Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 193 of 199
Found at i:55895425 original size:22 final size:22
Alignment explanation
Indices: 55895379--55895429 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
55895369 TTTTCTTATG
*
55895379 TATATATTTTATATTTCATATA
1 TATATATTTTATATTTCATAAA
55895401 TATAT-TTTTATATATTC-TACAA
1 TATATATTTTATAT-TTCATA-AA
55895423 TATATAT
1 TATATAT
55895430 ACATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 10 0.40
22 14 0.56
23 1 0.04
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATATTTTATATTTCATAAA
Found at i:55898703 original size:131 final size:131
Alignment explanation
Indices: 55898543--55899063 Score: 776
Period size: 131 Copynumber: 4.0 Consensus size: 131
55898533 AAGACTCATC
* * *
55898543 GCTTAAATATGCTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATT
* * *
55898608 ACTTAGGGAGATAAGATCTGTAATCTTCAACCTGTCCCACTG-TCGACCAGGGACATAGGACTAG
66 GCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCT-GACCAGGGAAATAGGACTAG
55898672 TG
130 TG
* * * *
55898674 GTTTAAATCTGTTTTCCTACTCCTAGGGAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTATT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATT
* * * *
55898739 GCTTAGGGAGATAAGATCTGTAGTCTCCAACCTATTCCACTGCTG-CTCAGGGAAATAGGACTTG
66 GCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGAC-CAGGGAAATAGGACTAG
55898803 TG
130 TG
* * **
55898805 GCTTAAATATGTTTCCCTACTCCTGGGGAAGATGAGATTCGCTATCTTCGATCTGCTCCACTATT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATT
*
55898870 GCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCGGACCAGGGAAATAGGACTAGT
66 GCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAAATAGGACTAGT
55898935 G
131 G
* *
55898936 GCTTAAATCTGTTTCCCTACTCCTGAGGAAGATAAGATTCGCCGTATTCGATCTGCTCCACTATT
1 GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATT
* * * * *
55899001 GCTTAAGGTGATAAGATCTGTAATCTTCAACCTATCCCACTACTAACCAGGGAGATAGGACTA
66 GCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAAATAGGACTA
55899064 CTGTCTTTGA
Statistics
Matches: 348, Mismatches: 39, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
130 1 0.00
131 345 0.99
132 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
GCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTATT
GCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCAGGGAAATAGGACTAGT
G
Found at i:55911387 original size:12 final size:13
Alignment explanation
Indices: 55911362--55911390 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
55911352 CAAAATAAGG
55911362 TTAAAATGATGAA
1 TTAAAATGATGAA
55911375 TTAAAAT-ATGAA
1 TTAAAATGATGAA
55911387 TTAA
1 TTAA
55911391 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (13 bp):
TTAAAATGATGAA
Found at i:55914453 original size:31 final size:29
Alignment explanation
Indices: 55914418--55914486 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
55914408 AACTATCAAC
* *
55914418 AGTCACTTTTATTTGACTCATGTTACATTTT
1 AGTCACTTATATTTGA--AATGTTACATTTT
* *
55914449 AGTCACTCATATTTGAAATGTTATATTTT
1 AGTCACTTATATTTGAAATGTTACATTTT
*
55914478 GGTCACTTA
1 AGTCACTTA
55914487 CGTTATCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 18 0.56
31 14 0.44
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (29 bp):
AGTCACTTATATTTGAAATGTTACATTTT
Found at i:55914711 original size:3 final size:3
Alignment explanation
Indices: 55914703--55914746 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
55914693 CAGAACCACA
55914703 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55914747 ATGGACGCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:55921661 original size:45 final size:45
Alignment explanation
Indices: 55921597--55921683 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
55921587 AACAGATACT
* *
55921597 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATATC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATATC
*
55921642 CGGTGGAATCAGCATATAGCAACCACCTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
55921684 GTTCGGTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATATC
Found at i:55921790 original size:51 final size:51
Alignment explanation
Indices: 55921692--55921823 Score: 174
Period size: 51 Copynumber: 2.6 Consensus size: 51
55921682 ATGTTCGGTT
* * **
55921692 CACATAGTAGCCTGCACATAGTACTACGCATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
* * * *
55921743 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
* *
55921794 CGCATAGTAGCCTACACATAGTACTACACA
1 CACATAGTAGCCTGCACATAGTACTACACA
55921824 TGCGACCTGT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAAACCATCCGATA
Found at i:55923488 original size:48 final size:48
Alignment explanation
Indices: 55923412--55923604 Score: 242
Period size: 48 Copynumber: 4.0 Consensus size: 48
55923402 AACAGATTTC
* * * * * ** * *
55923412 TCGGTGGCCTACACACAGTCTGTACCACCTTTGTGTAATAACAGACTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATA
* *
55923460 TCAGTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATA
* * * *
55923508 TTGGTGGCCTGCACACAATCTGTGCCACCCTTGTATCTTAACAAAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATA
*
55923556 TTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATA
55923604 T
1 T
55923605 TGATATGCAT
Statistics
Matches: 125, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 125 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATA
Found at i:55923605 original size:48 final size:48
Alignment explanation
Indices: 55923463--55923606 Score: 252
Period size: 48 Copynumber: 3.0 Consensus size: 48
55923453 CAGACTCTCA
*
55923463 GTGGCCTGCACATAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
* * *
55923511 GTGGCCTGCACACAATCTGTGCCACCCTTGTATCTTAACAAAATATTG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
55923559 GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
1 GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
55923607 ATATGCATAG
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GTGGCCTGCACACAGTCCGTGCCACCCTTGTATCTTAACAGAATATTG
Found at i:55929134 original size:57 final size:56
Alignment explanation
Indices: 55929031--55929143 Score: 138
Period size: 57 Copynumber: 2.0 Consensus size: 56
55929021 GGGTGATCCT
* * *
55929031 ATCTTGATATAGCCCTCCCGAAGAATATGTGTGGAAAAGATCTAGCCTGGAAGGGTG
1 ATCTTGATATAACCCTCCCGAAGAATA-GTGCGGAAAAGATCTAGCCCGGAAGGGTG
* * *
55929088 ATCTTGATATAACCCTCCCGAATAATA-TGCGGAAAATGGATTTAGCCCGGACGGGT
1 ATCTTGATATAACCCTCCCGAAGAATAGTGCGGAAAA--GATCTAGCCCGGAAGGGT
55929144 AATCCGAATT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
55 8 0.17
57 40 0.83
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (56 bp):
ATCTTGATATAACCCTCCCGAAGAATAGTGCGGAAAAGATCTAGCCCGGAAGGGTG
Found at i:55929379 original size:67 final size:67
Alignment explanation
Indices: 55929271--55929401 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
55929261 TTTATATTAC
*
55929271 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGAAGTGTGCTCTCTT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCACGGAAGTGTGCTCTCTT
55929336 GT
66 GT
* *
55929338 AGGGGATTTAGCCTGGACTGGTAATCCTGCTGTAAGAAATGAGGTTCACGGGAGTGTGCTCTCT
1 AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCACGGAAGTGTGCTCTCT
55929402 GAATTGGAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (67 bp):
AGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGAAATGAGGTTCACGGAAGTGTGCTCTCTT
GT
Found at i:55938096 original size:34 final size:35
Alignment explanation
Indices: 55938028--55938096 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
55938018 CTCATATGCA
*
55938028 TGTTGTCGGATATAGGTGTTGGATACTTAGGACAG
1 TGTTGTCGGATATAGGTGTTGGATACTTACGACAG
*
55938063 TGTTGTTGGATATAGGTGTT-GATACTTACGACAG
1 TGTTGTCGGATATAGGTGTTGGATACTTACGACAG
55938097 ATTTTTATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 13 0.41
35 19 0.59
ACGTcount: A:0.23, C:0.09, G:0.32, T:0.36
Consensus pattern (35 bp):
TGTTGTCGGATATAGGTGTTGGATACTTACGACAG
Found at i:55939030 original size:79 final size:79
Alignment explanation
Indices: 55938899--55939054 Score: 312
Period size: 79 Copynumber: 2.0 Consensus size: 79
55938889 CATAACACAG
55938899 GCAAAAGAGTGTTGCAACTTTGAAGATTAACTTAAAAGATTAATTGCAAAGCATTAAAAGAATGT
1 GCAAAAGAGTGTTGCAACTTTGAAGATTAACTTAAAAGATTAATTGCAAAGCATTAAAAGAATGT
55938964 CACGACACCAACAA
66 CACGACACCAACAA
55938978 GCAAAAGAGTGTTGCAACTTTGAAGATTAACTTAAAAGATTAATTGCAAAGCATTAAAAGAATGT
1 GCAAAAGAGTGTTGCAACTTTGAAGATTAACTTAAAAGATTAATTGCAAAGCATTAAAAGAATGT
55939043 CACGACACCAAC
66 CACGACACCAAC
55939055 TTGTAAAGGA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (79 bp):
GCAAAAGAGTGTTGCAACTTTGAAGATTAACTTAAAAGATTAATTGCAAAGCATTAAAAGAATGT
CACGACACCAACAA
Found at i:55943047 original size:39 final size:39
Alignment explanation
Indices: 55942942--55943051 Score: 98
Period size: 40 Copynumber: 2.8 Consensus size: 39
55942932 GTTTAGACAG
* *
55942942 AAAACGCCACTAAAAATTAAGC-TGTAGCGGCACTTCTATA
1 AAAACGCCGCTAAAAA-TAAGCAT-TAGCGGCAATTCTATA
* ** * **
55942982 AAAACGCCGCTGAAGGTCGATTATTAGCGGCAATT-TATA
1 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCAATTCTATA
55943021 ACAAACGCCGCTAAAAATAAGCATTAGCGGC
1 A-AAACGCCGCTAAAAATAAGCATTAGCGGC
55943052 GTCTTTATAA
Statistics
Matches: 53, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
39 16 0.30
40 36 0.68
41 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCAATTCTATA
Found at i:55943248 original size:114 final size:112
Alignment explanation
Indices: 55943044--55943756 Score: 928
Period size: 113 Copynumber: 6.3 Consensus size: 112
55943034 AAAATAAGCA
* * *
55943044 TTAGCGGCGTCTTTATAAAAGCGCCGCAAAAAGCC-AAAGACAAACGGCACCGTTTTCTGAGTTT
1 TTAGCGGCGT-TTTTTAAAAGCGCCGCAAAAAGCCTAAA-CCCAACGGCACCGTTTTCTGAGTTT
* * * *
55943108 TTGGGGTCTTTAACAGCGTTTCTGTAAAAGCGCCACTAATGCTCAGGTCT
64 TTGGGGTCTTTAGCGGCGTTTATGT-AAAGCGCCGCTAATGCTCAGGTCT
*
55943158 TTAGCGGCGTTGTTTTAAAAGCGCCGCAAAAAGTCTAAACCCAACGGCACCGTTTTCTGAG-TTT
1 TTAGCGGCGTT-TTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
* * *
55943222 TGGGGTCTTTAGTGGCGTTTTATGTAAAGTGCCGCTAATGCTCATGTCT
65 TGGGGTCTTTAGCGGCG-TTTATGTAAAGCGCCGCTAATGCTCAGGTCT
* * *
55943271 TTAGCGGCGTTTTTTTTAAAGCGCCGCAAAAAGCCTAAGCTCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCG-TTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
* * *
55943336 TGGGGTCTTTCGCGGCGTTTATGTAAAGCGCCGCTAGTGTTCAGGTCT
65 TGGGGTCTTTAGCGGCGTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
* * * *
55943384 TTAGAGGTGTTTTTTTAAATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCG-TTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
** * * * * *
55943449 TGGGGGTCTTTAGCGGCGCATCTATAAAGCACAGCTAATGCTGAGGTCT
65 T-GGGGTCTTTAGCGGCGTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
* *
55943498 TTAGAGTCGTTTTTTCAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTT-AAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
*
55943563 TGGGGTCTTTAGTGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
65 TGGGGTCTTTAGCGGCG-TTTATGTAAAGCGCCGCTAATGCTCAGGTCT
* *
