Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 40 of 132
Found at i:10835191 original size:30 final size:29
Alignment explanation
Indices: 10835118--10835303 Score: 158
Period size: 30 Copynumber: 6.3 Consensus size: 29
10835108 TTAAAAAAAT
* * *
10835118 TTTAACCCCAAACTTTTTAGAAATTCAAA
1 TTTAACCCTAAACTTTTCAAAAATTCAAA
* * **
10835147 TTTAACCCTAAATTTTTTAAAAATTTGAA
1 TTTAACCCTAAACTTTTCAAAAATTCAAA
10835176 TTTAACCCTTAAA-TTTTCCAAAAATTCAAA
1 TTTAACCC-TAAACTTTT-CAAAAATTCAAA
*
10835206 TTTAACCCCTAAACTTTTCAAAAATTTAAA
1 TTTAA-CCCTAAACTTTTCAAAAATTCAAA
* * * ****
10835236 TTTGACCCCCAAACTTTCCAAAAATTTTGG
1 TTT-AACCCTAAACTTTTCAAAAATTCAAA
* *
10835266 TTTGACCCCTAAAGTTTTCAAAAATTCAAA
1 TTT-AACCCTAAACTTTTCAAAAATTCAAA
*
10835296 TTTGACCC
1 TTTAACCC
10835304 GGTTTTAATG
Statistics
Matches: 128, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
29 39 0.30
30 81 0.63
31 8 0.06
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (29 bp):
TTTAACCCTAAACTTTTCAAAAATTCAAA
Found at i:10835238 original size:60 final size:60
Alignment explanation
Indices: 10835114--10835303 Score: 202
Period size: 60 Copynumber: 3.2 Consensus size: 60
10835104 TATTTTAAAA
* * ** * * *
10835114 AAATTTTAACCCCAAACTTTTTAGAAATTCAAATTTAA-CCCTAAATTTTTTAAAAATTT
1 AAATTTGACCCCCAAACTTTCCAAAAATTCAAATTTAACCCCTAAACTTTTCAAAAATTT
* * ** *
10835173 GAATTTAACCCTTAAATTTTCCAAAAATTCAAATTTAACCCCTAAACTTTTCAAAAATTT
1 AAATTTGACCCCCAAACTTTCCAAAAATTCAAATTTAACCCCTAAACTTTTCAAAAATTT
**** * * *
10835233 AAATTTGACCCCCAAACTTTCCAAAAATTTTGGTTTGACCCCTAAAGTTTTCAAAAATTC
1 AAATTTGACCCCCAAACTTTCCAAAAATTCAAATTTAACCCCTAAACTTTTCAAAAATTT
10835293 AAATTTGACCC
1 AAATTTGACCC
10835304 GGTTTTAATG
Statistics
Matches: 107, Mismatches: 23, Indels: 1
0.82 0.18 0.01
Matches are distributed among these distances:
59 29 0.27
60 78 0.73
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.36
Consensus pattern (60 bp):
AAATTTGACCCCCAAACTTTCCAAAAATTCAAATTTAACCCCTAAACTTTTCAAAAATTT
Found at i:10846097 original size:25 final size:25
Alignment explanation
Indices: 10846069--10846119 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
10846059 TGGGATCCAC
*
10846069 AACGTGAATAGTTAGCGGAAAACTA
1 AACGTGAATAGTTAGCAGAAAACTA
10846094 AACGTGAATAGTTAGCAGAAAACTA
1 AACGTGAATAGTTAGCAGAAAACTA
10846119 A
1 A
10846120 GTGTGGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (25 bp):
AACGTGAATAGTTAGCAGAAAACTA
Found at i:10850843 original size:37 final size:37
Alignment explanation
Indices: 10850787--10850871 Score: 109
Period size: 37 Copynumber: 2.3 Consensus size: 37
10850777 GCGACGGCAA
* * * *
10850787 TTTT-GGTGCAATTTCGAAGTGCTCATGTGGTGACAG
1 TTTTGGGTGCAATCTAGAAGTGCTCATGAGGCGACAG
*
10850823 TTTTGGGTGCAATCTAGAAGTGCTCATGAGGCGATAG
1 TTTTGGGTGCAATCTAGAAGTGCTCATGAGGCGACAG
*
10850860 TTTTGGGCGCAA
1 TTTTGGGTGCAA
10850872 ATTTAGATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 4 0.10
37 38 0.90
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.33
Consensus pattern (37 bp):
TTTTGGGTGCAATCTAGAAGTGCTCATGAGGCGACAG
Found at i:10852148 original size:50 final size:50
Alignment explanation
Indices: 10852063--10852187 Score: 162
Period size: 50 Copynumber: 2.5 Consensus size: 50
10852053 CTATACCCTT
10852063 AAAGTTGTAGAGGAGC-GAATTGAAGCCGCAATGGCAAATCTCATACACCG
1 AAAGTTGTAGAGGAGCAG-ATTGAAGCCGCAATGGCAAATCTCATACACCG
* * * * * **
10852113 AAAGCTGTAGAGGACCAGATTGACGCCGCATTGGCAAATCTCATTCACTT
1 AAAGTTGTAGAGGAGCAGATTGAAGCCGCAATGGCAAATCTCATACACCG
*
10852163 AAAGTTGTAGAGGGGCAGATTGAAG
1 AAAGTTGTAGAGGAGCAGATTGAAG
10852188 TCACAAGGAT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
50 62 0.98
51 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (50 bp):
AAAGTTGTAGAGGAGCAGATTGAAGCCGCAATGGCAAATCTCATACACCG
Found at i:10852352 original size:39 final size:39
Alignment explanation
Indices: 10852244--10852453 Score: 156
Period size: 40 Copynumber: 5.3 Consensus size: 39
10852234 TGCAACCCCA
* * * *
10852244 AATCTTTTACCCTAACTAAAGAGTAGATTGAAGACCATCC
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAG-CAATCC
* ** * * *
10852284 AATCTCTTACCCCGACCATGA-GGCGGATTGAAGCAATCT
1 AATCTTTTACCCTAACTA-GAGGGCAGATTGAAGCAATCC
* * **
10852323 AATCTTTTACCCTAAGTAGAGGGCAGATTGAAGACCATAT
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAG-CAATCC
** * * *
10852363 AATCTTTTACCCCGACCATG-GGGCAAATTAAAGCAATCC
1 AATCTTTTACCCTAACTA-GAGGGCAGATTGAAGCAATCC
* *
10852402 AATCTCTTACCCTAACTAGAGGGTAGATTGAAGACCAA-CC
1 AATCTTTTACCCTAACTAGAGGGCAGATTGAAG--CAATCC
10852442 AATCTTTTACCC
1 AATCTTTTACCC
10852454 CTAAGGTTAT
Statistics
Matches: 128, Mismatches: 35, Indels: 14
0.72 0.20 0.08
Matches are distributed among these distances:
38 3 0.02
39 55 0.43
40 65 0.51
41 5 0.04
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (39 bp):
AATCTTTTACCCTAACTAGAGGGCAGATTGAAGCAATCC
Found at i:10852375 original size:79 final size:79
Alignment explanation
Indices: 10852244--10852454 Score: 289
Period size: 79 Copynumber: 2.7 Consensus size: 79
10852234 TGCAACCCCA
* * * * *
10852244 AATCTTTTACCCTAACTAAAGAGTAGATTGAAGACCATCCAATCTCTTACCCCGACCATGAGGCG
1 AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATACAATCTTTTACCCCGACCATGAGGCA
* * *
10852309 GATTGAAGCAATCT
66 AATTAAAGCAATCC
* * * *
10852323 AATCTTTTACCCTAAGTAGAGGGCAGATTGAAGACCATATAATCTTTTACCCCGACCATGGGGCA
1 AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATACAATCTTTTACCCCGACCATGAGGCA
10852388 AATTAAAGCAATCC
66 AATTAAAGCAATCC
*
10852402 AATCTCTTACCCTAACTAGAGGGTAGATTGAAGACCA-ACCAATCTTTTACCCC
1 AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATA-CAATCTTTTACCCC
10852455 TAAGGTTATA
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 1 0.01
