAAGAGCTAGTG
*
31841379 TAAGA-CATGTCTGGGACAT-GCATC-GACCTCGAGACGTA-AGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGA-CTCGAGAC-AAGAGCTAGTG
* * ** *
31841425 AAAGA-CATGTCTGGGACAT-GCATTGG-CTACGAGATGATAG-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGACT-CGAGACAAGAGCT-AGTG
* ** * *
31841471 TAAGACCATGTTTGGGACATGGCATC-GACTTAAGATATGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGGACTCGAGACAAGAGCTAGTG
31841518 TAAGACCATGTCTGGGACATGGCATCGG
1 TAAGACCATGTCTGGGACATGGCATCGG
31841546 CACCTTACCC
Statistics
Matches: 139, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
44 2 0.01
45 22 0.16
46 52 0.37
47 55 0.40
48 8 0.06
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGACTCGAGACAAGAGCTAGTG
Found at i:31854983 original size:27 final size:27
Alignment explanation
Indices: 31854953--31855130 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31854943 ATATTGAGTC
* * * *
31854953 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31854980 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31855007 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31855035 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31855062 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31855089 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31855116 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31855131 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31855092 original size:82 final size:81
Alignment explanation
Indices: 31854974--31855129 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31854964 TGCTATATAA
* *
31854974 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31855039 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31855056 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31855120 CACTTAGTGC
65 CACTTAGTGC
31855130 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31858753 original size:20 final size:19
Alignment explanation
Indices: 31858717--31858767 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
31858707 AAGGGCTATT
*
31858717 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
31858736 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
31858756 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
31858768 GTTGTTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:31859620 original size:49 final size:46
Alignment explanation
Indices: 31859561--31859733 Score: 204
Period size: 49 Copynumber: 3.6 Consensus size: 46
31859551 TGTTGTGTGT
*
31859561 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTGATA-ATGA-AGC
* *
31859610 CAGTGTAAGACCTGTCTGGGACACGGCATCGACCTTGATATATGAATCC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACC-TGATA-ATGAA-GC
* * *
31859659 CAGTGTAAGACCTGTCTGGGACATGACATCGACTTTGAT-ATGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTGATAATG-AAGC
31859706 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
31859734 GTTGGCATCT
Statistics
Matches: 109, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
47 16 0.15
48 17 0.16
49 76 0.70
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTGATAATGAAGC
Found at i:31861621 original size:48 final size:48
Alignment explanation
Indices: 31861500--31861623 Score: 160
Period size: 48 Copynumber: 2.6 Consensus size: 48
31861490 AAGCTAACGC
* * * ** * *
31861500 CATGTCCCAGACAGGCCTTACACTAGCTTGTATGTTGCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAATATTGCGAGGCCGATG
*
31861548 CATGTCCCAGACATGTCTTATACTGGCTTAAATATCT-CGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTTAAATAT-TGCGAGGCCGATG
31861596 CATGTCCCAGACATGTCTTACACTGGCT
1 CATGTCCCAGACATGTCTTACACTGGCT
31861624 CTCATGGTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
48 65 0.98
49 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTTAAATATTGCGAGGCCGATG
Found at i:31872148 original size:15 final size:15
Alignment explanation
Indices: 31872128--31872157 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31872118 ATAATCATAA
*
31872128 TAATTATCTTAATAT
1 TAATTATCCTAATAT
31872143 TAATTATCCTAATAT
1 TAATTATCCTAATAT
31872158 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:31874827 original size:23 final size:23
Alignment explanation
Indices: 31874780--31874842 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
31874770 GATTAAAAGC
*
31874780 TATTTACAAATCAAATC-TCTAA
1 TATTTACAAATCATATCTTCTAA
31874802 TA-TTACAAAATCATATCTTCTAA
1 TATTTAC-AAATCATATCTTCTAA
*
31874825 TATTTACATATCATATCT
1 TATTTACAAATCATATCT
31874843 AAGGTTGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
21 4 0.11
22 11 0.31
23 17 0.47
24 4 0.11
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (23 bp):
TATTTACAAATCATATCTTCTAA
Found at i:31881119 original size:15 final size:15
Alignment explanation
Indices: 31881080--31881159 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
31881070 GTATCTTGGG
* *
31881080 TTTCTTTATCCTAGA
1 TTTCTTTATTCTGGA
*
31881095 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
31881110 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
31881125 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
31881140 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
31881154 TTTCTT
1 TTTCTT
31881160 GTTATCTTTG
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
14 10 0.19
15 42 0.78
16 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:31881140 original size:30 final size:30
Alignment explanation
Indices: 31881071--31881158 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
31881061 CATAGTATCG
* * * * *
31881071 TATCTTGGGTTTCTTTATCCTAGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
31881101 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