55943612 TTAGCGGCGTTTTTTTAAATGCGCCGC-AAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCG-TTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
* * * * * * *
55943676 TGGGGTCTTTAGCGGCATTTCTGAATAAGCGTCGCTAATGCTGATGCCT
65 TGGGGTCTTTAGCGGCGTTTATGTA-AAGCGCCGCTAATGCTCAGGTCT
55943725 TTAGCGGCGTTTTTTATAAAGCGCCGCAAAAA
1 TTAGCGGCGTTTTTTA-AAAGCGCCGCAAAAA
55943757 CATTTTATCT
Statistics
Matches: 526, Mismatches: 61, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
112 13 0.02
113 290 0.55
114 214 0.41
115 9 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (112 bp):
TTAGCGGCGTTTTTTAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTTT
GGGGTCTTTAGCGGCGTTTATGTAAAGCGCCGCTAATGCTCAGGTCT
Found at i:55943452 original size:227 final size:226
Alignment explanation
Indices: 55943044--55943756 Score: 988
Period size: 227 Copynumber: 3.1 Consensus size: 226
55943034 AAAATAAGCA
* * * *
55943044 TTAGCGGCGTCTTTATAAAAGCGCCGCAAAAAGCCAAAGACAAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAG-CCAACGGCACCGTTTTCTGAGTTTT
* * * * *
55943109 TGGGGTCTTTAACAGCGTTTCTGTAAAAGCGCCACTAATGCTCAGGTCTTTAGCGGCGTTGTTTT
65 TGGGGTCTTTAGCGGCGTTTATGT-AAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTT
* * * *
55943174 AAAAGCGCCGCAAAAAGTCTAAACCCAACGGCACCGTTTTCTGAG-TTTTGGGGTCTTTAGTGGC
129 AAATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGC
* * *
55943238 GTTTTATGTAAAGTGCCGCTAATGCTCATGTCT
194 GATTTATGTAAAGCGCCGCTAATGCTGATGTCT
*
55943271 TTAGCGGCGTTTTTTTTAAAGCGCCGCAAAAAGCCTAAGCTCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGC-CAACGGCACCGTTTTCTGAGTTTT
* * * * *
55943336 TGGGGTCTTTCGCGGCGTTTATGTAAAGCGCCGCTAGTGTTCAGGTCTTTAGAGGTGTTTTTTTA
65 TGGGGTCTTTAGCGGCGTTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTTA
55943401 AATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGGTCTTTAGCGGC
130 AATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTT-GGGGTCTTTAGCGGC
* * * *
55943466 GCATCTA--TAAAGCACAGCTAATGCTGAGGTCT
194 G-ATTTATGTAAAGCGCCGCTAATGCTGATGTCT
* * * *
55943498 TTAGAGTCGTTTTTTCAAAAGCGCCGCAAAAAGCCTAAACCCAACGGCACCGTTTTCTGAGTTTT
1 TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCT-AAGCCAACGGCACCGTTTTCTGAGTTTT
*
55943563 TGGGGTCTTTAGTGGCGTTTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTT
65 TGGGGTCTTTAGCGGCG-TTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTT
55943628 AAATGCGCCGC-AAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGC
129 AAATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGC
* * * *
55943692 -ATTTCTGAATAAGCGTCGCTAATGCTGATGCCT
194 GATTTATGTA-AAGCGCCGCTAATGCTGATGTCT
55943725 TTAGCGGCG-TTTTTTATAAAGCGCCGCAAAAA
1 TTAGCGGCGTTTTTTTA-AAAGCGCCGCAAAAA
55943757 CATTTTATCT
Statistics
Matches: 428, Mismatches: 48, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
224 3 0.01
226 99 0.23
227 251 0.59
228 72 0.17
229 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (226 bp):
TTAGCGGCGTTTTTTTAAAAGCGCCGCAAAAAGCCTAAGCCAACGGCACCGTTTTCTGAGTTTTT
GGGGTCTTTAGCGGCGTTTATGTAAAGCGCCGCTAATGCTCAGGTCTTTAGCGGCGTTTTTTTAA
ATGCGCCGCAAAAAGCCTAAGCCCAACGGCACCGTTTTCTGAGTTTTTGGGGTCTTTAGCGGCGA
TTTATGTAAAGCGCCGCTAATGCTGATGTCT
Found at i:55944503 original size:89 final size:89
Alignment explanation
Indices: 55944327--55944570 Score: 411
Period size: 89 Copynumber: 2.8 Consensus size: 89
55944317 GGTTAGCTAG
*
55944327 GGGTTTAGGATTTAGATTAATTAGTGTTTTTT-ATTTATATATTAAATAAT-TTTAGGGGTTATG
1 GGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGG
*
55944390 GGTTAGTGATTTGGGGTCGAGTTA
66 GGTTAGTGATTCGGGGTCGAGTTA
*
55944414 GGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTGGG
1 GGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGG
*
55944479 GGTTAGTGATTCGTGGTCGAGTTA
66 GGTTAGTGATTCGGGGTCGAGTTA
* * *
55944503 GGGTTTAGGATTTAGATTAATTAGTGTTTTTTAAATTATATATTAAATAGTGTTTAGGGTTTAGG
1 GGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGG
55944568 GGT
66 GGT
55944571 GGGGTTTGGG
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
87 32 0.22
88 18 0.12
89 97 0.66
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (89 bp):
GGGTTTAGGATTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAATGTTTAGGGGTTAGG
GGTTAGTGATTCGGGGTCGAGTTA
Found at i:55948643 original size:66 final size:66
Alignment explanation
Indices: 55948514--55948683 Score: 216
Period size: 66 Copynumber: 2.6 Consensus size: 66
55948504 AGCAAATTAC
* * * * * *
55948514 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGT
1 ACAACTTAGAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
55948579 A
66 A
* * *
55948580 GCAGCTTAGAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAG
1 ACAACTTAGAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAG
55948644 CA
65 CA
* * *
55948646 ACAACTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 ACAACTTAGAGCAGATGCAGCAGCGAGAGAAGCTGAGG
55948684 CGGTAGCGAG
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
66 85 0.96
67 4 0.04
ACGTcount: A:0.40, C:0.18, G:0.29, T:0.13
Consensus pattern (66 bp):
ACAACTTAGAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGC
A
Found at i:55948679 original size:21 final size:21
Alignment explanation
Indices: 55948655--55948766 Score: 73
Period size: 21 Copynumber: 5.3 Consensus size: 21
55948645 AACAACTTAG
*
55948655 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
* *
55948676 AGCAGAGGCGGTAGCGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
* * * * *
55948697 AGTACAGGCTGCAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
* * *
55948718 AGCAGAGGCTGTAGCGAG-GCA
1 AGCAGAGGCGGCAGCAAGAG-A
* * * *
55948739 AGTAGAGGCTGCAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
55948760 AGCAGAG
1 AGCAGAG
55948767 TAGCGTCAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
20 1 0.01
21 73 0.97
22 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.44, T:0.07
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:55948724 original size:42 final size:42
Alignment explanation
Indices: 55948665--55948766 Score: 152
Period size: 42 Copynumber: 2.4 Consensus size: 42
55948655 AGCAGATGCG
* *
55948665 GCAGCAAGAGAAGCAGAGGCGGTAGCGAGAG-AAGTACAGGCT
1 GCAGCGAGGGAAGCAGAGGCGGTAGCGAG-GCAAGTACAGGCT
* *
55948707 GCAGCGAGGGAAGCAGAGGCTGTAGCGAGGCAAGTAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCGGTAGCGAGGCAAGTACAGGCT
55948749 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
55948767 TAGCGTCAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
41 1 0.02
42 54 0.98
ACGTcount: A:0.32, C:0.17, G:0.44, T:0.07
Consensus pattern (42 bp):
GCAGCGAGGGAAGCAGAGGCGGTAGCGAGGCAAGTACAGGCT
Found at i:55949212 original size:43 final size:43
Alignment explanation
Indices: 55949165--55949362 Score: 229
Period size: 43 Copynumber: 4.6 Consensus size: 43
55949155 GGTTATTTAC
* *
55949165 CGGCGTTTGTGGAAAAAGCGCCACTATAGATCAGGGTCTACTG
1 CGGCGTTTGTGGAAAAAGCGCCGCTATAGATCAGGGTCTATTG
** *
55949208 CGGCGTTT-TTTATAAAAGCGCCGCTATAGATCGGGGTCTATTG
1 CGGCGTTTGTGGA-AAAAGCGCCGCTATAGATCAGGGTCTATTG
* * * *
55949251 AGGCGTTTGCGGGAGAAGCGCCGCTATAGATC-GGTGTCTATTG
1 CGGCGTTTGTGGAAAAAGCGCCGCTATAGATCAGG-GTCTATTG
* * *
55949294 CGGCGTTTTTAGAAAAAGCGCCGCTATAGCTCAGGGTCTATTG
1 CGGCGTTTGTGGAAAAAGCGCCGCTATAGATCAGGGTCTATTG
* * *
55949337 CGGCGTTTGTAGTAAGAGCGCCGCTA
1 CGGCGTTTGTGGAAAAAGCGCCGCTA
55949363 AAAACCCCAA
Statistics
Matches: 130, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
42 4 0.03
43 124 0.95
44 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
CGGCGTTTGTGGAAAAAGCGCCGCTATAGATCAGGGTCTATTG
Found at i:55949213 original size:86 final size:85
Alignment explanation
Indices: 55949123--55949345 Score: 222
Period size: 86 Copynumber: 2.6 Consensus size: 85
55949113 GGCATTTAGT
* * *
55949123 GGCGTTTTTGGTAAAAGCGCCGCTAAAGA-GAAGGT-TATTTACCGGCGTTTGTGGAAAAAGCGC
1 GGCGTTTTTAGTAAAAGCGCCGCTAAAGACG-AGGTCTATTGA--GGCGTTTGCGGAAAAAGCGC
55949186 CACTATAGATCAGG-GTCTACTGC
63 CACTATAGATC-GGTGTCTACTGC
* * * *
55949209 GGCGTTTTTTA-TAAAAGCGCCGCTATAGATCGGGGTCTATTGAGGCGTTTGCGGGAGAAGCGCC
1 GGCG-TTTTTAGTAAAAGCGCCGCTAAAGA-CGAGGTCTATTGAGGCGTTTGCGGAAAAAGCGCC
* *
55949273 GCTATAGATCGGTGTCTATTGC
64 ACTATAGATCGGTGTCTACTGC
* * * *
55949295 GGCGTTTTTAGAAAAAGCGCCGCTATAG-CTCAGGGTCTATTGCGGCGTTTG
1 GGCGTTTTTAGTAAAAGCGCCGCTAAAGAC-GA-GGTCTATTGAGGCGTTTG
55949346 TAGTAAGAGC
Statistics
Matches: 116, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
84 1 0.01
85 8 0.07
86 93 0.80
87 8 0.07
88 6 0.05
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (85 bp):
GGCGTTTTTAGTAAAAGCGCCGCTAAAGACGAGGTCTATTGAGGCGTTTGCGGAAAAAGCGCCAC
TATAGATCGGTGTCTACTGC
Found at i:55949402 original size:43 final size:42
Alignment explanation
Indices: 55949355--55949449 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 42
55949345 GTAGTAAGAG
*
55949355 CGCCGCTAAAAACCCCAATCTTTAGCGGCGTTTCCCACAAAAA
1 CGCCGCTAAAAACCCCAATCTTTAGCGGCGCTT-CCACAAAAA
* ** * *
55949398 CGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCCACTAAAG
1 CGCCGCTAAAAACCCCAATCTTTAGCGGCGCTTCCACAAAAA
55949440 CGCCGCTAAA
1 CGCCGCTAAA
55949450 GGTCTTTGTC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
42 17 0.37
43 29 0.63
ACGTcount: A:0.28, C:0.35, G:0.18, T:0.19
Consensus pattern (42 bp):
CGCCGCTAAAAACCCCAATCTTTAGCGGCGCTTCCACAAAAA
Found at i:55961373 original size:20 final size:21
Alignment explanation
Indices: 55961348--55961386 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
55961338 TGATAAGAGA
*
55961348 TTATTAATATTA-TAATTACT
1 TTATTAATAGTAGTAATTACT
55961368 TTATTAATAGTAGTAATTA
1 TTATTAATAGTAGTAATTA
55961387 AAAAACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (21 bp):
TTATTAATAGTAGTAATTACT
Found at i:55967411 original size:19 final size:18
Alignment explanation
Indices: 55967369--55967412 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
55967359 TTACTAACAT
* *
55967369 TAATTATACAAATTAAAT
1 TAATTATAAAAATTAAAA
55967387 TAAATTATTAAAAATTAAAA
1 T-AATTA-TAAAAATTAAAA
55967407 TAATTA
1 TAATTA
55967413 AATGTGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 10 0.45
20 11 0.50
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TAATTATAAAAATTAAAA
Found at i:55974819 original size:623 final size:622
Alignment explanation
Indices: 55973634--55974880 Score: 2476
Period size: 623 Copynumber: 2.0 Consensus size: 622
55973624 CGATTATTGC
55973634 TTCGGATGGATTGATGAGTGCTGGACGCAATTTGTTTAGTTTAGGATGTATCGATGAGGCACTGG
1 TTCGGATGGATTGATGAGTGCTGGACGCAATTTGTTTAGTTTAGGATGTATCGATGAGGCACTGG
55973699 GTGCCAAATTATAGTTTTAGTAGGATCCGTAAATTAGCTTGGATTCGAGCTGTGTATTAACGAAC
66 GTGCCAAATTATAGTTTTAGTAGGATCCGTAAATTAGCTTGGATTCGAGCTGTGTATTAACGAAC
55973764 ATAAATGTTGAATACGAAGAATGTTTTGATTCAAATTGGTACCATAATGCGATATGCCGAAATGA
131 ATAAATGTTGAATACGAAGAATGTTTTGATTCAAATTGGTACCATAATGCGATATGCCGAAATGA
55973829 GTTACATACTTCGTTAGCATAAAGTGTTAATAAGTTCGTTAAAATAGATTGGTTAGTTAAAATAT
196 GTTACATACTTCGTTAGCATAAAGTGTTAATAAGTTCGTTAAAATAGATTGGTTAGTTAAAATAT
55973894 CACATTTTTTATCTGGGATACATGTGTAAATTAATGTATTTGATAAACTTTGATATGAACATACT
261 CACATTTTTTATCTGGGATACATGTGTAAATTAATGTATTTGATAAACTTTGATATGAACATACT
55973959 TTAATTGATCTAAGGAAGAAACAAATCAACTAAGTCTAATCATCTAAATTTCATGCTATATTAAG