79 114 0.99
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (79 bp):
AATCTTTTACCCTAACTAGAGGGTAGATTGAAGACCATACAATCTTTTACCCCGACCATGAGGCA
AATTAAAGCAATCC
Found at i:10854289 original size:30 final size:29
Alignment explanation
Indices: 10854255--10854431 Score: 149
Period size: 30 Copynumber: 5.9 Consensus size: 29
10854245 TTAACCCTCA
*
10854255 AATTTTCCAAAAATTCAAATTTGACTCTCT
1 AATTTTCCAAAAATTCAAATTTGAC-CCCT
* ** *
10854285 AATTTTCTAAAAATTTGAATTTGACCCTCG
1 AATTTTCCAAAAATTCAAATTTGACCC-CT
* *
10854315 AATTTTCCAAATATTCAAATTTGGCCCCT
1 AATTTTCCAAAAATTCAAATTTGACCCCT
* * * ** *
10854344 AAACTTTCTAGAAATTTGAATTTGACCCCCA
1 -AATTTTCCAAAAATTCAAATTTGA-CCCCT
* * *
10854375 AACTTTCCAAAAATTCCAGTTTGACCCCT
1 AATTTTCCAAAAATTCAAATTTGACCCCT
10854404 AAAGTTTT-CAAAAATTCAAATTTGACCC
1 -AA-TTTTCCAAAAATTCAAATTTGACCC
10854432 GATTTTAATG
Statistics
Matches: 114, Mismatches: 28, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
29 6 0.05
30 101 0.89
31 7 0.06
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (29 bp):
AATTTTCCAAAAATTCAAATTTGACCCCT
Found at i:10854312 original size:60 final size:60
Alignment explanation
Indices: 10854248--10854431 Score: 228
Period size: 60 Copynumber: 3.1 Consensus size: 60
10854238 TTATTTTTTA
*
10854248 ACCCTCAAATTTTCCAAAAATTCAAATTTGACTCTCT-AATTTTCTAAAAATTTGAATTTG
1 ACCCTCAAATTTTCCAAAAATTCAAATTTGAC-CCCTAAATTTTCTAAAAATTTGAATTTG
* * * * *
10854308 ACCCTCGAATTTTCCAAATATTCAAATTTGGCCCCTAAACTTTCTAGAAATTTGAATTTG
1 ACCCTCAAATTTTCCAAAAATTCAAATTTGACCCCTAAATTTTCTAAAAATTTGAATTTG
* * * * **
10854368 ACCCCCAAACTTTCCAAAAATTCCAGTTTGACCCCTAAAGTTTTC-AAAAATTCAAATTTG
1 ACCCTCAAATTTTCCAAAAATTCAAATTTGACCCCTAAA-TTTTCTAAAAATTTGAATTTG
10854428 ACCC
1 ACCC
10854432 GATTTTAATG
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
59 3 0.03
60 98 0.93
61 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (60 bp):
ACCCTCAAATTTTCCAAAAATTCAAATTTGACCCCTAAATTTTCTAAAAATTTGAATTTG
Found at i:10855213 original size:3 final size:3
Alignment explanation
Indices: 10855205--10855276 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
10855195 TTTCTATTGT
10855205 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
10855253 TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC
10855277 GACATTTTAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:10860381 original size:17 final size:15
Alignment explanation
Indices: 10860351--10860384 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
10860341 TTTTTTTACT
10860351 TTAGTAAATATATAG
1 TTAGTAAATATATAG
10860366 TTAGTCAAACTATATAG
1 TTAGT-AAA-TATATAG
10860383 TT
1 TT
10860385 TGCCTGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 3 0.18
17 9 0.53
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (15 bp):
TTAGTAAATATATAG
Found at i:10860891 original size:39 final size:39
Alignment explanation
Indices: 10860848--10860929 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
10860838 ATGTTTACAA
* * *
10860848 AGTATTTGGTTACAAAGTTTAG-TTTCCAATAAGAATTTT
1 AGTATATGGTTACAAA-ATTAGATTTCCAACAAGAATTTT
* *
10860887 AGTATATGGTTACAAAATTGGATTTCCACCAAGAATTTT
1 AGTATATGGTTACAAAATTAGATTTCCAACAAGAATTTT
10860926 AGTA
1 AGTA
10860930 ATAGTTATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.08
39 34 0.92
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (39 bp):
AGTATATGGTTACAAAATTAGATTTCCAACAAGAATTTT
Found at i:10860944 original size:19 final size:19
Alignment explanation
Indices: 10860920--10860959 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10860910 TTCCACCAAG
10860920 AATTTTAGTAATAGTTATA
1 AATTTTAGTAATAGTTATA
* * *
10860939 AATTTTGGTAGTTGTTATA
1 AATTTTAGTAATAGTTATA
10860958 AA
1 AA
10860960 AATATTGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (19 bp):
AATTTTAGTAATAGTTATA
Found at i:10862758 original size:44 final size:44
Alignment explanation
Indices: 10862709--10862816 Score: 207
Period size: 44 Copynumber: 2.5 Consensus size: 44
10862699 TACACACAAA
10862709 AAAACAAAAACAAATCAAAAGTAGAAGTACGCAAATAATAAAAT
1 AAAACAAAAACAAATCAAAAGTAGAAGTACGCAAATAATAAAAT
10862753 AAAACAAAAACAAATCAAAAGTAGAAGTACGCAAATAATAAAAT
1 AAAACAAAAACAAATCAAAAGTAGAAGTACGCAAATAATAAAAT
*
10862797 AAAACAAAAACAAACCAAAA
1 AAAACAAAAACAAATCAAAA
10862817 AAAATCAAGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 63 1.00
ACGTcount: A:0.69, C:0.13, G:0.07, T:0.11
Consensus pattern (44 bp):
AAAACAAAAACAAATCAAAAGTAGAAGTACGCAAATAATAAAAT
Found at i:10866088 original size:24 final size:24
Alignment explanation
Indices: 10866054--10866100 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
10866044 ATAATCTTTT
10866054 AATTAAATTCTATTTATTTATTTC
1 AATTAAATTCTATTTATTTATTTC
* *
10866078 AATTAAGTTCTGTTTATTTATTT
1 AATTAAATTCTATTTATTTATTT
10866101 AAGTGAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (24 bp):
AATTAAATTCTATTTATTTATTTC
Found at i:10873922 original size:24 final size:24
Alignment explanation
Indices: 10873871--10873922 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
10873861 TTCGTAAGCC
* *
10873871 AAATAAATTATGCTAATAAATGTA
1 AAATAAATTATACTAATAAATATA
* *
10873895 AAATATATTATACTAATAAATATG
1 AAATAAATTATACTAATAAATATA
10873919 AAAT
1 AAAT
10873923 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATATA
Found at i:10875881 original size:24 final size:24
Alignment explanation
Indices: 10875830--10875881 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
10875820 TTCGTAAGTC
* * *
10875830 AAATAAATTATGCTCATAAATGCA
1 AAATAAATTATACTAATAAATACA
* *
10875854 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACA
10875878 AAAT
1 AAAT