31881131 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
31881159 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 8 0.16
30 40 0.82
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:31883592 original size:46 final size:46
Alignment explanation
Indices: 31883542--31883810 Score: 231
Period size: 46 Copynumber: 5.8 Consensus size: 46
31883532 TGGTTGAGCA
*
31883542 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
31883588 TCCGAACTTGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
31883635 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
31883681 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* *
31883728 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
31883774 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31883811 GCGGGTTACA
Statistics
Matches: 168, Mismatches: 46, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
45 8 0.05
46 93 0.55
47 63 0.38
48 4 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:31883698 original size:93 final size:93
Alignment explanation
Indices: 31883539--31883803 Score: 469
Period size: 93 Copynumber: 2.8 Consensus size: 93
31883529 GGATGGTTGA
* * * * *
31883539 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAA-CTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
31883603 TTGAGTCCGAGTTCGAGAGATGTAACTAG
65 TTGAGTCCGAGTTCGAGAGATGTAACTAG
31883632 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
31883697 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
31883725 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
31883790 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
31883804 CTTATGGGCG
Statistics
Matches: 166, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
92 4 0.02
93 162 0.98
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:31890873 original size:14 final size:13
Alignment explanation
Indices: 31890845--31890870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31890835 AGTGCGCTGC
31890845 TGAAGAGAAAAAA
1 TGAAGAGAAAAAA
31890858 TGAAGAGAAAAAA
1 TGAAGAGAAAAAA
31890871 ATGGGGGGAA
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:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (13 bp):
TGAAGAGAAAAAA
Found at i:31891554 original size:28 final size:27
Alignment explanation
Indices: 31891513--31891577 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
31891503 GTGTGAAAAA
*
31891513 AATTTAATAATTTTTTTTTGTTAATATT
1 AATTGAATAA-TTTTTTTTGTTAATATT
* *
31891541 AATTGAATACTTTTTTTTGTTAGTATT
1 AATTGAATAATTTTTTTTGTTAATATT
31891568 AATTGAATAA
1 AATTGAATAA
31891578 AAAATTGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 25 0.76
28 8 0.24
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (27 bp):
AATTGAATAATTTTTTTTGTTAATATT
Found at i:31891562 original size:27 final size:27
Alignment explanation
Indices: 31891524--31891576 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
31891514 ATTTAATAAT
31891524 TTTTTTTTGTTAATATTAATTGAATAC
1 TTTTTTTTGTTAATATTAATTGAATAC
*
31891551 TTTTTTTTGTTAGTATTAATTGAATA
1 TTTTTTTTGTTAATATTAATTGAATA
31891577 AAAAATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (27 bp):
TTTTTTTTGTTAATATTAATTGAATAC
Found at i:31894798 original size:27 final size:27
Alignment explanation
Indices: 31894761--31894990 Score: 286
Period size: 27 Copynumber: 8.6 Consensus size: 27
31894751 TAAATTGTAC
*
31894761 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31894788 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31894815 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31894842 TGCACTAAGTGTGCGAAATGA-AATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31894867 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
31894895 GGCACTAAGTGTGCGAGATTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
31894923 AGCACTAAGTGTGCG-ATTGAGTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31894949 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
31894976 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31894991 GACTCAATAT
Statistics
Matches: 180, Mismatches: 18, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
26 46 0.26
27 111 0.62
28 23 0.13
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:31894954 original size:107 final size:107
Alignment explanation
Indices: 31894762--31894964 Score: 318
Period size: 107 Copynumber: 1.9 Consensus size: 107
31894752 AAATTGTACA
* * *
31894762 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT
1 GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGT
* *
31894827 GCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAAATGAT
66 GCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAAATGAT
* *
31894869 GCACTAAGTGTGCGAATTGACCATGTGGCACTAAGTGTGCGAGATTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTG
*
31894934 TGCGA-TTGAGTACGTAGCACTAAGTGTGCGA
65 TGCGATTTGACTACGTAGCACTAAGTGTGCGA
31894965 GTTGATTATA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 62 0.71
108 25 0.29
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (107 bp):
GCACTAAGTGTGCGAATTGACCATGTAGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGT
GCGATTTGACTACGTAGCACTAAGTGTGCGAAATGAAATGAT
Found at i:31897106 original size:39 final size:40
Alignment explanation
Indices: 31897042--31897147 Score: 133
Period size: 40 Copynumber: 2.7 Consensus size: 40
31897032 AAAAAATAAT
* * * * **
31897042 AAATAAGATATGAACAGATATATTTTG-AAATGAGATTAA
1 AAATAAAATACGAACTGATAAATTTTGAAAAAAAGATTAA
*
31897081 AAATAAAATACGAGCTGATAAATTTTGAAAAAAAGATTAA
1 AAATAAAATACGAACTGATAAATTTTGAAAAAAAGATTAA
*
31897121 ATATAAAATACGAACTGATAAATTTTG
1 AAATAAAATACGAACTGATAAATTTTG
31897148 GAACAGTATT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