326 TTAATTGATCTAAGGAAGAAACAAATCAACTAAGTCTAATCATCTAAATTTCATGCTATATTAAG
55974024 TGAGTTATAGTAATATCATTGGAATTATTACTCACTGTATGGTCTTGTTTTCATATGTAGGCTAG
391 TGAGTTATAGTAATATCATTGGAATTATTACTCACTGTATGGTCTTGTTTTCATATGTAGGCTAG
55974089 GTGCATTTTGAGATCTTGTACTTAAAGTCGTCAGCATCCAATCGATAAATCTTGGACTCAACAAA
456 GTGCATTTTGAGATCTTGTACTTAAAGTCGTCAGCATCCAATCGATAAATCTTGGACTCAACAAA
55974154 GTTTGTATATTTTGATTTGTTTCAAGTTGGCATGTACTTAGTTTTTAGTAAAGTCATTTGACTAT
521 GTTTGTATATTTTGATTTGTTTCAAGTTGGCATGTACTTAGTTTTTAGTAAAGTCATTTGACTAT
55974219 AGTTATTTATGTGTGACATGAAAATTTTAACTTTTGG
586 AGTTATTTATGTGTGACATGAAAATTTTAACTTTTGG
55974256 TTCGGATGGATTGATGAGTGCTGGACGCAATTTGTTTAGTTTAGGATGTATCGATGAGGCACTGG
1 TTCGGATGGATTGATGAGTGCTGGACGCAATTTGTTTAGTTTAGGATGTATCGATGAGGCACTGG
55974321 GTGCCAAATTATAGTTTTAGTAGGATCCGTAAATTAGCTTGGATTCGAGCTGTGTATTAACGAAC
66 GTGCCAAATTATAGTTTTAGTAGGATCCGTAAATTAGCTTGGATTCGAGCTGTGTATTAACGAAC
55974386 ATAAATGTTGAATACGAAGAATGTTTTGATTCAAATTGGTACCATAATGCGATATGCCGAAATGA
131 ATAAATGTTGAATACGAAGAATGTTTTGATTCAAATTGGTACCATAATGCGATATGCCGAAATGA
55974451 GTTACATACTTCGTTAGCATAAAGTGTTAATAAGTTCGTTAAAATAGATTGGTTAGTTAAAATAT
196 GTTACATACTTCGTTAGCATAAAGTGTTAATAAGTTCGTTAAAATAGATTGGTTAGTTAAAATAT
55974516 CACATTTTTTTATCTGGGATACATGTGTAAATTAATGTATTTGATAAACTTTGATATGAACATAC
261 CACA-TTTTTTATCTGGGATACATGTGTAAATTAATGTATTTGATAAACTTTGATATGAACATAC
*
55974581 TTTAATTGATCTAAGGAAGAAACAAATCAACTGAGTCTAATCATCTAAATTTCATGCTATATTAA
325 TTTAATTGATCTAAGGAAGAAACAAATCAACTAAGTCTAATCATCTAAATTTCATGCTATATTAA
55974646 GTGAGTTATAGTAATATCATTGGAATTATTACTCACTGTATGGTCTTGTTTTCATATGTAGGCTA
390 GTGAGTTATAGTAATATCATTGGAATTATTACTCACTGTATGGTCTTGTTTTCATATGTAGGCTA
55974711 GGTGCATTTTGAGATCTTGTACTTAAAGTCGTCAGCATCCAATCGATAAATCTTGGACTCAACAA
455 GGTGCATTTTGAGATCTTGTACTTAAAGTCGTCAGCATCCAATCGATAAATCTTGGACTCAACAA
55974776 AGTTTGTATATTTTGATTTGTTTCAAGTTGGCATGTACTTAGTTTTTAGTAAAGTCATTTGACTA
520 AGTTTGTATATTTTGATTTGTTTCAAGTTGGCATGTACTTAGTTTTTAGTAAAGTCATTTGACTA
55974841 TAGTTATTTATGTGTGACATGAAAATTTTAACTTTTGG
585 TAGTTATTTATGTGTGACATGAAAATTTTAACTTTTGG
55974879 TT
1 TT
55974881 GCAATAACTA
Statistics
Matches: 623, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
622 264 0.42
623 359 0.58
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (622 bp):
TTCGGATGGATTGATGAGTGCTGGACGCAATTTGTTTAGTTTAGGATGTATCGATGAGGCACTGG
GTGCCAAATTATAGTTTTAGTAGGATCCGTAAATTAGCTTGGATTCGAGCTGTGTATTAACGAAC
ATAAATGTTGAATACGAAGAATGTTTTGATTCAAATTGGTACCATAATGCGATATGCCGAAATGA
GTTACATACTTCGTTAGCATAAAGTGTTAATAAGTTCGTTAAAATAGATTGGTTAGTTAAAATAT
CACATTTTTTATCTGGGATACATGTGTAAATTAATGTATTTGATAAACTTTGATATGAACATACT
TTAATTGATCTAAGGAAGAAACAAATCAACTAAGTCTAATCATCTAAATTTCATGCTATATTAAG
TGAGTTATAGTAATATCATTGGAATTATTACTCACTGTATGGTCTTGTTTTCATATGTAGGCTAG
GTGCATTTTGAGATCTTGTACTTAAAGTCGTCAGCATCCAATCGATAAATCTTGGACTCAACAAA
GTTTGTATATTTTGATTTGTTTCAAGTTGGCATGTACTTAGTTTTTAGTAAAGTCATTTGACTAT
AGTTATTTATGTGTGACATGAAAATTTTAACTTTTGG
Found at i:55977819 original size:29 final size:29
Alignment explanation
Indices: 55977784--55977860 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
55977774 CATGAGATTG
* *
55977784 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* * **
55977813 GCACTAAGTGTGTGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
55977842 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
55977861 GATTATTAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:55985082 original size:29 final size:29
Alignment explanation
Indices: 55985047--55985123 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
55985037 CATGAGATTG
* *
55985047 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
* * **
55985076 GCACTAAGTGTGTGAGTTTAAAGTGCATG
1 GCACTAAGTGTGCGGGTTTAAAGTGCACA
55985105 GCACTAAGTGTGCGCGGTT
1 GCACTAAGTGTGCG-GGTT
55985124 GATTATTAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 36 0.92
30 3 0.08
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTTAAAGTGCACA
Found at i:55995573 original size:120 final size:120
Alignment explanation
Indices: 55995407--55996234 Score: 1597
Period size: 120 Copynumber: 6.9 Consensus size: 120
55995397 ACTAGCATCA
*
55995407 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAACATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
55995472 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
55995527 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
55995592 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
55995647 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
55995712 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
55995767 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTT
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAA-TTTTTTT
55995832 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
65 AAATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
55995888 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
55995953 AATTATATAG-TTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
55996007 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
55996072 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
66 AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
55996127 ACAGTATCATATATTATGATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTA
1 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
55996192 AATTATATA-TTGTAATTAAAATATATTTAATAATAATTATGTT
66 AATTATATAGTT-TAATTAAAATATATTTAATAATAATTATGTT
55996235 TAAATATGAT
Statistics
Matches: 702, Mismatches: 3, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
119 121 0.17
120 461 0.66
121 120 0.17
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (120 bp):
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTTTTA
AATTATATAGTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
Found at i:55996431 original size:44 final size:45
Alignment explanation
Indices: 55996382--55996472 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
55996372 ACCTCTATTC
* * *
55996382 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
55996426 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
55996471 CA
1 CA
55996473 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:55996474 original size:16 final size:16
Alignment explanation
Indices: 55996453--55996521 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
55996443 GATTAGCTAT
55996453 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
55996469 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
55996486 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
55996502 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
55996518 TACA
1 TACA
55996522 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:55996495 original size:33 final size:32
Alignment explanation
Indices: 55996453--55996521 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
55996443 GATTAGCTAT
55996453 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
55996486 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
55996518 TACA
1 TACA
55996522 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:56006236 original size:17 final size:18
Alignment explanation
Indices: 56006198--56006236 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
56006188 ATTAAATGAA
56006198 AATTATCTCAATTAAAAT
1 AATTATCTCAATTAAAAT
*
56006216 -ATTATTTCAA-TAAAAT
1 AATTATCTCAATTAAAAT
56006232 AATTA
1 AATTA
56006237 AATTTCACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTATCTCAATTAAAAT
Found at i:56012633 original size:29 final size:29
Alignment explanation
Indices: 56012600--56012693 Score: 109
Period size: 29 Copynumber: 3.2 Consensus size: 29
56012590 ATAGTCCAAA
56012600 TACCACATTGGAA-ATTTTCAAAGTACAAG
1 TACCACATT-GAACATTTTCAAAGTACAAG
* *
56012629 TACCACATTGAACATTTTCAAAGTATAAA
1 TACCACATTGAACATTTTCAAAGTACAAG
* * *
56012658 TATCACATTGAACATTTTATAAAAATACAAG
1 TACCACATTGAACA-TTT-TCAAAGTACAAG
56012689 TACCA
1 TACCA
56012694 AATGTGATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 3 0.06
29 36 0.67
30 3 0.06
31 12 0.22
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.30
Consensus pattern (29 bp):
TACCACATTGAACATTTTCAAAGTACAAG
Found at i:56014194 original size:21 final size:19
Alignment explanation
Indices: 56014132--56014212 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 19
56014122 TAAATTAATG
* *
56014132 AATTAATTGTAGATAAACTT
1 AATTAATTTTAGTTAAA-TT
56014152 -ATTACATTTTAGTTAAATT
1 AATTA-ATTTTAGTTAAATT
*
56014171 AATTAATTTTATTTATATATT
1 AATTAATTTTAGTTA-A-ATT
**
56014192 AATTAATTTTAAATAAATT
1 AATTAATTTTAGTTAAATT
56014211 AA
1 AA
56014213 AATTACATAC
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
19 20 0.38
20 16 0.31
21 16 0.31
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (19 bp):
AATTAATTTTAGTTAAATT
Found at i:56016525 original size:15 final size:15
Alignment explanation
Indices: 56016500--56016534 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
56016490 AACACTATTT
*
56016500 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
56016514 TAATTAATATTAAGA
1 TAATTAATATTAAGA
56016529 TAATTA
1 TAATTA
56016535 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:56020457 original size:13 final size:12
Alignment explanation
Indices: 56020439--56020514 Score: 62
Period size: 13 Copynumber: 5.8 Consensus size: 12
56020429 GGCAACCCAA
56020439 TTTTTATTCTTAT
1 TTTTTATT-TTAT
56020452 TTTTTATTTTCAT
1 TTTTTATTTT-AT
*
56020465 TATTTATTTATTATT
1 TTTTTA-TT-TTA-T
*
56020480 TTCTTTACTTTAT
1 TT-TTTATTTTAT
*
56020493 TTATTATTTTAT
1 TTTTTATTTTAT
56020505 TTTATTATTT
1 TTT-TTATTT
56020515 ATTACTTAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
12 12 0.24
13 24 0.47
14 6 0.12
15 5 0.10
16 4 0.08
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:56020473 original size:20 final size:21
Alignment explanation
Indices: 56020448--56020518 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 21
56020438 ATTTTTATTC
*
56020448 TTATTTTTTATTTTCATTA-T
1 TTATTTATTATTTTCATTACT
*
56020468 TTATTTATTATTTTCTTTACT
1 TTATTTATTATTTTCATTACT
*
56020489 TTATTTATTATTTT-ATT-TT
1 TTATTTATTATTTTCATTACT
56020508 ATTATTTATTA
1 -TTATTTATTA
56020519 CTTAATACTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 29 0.64
21 15 0.33
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTTATTATTTTCATTACT
Found at i:56022146 original size:15 final size:15
Alignment explanation
Indices: 56022121--56022155 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
56022111 AACTCTATTT
*
56022121 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
56022135 TAATTAATATTAAGA
1 TAATTAATATTAAGA
56022150 TAATTA
1 TAATTA
56022156 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:56023917 original size:27 final size:27
Alignment explanation
Indices: 56023860--56023918 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
56023850 ACTAAGAATA
*
56023860 GCCTTTGTGGCGAACTCTGAAAGAAAT
1 GCCTTTGTGGCGAACTCTGAAAGAAAC
* * *
56023887 GCCTTTGTGGCGAATTCTGAATGGAAC
1 GCCTTTGTGGCGAACTCTGAAAGAAAC
56023914 GCCTT
1 GCCTT
56023919 GGTGATGTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (27 bp):
GCCTTTGTGGCGAACTCTGAAAGAAAC