10875882 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:10877579 original size:18 final size:19
Alignment explanation
Indices: 10877549--10877584 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
10877539 AAAAAAAAAA
*
10877549 TTCAAAATAATTTTTAAAT
1 TTCAAAATAATTTATAAAT
10877568 TTCAAAAT-ATTTATAAA
1 TTCAAAATAATTTATAAA
10877585 AATTCATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCAAAATAATTTATAAAT
Found at i:10877590 original size:19 final size:19
Alignment explanation
Indices: 10877544--10877590 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
10877534 ATTACAAAAA
10877544 AAAAATTCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
* *
10877563 TAAATTTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
10877582 AAAAATTCA
1 AAAAATTCA
10877591 TAATTTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:10879006 original size:22 final size:24
Alignment explanation
Indices: 10878962--10879010 Score: 75
Period size: 22 Copynumber: 2.1 Consensus size: 24
10878952 AAATTTTAAA
10878962 TTAGGGTATTAAGTTTTTAATTGT
1 TTAGGGTATTAAGTTTTTAATTGT
*
10878986 TTAGGGT-TTAA-TTTTTTATTGT
1 TTAGGGTATTAAGTTTTTAATTGT
10879008 TTA
1 TTA
10879011 TTATTGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 13 0.54
23 4 0.17
24 7 0.29
ACGTcount: A:0.22, C:0.00, G:0.18, T:0.59
Consensus pattern (24 bp):
TTAGGGTATTAAGTTTTTAATTGT
Found at i:10879059 original size:28 final size:28
Alignment explanation
Indices: 10879025--10879131 Score: 142
Period size: 29 Copynumber: 3.8 Consensus size: 28
10879015 TGTTCTGGAA
10879025 AAAAATAATTTTGACGAGATGGGTTCTG
1 AAAAATAATTTTGACGAGATGGGTTCTG
* * *
10879053 AAAAATAATTTTGACAAGTTGGATTCTG
1 AAAAATAATTTTGACGAGATGGGTTCTG
* * *
10879081 AAAAAGTAAATTTGACGTGATGTGTTCTG
1 AAAAA-TAATTTTGACGAGATGGGTTCTG
10879110 AAAAAATAATTTTGACGAGATG
1 -AAAAATAATTTTGACGAGATG
10879132 AATTTTGTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
28 30 0.45
29 31 0.47
30 5 0.08
ACGTcount: A:0.39, C:0.07, G:0.21, T:0.33
Consensus pattern (28 bp):
AAAAATAATTTTGACGAGATGGGTTCTG
Found at i:10882970 original size:99 final size:102
Alignment explanation
Indices: 10882797--10883003 Score: 366
Period size: 99 Copynumber: 2.1 Consensus size: 102
10882787 ATTGTTTATG
10882797 ATATTTAATATTAAATTTTTAATTATATATATATATTGGTGAATTATAAAAGAATAGTAAAATTT
1 ATATTTAATATTAAATTTTTAATTATATATATATATTGGTGAATTATAAAAGAATAGTAAAATTT
*
10882862 TCATAACAACGCGATTGATACAATTCA-AACCAAATT
66 TCATAACAACGCGATTGATACAATTCACAACCAAACT
*
10882898 ATATTTAATATTAAATTTTTAA-T-TATATATATATTGGTGAATTATAAAGGAATAGTAAAATTT
1 ATATTTAATATTAAATTTTTAATTATATATATATATTGGTGAATTATAAAAGAATAGTAAAATTT
*
10882961 TCATAACAACGCGATTGATACAATTCACACCCAAACT
66 TCATAACAACGCGATTGATACAATTCACAACCAAACT
10882998 ATATTT
1 ATATTT
10883004 GGAATAATTA
Statistics
Matches: 102, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
99 66 0.65
100 14 0.14
101 22 0.22
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (102 bp):
ATATTTAATATTAAATTTTTAATTATATATATATATTGGTGAATTATAAAAGAATAGTAAAATTT
TCATAACAACGCGATTGATACAATTCACAACCAAACT
Found at i:10883548 original size:19 final size:19
Alignment explanation
Indices: 10883507--10883549 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10883497 TGAGCGCCTC
* *
10883507 AAATTAAAGAAATATTTTG
1 AAATTAAAAAAATAATTTG
10883526 AAATTAAAAAAATTAATTT-
1 AAATTAAAAAAA-TAATTTG
10883545 AAATT
1 AAATT
10883550 TTCTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
AAATTAAAAAAATAATTTG
Found at i:10889050 original size:16 final size:15
Alignment explanation
Indices: 10889025--10889060 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
10889015 TTTTGAAAAA
*
10889025 TATTTATAT-TATTT
1 TATTTATATATTTTT
10889039 TATTTATATATTTTT
1 TATTTATATATTTTT
10889054 TATTTAT
1 TATTTAT
10889061 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTATATATTTTT
Found at i:10889061 original size:19 final size:17
Alignment explanation
Indices: 10889036--10889073 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
10889026 ATTTATATTA
*
10889036 TTTTATTTA-T-ATATT
1 TTTTATTTATTAAAATT
10889051 TTTTATTTATTAAAATT
1 TTTTATTTATTAAAATT
10889068 TTTTAT
1 TTTTAT
10889074 ATAGTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATTTATTAAAATT
Found at i:10891244 original size:33 final size:30
Alignment explanation
Indices: 10891202--10891287 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
10891192 GCTAATTGGG
* *
10891202 AGGAATTCAAATAAAAATAATCTACTGGATTTT
1 AGGAATTCAAATAAAAA-AA--GAATGGATTTT
*
10891235 AGGAATTCAAATTAAAAAAGAATGGATTTT
1 AGGAATTCAAATAAAAAAAGAATGGATTTT
**
10891265 AGGAATTCAAATTTAAAAAGAAT
1 AGGAATTCAAATAAAAAAAGAAT
10891288 TGGTTATGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
30 31 0.63
32 2 0.04
33 16 0.33
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (30 bp):
AGGAATTCAAATAAAAAAAGAATGGATTTT
Found at i:10891263 original size:30 final size:30
Alignment explanation
Indices: 10891227--10891287 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
10891217 AATAATCTAC
10891227 TGGATTTTAGGAATTCAAATTAAAAAAGAA
1 TGGATTTTAGGAATTCAAATTAAAAAAGAA
*
10891257 TGGATTTTAGGAATTCAAATTTAAAAAGAA
1 TGGATTTTAGGAATTCAAATTAAAAAAGAA
10891287 T
1 T
10891288 TGGTTATGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.48, C:0.03, G:0.16, T:0.33
Consensus pattern (30 bp):
TGGATTTTAGGAATTCAAATTAAAAAAGAA
Found at i:10897199 original size:21 final size:21
Alignment explanation
Indices: 10897175--10897228 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
10897165 CTTGGGAAAG
* *
10897175 TTCTAACGATACAAGTGTAAC
1 TTCTACCGATACAAGTCTAAC
* *
10897196 TTCTACCGAAACAAGTCTTAC
1 TTCTACCGATACAAGTCTAAC
10897217 TTCTACCGATAC
1 TTCTACCGATAC