39 22 0.39
40 35 0.61
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (40 bp):
AAATAAAATACGAACTGATAAATTTTGAAAAAAAGATTAA
Found at i:31899099 original size:27 final size:28
Alignment explanation
Indices: 31899036--31899133 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
31899026 CATGAGATTG
* * *
31899036 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTTC-GATTATATA
31899065 GCACTAAGTGTGCGAGTT-GATTATATA
1 GCACTAAGTGTGCGAGTTCGATTATATA
*
31899092 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGATTATAT-A
31899120 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31899134 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
27 26 0.41
28 20 0.32
29 17 0.27
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGATTATATA
Found at i:31907039 original size:27 final size:28
Alignment explanation
Indices: 31906976--31907073 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
31906966 CATGAGATTG
* * *
31906976 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTTC-GATTATATA
31907005 GCACTAAGTGTGCGAGTT-GATTATATA
1 GCACTAAGTGTGCGAGTTCGATTATATA
*
31907032 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTCGATTATAT-A
31907060 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
31907074 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
27 26 0.41
28 20 0.32
29 17 0.27
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTCGATTATATA
Found at i:31911330 original size:29 final size:28
Alignment explanation
Indices: 31911277--31911349 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
31911267 ATTATGAAAT
*
31911277 TATAAAAATATTAAAATTTGATAAAAAAA
1 TATAAAAAT-TTAAAACTTGATAAAAAAA
* *
31911306 TATAAAAAATTTAAAACTT-ATTAAAATAT
1 TAT-AAAAATTTAAAACTTGA-TAAAAAAA
*
31911335 TATAAAATTTTAAAA
1 TATAAAAATTTAAAA
31911350 TATTTTATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
28 12 0.32
29 20 0.53
30 6 0.16
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (28 bp):
TATAAAAATTTAAAACTTGATAAAAAAA
Found at i:31911331 original size:18 final size:17
Alignment explanation
Indices: 31911308--31911354 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
31911298 TAAAAAAATA
*
31911308 TAAAAAATTTAAAACTTAT
1 TAAAATATTTAAAA-TT-T
31911327 TAAAATATTATAAAATTT
1 TAAAATATT-TAAAATTT
31911345 TAAAATATTT
1 TAAAATATTT
31911355 TATGAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 10 0.38
20 5 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATTTAAAATTT
Found at i:31911409 original size:19 final size:20
Alignment explanation
Indices: 31911387--31911424 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31911377 TATTTGATCA
31911387 AATTTT-TAATAACTTTTAT
1 AATTTTCTAATAACTTTTAT
*
31911406 AATTTTCTAATAAGTTTTA
1 AATTTTCTAATAACTTTTA
31911425 AATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
AATTTTCTAATAACTTTTAT
Found at i:31911471 original size:42 final size:43
Alignment explanation
Indices: 31911420--31911500 Score: 105
Period size: 41 Copynumber: 1.9 Consensus size: 43
31911410 TTCTAATAAG
*
31911420 TTTTAAATATATTTTTTTATAAAT-TTGTTTAAAT-TTTAAGATC
1 TTTTAAATAT-TTTTATTATAAATATT-TTTAAATGTTTAAGATC
*
31911463 TTTT-AATATTTTTATTATATATATTTTTAAATGTTTAA
1 TTTTAAATATTTTTATTATAAATATTTTTAAATGTTTAA
31911501 TATATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 18 0.53
42 12 0.35
43 4 0.12
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.60
Consensus pattern (43 bp):
TTTTAAATATTTTTATTATAAATATTTTTAAATGTTTAAGATC
Found at i:31911527 original size:18 final size:19
Alignment explanation
Indices: 31911481--31911528 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
31911471 TTTTTATTAT
* *
31911481 ATATATTTTTAAATGTTTA
1 ATATACTTTTAAATCTTTA
*
31911500 ATATATTTTTAAATCTTTA
1 ATATACTTTTAAATCTTTA
31911519 ATA-ACTTTTA
1 ATATACTTTTA
31911529 TAGTTGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATACTTTTAAATCTTTA
Found at i:31911527 original size:19 final size:19
Alignment explanation
Indices: 31911481--31911521 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
31911471 TTTTTATTAT
*
31911481 ATATATTTTTAAATGTTTA
1 ATATATTTTTAAATCTTTA
31911500 ATATATTTTTAAATCTTTA
1 ATATATTTTTAAATCTTTA
31911519 ATA
1 ATA
31911522 ACTTTTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (19 bp):
ATATATTTTTAAATCTTTA
Found at i:31912209 original size:20 final size:20
Alignment explanation
Indices: 31912184--31912249 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
31912174 TATTTAGTAA
31912184 ATATATTAAAATATTAATAT
1 ATATATTAAAATATTAATAT
*
31912204 ATATATTAATATATTAATAT
1 ATATATTAAAATATTAATAT
* *
31912224 ATTTACT-AAATATTTAATAT
1 ATATATTAAAATA-TTAATAT
*
31912244 AGATAT
1 ATATAT
31912250 AATAAGACAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
19 4 0.11
20 34 0.89
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATATTAAAATATTAATAT
Found at i:31912215 original size:8 final size:8
Alignment explanation
Indices: 31912183--31912226 Score: 51
Period size: 8 Copynumber: 6.0 Consensus size: 8
31912173 ATATTTAGTA
31912183 AATATATT
1 AATATATT
*
31912191 AAAATATT
1 AATATATT
31912199 -A-ATA-T
1 AATATATT
31912204 -ATATATT
1 AATATATT
31912211 AATATATT
1 AATATATT
31912219 AATATATT
1 AATATATT
31912227 TACTAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 2 0.06
6 6 0.19
7 2 0.06
8 22 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
AATATATT
Found at i:31912215 original size:28 final size:28
Alignment explanation
Indices: 31912183--31912244 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
31912173 ATATTTAGTA
*
31912183 AATATATTAAAATA-TTAATATATATATT
1 AATATATTAAAATATTTAATAAATAT-TT
* *
31912211 AATATATTAATATATTTACTAAATATTT
1 AATATATTAAAATATTTAATAAATATTT