Found at i:56033991 original size:44 final size:44
Alignment explanation
Indices: 56033895--56034739 Score: 355
Period size: 44 Copynumber: 19.5 Consensus size: 44
56033885 AAGATGGCGA
* ***
56033895 ATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATGATAG
* * *
56033939 ATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAATGATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * * *** *
56033983 ATCTTATCTCTCTGAAGTTGCAG-AGAGCATA-TCGCAT-CTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * * * *
56034024 -TCTTATCTTCCTAAAGTCGCAGTGGAGCAGACTGAGTAA-GCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAATG-ATAG
* * **
56034068 -TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATG-GCG
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATGATAG
* **
56034111 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCAATA-
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-TGATAG
* * *
56034156 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGATAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * *** *
56034200 ATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCAT-CTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * *
56034241 -TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATG-ATAG
* * * * *
56034286 -TCTTATCCCCCTGAAATTACAGTGGGGCAGACTGAATAA-GCA-A-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATG-ATAG
* * * ** * * *
56034329 ATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAACGATGG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * * ** * * *
56034373 ATCTTATCTCTCTAAAGTTGTAGTAAAGCAGA-TCATATCA-A-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * ***
56034414 ATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ATGATAG
* * * * *
56034458 ATCATATCTCCCTGAAGTTGCAATAGAGCAGATTAAAGTGATAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * * * *** *
56034502 ATCTTATCTCTCTGAATTTGCAG-AGATCAGA-TCGCAT-CTAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* *
56034543 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAA-AATG-ATAG
* * *
56034588 -TCTTATCCCCCTGAAATTGCAGTGG-GCCAGACTGAATAA-GCA-A-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGA-TTAA-AATG-ATAG
* * * ** *
56034631 ATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATGAT-G
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
* * * * *
56034674 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATATCA-A-
1 -ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
*
56034716 ATCTTATCTCCCTGAAATTGCAGT
1 ATCTTATCTCCCTGAAGTTGCAGT
56034740 AGAGTAGAAA
Statistics
Matches: 592, Mismatches: 163, Indels: 95
0.70 0.19 0.11
Matches are distributed among these distances:
40 58 0.10
41 74 0.12
42 15 0.03
43 46 0.08
44 301 0.51
45 95 0.16
46 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGATAG
Found at i:56034269 original size:217 final size:218
Alignment explanation
Indices: 56033871--56034356 Score: 742
Period size: 217 Copynumber: 2.2 Consensus size: 218
56033861 GACTAGCTGA
* * *
56033871 AGTGGGGCAGATTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCA
1 AGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAACCA
56033936 ATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTGAAGT
66 ATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTGAAGT
* * * * *
56034001 TGCAGAGAGCATATCGCATCTAGTCTTATCTTCCTAAAGTCGCAGTGGAGCAGACT-GAGTAAGC
131 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTCGCAATGGAGCAGACTCAAGAAAGC
* * *
56034065 AAGTCTTATCCTCCTGAAGTTGC
196 AAGTCTTATCCCCCTGAAATTAC
* *
56034088 AGTGAGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCA
1 AGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAACCA
* * * *
56034153 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGATAGATCTTATCTCTCTGAAGT
66 ATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTGAAGT
* *
56034218 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTCAAGAAAGC
131 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTCGCAATGGAGCAGACTCAAGAAAGC
56034283 AAGTCTTATCCCCCTGAAATTAC
196 AAGTCTTATCCCCCTGAAATTAC
* * * * *
56034306 AGTGGGGCAGACTGAATA-AGCAAATCCTATCTCCCTAAAGTTGTAGTGGAG
1 AGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAG
56034357 TGGATTAGAA
Statistics
Matches: 242, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
217 200 0.83
218 42 0.17
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (218 bp):
AGTGGGGCAGACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAAATTAAAACCA
ATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAATGATAGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTAAAGTCGCAATGGAGCAGACTCAAGAAAGC
AAGTCTTATCCCCCTGAAATTAC
Found at i:56034458 original size:302 final size:302
Alignment explanation
Indices: 56034111--56034731 Score: 1071
Period size: 302 Copynumber: 2.1 Consensus size: 302
56034101 GAAGATGGCG
* *
56034111 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAACCAATAATCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAACCAATAATCATATCTCCCTGAAGTTG
* * * *
56034176 CAGTGGAGCGGATTAAAGTGATAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
66 CAATAGAGCAGATTAAAGTGATAAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
56034241 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTAC
131 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTAC
*
56034306 AGTGGGGCAGACTGAATAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAACGAT
196 AGTGGGCCAGACTGAATAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAACGAT
* *
56034371 GGATCTTATCTCTCTAAAGTTGTAGTAAAGCAGATCATATCA
261 GAATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATCATATCA
* * *
56034413 AATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCATATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAACCAATAATCATATCTCCCTGAAGTTG
* *
56034478 CAATAGAGCAGATTAAAGTGATAAATCTTATCTCTCTGAATTTGCAGAGATCAGATCGCATCTAG
66 CAATAGAGCAGATTAAAGTGATAAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
* *
56034543 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTGC
131 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTAC
*
56034608 AGTGGGCCAGACTGAATAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATGAT
196 AGTGGGCCAGACTGAATAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAACGAT
* *
56034673 GAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCA
261 GAATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATCATATCA
56034715 AATCTTATCTCCCTGAA
1 AATCTTATCTCCCTGAA
56034732 ATTGCAGTAG
Statistics
Matches: 299, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
302 299 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (302 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAACCAATAATCATATCTCCCTGAAGTTG
CAATAGAGCAGATTAAAGTGATAAATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAG
TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTAC
AGTGGGCCAGACTGAATAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAACGAT
GAATCTTATCTCTCTAAAGTTGCAGTAAAGCAGATCATATCA
Found at i:56034599 original size:173 final size:169
Alignment explanation
Indices: 56033896--56034743 Score: 590
Period size: 173 Copynumber: 4.9 Consensus size: 169
56033886 AGATGGCGAA
* * * *
56033896 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
1 TCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAATCCTATCTCCCTGAAGTTGCA
* *
56033961 GTGGAGCAGATTAAAATGATAGATCTTATCTCTCTGAAGTTGCAG-AGAGCATATCGCATCTAGT
65 GTGGAGCAGATT-AAATGATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGT
* * * *
56034025 CTTATCTTCCTAAAGTCGCAGTGGAGCAGA-CTGAGTAAGCAAG
129 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-GA--AAGCAAG
* * * *
56034068 TCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGC--GAATCTTATCTCCCTGAAGT
1 TCTTATCCCCCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAATAATCCTATCTCCCTGAAGT
* ** * * * * ***
56034130 TGCAGTGGAGCAAATTAAAACCA-ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAG
61 TGCAGTGGAGCAGATT-AAATGATA-AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA-
* * * * *
56034194 TGATAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCG-CATCTAG
123 T-CTAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAAGCAAG
* * * * * * * * * *
56034241 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTCAAGAAAGCAAGTCTTATCCCCCTGAAATTAC
1 TCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-TAA-TCCTATCTCCCTGAAGTTGC
* * * * * * * * * * ** * *
56034306 AGTGGGGCAGACTGAATAAGCAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAG-AACGA
64 AGTGGAGCAGATTAAATGA-TAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCGCATC--
* * * * * * * *
56034370 TGGATCTTATCTCTCTAAAGTTGTAGTAAAGCAGATC-ATATCAAA
125 TAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAAGCAAG
* *
56034415 TCTTATCCCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAATAATCATATCTCCCTGAAGTTGCA
1 TCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAATCCTATCTCCCTGAAGTTGCA
* * * *
56034480 ATAGAGCAGATTAAAGTGATAAATCTTATCTCTCTGAATTTGCAG-AGATCAGATCGCATCTAGT
65 GTGGAGCAGATTAAA-TGATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGT
*
56034544 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG
129 CTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TC--GAAAGCAAG
* * *
56034588 TCTTATCCCCCTGAAATTGCAGTGG-GCCAGACTGAATAAGC-A-AATCCTATCTCCCTAAAGTT
1 TCTTATCCCCCTGAAGTTGCAGTGGAG-CAGA-T-TA-AAGCAATAATCCTATCTCCCTGAAGTT
* ** * ** *
56034650 GTAGTGGAGTGGATTAGAATGATGAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCA
62 GCAGTGGAGCAGATTA-AATGATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCT
* *
56034715 AATCTTATCTCCCTGAAATTGCAGTAGAG
126 AGTCTTATCTCCCTGAAGTTGCAGTAGAG
56034744 TAGAAAACCA
Statistics
Matches: 523, Mismatches: 117, Indels: 70
0.74 0.16 0.10
Matches are distributed among these distances:
169 27 0.05
170 4 0.01
171 5 0.01
172 39 0.07
173 305 0.58
174 103 0.20
175 6 0.01
176 15 0.03
177 19 0.04
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (169 bp):
TCTTATCCCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAATCCTATCTCCCTGAAGTTGCAG
TGGAGCAGATTAAATGATAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCTAGTCT
TATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAAGCAAG
Found at i:56036283 original size:26 final size:26
Alignment explanation
Indices: 56036248--56036298 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
56036238 AACAATGCAC
*
56036248 TTATTATTTTTATAACCTATATATAA
1 TTATTATTTTCATAACCTATATATAA
*
56036274 TTATTATTTTCATAATCTATATATA
1 TTATTATTTTCATAACCTATATATA
56036299 TATATACATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (26 bp):
TTATTATTTTCATAACCTATATATAA
Found at i:56055006 original size:48 final size:48
Alignment explanation
Indices: 56054939--56055121 Score: 303
Period size: 48 Copynumber: 3.8 Consensus size: 48
56054929 TGCGGGAGTA
* * * *
56054939 GGGGGTTTATATGGGGGAGTAGGAGCCTTGGTTGGTGGTGCTGGTGCT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
* *
56054987 GGGGGCTTAAATGGTGGAGTTGGAGCCTTGGTTGGTGGTGCAGGAGCT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