10897229 TAAAAACTCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (21 bp):
TTCTACCGATACAAGTCTAAC
Found at i:10920653 original size:25 final size:23
Alignment explanation
Indices: 10920591--10920653 Score: 54
Period size: 25 Copynumber: 2.6 Consensus size: 23
10920581 TCAAATATTT
* *
10920591 TTTTACTTTTTAAGTTACAATTA
1 TTTTACTTTTTATGTAACAATTA
* * *
10920614 TTTTAATTTCGTATGTAATAATTCA
1 TTTTACTTT-TTATGTAACAATT-A
10920639 TTTTACTTTTATATG
1 TTTTACTTTT-TATG
10920654 ATGATAATAA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
23 8 0.27
24 9 0.30
25 13 0.43
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.57
Consensus pattern (23 bp):
TTTTACTTTTTATGTAACAATTA
Found at i:10921209 original size:16 final size:16
Alignment explanation
Indices: 10921167--10921223 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
10921157 CTCCAAATTC
*
10921167 TAAAATCCCTAAATCA
1 TAAAATCCCCAAATCA
* * * *
10921183 TGATATACCCAAATCG
1 TAAAATCCCCAAATCA
10921199 TAAAATCCCCAAATCCA
1 TAAAATCCCCAAAT-CA
*
10921216 TAACATCC
1 TAAAATCC
10921224 GAAATCTTCA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
16 22 0.73
17 8 0.27
ACGTcount: A:0.44, C:0.30, G:0.04, T:0.23
Consensus pattern (16 bp):
TAAAATCCCCAAATCA
Found at i:10921229 original size:32 final size:32
Alignment explanation
Indices: 10921159--10921229 Score: 74
Period size: 32 Copynumber: 2.2 Consensus size: 32
10921149 TTAACTTTCT
* * *
10921159 CCAAATTC-TAAAATCCCTAAATCATGATATAC
1 CCAAA-TCGTAAAATCCCCAAATCATAACATAC
10921191 CCAAATCGTAAAATCCCCAAATCCATAACAT-C
1 CCAAATCGTAAAATCCCCAAAT-CATAACATAC
*
10921223 CGAAATC
1 CCAAATC
10921230 TTCATTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 2 0.06
32 25 0.76
33 6 0.18
ACGTcount: A:0.44, C:0.30, G:0.04, T:0.23
Consensus pattern (32 bp):
CCAAATCGTAAAATCCCCAAATCATAACATAC
Found at i:10922257 original size:33 final size:32
Alignment explanation
Indices: 10922219--10922376 Score: 163
Period size: 33 Copynumber: 4.8 Consensus size: 32
10922209 TTGACAACTA
* *
10922219 GGGAGGGTAATGTTGAAGGGGTAAAAGTTGAT
1 GGGAGGGTGATGTTGAAGGGGTAGAAGTTGAT
***
10922251 GTGGAGGGTGATGTTGAAGAAATAGAAGTTGAT
1 G-GGAGGGTGATGTTGAAGGGGTAGAAGTTGAT
* *
10922284 AGGAAGGGTGATGTTGAAGGGGTAGAAGTTGAAA
1 -GGGAGGGTGATGTTGAAGGGGTAGAAGTTG-AT
** * *
10922318 GAAAGGATGATGTTTAAGGGGTAGAAGTTGAT
1 GGGAGGGTGATGTTGAAGGGGTAGAAGTTGAT
* *
10922350 GGGGAGAGCGATGTTGAAGGGGTAGAA
1 -GGGAGGGTGATGTTGAAGGGGTAGAA
10922377 TCTGTTGGTG
Statistics
Matches: 102, Mismatches: 20, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
32 2 0.02
33 98 0.96
34 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.43, T:0.23
Consensus pattern (32 bp):
GGGAGGGTGATGTTGAAGGGGTAGAAGTTGAT
Found at i:10929315 original size:24 final size:24
Alignment explanation
Indices: 10929244--10929316 Score: 82
Period size: 24 Copynumber: 3.2 Consensus size: 24
10929234 GTCATTAAGG
10929244 AGATTATGCCTATATAATAATGCC
1 AGATTATGCCTATATAATAATGCC
* ***
10929268 AGATTAT--C-A-ATAAAAATTTT
1 AGATTATGCCTATATAATAATGCC
10929288 AGATTATGCCTATATAATAATGCC
1 AGATTATGCCTATATAATAATGCC
10929312 AGATT
1 AGATT
10929317 TACTTTACTC
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 14 0.38
21 1 0.03
22 2 0.05
23 1 0.03
24 19 0.51
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (24 bp):
AGATTATGCCTATATAATAATGCC
Found at i:10930177 original size:42 final size:43
Alignment explanation
Indices: 10930124--10930226 Score: 147
Period size: 42 Copynumber: 2.4 Consensus size: 43
10930114 ACAAAAGACA
10930124 AAGGAAGCTACGTTGAAAAAG-CCACATTCAAGAAACGACAAAG
1 AAGGAAGCTACG-TGAAAAAGACCACATTCAAGAAACGACAAAG
* * *
10930167 -AGGAAGCTACGTGGAAAAGACCACTTTCAAGAAATGACAAAG
1 AAGGAAGCTACGTGAAAAAGACCACATTCAAGAAACGACAAAG
*
10930209 AAGGAAGCTACATGAAAA
1 AAGGAAGCTACGTGAAAA
10930227 GCACCCACTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
41 7 0.13
42 31 0.58
43 15 0.28
ACGTcount: A:0.49, C:0.17, G:0.22, T:0.13
Consensus pattern (43 bp):
AAGGAAGCTACGTGAAAAAGACCACATTCAAGAAACGACAAAG
Found at i:10930732 original size:2 final size:2
Alignment explanation
Indices: 10930727--10930763 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
10930717 GCAACTTCAT
*
10930727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10930764 TTGTTGTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:10936130 original size:24 final size:24
Alignment explanation
Indices: 10936102--10936183 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 24
10936092 CTAGACTAAT
* *
10936102 AAGAGTTTGACTCAAGCAAATAAA
1 AAGAGTTTAACTCAAACAAATAAA
* *
10936126 AAGAGTTTAATTGAAACAAATAAA
1 AAGAGTTTAACTCAAACAAATAAA
* * * *
10936150 TAGAGTTTAATTGAAACAATTAAA
1 AAGAGTTTAACTCAAACAAATAAA
*
10936174 CAGAGTTTAA
1 AAGAGTTTAA
10936184 TTGAAAAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.51, C:0.07, G:0.15, T:0.27
Consensus pattern (24 bp):
AAGAGTTTAACTCAAACAAATAAA
Found at i:10936184 original size:24 final size:24
Alignment explanation
Indices: 10936122--10936194 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
10936112 CTCAAGCAAA
*
10936122 TAAAAAGAGTTTAATTGAAACAAA
1 TAAAAAGAGTTTAATTGAAACAAT
*
10936146 TAAATAGAGTTTAATTGAAACAAT
1 TAAAAAGAGTTTAATTGAAACAAT
*
10936170 TAAACAGAGTTTAATTGAAA-AAT
1 TAAAAAGAGTTTAATTGAAACAAT
10936193 TA
1 TA
10936195 TTTCTCAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
23 5 0.11
24 41 0.89
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.30
Consensus pattern (24 bp):
TAAAAAGAGTTTAATTGAAACAAT
Found at i:10938521 original size:24 final size:24
Alignment explanation
Indices: 10938460--10938527 Score: 84
Period size: 24 Copynumber: 2.9 Consensus size: 24