31912239 AATATA
1 AATATA
31912245 GATATAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 21 0.70
29 9 0.30
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
AATATATTAAAATATTTAATAAATATTT
Found at i:31914675 original size:67 final size:67
Alignment explanation
Indices: 31914597--31914758 Score: 234
Period size: 67 Copynumber: 2.4 Consensus size: 67
31914587 CACCAGTATA
* * *
31914597 GTAATGCAGATAAACTATCAATATGTGCAAACAAGCTGCTAGTATTATGGACAAGCCACCAATAA
1 GTAATGCAGATAAACTACCAATATATGCAAACAAGCTGCTAGTATTATGGACAAGCCAACAATAA
31914662 TG
66 TG
* * * * *
31914664 GTAATGTAGATAAACTGCCAATATATGCAAACAAGCTGCTAGTATTATGGATAAGCCAATAGTAA
1 GTAATGCAGATAAACTACCAATATATGCAAACAAGCTGCTAGTATTATGGACAAGCCAACAATAA
31914729 TG
66 TG
*
31914731 GTAATGCAGATAAACTGCCAATAGTATG
1 GTAATGCAGATAAACTACCAATA-TATG
31914759 GACCAGCCAC
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
67 81 0.95
68 4 0.05
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.25
Consensus pattern (67 bp):
GTAATGCAGATAAACTACCAATATATGCAAACAAGCTGCTAGTATTATGGACAAGCCAACAATAA
TG
Found at i:31922689 original size:23 final size:23
Alignment explanation
Indices: 31922645--31922691 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
31922635 ATTGTTTAAG
***
31922645 TTAAATGAACATGTTTGTAAACA
1 TTAAATGAACATGTTCAAAAACA
31922668 TTAAATGAACATGTTCAAAAACA
1 TTAAATGAACATGTTCAAAAACA
31922691 T
1 T
31922692 CTTCATAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (23 bp):
TTAAATGAACATGTTCAAAAACA
Found at i:31922815 original size:12 final size:12
Alignment explanation
Indices: 31922798--31922822 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31922788 TCAAATACAA
31922798 ATATTATAAATT
1 ATATTATAAATT
31922810 ATATTATAAATT
1 ATATTATAAATT
31922822 A
1 A
31922823 ATAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTATAAATT
Found at i:31927512 original size:48 final size:48
Alignment explanation
Indices: 31927445--31927721 Score: 405
Period size: 48 Copynumber: 5.8 Consensus size: 48
31927435 TACAAGATAA
* * *
31927445 ATATATATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAG
*
31927493 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAG
* * *
31927541 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAG
* *
31927589 ATATGTATATGTGGTAAAGCCGAATGGA-TAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAAT-GACTAATGTGAAATATATATGAG
* *
31927637 ATATGTATATGTGGTAAAGCCGAATGGA-GAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAAT-GACTAATGTGAAATATATATGAG
* *
31927685 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAA
31927722 TGTTGTAACA
Statistics
Matches: 213, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 1 0.00
48 211 0.99
49 1 0.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGACTAATGTGAAATATATATGAG
Found at i:31927551 original size:96 final size:96
Alignment explanation
Indices: 31927445--31927721 Score: 448
Period size: 96 Copynumber: 2.9 Consensus size: 96
31927435 TACAAGATAA
*
31927445 ATATATATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGTAA
31927510 AGCCGAATGGCTAATGTGAAATATATATGAG
66 AGCCGAATGGCTAATGTGAAATATATATGAG
* * * * *
31927541 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGTAA
* * *
31927606 AGCCGAATGGATAATGTGAAATATATGTGTG
66 AGCCGAATGGCTAATGTGAAATATATATGAG
31927637 ATATGTATATGTGGTAAAGCCGAATGGA-GAATGTGAAATATGTATGAGATATGTATATGTGGTA
1 ATATGTATATGTGGTAAAGCCGAAT-GACGAATGTGAAATATGTATGAGATATGTATATGTGGTA
*
31927701 AAGCTGAATGGCTAATGTGAA
65 AAGCCGAATGGCTAATGTGAA
31927722 TGTTGTAACA
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 163 0.99
97 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGTAA
AGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:31927629 original size:144 final size:144
Alignment explanation
Indices: 31927445--31927721 Score: 457
Period size: 144 Copynumber: 1.9 Consensus size: 144
31927435 TACAAGATAA
*
31927445 ATATATATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGTAA
1 ATATATATATGTGGTAAAGCCGAATGACGAATGTGAAATATATATGAGATATGTATATGTGGTAA
**
31927510 AGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
66 AGCCGAATGGAGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
31927575 GAAATATATGTGTG
131 GAAATATATGTGTG
* * * *
31927589 ATATGTATATGTGGTAAAGCCGAATGGA-TAATGTGAAATATATGTGTGATATGTATATGTGGTA
1 ATATATATATGTGGTAAAGCCGAAT-GACGAATGTGAAATATATATGAGATATGTATATGTGGTA
* *
31927653 AAGCCGAATGGAGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAATG
65 AAGCCGAATGGAGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG
31927718 TGAA
130 TGAA
31927722 TGTTGTAACA
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
144 121 0.98
145 2 0.02
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.31
Consensus pattern (144 bp):
ATATATATATGTGGTAAAGCCGAATGACGAATGTGAAATATATATGAGATATGTATATGTGGTAA
AGCCGAATGGAGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGT
GAAATATATGTGTG
Found at i:31937239 original size:27 final size:27
Alignment explanation
Indices: 31937205--31937404 Score: 258
Period size: 27 Copynumber: 7.4 Consensus size: 27
31937195 TTGTTAAGTT
*
31937205 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
31937232 GTAGAATTACCGAAAGACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
** *
31937259 GTAGAATTATTGAAATACCTCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
31937286 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
31937313 ATAGAATTACCGAGATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
31937340 GTAGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
31937367 GTAGAATTACCGAGATACCCTTGT-GG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
31937393 AGTAAAATTACC
1 -GTAGAATTACC
31937405 ATTTTGCCCC
Statistics