56055035 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
*
56055083 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
1 GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
56055122 TTATATGGTG
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.13, C:0.09, G:0.49, T:0.30
Consensus pattern (48 bp):
GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGTGCAGGAGCT
Found at i:56055049 original size:27 final size:27
Alignment explanation
Indices: 56055019--56055108 Score: 68
Period size: 27 Copynumber: 3.6 Consensus size: 27
56055009 GAGCCTTGGT
*
56055019 TGGTGGTGCAGGAGCTGGGGGCTTATA
1 TGGTGGAGCAGGAGCTGGGGGCTTATA
* *
56055046 TGGTGGAGTAGGAGC------CTTGGT-
1 TGGTGGAGCAGGAGCTGGGGGCTT-ATA
* *
56055067 TGGTGGTGCAGGAGCTGGGGGTTTATA
1 TGGTGGAGCAGGAGCTGGGGGCTTATA
*
56055094 TGGTGGAGTAGGAGC
1 TGGTGGAGCAGGAGC
56055109 CTTGGTTGGT
Statistics
Matches: 46, Mismatches: 9, Indels: 16
0.65 0.13 0.23
Matches are distributed among these distances:
21 16 0.35
22 1 0.02
26 1 0.02
27 28 0.61
ACGTcount: A:0.16, C:0.09, G:0.49, T:0.27
Consensus pattern (27 bp):
TGGTGGAGCAGGAGCTGGGGGCTTATA
Found at i:56055128 original size:33 final size:33
Alignment explanation
Indices: 56055083--56055162 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
56055073 TGCAGGAGCT
*
56055083 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTT
1 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTA
* * *
56055116 GGTGGTTTATATGGTGGAGTGGGGGCCTTGGTA
1 GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTA
56055149 GGGGGTTTATATGG
1 GGGGGTTTATATGG
56055163 AGTGGGGCCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.14, C:0.05, G:0.47, T:0.34
Consensus pattern (33 bp):
GGGGGTTTATATGGTGGAGTAGGAGCCTTGGTA
Found at i:56055166 original size:30 final size:31
Alignment explanation
Indices: 56055082--56055184 Score: 109
Period size: 33 Copynumber: 3.2 Consensus size: 31
56055072 GTGCAGGAGC
* *
56055082 TGGGGGTTTATATGGTGGAGTAGGAGCCTTGGT
1 TGGGGGTTTATA--GTGGAGTGGGGGCCTTGGT
*
56055115 TGGTGGTTTATATGGTGGAGTGGGGGCCTTGGT
1 TGGGGGTTTATA--GTGGAGTGGGGGCCTTGGT
* * *
56055148 AGGGGGTTTATA-TGGAGTGGGGCCCTTAGT
1 TGGGGGTTTATAGTGGAGTGGGGGCCTTGGT
56055178 TGGGGGT
1 TGGGGGT
56055185 GCTGGAGTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
30 22 0.35
33 40 0.65
ACGTcount: A:0.13, C:0.07, G:0.48, T:0.33
Consensus pattern (31 bp):
TGGGGGTTTATAGTGGAGTGGGGGCCTTGGT
Found at i:56057356 original size:25 final size:25
Alignment explanation
Indices: 56057308--56057358 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
56057298 TGATCATTAA
* **
56057308 TATCAATAGGCAATATTTTTCTATC
1 TATCAATACGCAATATTTCACTATC
56057333 TATCAATACGCAATATTTCACTATC
1 TATCAATACGCAATATTTCACTATC
56057358 T
1 T
56057359 CAATTTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.20, G:0.06, T:0.41
Consensus pattern (25 bp):
TATCAATACGCAATATTTCACTATC
Found at i:56057831 original size:23 final size:23
Alignment explanation
Indices: 56057742--56057831 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
56057732 ACCTGATCAG
56057742 TATACGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
** *
56057764 -A-ACGACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
56057785 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
56057808 TATACGACGCATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
56057831 T
1 T
56057832 CGACAAAACC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.14
21 10 0.17
22 1 0.02
23 39 0.67
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:56059113 original size:23 final size:23
Alignment explanation
Indices: 56059087--56059133 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
56059077 AATAAGTATG
56059087 TACATATATTAATTATAAATGTA
1 TACATATATTAATTATAAATGTA
* *
56059110 TACATATATTTATTATACATGTA
1 TACATATATTAATTATAAATGTA
56059133 T
1 T
56059134 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (23 bp):
TACATATATTAATTATAAATGTA
Found at i:56059128 original size:15 final size:15
Alignment explanation
Indices: 56059108--56059137 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56059098 ATTATAAATG
56059108 TATACATATATTTAT
1 TATACATATATTTAT
*
56059123 TATACATGTATTTAT
1 TATACATATATTTAT
56059138 AATTACCTCA
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:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (15 bp):
TATACATATATTTAT
Found at i:56061869 original size:34 final size:34
Alignment explanation
Indices: 56061738--56061857 Score: 204
Period size: 34 Copynumber: 3.5 Consensus size: 34
56061728 TAAAAGTTAT
*
56061738 ATGATTTACATGGTTTATAAGTTACATAAAATAC
1 ATGATTTACATGGTTTATAAGTTACATGAAATAC
*
56061772 ATGATTTACATGGTTTATAAGTTATATGAAATAC
1 ATGATTTACATGGTTTATAAGTTACATGAAATAC
*
56061806 ATGATTTACATGGTTTATAAGCTACATGAAATAC
1 ATGATTTACATGGTTTATAAGTTACATGAAATAC
*
56061840 ATGATTTACATGGATTAT
1 ATGATTTACATGGTTTAT
56061858 TTGTTATATG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.39
Consensus pattern (34 bp):
ATGATTTACATGGTTTATAAGTTACATGAAATAC
Found at i:56064488 original size:30 final size:30
Alignment explanation
Indices: 56064447--56064506 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
56064437 GAATTAAAAA
*
56064447 TTAACTATGAATGTTTTGTAAAACTTTGAT
1 TTAAATATGAATGTTTTGTAAAACTTTGAT
56064477 TTAAATATGAATGTTTTGTAAAACTTTGAT
1 TTAAATATGAATGTTTTGTAAAACTTTGAT
56064507 CATACTAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (30 bp):
TTAAATATGAATGTTTTGTAAAACTTTGAT
Found at i:56071294 original size:44 final size:45
Alignment explanation
Indices: 56071199--56071313 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
56071189 ACAGGACAGA
* * *
56071199 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGACATTGGAG
* *
56071245 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGACATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
* **
56071289 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
56071314 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGACATTGGAG
Found at i:56075881 original size:4 final size:4
Alignment explanation
Indices: 56075872--56075925 Score: 56
Period size: 4 Copynumber: 12.5 Consensus size: 4
56075862 GCTGAAGGAG
56075872 AAGA AAGA AAGA GAAGA AAGA AA-A AAGA AAGAA AAGGA AATGA GAAGA
1 AAGA AAGA AAGA -AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA
56075920 AAGA AA
1 AAGA AA
56075926 AATAAAGAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
3 3 0.07
4 24 0.55
5 14 0.32
6 3 0.07
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.02
Consensus pattern (4 bp):
AAGA
Found at i:56075920 original size:31 final size:29
Alignment explanation
Indices: 56075878--56075962 Score: 107
Period size: 30 Copynumber: 2.8 Consensus size: 29
56075868 GGAGAAGAAA
56075878 GAAAGAGAAGAAAGAAAAAAGAAAGAAAAG
1 GAAAGAGAAGAAAG-AAAAAGAAAGAAAAG
*
56075908 GAAATGAGAAGAAAGAAAAATAAAGAAAAG
1 GAAA-GAGAAGAAAGAAAAAGAAAGAAAAG
* * *
56075938 GAAAGGAGAATAAAGGAAAGGAAAG
1 GAAA-GAGAAGAAAGAAAAAGAAAG
56075963 GAGAAGAAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 38 0.79
31 10 0.21
ACGTcount: A:0.68, C:0.00, G:0.28, T:0.04
Consensus pattern (29 bp):
GAAAGAGAAGAAAGAAAAAGAAAGAAAAG
Found at i:56075935 original size:24 final size:22
Alignment explanation
Indices: 56075869--56075935 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 22
56075859 TCGGCTGAAG
* *
56075869 GAGAAGAAAGAAAGAGAAGAAA
1 GAGAAGAAAGAAAAAAAAGAAA
*
56075891 GA-AA-AAAGAAAGAAAAGGAAA
1 GAGAAGAAAGAAA-AAAAAGAAA
56075912 TGAGAAGAAAGAAAAATAAAGAAA
1 -GAGAAGAAAGAAAAA-AAAGAAA
56075936 AGGAAAGGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 7 0.19
21 8 0.22
22 4 0.11
23 4 0.11
24 13 0.36
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.03
Consensus pattern (22 bp):
GAGAAGAAAGAAAAAAAAGAAA
Found at i:56075941 original size:20 final size:20
Alignment explanation
Indices: 56075918--56075962 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
56075908 GAAATGAGAA
56075918 GAAAGAAAAATAAAGAAAAG
1 GAAAGAAAAATAAAGAAAAG
* * *
56075938 GAAAGGAGAATAAAGGAAAG
1 GAAAGAAAAATAAAGAAAAG
56075958 GAAAG
1 GAAAG
56075963 GAGAAGAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (20 bp):
GAAAGAAAAATAAAGAAAAG
Found at i:56075963 original size:20 final size:20
Alignment explanation
Indices: 56075926--56075985 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
56075916 AAGAAAGAAA
56075926 AATAAAGAAAAGGAAAGGAG
1 AATAAAGAAAAGGAAAGGAG
*
56075946 AATAAAGGAAAGGAAAGGAG
1 AATAAAGAAAAGGAAAGGAG
* *
56075966 AA-GAAGAAAAAG-AAGGAG
1 AATAAAGAAAAGGAAAGGAG
56075984 AA
1 AA
56075986 AGAGGCGCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 21 0.58
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (20 bp):
AATAAAGAAAAGGAAAGGAG
Found at i:56076322 original size:15 final size:16
Alignment explanation
Indices: 56076290--56076323 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
56076280 AAATAGCATT
56076290 AAAAATAAAATACTGA
1 AAAAATAAAATACTGA
56076306 AAAAATAAAATAC-GA
1 AAAAATAAAATACTGA
56076321 AAA
1 AAA
56076324 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAAATAAAATACTGA
Found at i:56076328 original size:17 final size:17
Alignment explanation
Indices: 56076292--56076389 Score: 62
Period size: 17 Copynumber: 5.8 Consensus size: 17
56076282 ATAGCATTAA
56076292 AAATAAAATACTG-AAA-
1 AAATAAAATAC-GAAAAT
56076308 AAATAAAATACGAAAAT
1 AAATAAAATACGAAAAT
* *
56076325 AAATAAAAAACAAAAAT
1 AAATAAAATACGAAAAT
* ** *
56076342 -AGTATATTTACTG-AAAG
1 AAATA-AAATAC-GAAAAT
*
56076359 AAATAAAATTCGAAAAT
1 AAATAAAATACGAAAAT
56076376 AAGA-AAAATACGAA
1 AA-ATAAAATACGAA
56076390 CAAAGGGCCA
Statistics
Matches: 61, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
15 1 0.02
16 18 0.30
17 38 0.62
18 4 0.07
ACGTcount: A:0.66, C:0.06, G:0.08, T:0.19
Consensus pattern (17 bp):
AAATAAAATACGAAAAT
Found at i:56076637 original size:158 final size:159
Alignment explanation
Indices: 56076320--56076897 Score: 864
Period size: 158 Copynumber: 3.7 Consensus size: 159
56076310 ATAAAATACG
* * * ** * * *
56076320 AAAATAAATAAAAAACAAAAATAGTATATTTACTGAAAGAAATAAAATTCGA-AAATAAGAAAAA
1 AAAAT-AATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAGAAAAA
*
56076384 TACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTA-A-AAAACACACACTAAATTAATA
65 TACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATA
* *
56076447 CATTTCAAACATAATGTAGTAAGATAATAT
130 CATTTCAAACATAATGTACTAAAATAATAT
56076477 AAAATAATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAGAAAAAT
1 AAAATAATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAGAAAAAT
56076542 AC-AA-AAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATA
66 ACGAACAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATA
*
56076605 AATTTCAAACATAATGTACTAAAATAATAT
130 CATTTCAAACATAATGTACTAAAATAATAT
*
56076635 AAAATAATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATTCAAGAAAAAAGAAAAAT
1 AAAATAATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAGAAAAAT
* *
56076700 AC-AA-AAAGGGCCAAAATAAGGGTTTTTTTACTAAATTTATTTAAAATACACACTAAATTAATA
66 ACGAACAAAGGGCCAAAATAAGGG-TTTTTTACTAAATTTATATAAAAAACACACTAAATTAATA