10938450 TAGACTAATA
* * *
10938460 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAATTAAAC
* *
10938484 GGAGTTTAATTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAATTAAAC
10938508 AGAGTTTAACTGAAA-AATTA
1 AGAGTTTAACTGAAACAATTA
10938528 TTTCTCAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 5 0.14
24 32 0.86
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAATTAAAC
Found at i:10941029 original size:91 final size:91
Alignment explanation
Indices: 10940895--10941079 Score: 370
Period size: 91 Copynumber: 2.0 Consensus size: 91
10940885 ATGAATTACC
10940895 AAAGGGGCACCCCTTGCAACTTGCACTCCACTAATCCAATCCTTTATCGATGCAACCCATGATAA
1 AAAGGGGCACCCCTTGCAACTTGCACTCCACTAATCCAATCCTTTATCGATGCAACCCATGATAA
10940960 AGAGAACAAACCCTCCCCACATAGCA
66 AGAGAACAAACCCTCCCCACATAGCA
10940986 AAAGGGGCACCCCTTGCAACTTGCACTCCACTAATCCAATCCTTTATCGATGCAACCCATGATAA
1 AAAGGGGCACCCCTTGCAACTTGCACTCCACTAATCCAATCCTTTATCGATGCAACCCATGATAA
10941051 AGAGAACAAACCCTCCCCACATAGCA
66 AGAGAACAAACCCTCCCCACATAGCA
10941077 AAA
1 AAA
10941080 ATAGATAAGG
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 94 1.00
ACGTcount: A:0.35, C:0.34, G:0.13, T:0.18
Consensus pattern (91 bp):
AAAGGGGCACCCCTTGCAACTTGCACTCCACTAATCCAATCCTTTATCGATGCAACCCATGATAA
AGAGAACAAACCCTCCCCACATAGCA
Found at i:10945552 original size:11 final size:11
Alignment explanation
Indices: 10945521--10945545 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10945511 AAATAAAGGT
10945521 TTTTATTTTTC
1 TTTTATTTTTC
10945532 TTTTATTTTTC
1 TTTTATTTTTC
10945543 TTT
1 TTT
10945546 CTTTTTTGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:10945582 original size:3 final size:3
Alignment explanation
Indices: 10945574--10945611 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10945564 GGCCCAAATT
10945574 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
10945612 TATTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:10945616 original size:3 final size:3
Alignment explanation
Indices: 10945610--10945654 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
10945600 CATCATCATC
10945610 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10945655 TTAGGGTTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10946943 original size:240 final size:237
Alignment explanation
Indices: 10946523--10946991 Score: 740
Period size: 240 Copynumber: 2.0 Consensus size: 237
10946513 ATCATAATAT
*
10946523 TGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTTTCA
1 TGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAGTAACTTTCA
*
10946588 GGTTTTTTTAGGACTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAATTATTT
66 GGTTTTTTTAGGACTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATTATTT
* *
10946653 AAGTATCGTTTAGGATTATCGTTAGAAGAAAAAATATCTAATTTAAGTTTTAAATTAGATAGGTT
131 AAGTATCGTTTAGGATTATCATTAGAAGAAAAAATATCTAATTTAAGTTTTAAATTAGATAAGTT
*
10946718 TGGTGAACACGTCTTAGTCAAGTTACAAATAAATCAGAGTAA
196 TGGTGAACACGCCTTAGTCAAGTTACAAATAAATCAGAGTAA
*
10946760 TGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAGTAATTTTTT
1 TGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAGTAA--CTTT
* * *
10946825 TAGTTTTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATTA
64 CAG-GTTTTTTTAGGACTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATTA
* * * * * * * * *
10946890 TTTAGGTATCTTTTAGGGTTCTTATTAGGAGTAAAAATCTTTAATTTAAGTTTTAAATTAGATAA
128 TTTAAGTATCGTTTAGGATTATCATTAGAAGAAAAAATATCTAATTTAAGTTTTAAATTAGATAA
*
10946955 GTTTGGTGAACACGCCTTAGTCAAGTTACAACTAAAT
193 GTTTGGTGAACACGCCTTAGTCAAGTTACAAATAAAT
10946992 TGAAAGTATT
Statistics
Matches: 210, Mismatches: 19, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
237 58 0.28
239 5 0.02
240 147 0.70
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (237 bp):
TGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTGAATTCATTAGTAACTTTCA
GGTTTTTTTAGGACTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATTATTT
AAGTATCGTTTAGGATTATCATTAGAAGAAAAAATATCTAATTTAAGTTTTAAATTAGATAAGTT
TGGTGAACACGCCTTAGTCAAGTTACAAATAAATCAGAGTAA
Found at i:10957085 original size:42 final size:42
Alignment explanation
Indices: 10957026--10957650 Score: 686
Period size: 42 Copynumber: 14.9 Consensus size: 42
10957016 AAGGAAAGCA
*
10957026 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
10957068 TTCATCGCATTCAGAGGCCCAGGTGTGGAGG-CCTATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCC-ATTTACTT
* * * ** *
10957110 TTCATTGTATTTAGAGGCCTAACTGTGGAGGTGCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
10957152 TTCATCGCATTTAGAGGCCCAAGTGTGG-GCGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAG-GTCCATTTACTT
* * * *
10957194 TTCATCGCATTCAAAGGCCTAGGTGTGGGGGTCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
10957236 TTCATTACAATCAGAGGCCCAGGCGTGG-GTGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAG-GTCCATTTACTT
* * * * *
10957278 TTCATCGCATTCAAAGGCCTAGGTGTGGGGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
10957320 TTCATTACATTCAGAGGCCCAGGCGTGGAGGTCTATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * * *
10957362 TTC-TTCGCATTTAGAGGTCTAGGTGTGGAGGCCCATTTACTT
1 TTCATT-GCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* ** *
10957404 TTCATTGCATTCAGAAGCCCAAATGTGGAGGCCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
10957446 TTCATTCCATTTAGAGGCCCATGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
10957488 TTCTTTGCATTTC-GAGGCCTAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCA-TTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
*
10957530 TTCATTGCATTCAGAGGCCGAGGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
* * *