Matches: 150, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 2 0.01
27 148 0.99
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:31938137 original size:67 final size:67
Alignment explanation
Indices: 31938029--31938271 Score: 324
Period size: 67 Copynumber: 3.6 Consensus size: 67
31938019 GAGGAAGCAT
*
31938029 TCTGGTAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTTACAA
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTTACAA
31938094 TA
66 TA
** *
31938096 TCTGGCAGCCTCGTTGCAATATGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTTACAA
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTTACAA
31938161 TA
66 TA
* * * * * * * *
31938163 TCTGGCAGCCTCATTGGAATTTGGTTGCCTCGCCACATATGTCTATTTTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTTACAA
31938228 TA
66 TA
* ** * * *
31938230 TTTTCCAGCCTCGCTGTAATCTGGTGGCTTCGCCACATATAT
1 TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATAT
31938272 ATATCTGTTC
Statistics
Matches: 154, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
67 154 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (67 bp):
TCTGGCAGCCTCACTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTTACAA
TA
Found at i:31942245 original size:15 final size:15
Alignment explanation
Indices: 31942222--31942282 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 15
31942212 GTATCGTATC
*
31942222 TTGGGTTTCTTTATT
1 TTGGATTTCTTTATT
31942237 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
* * * *
31942252 CTGGGTTTCTCTATC
1 TTGGATTTCTTTATT
31942267 TTGGATTTCTTTATT
1 TTGGATTTCTTTATT
31942282 T
1 T
31942283 GATTTTCTTG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.10, C:0.11, G:0.16, T:0.62
Consensus pattern (15 bp):
TTGGATTTCTTTATT
Found at i:31942259 original size:30 final size:30
Alignment explanation
Indices: 31942223--31942281 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
31942213 TATCGTATCT
* *
31942223 TGGGTTTCTTTATTTTGGATTTCTTTATTC
1 TGGGTTTCTCTATCTTGGATTTCTTTATTC
31942253 TGGGTTTCTCTATCTTGGATTTCTTTATT
1 TGGGTTTCTCTATCTTGGATTTCTTTATT
31942282 TGATTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.61
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:31944824 original size:46 final size:46
Alignment explanation
Indices: 31944766--31944929 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
31944756 CATCCGACTC
* *
31944766 GAGTTGAGTCCGAGTTCACTTATGAATGCGAATGCCCTAACTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTT
* * * *
31944812 GAGTTGAGTCCGAGTTC-GTGA-G-ATG-TAACTAGGCATCCGAGCTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGAATGCGAAC---GC--CCGAACTCGTT
* * * *
31944859 GAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCGGAGCTCGTT
1 GAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTT
*
31944905 GGGTTGAGTCCGAGTTCACTTATGA
1 GAGTTGAGTCCGAGTTCACTTATGA
31944930 GCGGGTTACA
Statistics
Matches: 96, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 4 0.04
46 49 0.51
47 26 0.27
48 4 0.04
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GAGTTGAGTCCGAGTTCACTTATGAATGCGAACGCCCGAACTCGTT
Found at i:31951474 original size:40 final size:40
Alignment explanation
Indices: 31951427--31951630 Score: 286
Period size: 40 Copynumber: 5.1 Consensus size: 40
31951417 CGGGCTTTAA
** *
31951427 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
** *
31951467 CCGGATATAGTAGTTCGTACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
31951507 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31951547 CCGGA-ATTAGTAACTCGCACAAATGCCTTCAGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
31951587 CC-GAAATTAGTCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
31951627 CCGG
1 CCGG
31951631 TTATCATCCG
Statistics
Matches: 148, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 144 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31953984 original size:31 final size:31
Alignment explanation
Indices: 31953946--31954009 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
31953936 CCTTTTCATA
*
31953946 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCAGAACACTGGGCCGAAGCCT
**
31953977 TTTCATATTTCAGATTACTGGGCCGAAGCCT
1 TTTCATATTTCAGAACACTGGGCCGAAGCCT
31954008 TT
1 TT
31954010 ACTGTAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCAGAACACTGGGCCGAAGCCT
Found at i:31954309 original size:25 final size:24
Alignment explanation
Indices: 31954217--31954323 Score: 180
Period size: 24 Copynumber: 4.4 Consensus size: 24
31954207 CTGGAGGCCT
31954217 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
31954241 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
31954265 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
31954289 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
31954314 AGCCCTTTTA
1 AGCCCTTTTA
31954324 CACTTCCTCC
Statistics
Matches: 79, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
23 18 0.23
24 38 0.48
25 23 0.29
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:31954317 original size:49 final size:48
Alignment explanation
Indices: 31954194--31954323 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 48
31954184 AGCATAGCTG
*
31954194 CTTTATCATAGAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCC
1 CTTTATCAT--AACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCC
*
31954245 CTTT-TAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCC
31954293 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATCATAACTGGGGCATAAGCCCTTTTA
31954324 CACTTCCTCC
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
47 22 0.30
48 19 0.26
49 25 0.34
50 3 0.04
51 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (48 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCC
Found at i:31961998 original size:7 final size:7
Alignment explanation
Indices: 31961986--31962015 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
31961976 CTATAGCCCT
31961986 TTTCATA
1 TTTCATA
31961993 TTTCATA
1 TTTCATA
31962000 TTTCATA
1 TTTCATA
31962007 TTTCATA
1 TTTCATA
31962014 TT
1 TT
31962016 ACTGGGCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCATA
Found at i:31962334 original size:25 final size:24
Alignment explanation
Indices: 31962240--31962346 Score: 162
Period size: 24 Copynumber: 4.4 Consensus size: 24
31962230 CTGGAGGCCT
31962240 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
*
31962264 AGCCCTTTTAATAACGGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
31962288 AGCCCTTTTAATAACTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
31962312 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
31962337 AGCCCTTTTA
1 AGCCCTTTTA
31962347 CACTTCCTCC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 17 0.23
24 36 0.48
25 22 0.29
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:31962336 original size:49 final size:48
Alignment explanation
Indices: 31962217--31962346 Score: 165
Period size: 49 Copynumber: 2.6 Consensus size: 48
31962207 AGCATAGCTG
* *
31962217 CTTTATCATAGAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCC
1 CTTTATCAT--AACTGG-GGCATAAGCC-CTTTTAATAACTGAGGCAAAGCC
* *
31962268 CTTT-TAATAACGGGGGCATAAGCCCTTTTAATAACTGAGGCATAAGCC
1 CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCA-AAGCC
31962316 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATCATAACTGGGGCATAAGCCCTTTTA
31962347 CACTTCCTCC
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
47 21 0.30
48 18 0.26
49 24 0.34
50 3 0.04
51 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (48 bp):
CTTTATCATAACTGGGGCATAAGCCCTTTTAATAACTGAGGCAAAGCC
Found at i:31962417 original size:9 final size:9
Alignment explanation
Indices: 31962403--31962455 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
31962393 ACATCATGTG
31962403 CATATCATA
1 CATATCATA
*
31962412 CATATCATGTG
1 CATATCA--TA
31962423 CATATCATA
1 CATATCATA
*
31962432 CATGTCATA
1 CATATCATA
31962441 TGCATATCATA
1 --CATATCATA
31962452 CATA
1 CATA
31962456 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:31962420 original size:20 final size:20
Alignment explanation
Indices: 31962395--31962461 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
31962385 TTACGAATAC
31962395 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31962415 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
31962435 GTCATATGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
31962455 ACCATGT
1 ATCATGT
31962462 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31962435 original size:15 final size:15
Alignment explanation
Indices: 31962407--31962450 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
31962397 CATGTGCATA
31962407 TCATA-CATATCATG
1 TCATATCATATCATG
31962421 TGCATATCATA-CATG
1 T-CATATCATATCATG
31962436 TCATATGCATATCAT
1 TCATAT-CATATCAT
31962451 ACATACCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
15 13 0.50
16 7 0.27
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (15 bp):
TCATATCATATCATG
Found at i:31965977 original size:40 final size:40
Alignment explanation
Indices: 31965752--31965976 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
31965742 TTGAATGATG
* * * *
31965752 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
31965792 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
31965832 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31965871 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
31965911 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGACTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
31965952 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31965977 ACCGAGGAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31965990 original size:40 final size:40
Alignment explanation
Indices: 31965833--31965995 Score: 104
Period size: 40 Copynumber: 4.1 Consensus size: 40
31965823 GATACTAATT
* ** *
31965833 CCGGGCTAAG-CCCGAAGGCATTGGTGCGA-GTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGACCGACG-GACTATAA
* * ** *
31965871 TCCGGGTTAAGTCCCGATGGCATTTGTGCGA-GTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGACCGACG-GACTATAA
* * **
31965911 TCCGGGTTAAGTCCCGAAGGCATTTGAGCGACTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGACCGACGGACTATAA
* *
31965952 CCGGGCTATGTCCCGAAGGCATTTGACCGA-GGAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGACCGACGGA-CTATAA
31965992 CCGG
1 CCGG
31965996 TTAAATTCCG
Statistics
Matches: 108, Mismatches: 12, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
39 10 0.09
40 96 0.89
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGACCGACGGACTATAA
Found at i:31965994 original size:80 final size:80
Alignment explanation
Indices: 31965791--31966009 Score: 207
Period size: 79 Copynumber: 2.8 Consensus size: 80
31965781 AAGTGACCAT
* ** * *
31965791 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAG-CCCGAAGGCA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGACCGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCA
* *
31965853 TTGGTGCGAGTTACTAA
64 TTGGAGCGACTTACTAA
* * ** *
31965870 ATCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGACCGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
31965935 TGAGCGACTTACTATA
66 GGAGCGACTTACTA-A
* * * *
31965951 A-CCGGGCTATGTCCCGAAGGCATTTGACCGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGACCGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
31966010 TACGTGATGT
Statistics
Matches: 118, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.49