56076763 CATTTCAAACATAATGTACTAAAATAATAT
130 CATTTCAAACATAATGTACTAAAATAATAT
* * *
56076793 AAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATCCGGGAAAAAATGAAAAA
1 AAAATAATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAA-GAAAAA
* * * * *
56076858 TACGAATAAATGGTCAAAATAAGGGGTTTTTACTATATTT
65 TACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTT
56076898 GTTTTGAAGT
Statistics
Matches: 390, Mismatches: 24, Indels: 11
0.92 0.06 0.03
Matches are distributed among these distances:
155 18 0.05
156 57 0.15
157 20 0.05
158 255 0.65
159 9 0.02
160 15 0.04
161 16 0.04
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (159 bp):
AAAATAATAAAATACGAAAATAATATATTTTTTAAAAGTAATAAAATTCGAGAAAAAAGAAAAAT
ACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAACACACTAAATTAATAC
ATTTCAAACATAATGTACTAAAATAATAT
Found at i:56079061 original size:40 final size:40
Alignment explanation
Indices: 56079001--56079098 Score: 187
Period size: 40 Copynumber: 2.4 Consensus size: 40
56078991 GAATTATTTC
56079001 AAATGAATTATACTTTTTACAACTTAATTTGGAAACCATAT
1 AAAT-AATTATACTTTTTACAACTTAATTTGGAAACCATAT
56079042 AAATAATTATACTTTTTACAACTTAATTTGGAAACCATAT
1 AAATAATTATACTTTTTACAACTTAATTTGGAAACCATAT
56079082 AAATAATTATACTTTTT
1 AAATAATTATACTTTTT
56079099 TGCATTATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 53 0.93
41 4 0.07
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (40 bp):
AAATAATTATACTTTTTACAACTTAATTTGGAAACCATAT
Found at i:56082165 original size:37 final size:39
Alignment explanation
Indices: 56082082--56082170 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 39
56082072 AATAACTAAC
**
56082082 ACAATAATAATAGTTTTTTACTAAAAATAATACTAACTA
1 ACAATAATAATAGGGTTTTACTAAAAATAATACTAACTA
56082121 ACAATAATAATTAGGGTTTTACTAAAAATAATAACTAA-TA
1 ACAATAATAA-TAGGGTTTTACTAAAAATAAT-ACTAACTA
*
56082161 ATAAT-ATAAT
1 ACAATAATAAT
56082171 GTAAAAACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
38 1 0.02
39 14 0.31
40 25 0.56
41 5 0.11
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (39 bp):
ACAATAATAATAGGGTTTTACTAAAAATAATACTAACTA
Found at i:56082275 original size:41 final size:40
Alignment explanation
Indices: 56082096--56082291 Score: 117
Period size: 40 Copynumber: 4.9 Consensus size: 40
56082086 TAATAATAGT
* *
56082096 TTTTTACTAAAAATAATACTAACTAACAATAATAATTA-GG
1 TTTTTACTAACAATAATACTAACTAA-AATAATAATTACAG
* *
56082136 GTTTTACTAAAAATAATAACTAA-TAATAAT-ATAATGTA-A-
1 TTTTTACTAACAATAAT-ACTAACTAA-AATAATAAT-TACAG
** *
56082175 ---AAACTAACAATCATACTAACTAAAATAATAATTACAG
1 TTTTTACTAACAATAATACTAACTAAAATAATAATTACAG
* * *
56082212 TTTTTACTAATC-CTAATAACTAACCATACTAATAAT-ATTA-AT
1 TTTTTACTAA-CAATAAT-ACTAA-C-TA-AAATAATAATTACAG
* *
56082254 TTTTTACTAACAATAATACTAAGTAACAATAATTATTA
1 TTTTTACTAACAATAATACTAACTAA-AATAATAATTA
56082292 ATAACTAAAC
Statistics
Matches: 123, Mismatches: 16, Indels: 34
0.71 0.09 0.20
Matches are distributed among these distances:
35 10 0.08
36 19 0.15
39 13 0.11
40 36 0.29
41 17 0.14
42 16 0.13
43 6 0.05
44 6 0.05
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (40 bp):
TTTTTACTAACAATAATACTAACTAAAATAATAATTACAG
Found at i:56082523 original size:20 final size:20
Alignment explanation
Indices: 56082478--56082523 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
56082468 TTCTTCTCTT
*
56082478 TCTTTCTCCTTTCTCTTTTC
1 TCTTTCTCCTTTCTCTTTTA
*
56082498 TCTTTCTCTCTTTTTCTTTTA
1 TCTTTCTC-CTTTCTCTTTTA
56082519 T-TTTC
1 TCTTTC
56082524 CAGCACAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (20 bp):
TCTTTCTCCTTTCTCTTTTA
Found at i:56083959 original size:13 final size:13
Alignment explanation
Indices: 56083943--56083973 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
56083933 TTTTAGTTTT
56083943 TTATTTTTTAAAA
1 TTATTTTTTAAAA
56083956 TTATTTTTTAAAA
1 TTATTTTTTAAAA
56083969 TTATT
1 TTATT
56083974 CTAAAACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTTTTTAAAA
Found at i:56086650 original size:28 final size:27
Alignment explanation
Indices: 56086617--56086700 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 27
56086607 TTAATGTTCG
56086617 GGGTTTAAGGTTTGAGATTTTAGATTTA
1 GGGTTTAAGGTTT-AGATTTTAGATTTA
** *
56086645 GGGTTTAATTTTTAAGATTTTATATTTA
1 GGGTTTAAGGTTT-AGATTTTAGATTTA
* *
56086673 GAGTTTAAGGTTTAGTATTTTAGGTTTA
1 GGGTTTAAGGTTTAG-ATTTTAGATTTA
56086701 AAATTCAAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
27 2 0.04
28 44 0.96
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (27 bp):
GGGTTTAAGGTTTAGATTTTAGATTTA
Found at i:56086691 original size:21 final size:20
Alignment explanation
Indices: 56086663--56086701 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
56086653 TTTTTAAGAT
56086663 TTTATA-TTTAGAGTTTAAGG
1 TTTATATTTTAG-GTTTAAGG
56086683 TTTAGTATTTTAGGTTTAA
1 TTTA-TATTTTAGGTTTAA
56086702 AATTCAAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 8 0.47
22 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.18, T:0.54
Consensus pattern (20 bp):
TTTATATTTTAGGTTTAAGG
Found at i:56087105 original size:49 final size:49
Alignment explanation
Indices: 56087028--56087124 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
56087018 TTATGCTATG
* * *
56087028 CATTTCTAAACTTGGTCTTCCACTGTCTATACTCTTATCTA-TATTTATA
1 CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATC-ACTATTTATA
56087077 CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
1 CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTAT
56087125 CCTTTCTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCACTGTCTACACTCTTATCACTATTTATA
Found at i:56088448 original size:43 final size:43
Alignment explanation
Indices: 56088400--56088485 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
56088390 TCATATTTCA
* * *
56088400 TTTCTCGTCTCATAATCATTTCTCATATTTGCCTTTTCAATAT
1 TTTCTCATCTAATAATCATTTCTCATATTTGCCATTTCAATAT
* *
56088443 TTTCTCATCTAATATTCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTAATAATCATTTCTCATATTTGCCATTTCAATAT
56088486 CAATCACATA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.22, C:0.23, G:0.03, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTAATAATCATTTCTCATATTTGCCATTTCAATAT
Found at i:56089688 original size:25 final size:24
Alignment explanation
Indices: 56089644--56089690 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
56089634 TTGTTTCATC
56089644 TTTCTTTCTATTTCTTTATTATGT
1 TTTCTTTCTATTTCTTTATTATGT
56089668 TTTCATTT-TATTATCTTTATTAT
1 TTTC-TTTCTATT-TCTTTATTAT
56089691 TATTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTATTTCTTTATTATGT
Found at i:56104731 original size:30 final size:29
Alignment explanation
Indices: 56104697--56104752 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
56104687 AAAAGACCGT
56104697 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
56104726 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
56104753 ATTTTCCGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:56109631 original size:39 final size:40
Alignment explanation
Indices: 56109588--56109755 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
56109578 CTCGTTCAAG
* * * *
56109588 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
56109627 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
56109667 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
56109707 GGCCTTCGGGACTTAACCCGGAATTA-ATAACGCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
56109747 TGCCTTCGG
1 TGCCTTCGG
56109756 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
39 26 0.24
40 80 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:56109743 original size:80 final size:80
Alignment explanation
Indices: 56109623--56109808 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
56109613 AGTAACTCAT
* * * *
56109623 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACGCGCACAAATGCCTTC-GGATCTTAACCCG
*
56109687 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
56109702 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACGCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACGCGCACAAATGCCTTCGGATCTTAACCC
56109766 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
56109783 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
56109809 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 71 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACGCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:56109768 original size:40 final size:40
Alignment explanation
Indices: 56109625--56109808 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
56109615 TAACTCATAC
* *
56109625 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
56109665 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* *
56109705 AAGGCCTTCGGGACTTAACCCGGAATTAATAACGCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
56109745 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
56109786 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56109809 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 104 0.85
41 10 0.08
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:56119069 original size:103 final size:103
Alignment explanation
Indices: 56118941--56119290 Score: 483
Period size: 103 Copynumber: 3.4 Consensus size: 103
56118931 TTGCATATAA
** * * *
56118941 AGGGGTTGCTGTGTGCTGATTCCCCTA-TTCATTGGTGGTTGTTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACCT-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
56119005 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
56119044 AGGGGTTGCTAAGTGCTGATTCCCCTACCTATTGGTGGTTGCTAAGTGCTGATTCTACCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGACCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
56119109 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * * * *
56119147 AGTGGTTGCTAAGCGCTGATTCCCCGACCTATTTTGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGACCTA-TTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* * *
56119212 TGAAATGTG-AAGGGGGTTGCTAAGTGCTGATTACCCCA
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
56119250 AGGGGTTGC-AGTGTGCTGATTCCCCGA-TTCATTGGTGGTTG
1 AGGGGTTGCTA-AGTGCTGATTCCCCGACCT-ATTGGTGGTTG
56119291 TTAACTGCGG
Statistics
Matches: 223, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
102 11 0.05
103 174 0.78
104 38 0.17
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGACCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:56119089 original size:33 final size:28
Alignment explanation
Indices: 56119018--56119098 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 28
56119008 AATGTGAAAG
56119018 GGGGTTGCTAAGTGCTGATT-CCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCCCGA
*
56119045 GGGGTTGCTAAGTGCTGATTCCCCTACCTA
1 GGGGTTGCTAAGTGCTGATTCCCC--CCGA
56119075 TTGGTGGTTGCTAAGTGCTGATTC
1 --GG-GGTTGCTAAGTGCTGATTC
56119099 TACCGTATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 20 0.43
28 3 0.06
30 3 0.06
32 2 0.04
33 19 0.40
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (28 bp):
GGGGTTGCTAAGTGCTGATTCCCCCCGA
Found at i:56119254 original size:27 final size:26
Alignment explanation