10957572 TTCATTGCATTTAGGGGCCCATGTGTGGAGG-CTCATTTACTT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTC-CATTTACTT
* * * ** *
10957614 TTTATTGCATTTAGAGGCCTAGGCATAGAGGTCCATT
1 TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATT
10957651 CATTTATTTT
Statistics
Matches: 491, Mismatches: 80, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
41 10 0.02
42 473 0.96
43 8 0.02
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (42 bp):
TTCATTGCATTCAGAGGCCCAGGTGTGGAGGTCCATTTACTT
Found at i:10957168 original size:84 final size:84
Alignment explanation
Indices: 10957026--10957650 Score: 772
Period size: 84 Copynumber: 7.4 Consensus size: 84
10957016 AAGGAAAGCA
* *
10957026 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATCGCATTCAGAGGCCCAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCAGAGGCCCAGG
*
10957091 TGTGGAGGCCTATTTACTT
66 TGTGGAGGCCCATTTACTT
* ** * * * *
10957110 TTCATTGTATTTAGAGGCCTAACTGTGGAGGTGCATTTACTTTTCATCGCATTTAGAGGCCCAAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCAGAGGCCCAGG
10957175 TGTGG-GCGCCCATTTACTT
66 TGTGGAG-GCCCATTTACTT
* * * * * *
10957194 TTCATCGCATTCAAAGGCCTAGGTGTGGGGGTCCATTTACTTTTCATTACAATCAGAGGCCCAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCAGAGGCCCAGG
*
10957259 CGTGG-GTGCCCATTTACTT
66 TGTGGAG-GCCCATTTACTT
* * * * * *
10957278 TTCATCGCATTCAAAGGCCTAGGTGTGGGGGCCCATTTACTTTTCATTACATTCAGAGGCCCAGG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCAGAGGCCCAGG
* * *
10957343 CGTGGAGGTCTATTTACTT
66 TGTGGAGGCCCATTTACTT
* * * *
10957362 TTC-TTCGCATTTAGAGGTCTAGGTGTGGAGGCCCATTTACTTTTCATTGCATTCAGAAGCCCAA
1 TTCATT-GCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCAGAGGCCCAG
*
10957426 ATGTGGAGGCCCATTTACTT
65 GTGTGGAGGCCCATTTACTT
* * * * *
10957446 TTCATTCCATTTAGAGGCCCATGTGTGGAGGTCCATTTACTTTTCTTTGCATTTC-GAGGCCTAG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCA-TTCAGAGGCCCAG
10957510 GTGTGGAGGCCCATTTACTT
65 GTGTGGAGGCCCATTTACTT
* * * * *
10957530 TTCATTGCATTCAGAGGCCGAGGTGTGGAGGTCCATTTACTTTTCATTGCATTTAGGGGCCCATG
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCAGAGGCCCAGG
*
10957595 TGTGGAGGCTCATTTACTT
66 TGTGGAGGCCCATTTACTT
* ** *
10957614 TTTATTGCATTTAGAGGCCTAGGCATAGAGGTCCATT
1 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATT
10957651 CATTTATTTT
Statistics
Matches: 470, Mismatches: 65, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
83 4 0.01
84 460 0.98
85 6 0.01
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (84 bp):
TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCCATTTACTTTTCATTGCATTCAGAGGCCCAGG
TGTGGAGGCCCATTTACTT
Found at i:10958719 original size:148 final size:149
Alignment explanation
Indices: 10958517--10958965 Score: 647
Period size: 148 Copynumber: 3.0 Consensus size: 149
10958507 TTCCTTTAAA
* *
10958517 AAAAGAAAAAGCTTATA-TTTTTAAAAAAATAAAAATCTGTTTTCTTAGTTATTTTAGAGAAAAA
1 AAAA-AAAAAGCTTATATTTTTTAAAAAAATAAAAATCTATTTTCTTAGTTATTTTAGAAAAAAA
* *
10958581 GTTTACATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAATTTGGATTTTTAA
65 GTTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAA
10958646 GTAAAAATAGTGATTTTATT
130 GTAAAAATAGTGATTTTATT
*
10958666 -AAAAAAAAGCTTATATTTTTTAAAAAAATAAAAATCTATTTTCTTAGTTATTTTAGAAAAAAAA
1 AAAAAAAAAGCTTATATTTTTTAAAAAAATAAAAATCTATTTTCTTAGTTATTTTAGAAAAAAAG
*
10958730 TTTAGATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAG
66 TTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAG
*
10958795 TAAAAAATAGTGATTTTCTT
131 T-AAAAATAGTGATTTTATT
* * *
10958815 AAAAAAAAAAGAGAAAGTTTAGATTTTTT-AAAAAATAAAAATCTATTTTTTTAGTTATTTTA-A
1 -----AAAAA-A-AAAGCTTATATTTTTTAAAAAAATAAAAATCTATTTTCTTAGTTATTTTAGA
* *
10958878 ATAAAAAGTTTAAATTTTTAATAAAGTTTTGATTTTTTTTAACTATTTCAAAATAAAAGTTTGGA
59 A-AAAAAGTTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGA
* *
10958943 ATTTTAAGT-AAAGTAGTGATTTT
123 TTTTTAAGTAAAAATAGTGATTTT
10958966 TGTTTAATCA
Statistics
Matches: 274, Mismatches: 15, Indels: 17
0.90 0.05 0.06
Matches are distributed among these distances:
147 12 0.04
148 112 0.41
149 17 0.06
154 13 0.05
155 6 0.02
156 100 0.36
157 14 0.05
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.44
Consensus pattern (149 bp):
AAAAAAAAAGCTTATATTTTTTAAAAAAATAAAAATCTATTTTCTTAGTTATTTTAGAAAAAAAG
TTTAAATTTTTAACAAAGTTTTGATTTTTTTTAACTATTTCGAAATAAAAGTTTGGATTTTTAAG
TAAAAATAGTGATTTTATT
Found at i:10961043 original size:37 final size:37
Alignment explanation
Indices: 10960985--10961204 Score: 278
Period size: 37 Copynumber: 5.9 Consensus size: 37
10960975 ACATTTAAAA
10960985 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
* * **
10961022 TTCAAGCTCTGTGCCTAGTAGGCTTCGTGCCAATGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
* * * *
10961059 TTTAGGCTGTGTGCCTAGTAGGCTTCGTGCTGATGTA
1 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
* *
10961096 TTCAGGATGTGTGCCTAGTAGGCTTTGTGCCGGTGTT
1 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
* * *
10961133 TTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTGTA
1 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
* * * * *
10961170 TTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGGTG
1 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTG
10961205 ATCCAAGAAT
Statistics
Matches: 161, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 161 1.00
ACGTcount: A:0.12, C:0.20, G:0.33, T:0.36
Consensus pattern (37 bp):
TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
Found at i:10961183 original size:111 final size:111
Alignment explanation
Indices: 10960984--10961201 Score: 319
Period size: 111 Copynumber: 2.0 Consensus size: 111
10960974 TACATTTAAA
* *