80 56 0.47
81 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGACCGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATT
GGAGCGACTTACTAA
Found at i:31970116 original size:16 final size:16
Alignment explanation
Indices: 31970097--31970127 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31970087 CTTCTTCACT
31970097 TACTCACTTACTTAAG
1 TACTCACTTACTTAAG
*
31970113 TACTTACTTACTTAA
1 TACTCACTTACTTAA
31970128 TCAAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAG
Found at i:31970481 original size:55 final size:53
Alignment explanation
Indices: 31970355--31970488 Score: 169
Period size: 53 Copynumber: 2.5 Consensus size: 53
31970345 CTTACCATTT
* * *
31970355 CCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTATGAACTCACCAATG
* * * * * *
31970408 CCATGCCTTGGCATGGTCTTATATGGGACCTTTGGCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTAT-G-AACTCACCAATG
31970463 CCATGTCTTGACATGGTCTTACATGG
1 CCATGTCTTGACATGGTCTTACATGG
31970489 TATCCTTACC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 33 0.49
54 1 0.01
55 33 0.49
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTATGAACTCACCAATG
Found at i:31970537 original size:54 final size:53
Alignment explanation
Indices: 31970296--31970546 Score: 190
Period size: 55 Copynumber: 4.8 Consensus size: 53
31970286 ACACGGGTAC
* * * ** *
31970296 CTTACCATTGCCATGACTTGTCATGGTCTTATGTGGTATCCTT---TT-GAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAAAAA
* * * * * * **
31970345 CTTACCATTTCCATGTCTCGACATGGTCTTACATGGTATCTTTGCCTTATGAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAAAAA
* * * * *
31970398 CTCACCAATGCCATGCCTTGGCATGGTCTTATATGGGA-CCTTTGGCTTATAGTAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTA-A-AAA
* * * *
31970453 CTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTAAAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAAAAA
* *
31970506 CCTTACCAATTGTCAT-CCTTGGCATGGTCTTACATTGTATC
1 -CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATC
31970547 GTTAAACCCT
Statistics
Matches: 157, Mismatches: 35, Indels: 15
0.76 0.17 0.07
Matches are distributed among these distances:
49 36 0.23
52 3 0.02
53 41 0.26
54 30 0.19
55 45 0.29
56 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTAAAAA
Found at i:31978187 original size:108 final size:110
Alignment explanation
Indices: 31978041--31978241 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
31978031 ATCCTTTTGA
* * *
31978041 AACTTACCATTGCCATGTCTCGACGTGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTA-GAAACCTCACCAA
*
31978104 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGGCTTATAGT
65 TTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGGCTTATAGT
* * *
31978149 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTAGAAACCTCACCAAT
31978214 TGCCATGCCTTAGCATGGTCTTACATGG
66 TGCCATGCCTTAGCATGGTCTTACATGG
31978242 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.58
109 7 0.08
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGGTATCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGGCTTATAGT
Found at i:31978249 original size:55 final size:54
Alignment explanation
Indices: 31977994--31978249 Score: 228
Period size: 55 Copynumber: 4.8 Consensus size: 54
31977984 ACACAGGTAC
* * * * *
31977994 CTTA-CAATTTCCATGACTTGTCATGGTCATACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* * * *
31978043 CTTACC-ATTGCCATGTCTCGACGTGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA-GAAA
* * * * * *
31978096 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGGCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TT-ACCT-TAGAAA
* *
31978151 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
31978204 CCTTACCAATTGCCATGCCTT-AGCATGGTCTTACATGGTATCCTTA
1 -CTTACCAATTGCCATGCCTTGA-CATGGTCTTACATGGTATCCTTA
31978250 AACCCTAATG
Statistics
Matches: 168, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
49 34 0.20
50 1 0.01
52 4 0.02
53 39 0.23
54 16 0.10
55 72 0.43
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
Found at i:31988779 original size:60 final size:59
Alignment explanation
Indices: 31988642--31988783 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 59
31988632 TTTAGTGTTA
* * *
31988642 ATTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTAT
1 ATTGGGCCTT-GCCCATATTAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTAT
* * * *
31988703 ATTGGGCGTAGCCCATATTAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATAT
1 ATTGGGCCTTGCCCATATTAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TAT
*
31988763 ATTGGGCCTTGGCCATATTAA
1 ATTGGGCCTTGCCCATATTAA
31988784 CACAGTTGGG
Statistics
Matches: 67, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
59 4 0.06
60 50 0.75
61 13 0.19
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (59 bp):
ATTGGGCCTTGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTAT
Found at i:31988827 original size:19 final size:20
Alignment explanation
Indices: 31988785--31988828 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
31988775 CCATATTAAC
** *
31988785 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
31988805 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
31988824 ACAGT
1 ACAGT
31988829 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:31989441 original size:8 final size:8
Alignment explanation
Indices: 31989428--31989458 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
31989418 CACAAATGCA
31989428 GGCTTTTC
1 GGCTTTTC
31989436 GGCTTTTC
1 GGCTTTTC
31989444 GGCTTTTC
1 GGCTTTTC
*
31989452 GACTTTT
1 GGCTTTT
31989459 ACCGATCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.23, G:0.23, T:0.52
Consensus pattern (8 bp):