Indices: 56119224--56119274 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
56119214 AAATGTGAAG
56119224 GGGGTTGCTA-AGTGCTGATTACCCCAA
1 GGGGTTGC-AGAGTGCTGATT-CCCCAA
*
56119251 GGGGTTGCAGTGTGCTGATTCCCC
1 GGGGTTGCAGAGTGCTGATTCCCC
56119275 GATTCATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (26 bp):
GGGGTTGCAGAGTGCTGATTCCCCAA
Found at i:56137265 original size:15 final size:15
Alignment explanation
Indices: 56137245--56137274 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
56137235 TGTTAATTTC
*
56137245 ATAATTACTTTTTTT
1 ATAATTAATTTTTTT
56137260 ATAATTAATTTTTTT
1 ATAATTAATTTTTTT
56137275 TTCCCTATCC
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:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
ATAATTAATTTTTTT
Found at i:56145597 original size:53 final size:52
Alignment explanation
Indices: 56145540--56145711 Score: 146
Period size: 53 Copynumber: 3.3 Consensus size: 52
56145530 TATTTAATTT
*
56145540 TATTAAATTATATAT-TTTTTGTTAAATTATATTTAATAATAATTATTTTATAG
1 TATTATATTATATATATTTTTGTTAAATTATA-TTAATAATAATTATTTTA-AG
* * * **
56145593 TATTATA-TAT-TATGATTTTAG-TAAATTCATA-TAAGAATATTTAATACTAAG
1 TATTATATTATATAT-ATTTTTGTTAAATT-ATATTAATAATAATT-ATTTTAAG
* *
56145644 AATTTTATTAATATATATTTTTGTTAAA-TATATTAATAATAATTATTTTAA-
1 TATTATATT-ATATATATTTTTGTTAAATTATATTAATAATAATTATTTTAAG
56145695 -ATTATATT-TATAATATT
1 TATTATATTATAT-ATATT
56145712 ATATATTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
48 3 0.03
49 5 0.05
50 7 0.07
51 19 0.20
52 22 0.23
53 32 0.34
54 7 0.07
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (52 bp):
TATTATATTATATATATTTTTGTTAAATTATATTAATAATAATTATTTTAAG
Found at i:56145677 original size:25 final size:24
Alignment explanation
Indices: 56145644--56145713 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
56145634 TAATACTAAG
* *
56145644 AATTTTATTAATATATATTTTTGTTA
1 AATTATATTAATA-ATATTATT-TTA
56145670 AA-TATATTAATAATAATTATTTTA
1 AATTATATTAATAAT-ATTATTTTA
*
56145694 AATTATATTTATAATATTAT
1 AATTATATTAATAATATTAT
56145714 ATATTATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
24 12 0.31
25 25 0.64
26 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (24 bp):
AATTATATTAATAATATTATTTTA
Found at i:56145755 original size:15 final size:16
Alignment explanation
Indices: 56145716--56145776 Score: 60
Period size: 16 Copynumber: 4.0 Consensus size: 16
56145706 AATATTATAT
56145716 ATTATA-ATTTAATAA
1 ATTATATATTTAATAA
*
56145731 ATTCATATATTT-ATCA
1 ATT-ATATATTTAATAA
56145747 ATTATATATTATAA-AA
1 ATTATATATT-TAATAA
56145763 A--ATATATTTAATAA
1 ATTATATATTTAATAA
56145777 TAATTATGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
13 3 0.08
14 9 0.23
15 10 0.26
16 12 0.31
17 5 0.13
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTATATATTTAATAA
Found at i:56146024 original size:16 final size:16
Alignment explanation
Indices: 56146003--56146069 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
56145993 GATTTGCTAT
56146003 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
* *
56146019 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
56146035 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56146051 TACACCTCTAAT-CAA
1 TACACCTCTAATCCAA
56146066 TACA
1 TACA
56146070 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
15 7 0.15
16 40 0.85
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56151020 original size:73 final size:72
Alignment explanation
Indices: 56150935--56151081 Score: 276
Period size: 73 Copynumber: 2.0 Consensus size: 72
56150925 CATGATGAAA
*
56150935 TACTTCTTTTTGTTAGAATTGTGTTCCTAAGAAAATTTGGTGTCAACATTTTTATTGAAATAGTT
1 TACTTCTTTTTGTTAGAATTGTGTTCCTAAGAAAATTTGCTGTCAACA-TTTTATTGAAATAGTT
56151000 AACAATAT
65 AACAATAT
56151008 TACTTCTTTTTGTTAGAATTGTGTTCCTAAGAAAATTTGCTGTCAACATTTTATTGAAATAGTTA
1 TACTTCTTTTTGTTAGAATTGTGTTCCTAAGAAAATTTGCTGTCAACATTTTATTGAAATAGTTA
56151073 ACAATAT
66 ACAATAT
56151080 TA
1 TA
56151082 ACTATTTAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 26 0.36
73 47 0.64
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.45
Consensus pattern (72 bp):
TACTTCTTTTTGTTAGAATTGTGTTCCTAAGAAAATTTGCTGTCAACATTTTATTGAAATAGTTA
ACAATAT
Found at i:56151478 original size:3 final size:3
Alignment explanation
Indices: 56151470--56151537 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
56151460 CGTAATGCAA
56151470 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
56151518 AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AA
56151538 TGGAGACTTG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:56154926 original size:15 final size:14
Alignment explanation
Indices: 56154901--56154933 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56154891 ATTCAGCAGT
56154901 AAGAAAAG-A-AAA
1 AAGAAAAGAAGAAA
56154913 AAGAAAAGAAGAAA
1 AAGAAAAGAAGAAA
56154927 AAGAAAA
1 AAGAAAA
56154934 ATACATCCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
13 1 0.05
14 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAGAAA
Found at i:56155610 original size:28 final size:29
Alignment explanation
Indices: 56155552--56155610 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
56155542 AATCCAATCC
*
56155552 TTTTATCTTTTTTTAAATTTAATCTCTCA
1 TTTTATCTTTTTTTAAATTTAATCTCACA
* *
56155581 TTTTAT-TTTTGTTTCATTTTAATC-CACA
1 TTTTATCTTTT-TTTAAATTTAATCTCACA
56155609 TT
1 TT
56155611 AAAGCGCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.22, C:0.14, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTATCTTTTTTTAAATTTAATCTCACA
Found at i:56155821 original size:18 final size:18
Alignment explanation
Indices: 56155798--56155834 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
56155788 TCATCATTAT
56155798 TATTAGTATTAT-TATTTA
1 TATTAGT-TTATATATTTA
56155816 TATTAGTTTATATATTTA
1 TATTAGTTTATATATTTA
56155834 T
1 T
56155835 CTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TATTAGTTTATATATTTA
Found at i:56159411 original size:45 final size:45
Alignment explanation
Indices: 56159344--56159519 Score: 248
Period size: 45 Copynumber: 4.0 Consensus size: 45
56159334 GTGTATTGAG
* **
56159344 TATCATTGGTTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
* *
56159389 TACCATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
* **
56159434 AATCATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
* *
56159479 TATAATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACCG
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
56159520 TGTAACAGTT
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
43 7 0.06
44 13 0.11
45 96 0.83
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
Found at i:56181160 original size:45 final size:45
Alignment explanation
Indices: 56181110--56181206 Score: 185
Period size: 45 Copynumber: 2.2 Consensus size: 45
56181100 AATTAAAAGG
56181110 TCAATAAAGAAATATATAAAAATAAGCTGTCATGAAAGGACTAAA
1 TCAATAAAGAAATATATAAAAATAAGCTGTCATGAAAGGACTAAA
56181155 TCAATAAAGAAATATATAAAAATAAGCTGTCATGAAAGGACTAAA
1 TCAATAAAGAAATATATAAAAATAAGCTGTCATGAAAGGACTAAA
*
56181200 TTAATAA
1 TCAATAA
56181207 GATCAGGTAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.56, C:0.08, G:0.12, T:0.24
Consensus pattern (45 bp):
TCAATAAAGAAATATATAAAAATAAGCTGTCATGAAAGGACTAAA
Found at i:56189449 original size:305 final size:305
Alignment explanation
Indices: 56188898--56189512 Score: 1221
Period size: 305 Copynumber: 2.0 Consensus size: 305
56188888 GTTACTTCTT
56188898 TATCTGTTTTTAAGCATGTTGATTACCCTCTGTGGCATGCTAGACTTGGTCACACATCTTTTTCA
1 TATCTGTTTTTAAGCATGTTGATTACCCTCTGTGGCATGCTAGACTTGGTCACACATCTTTTTCA
56188963 AAGATGAATAAAATACGCTTTTTACATAATGGCTCTGTGCATTCTCATAACATTCAAACATGCAC
66 AAGATGAATAAAATACGCTTTTTACATAATGGCTCTGTGCATTCTCATAACATTCAAACATGCAC
56189028 TGTCTGTCCATTAGCAAAACAAACACGATTACCCTTTCCACAAAGTACTTCAACAGAATCAAAAC
131 TGTCTGTCCATTAGCAAAACAAACACGATTACCCTTTCCACAAAGTACTTCAACAGAATCAAAAC
56189093 CTTTTACTCTTGTCCATGTCGATCTTTGGGGTCCTTATCGCACTTCAACTCATTCTGGTCATAGA
196 CTTTTACTCTTGTCCATGTCGATCTTTGGGGTCCTTATCGCACTTCAACTCATTCTGGTCATAGA
56189158 TATTTTTTAACCATTATTGATGACCATACTCGAATGACGTGGATA
261 TATTTTTTAACCATTATTGATGACCATACTCGAATGACGTGGATA
56189203 TATCTGTTTTTAAGCATGTTGATTACCCTCTGTGGCATGCTAGACTTGGTCACACATCTTTTTCA
1 TATCTGTTTTTAAGCATGTTGATTACCCTCTGTGGCATGCTAGACTTGGTCACACATCTTTTTCA
56189268 AAGATGAATAAAATACGCTTTTTACATAATGGCTCTGTGCATTCTCATAACATTCAAACATGCAC
66 AAGATGAATAAAATACGCTTTTTACATAATGGCTCTGTGCATTCTCATAACATTCAAACATGCAC
*
56189333 TGTCTGTCCATTAGCAAAACAAACACGCTTACCCTTTCCACAAAGTACTTCAACAGAATCAAAAC
131 TGTCTGTCCATTAGCAAAACAAACACGATTACCCTTTCCACAAAGTACTTCAACAGAATCAAAAC
56189398 CTTTTACTCTTGTCCATGTCGATCTTTGGGGTCCTTATCGCACTTCAACTCATTCTGGTCATAGA
196 CTTTTACTCTTGTCCATGTCGATCTTTGGGGTCCTTATCGCACTTCAACTCATTCTGGTCATAGA
56189463 TATTTTTTAACCATTATTGATGACCATACTCGAATGACGTGGATA
261 TATTTTTTAACCATTATTGATGACCATACTCGAATGACGTGGATA
56189508 TATCT
1 TATCT
56189513 TTTAAAACTT
Statistics
Matches: 309, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
305 309 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (305 bp):
TATCTGTTTTTAAGCATGTTGATTACCCTCTGTGGCATGCTAGACTTGGTCACACATCTTTTTCA
AAGATGAATAAAATACGCTTTTTACATAATGGCTCTGTGCATTCTCATAACATTCAAACATGCAC
TGTCTGTCCATTAGCAAAACAAACACGATTACCCTTTCCACAAAGTACTTCAACAGAATCAAAAC
CTTTTACTCTTGTCCATGTCGATCTTTGGGGTCCTTATCGCACTTCAACTCATTCTGGTCATAGA
TATTTTTTAACCATTATTGATGACCATACTCGAATGACGTGGATA
Found at i:56209200 original size:24 final size:24
Alignment explanation
Indices: 56209164--56209210 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
56209154 TTACAGTTTC
*
56209164 TTTTTGTTGTTTTTTACTCTTTTT
1 TTTTTGTTGTTTTTTACTATTTTT
56209188 TTTTTGCTT-TTTTTTACTATTTT
1 TTTTTG-TTGTTTTTTACTATTTT
56209211 GTTACCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.06, C:0.09, G:0.06, T:0.79
Consensus pattern (24 bp):
TTTTTGTTGTTTTTTACTATTTTT
Found at i:56214201 original size:10 final size:10
Alignment explanation
Indices: 56214186--56214210 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56214176 GTGCAAAAAG
56214186 TTTTTTTATT
1 TTTTTTTATT
56214196 TTTTTTTATT
1 TTTTTTTATT
56214206 TTTTT
1 TTTTT
56214211 ATGTATAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:56215631 original size:17 final size:17
Alignment explanation
Indices: 56215609--56215659 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
56215599 ATTCGATTTA
*
56215609 AAATTAAGTAATTAAT-T
1 AAATTAA-TAATTAATCG
56215626 AAATTAATTAAATTAATCG
1 AAATTAA-T-AATTAATCG
56215645 AAATTAATAATTAAT
1 AAATTAATAATTAAT
56215660 AATACAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 15 0.50
18 8 0.27
19 7 0.23
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (17 bp):
AAATTAATAATTAATCG
Found at i:56215632 original size:9 final size:9
Alignment explanation
Indices: 56215609--56215652 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
56215599 ATTCGATTTA
*
56215609 AAATTAAGT
1 AAATTAATT
56215618 -AATTAATT
1 AAATTAATT
56215626 AAATTAATT
1 AAATTAATT
*
56215635 AAATTAATCG
1 AAATTAAT-T
56215645 AAATTAAT
1 AAATTAAT
56215653 AATTAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 7 0.23
9 16 0.52
10 8 0.26