10960984 ATTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGCTCTGTGCCTAGTAGGCTTCG
1 ATTCAGGATGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGCTATGTGCCTAGTAGGCTTCG
* * * *
10961049 TGCCAATGTTTTTAGGCTGTGTGCCTAGTAGGCTTCGTGCTGATGT
66 TGCCAATGTATTCAGGCTATGTGCCTAGCAGGCTTCGTGCTGATGT
* * *
10961095 ATTCAGGATGTGTGCCTAGTAGGCTTTGTGCCGGTGTTTTCAGGCTATGTGCCTAGTAGGCTTTG
1 ATTCAGGATGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGCTATGTGCCTAGTAGGCTTCG
** * *
10961160 TGCCGGTGTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTG
66 TGCCAATGTATTCAGGCTATGTGCCTAGCAGGCTTCGTGCTG
10961202 GTGATCCAAG
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
111 94 1.00
ACGTcount: A:0.12, C:0.20, G:0.32, T:0.36
Consensus pattern (111 bp):
ATTCAGGATGTGTGCCTAGTAGGCTTCGTGCCGGTGTTTTCAAGCTATGTGCCTAGTAGGCTTCG
TGCCAATGTATTCAGGCTATGTGCCTAGCAGGCTTCGTGCTGATGT
Found at i:10970060 original size:16 final size:19
Alignment explanation
Indices: 10970044--10970080 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10970034 AAAGATATAT
10970044 TAAT-TAATAATATTATTA
1 TAATATAATAATATTATTA
10970062 TAATATAATAATATT-TTA
1 TAATATAATAATATTATTA
10970080 T
1 T
10970081 TATTTATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATAATAATATTATTA
Found at i:10970092 original size:25 final size:23
Alignment explanation
Indices: 10970054--10970099 Score: 74
Period size: 25 Copynumber: 1.9 Consensus size: 23
10970044 TAATTAATAA
10970054 TATTATTATAATATAATAATATTT
1 TATTATTATAATATAA-AATATTT
10970078 TATTATTTATAATATAAAATAT
1 TATTA-TTATAATATAAAATAT
10970100 AAAAGAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATTATTATAATATAAAATATTT
Found at i:10977324 original size:37 final size:37
Alignment explanation
Indices: 10977270--10977411 Score: 178
Period size: 37 Copynumber: 3.8 Consensus size: 37
10977260 ACATTTAAAA
* * * *
10977270 TTCAGGCTGTGTACCTAGTAGGCTTTGTGCCTGTATT
1 TTCAGGCTGTGTGCCTAGTAAGCTTCGTGCCTGTGTT
* *
10977307 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTGTGTGCCTAGTAAGCTTCGTGCCTGTGTT
* *
10977344 TTCAGGCTGTGTGCCTAGTAAGTTTTGTG-CTGGTGTT
1 TTCAGGCTGTGTGCCTAGTAAGCTTCGTGCCT-GTGTT
* *
10977381 TTTAGGCTATGTGCCTAGTAAGCTTCGTGCC
1 TTCAGGCTGTGTGCCTAGTAAGCTTCGTGCC
10977412 AATGTATTCG
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
36 1 0.01
37 89 0.98
38 1 0.01
ACGTcount: A:0.12, C:0.19, G:0.30, T:0.39
Consensus pattern (37 bp):
TTCAGGCTGTGTGCCTAGTAAGCTTCGTGCCTGTGTT
Found at i:10977394 original size:74 final size:74
Alignment explanation
Indices: 10977270--10977411 Score: 205
Period size: 74 Copynumber: 1.9 Consensus size: 74
10977260 ACATTTAAAA
* * *
10977270 TTCAGGCTGTGTACCTAGTAGGCTTTGTGCCTGTATTTTCAGGCTGTGTGCCTAGTAGGCTTCGT
1 TTCAGGCTGTGTACCTAGTAAGCTTTGTGCCTGTATTTTCAGGCTATGTGCCTAGTAAGCTTCGT
10977335 GCCGGTGTT
66 GCCGGTGTT
* * * *
10977344 TTCAGGCTGTGTGCCTAGTAAGTTTTGTG-CTGGTGTTTTTAGGCTATGTGCCTAGTAAGCTTCG
1 TTCAGGCTGTGTACCTAGTAAGCTTTGTGCCT-GTATTTTCAGGCTATGTGCCTAGTAAGCTTCG
10977408 TGCC
65 TGCC
10977412 AATGTATTCG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
73 2 0.03
74 58 0.97
ACGTcount: A:0.12, C:0.19, G:0.30, T:0.39
Consensus pattern (74 bp):
TTCAGGCTGTGTACCTAGTAAGCTTTGTGCCTGTATTTTCAGGCTATGTGCCTAGTAAGCTTCGT
GCCGGTGTT
Found at i:10977427 original size:37 final size:36
Alignment explanation
Indices: 10977270--10977452 Score: 143
Period size: 37 Copynumber: 5.0 Consensus size: 36
10977260 ACATTTAAAA
* * * * * *
10977270 TTCAGGCTGTGTACCTAGTAGGCTTTGTGCCTGTATT
1 TTCAGGCTATGTGCCTAGTAAGCTTCGTGCCGGT-GT
* *
10977307 TTCAGGCTGTGTGCCTAGTAGGCTTCGTGCCGGTGTT
1 TTCAGGCTATGTGCCTAGTAAGCTTCGTGCCGGTG-T
* * * *
10977344 TTCAGGCTGTGTGCCTAGTAAGTTTTGTGCTGGTGTT
1 TTCAGGCTATGTGCCTAGTAAGCTTCGTGCCGGTG-T
* **
10977381 TTTAGGCTATGTGCCTAGTAAGCTTCGTGCCAATGT
1 TTCAGGCTATGTGCCTAGTAAGCTTCGTGCCGGTGT
* * * *
10977417 ATTC-GAGCTATATGCCTAGCAGGCTTTGTGCCGGTG
1 -TTCAG-GCTATGTGCCTAGTAAGCTTCGTGCCGGTG
10977453 ATCCAAGAAC
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
36 2 0.02
37 119 0.98
ACGTcount: A:0.14, C:0.19, G:0.30, T:0.37
Consensus pattern (36 bp):
TTCAGGCTATGTGCCTAGTAAGCTTCGTGCCGGTGT
Found at i:10977433 original size:74 final size:74
Alignment explanation
Indices: 10977269--10977448 Score: 184
Period size: 74 Copynumber: 2.4 Consensus size: 74
10977259 TACATTTAAA
* * * * * *
10977269 ATTCAGGCTGTGTACCTAGTAGGCTTTGTGCCTGTATTTTCAGGCTGTGTGCCTAGTAGGCTTCG
1 ATTCAGGCTATATGCCTAGTAAGCTTTGTGCCTGTATTTTCAGGCTATGTGCCTAGTAAGCTTCG
**
10977334 TGCCGGTGT
66 TGCCAATGT
* * * * * *
10977343 TTTCAGGCTGTGTGCCTAGTAAGTTTTGTG-CTGGTGTTTTTAGGCTATGTGCCTAGTAAGCTTC
1 ATTCAGGCTATATGCCTAGTAAGCTTTGTGCCT-GTATTTTCAGGCTATGTGCCTAGTAAGCTTC
10977407 GTGCCAATGT
65 GTGCCAATGT
* *
10977417 ATTC-GAGCTATATGCCTAGCAGGCTTTGTGCC
1 ATTCAG-GCTATATGCCTAGTAAGCTTTGTGCC
10977449 GGTGATCCAA
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
73 3 0.03
74 83 0.95
75 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.29, T:0.37
Consensus pattern (74 bp):
ATTCAGGCTATATGCCTAGTAAGCTTTGTGCCTGTATTTTCAGGCTATGTGCCTAGTAAGCTTCG
TGCCAATGT
Found at i:10985592 original size:12 final size:13
Alignment explanation
Indices: 10985564--10985592 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10985554 TTAATTACTT
10985564 TTTTATTAATCAA
1 TTTTATTAATCAA
10985577 TTTTATTAAT-AA
1 TTTTATTAATCAA
10985589 TTTT
1 TTTT
10985593 CATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTATTAATCAA
Found at i:10986525 original size:29 final size:30
Alignment explanation
Indices: 10986458--10986538 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
10986448 AATCTCAAAA
*
10986458 TTATACATGAACTAT-AGTTTAATGTACAATT