GGCTTTTC
Found at i:31996207 original size:28 final size:28
Alignment explanation
Indices: 31996175--31996301 Score: 166
Period size: 28 Copynumber: 4.5 Consensus size: 28
31996165 ATAGTAAGTC
*
31996175 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
31996203 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
31996232 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
31996260 TGCA-ACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
31996288 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31996302 CAATCTCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
27 14 0.16
28 37 0.43
29 36 0.41
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:31996233 original size:29 final size:29
Alignment explanation
Indices: 31996175--31996301 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
31996165 ATAGTAAGTC
*
31996175 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
31996203 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
31996232 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
31996260 TGCA-ACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
31996288 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31996302 CAATCTCATG
Statistics
Matches: 86, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
27 9 0.10
28 38 0.44
29 39 0.45
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:31996396 original size:51 final size:51
Alignment explanation
Indices: 31996337--31996438 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
31996327 ACCCGCACAC
31996337 TTAGTGCCGAAATCAACATCTCAATACACCTCACCTCTTTTCTTTTTCATT
1 TTAGTGCCGAAATCAACATCTCAATACACCTCACCTCTTTTCTTTTTCATT
31996388 TTAGTGCCGAAATCAACATCTCAATACACCTCACCTCTTTTCTTTTTCATT
1 TTAGTGCCGAAATCAACATCTCAATACACCTCACCTCTTTTCTTTTTCATT
31996439 CAATACTTTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.25, C:0.29, G:0.06, T:0.39
Consensus pattern (51 bp):
TTAGTGCCGAAATCAACATCTCAATACACCTCACCTCTTTTCTTTTTCATT
Found at i:32002711 original size:46 final size:47
Alignment explanation
Indices: 32002617--32002921 Score: 193
Period size: 46 Copynumber: 6.4 Consensus size: 47
32002607 TCTAAGAGCC
* * * * * *
32002617 AGTGTAAGACCATGTCTAGGTCATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGTA-AGCT
*
32002665 AGCGTAAGA-CATGTCTGGGACATGCATCGACCTCGAGATGTAAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAAGCT
*
32002711 AGTGTAAGA-CATGTCTGGGACATGCATC-AGCTACGAGATGT--G-T
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGTAAGCT
* * *
32002754 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-AGAGATGTAAGAGCC
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCGAC-CTCGAGATGT-A-AGCT
* ** * * * *
32002805 AATGTAAGACCATGTCTGGGACATGGTGTCGGCCTCGA-TTTTGATAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGT-A-AGCT
* * * *
32002854 AGTGTAAGATCATGTATGGGACATGGCATCGA-CTTGATGGATG--AGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGA--GATGTAAGCT
*
32002901 AATGTAAGACCATGTCTGGGA
1 AGTGTAAGACCATGTCTGGGA
32002922 TGTGGCATTA
Statistics
Matches: 208, Mismatches: 33, Indels: 33
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.00
44 10 0.05
45 17 0.08
46 64 0.31
47 35 0.17
48 13 0.06
49 34 0.16
50 33 0.16
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAAGCT
Found at i:32003098 original size:131 final size:131
Alignment explanation
Indices: 32002864--32003254 Score: 773
Period size: 131 Copynumber: 3.0 Consensus size: 131
32002854 AGTGTAAGAT
32002864 CATGTATGGGACATGGCATCGACTTGATGGATGAGCCAATGTAAGACCATGTCTGGGATGTGGCA
1 CATGTATGGGACATGGCATCGACTTGATGGATGAGCCAATGTAAGACCATGTCTGGGATGTGGCA
32002929 TTACACCTTATGTTTGAGGCTTAATGAATACTCGATAGCATTCCAAATGGTCTAATGGTGAGAGA
66 TTACACCTTATGTTTGAGGCTTAATGAATACTCGATAGCATTCCAAATGGTCTAATGGTGAGAGA
32002994 C
131 C
32002995 CATGTATGGGACATGGCATCGACTTGATGGATGAGCCAATGTAAGACCATGTCTGGGATGTGGCA
1 CATGTATGGGACATGGCATCGACTTGATGGATGAGCCAATGTAAGACCATGTCTGGGATGTGGCA
32003060 TTACACCTTATGTTTGAGGCTTAATGAATACTCGATAGCATTCCAAATGGTCTAATGGTGAGAGA
66 TTACACCTTATGTTTGAGGCTTAATGAATACTCGATAGCATTCCAAATGGTCTAATGGTGAGAGA
32003125 C
131 C
*
32003126 CATGTATGGGACATGGCATCGACTTGATGGACGAGCCAATGTAAGACCATGTCTGGGATGTGGCA
1 CATGTATGGGACATGGCATCGACTTGATGGATGAGCCAATGTAAGACCATGTCTGGGATGTGGCA
32003191 TTACACCTTATGTTTGAGGCTTAATGAATACTCGATAGCATTCCAAATGGTCTAATGGTGAGAG
66 TTACACCTTATGTTTGAGGCTTAATGAATACTCGATAGCATTCCAAATGGTCTAATGGTGAGAG
32003255 TTACAGTTTA
Statistics
Matches: 259, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 259 1.00
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (131 bp):
CATGTATGGGACATGGCATCGACTTGATGGATGAGCCAATGTAAGACCATGTCTGGGATGTGGCA
TTACACCTTATGTTTGAGGCTTAATGAATACTCGATAGCATTCCAAATGGTCTAATGGTGAGAGA
C
Found at i:32018975 original size:14 final size:13
Alignment explanation
Indices: 32018949--32018987 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
32018939 GTTTAAAAAC
32018949 TTTTATTTATTAT
1 TTTTATTTATTAT
*
32018962 TTTTATGTTTTTAT
1 TTTTAT-TTATTAT
32018976 TTTTATTCTATT
1 TTTTATT-TATT
32018988 TTAAGACTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (13 bp):
TTTTATTTATTAT
Found at i:32020523 original size:26 final size:25
Alignment explanation
Indices: 32020439--32020524 Score: 113
Period size: 25 Copynumber: 3.4 Consensus size: 25
32020429 CTGGAGGCCT
32020439 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
**
32020463 AGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
*
32020488 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
32020514 AGCCCTTTTCA
1 AGCCCTTTTCA
32020525 CTTCCTCCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
23 5 0.09
24 5 0.09
25 32 0.59
26 12 0.22
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Done.