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (9 bp):
AAATTAATT
Found at i:56220265 original size:40 final size:40
Alignment explanation
Indices: 56220207--56220292 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
56220197 ATACTCTCTA
56220207 TCTGGTGTGTTTCAATTGGATTAGCTCTTATGAGCTTCTG
1 TCTGGTGTGTTTCAATTGGATTAGCTCTTATGAGCTTCTG
*
56220247 TCTGGTGTGTTTCGATTGGATTAGCTCTTATGAGCTTCTG
1 TCTGGTGTGTTTCAATTGGATTAGCTCTTATGAGCTTCTG
56220287 TCTGGT
1 TCTGGT
56220293 AGGTTCGGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.13, C:0.15, G:0.27, T:0.45
Consensus pattern (40 bp):
TCTGGTGTGTTTCAATTGGATTAGCTCTTATGAGCTTCTG
Found at i:56220996 original size:20 final size:20
Alignment explanation
Indices: 56220947--56221002 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
56220937 AATTTATGCT
* * * *
56220947 AAGTAAATGAAATAGAAAGT
1 AAGTAAATGGAATGGTAAGA
56220967 AAGTAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
56220987 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
56221003 TTATAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.50, C:0.00, G:0.29, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:56223074 original size:20 final size:21
Alignment explanation
Indices: 56223049--56223095 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
56223039 TCCTAAGTTT
56223049 GATACT-A-CCTAGGGTATCAC
1 GATACTAAGCCTA-GGTATCAC
56223069 GATACTAGAGCCTAGGTATCAC
1 GATACTA-AGCCTAGGTATCAC
56223091 GATAC
1 GATAC
56223096 GCTGCCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.25
22 14 0.58
23 4 0.17
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (21 bp):
GATACTAAGCCTAGGTATCAC
Found at i:56225382 original size:2 final size:2
Alignment explanation
Indices: 56225377--56225410 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
56225367 TATCATCCAT
56225377 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
56225411 TATATATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:56233486 original size:15 final size:15
Alignment explanation
Indices: 56233445--56233492 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
56233435 TAACTTAAAA
*
56233445 TTCAATACTTAATTT
1 TTCAATACTTATTTT
*
56233460 TTCAGTACTTATTTT
1 TTCAATACTTATTTT
*
56233475 TTCAACACTTATCTTT
1 TTCAATACTTAT-TTT
56233491 TT
1 TT
56233493 TTCAGCACTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 23 0.82
16 5 0.18
ACGTcount: A:0.25, C:0.17, G:0.02, T:0.56
Consensus pattern (15 bp):
TTCAATACTTATTTT
Found at i:56233508 original size:15 final size:15
Alignment explanation
Indices: 56233451--56233509 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
56233441 AAAATTCAAT
*
56233451 ACTTAATTTTTCAGT
1 ACTTAATTTTTCAGC
* *
56233466 ACTTATTTTTTCAAC
1 ACTTAATTTTTCAGC
*
56233481 ACTTATCTTTTTTTCAGC
1 ACTTA---ATTTTTCAGC
56233499 ACTTAATTTTT
1 ACTTAATTTTT
56233510 TTAGTTTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 22 0.61
18 14 0.39
ACGTcount: A:0.24, C:0.17, G:0.03, T:0.56
Consensus pattern (15 bp):
ACTTAATTTTTCAGC
Found at i:56236144 original size:18 final size:19
Alignment explanation
Indices: 56236117--56236161 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
56236107 TTAACTTTTT
56236117 ATATTATTTTGAATTTTAA
1 ATATTATTTTGAATTTTAA
* *
56236136 ATATT-TTTTTATTTTTAA
1 ATATTATTTTGAATTTTAA
56236154 AT-TTATTT
1 ATATTATTT
56236162 GTTGACATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 16 0.70
19 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
ATATTATTTTGAATTTTAA
Found at i:56246096 original size:14 final size:14
Alignment explanation
Indices: 56246065--56246102 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
56246055 CTATCCACCG
56246065 GAAGAGAG-AAAGA
1 GAAGAGAGAAAAGA
*
56246078 AAAGAGAGAAAAGA
1 GAAGAGAGAAAAGA
*
56246092 GAAGAAAGAAA
1 GAAGAGAGAAA
56246103 GAAAAAATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (14 bp):
GAAGAGAGAAAAGA
Found at i:56246197 original size:7 final size:7
Alignment explanation
Indices: 56246185--56246210 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
56246175 ATTTTTTTTG
56246185 TTATTAA
1 TTATTAA
56246192 TTATTAA
1 TTATTAA
56246199 TTATTAA
1 TTATTAA
56246206 TTATT
1 TTATT
56246211 TATGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATTAA
Found at i:56246352 original size:60 final size:60
Alignment explanation
Indices: 56246277--56246391 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
56246267 TTTTTACAAA
* * *
56246277 TATTTTAAAATTAATTTGTTAGTAATTTAGGATTATGTTACAAATTTTTGTGTTTGTAAT
1 TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTACAAATTGTTGTGTTTGTAAT
*
56246337 TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTACAAATTGTTGTGTTT
56246392 AGTTTAGTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (60 bp):
TATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTACAAATTGTTGTGTTTGTAAT
Found at i:56246982 original size:21 final size:22
Alignment explanation
Indices: 56246942--56246982 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56246932 TTGACAAATG
*
56246942 TTTTAATTAAAATTATTTAAAA
1 TTTTAATTAAAATAATTTAAAA
56246964 TTTTAATTAAAA-AATTTAA
1 TTTTAATTAAAATAATTTAA
56246983 CACTCACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTTAATTAAAATAATTTAAAA
Found at i:56250692 original size:23 final size:23
Alignment explanation
Indices: 56250666--56250764 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
56250656 ATAGGTGCCA
*
56250666 CACTGATATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56250689 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
56250712 CACTGAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
56250735 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56250758 CACTGAT
1 CACTGAT
56250765 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:56251016 original size:18 final size:17
Alignment explanation
Indices: 56250990--56251028 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
56250980 ATTTTCCTTC
56250990 CACATTCAA-TAATAATT
1 CACATTCAAGT-ATAATT
56251007 CACATATCAAGTATAATT
1 CACAT-TCAAGTATAATT
56251025 CACA
1 CACA
56251029 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 14 0.70
19 1 0.05
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (17 bp):
CACATTCAAGTATAATT
Found at i:56252933 original size:33 final size:33
Alignment explanation
Indices: 56252896--56252967 Score: 108
Period size: 33 Copynumber: 2.2 Consensus size: 33
56252886 TCCTAACTCA
* *
56252896 TATCCACCTCAGTACTCCGCTCCTTCCGGCTCG
1 TATCCACCTCAGTACTCCGCTCCTTCCGACCCG
* *
56252929 TATCCACCTCAGTACTTCGCTCCTTTCGACCCG
1 TATCCACCTCAGTACTCCGCTCCTTCCGACCCG
56252962 TATCCA
1 TATCCA
56252968 TCGCCGTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.15, C:0.43, G:0.12, T:0.29
Consensus pattern (33 bp):
TATCCACCTCAGTACTCCGCTCCTTCCGACCCG
Found at i:56252977 original size:33 final size:33
Alignment explanation
Indices: 56252896--56252979 Score: 96
Period size: 33 Copynumber: 2.5 Consensus size: 33
56252886 TCCTAACTCA
* * *
56252896 TATCCACCTCAGTACTCCGCTCCTTCCGGCTCG
1 TATCCACCGCAGTACTCCGCTCCTTCCGACCCG
* * *
56252929 TATCCACCTCAGTACTTCGCTCCTTTCGACCCG
1 TATCCACCGCAGTACTCCGCTCCTTCCGACCCG
* *
56252962 TATCCATCGCCGTACTCC
1 TATCCACCGCAGTACTCC
56252980 ACTACTCCCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.14, C:0.44, G:0.13, T:0.29
Consensus pattern (33 bp):
TATCCACCGCAGTACTCCGCTCCTTCCGACCCG
Found at i:56267691 original size:79 final size:79
Alignment explanation
Indices: 56267560--56267718 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
56267550 TCCCTTATGA
56267560 TAACTTCCTAGGATTTTCAAGCCTAGGATTTAGAAACGCATAATCTATACCAACTAATCCTATTA
1 TAACTTCCTAGGATTTTCAAGCCTAGGATTTAGAAACGCATAATCTATACCAACTAATCCTATTA
56267625 TGAACTCGTATTCT
66 TGAACTCGTATTCT
56267639 TAACTTCCTAGGATTTTCAAGCCTAGGATTTAGAAACGCATAATCTATACCAACTAATCCTATTA
1 TAACTTCCTAGGATTTTCAAGCCTAGGATTTAGAAACGCATAATCTATACCAACTAATCCTATTA
56267704 TGAACTCGTATTCT
66 TGAACTCGTATTCT
56267718 T
1 T
56267719 TTGTTAATTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (79 bp):
TAACTTCCTAGGATTTTCAAGCCTAGGATTTAGAAACGCATAATCTATACCAACTAATCCTATTA
TGAACTCGTATTCT
Found at i:56278074 original size:17 final size:17
Alignment explanation
Indices: 56278052--56278103 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 17
56278042 AATCCTGATC
56278052 TAAAATACAAGTAT-ATA
1 TAAAATACAA-TATAATA
*
56278069 TAAAATATAATATAATA
1 TAAAATACAATATAATA
*
56278086 T--AATATAATATAATA
1 TAAAATACAATATAATA
56278101 TAA
1 TAA
56278104 TATTATAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 15 0.48
16 3 0.10
17 13 0.42
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
TAAAATACAATATAATA
Found at i:56278082 original size:5 final size:5
Alignment explanation
Indices: 56278072--56278106 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
56278062 GTATATATAA
56278072 AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT
56278107 TATAGTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AATAT
Found at i:56278650 original size:25 final size:27
Alignment explanation
Indices: 56278622--56278671 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
56278612 ATCTAGAATC
56278622 TAAACCCTAAAC-TAAA-TCTAAACAT
1 TAAACCCTAAACATAAACTCTAAACAT
56278647 TAAACCCTAAACATAAACTCTAAAC
1 TAAACCCTAAACATAAACTCTAAAC
56278672 CCAAACCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 12 0.52
26 4 0.17
27 7 0.30
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (27 bp):
TAAACCCTAAACATAAACTCTAAACAT
Found at i:56278663 original size:13 final size:13
Alignment explanation
Indices: 56278622--56278671 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
56278612 ATCTAGAATC
56278622 TAAACCCTAAAC-
1 TAAACCCTAAACA
*
56278634 TAAA-TCTAAACA
1 TAAACCCTAAACA
56278646 TTAAACCCTAAACA
1 -TAAACCCTAAACA
*
56278660 TAAACTCTAAAC
1 TAAACCCTAAAC
56278672 CCAAACCTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
11 6 0.19
12 4 0.12
13 15 0.47
14 7 0.22
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAACCCTAAACA
Found at i:56281320 original size:20 final size:20
Alignment explanation
Indices: 56281286--56281327 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56281276 AATTATTTAA
** *
56281286 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
56281306 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
56281326 AT
1 AT
56281328 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:56284836 original size:41 final size:41
Alignment explanation
Indices: 56284654--56284839 Score: 300
Period size: 41 Copynumber: 4.5 Consensus size: 41
56284644 GACTTTAAGT
* *
56284654 CTAGCAGGCTAAGTGCCAGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
56284695 CTAGCAGGCTAAGTGGCGATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
56284736 CTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
56284777 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
56284818 CTAGCAGGCTAATTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
56284840 ATATGTTAAA
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 136 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Done.