1 TTATACATGAACTTTGA-TTT-ATGTACAATT
* *
10986489 GTATACATGAACTTTGATTT-TGTGCAATT
1 TTATACATGAACTTTGATTTATGTACAATT
*
10986518 TTATACATGAAATTTTGATTT
1 TTATACATG-AACTTTGATTT
10986539 GATCCAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 16 0.37
30 10 0.23
31 16 0.37
32 1 0.02
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (30 bp):
TTATACATGAACTTTGATTTATGTACAATT
Found at i:10986547 original size:30 final size:29
Alignment explanation
Indices: 10986484--10986547 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
10986474 GTTTAATGTA
*
10986484 CAATTGTATACATGAACTTTGATTTTGTG
1 CAATTGTATACATGAACTTTGATTTTGTC
* *
10986513 CAATTTTATACATGAAATTTTGA-TTTGATC
1 CAATTGTATACATG-AACTTTGATTTTG-TC
10986543 CAATT
1 CAATT
10986548 CTTGTAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.45
Consensus pattern (29 bp):
CAATTGTATACATGAACTTTGATTTTGTC
Found at i:10989482 original size:60 final size:59
Alignment explanation
Indices: 10989339--10989761 Score: 343
Period size: 59 Copynumber: 7.1 Consensus size: 59
10989329 TGCATGGCTA
** * *
10989339 ACAC-CCCTTTTTTATCAAATAAAAAATTCAATTTTTTGGTGTTGGCCATGCAATGGTCG
1 ACACTCCC-TTTTTATCTGATAAAAAATTAAATTTTTTTGTGTTGGCCATGCAATGGTCG
* * **
10989398 ACA-TCCATATTTATCTGATAAAAAAATTAAATTTTTTTACGTTGGCCATGCAATGGTCG
1 ACACTCCCTTTTTATCTGAT-AAAAAATTAAATTTTTTTGTGTTGGCCATGCAATGGTCG
* ** * *
10989457 ACA-TCCCTTTTTATCTGAATAAAAAATCAAATTTTTGGGTGTTGACCATGCTATGGTCG
1 ACACTCCCTTTTTATCTG-ATAAAAAATTAAATTTTTTTGTGTTGGCCATGCAATGGTCG
* * * * * * * * *
10989516 ACACCCCCGTTTTGTCAGAT-AAAAATTCGAATTTTTTTTTGTATTGGTCATGCCATGGGCG
1 ACACTCCCTTTTTATCTGATAAAAAATT--AA-ATTTTTTTGTGTTGGCCATGCAATGGTCG
* * * * *
10989577 ACACTCTCTTTTTTATCTGGTAAAAAAATCAATTTTTTTTGTGTTGGCCATGCAATGGTTG
1 ACACTC-CCTTTTTATCTGAT-AAAAAATTAAATTTTTTTGTGTTGGCCATGCAATGGTCG
* ** * * * **
10989638 ACAC-CCCTTTTTGTCAAATAAAAAATTCAATTTTTTTTTGTGTTGGTCATACCGTGGTCG
1 ACACTCCCTTTTTATCTGATAAAAAATT-AA-ATTTTTTTGTGTTGGCCATGCAATGGTCG
* * * * * *
10989698 ACACTCCTTTTTTATCTGGTAAAAAATTAATTTTTTTTGGTGTTAGTCATGCAATGGCCG
1 ACACTCCCTTTTTATCTGATAAAAAATTAAATTTTTTT-GTGTTGGCCATGCAATGGTCG
10989758 ACAC
1 ACAC
10989762 AAACTTTCCC
Statistics
Matches: 287, Mismatches: 63, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
58 22 0.08
59 111 0.39
60 65 0.23
61 72 0.25
62 11 0.04
64 6 0.02
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.39
Consensus pattern (59 bp):
ACACTCCCTTTTTATCTGATAAAAAATTAAATTTTTTTGTGTTGGCCATGCAATGGTCG
Found at i:10990606 original size:30 final size:30
Alignment explanation
Indices: 10990570--10990681 Score: 136
Period size: 30 Copynumber: 3.7 Consensus size: 30
10990560 AAAAAATAAT
* *
10990570 AATTAGAAATGAAATTTAAAAGATAAATGA
1 AATTAGAAATTAAATTTAAAATATAAATGA
* * * *
10990600 AATTAGAAATTAAAATAAAAATATATAGGA
1 AATTAGAAATTAAATTTAAAATATAAATGA
10990630 AATTAGAAATTAAATTTAAAATA-AAATCGA
1 AATTAGAAATTAAATTTAAAATATAAAT-GA
* *
10990660 AATTACAAATTAAATTTTAAAT
1 AATTAGAAATTAAATTTAAAAT
10990682 TTTTGTATTT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
29 2 0.03
30 67 0.97
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (30 bp):
AATTAGAAATTAAATTTAAAATATAAATGA
Found at i:10991632 original size:21 final size:22
Alignment explanation
Indices: 10991586--10991633 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
10991576 CCTGTTATTG
* *
10991586 TTTTGTTGTTGTTTTGCTACCA
1 TTTTGTTATCGTTTTGCTACCA
*
10991608 TTTTGTTATCGTTTTGCT-TCA
1 TTTTGTTATCGTTTTGCTACCA
10991629 TTTTG
1 TTTTG
10991634 CTATTATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.08, C:0.12, G:0.17, T:0.62
Consensus pattern (22 bp):
TTTTGTTATCGTTTTGCTACCA
Found at i:10995809 original size:119 final size:118
Alignment explanation
Indices: 10995684--10995908 Score: 276
Period size: 119 Copynumber: 1.9 Consensus size: 118
10995674 TTTTTTTTTT
** * ** * * * *
10995684 AATTACAAACAGTGATTAGCGCGACTCGAATTCAGATCACAT-TGAGAGCGATGAACACT-TTTG
1 AATTACAAACAGCAATTAGCACGACTCGAACCCAAATCACATCT-AAAACAATGAACA-TATTT-
* *
10995747 ACCATCAAGTCAATACATAGGATT-TCATAAGCTATGCTTTCTTTCTTTTTTTGATG
63 ACCATCAAGTCAATACATAAGATTCT-ATAAACTATGCTTTCTTTCTTTTTTTGATG
*
10995803 AATTACAAATAGCAATTAGCACGACTCGAACCCAAATCACATCTAAAACAATGAACATATTTACC
1 AATTACAAACAGCAATTAGCACGACTCGAACCCAAATCACATCTAAAACAATGAACATATTTACC
*
10995868 ATCAAGTCAATACATAAGATTCTATAAACTATGTTTTCTTT
66 ATCAAGTCAATACATAAGATTCTATAAACTATGCTTTCTTT
10995909 AAATTAATTC
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
118 40 0.44
119 49 0.54
120 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (118 bp):
AATTACAAACAGCAATTAGCACGACTCGAACCCAAATCACATCTAAAACAATGAACATATTTACC
ATCAAGTCAATACATAAGATTCTATAAACTATGCTTTCTTTCTTTTTTTGATG
Found at i:10997413 original size:13 final size:14
Alignment explanation
Indices: 10997376--10997417 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 14
10997366 TTTCAAAACA
*
10997376 TATTAAATGAATAT
1 TATTAAATAAATAT
10997390 TATTAATAATAAATAT
1 TATT-A-AATAAATAT
10997406 T-TTAAATAAATA
1 TATTAAATAAATA
10997418 ATAAAAAGGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 8 0.32
14 5 0.20
15 3 0.12
16 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
TATTAAATAAATAT
Found at i:10998577 original size:29 final size:29
Alignment explanation
Indices: 10998545--10998876 Score: 126
Period size: 29 Copynumber: 11.4 Consensus size: 29
10998535 GAAATCATAT
*
10998545 TTTGACCCTTAAACTTCTCAAAAATTACA
1 TTTGACCCTCAAACTTCTCAAAAATTACA
**
10998574 TTTGTACCCTCGTACTTC-CAAAAATTACA
1 TTTG-ACCCTCAAACTTCTCAAAAATTACA
*
10998603 TTTTG-CCCTCAAACTT-TCAAAAATTATA
1 -TTTGACCCTCAAACTTCTCAAAAATTACA
* *
10998631 TTTTTG-CCCCCAAACTTC-AAAAAATTACCA
1 --TTTGACCCTCAAACTTCTCAAAAATTA-CA
* *
10998661 TTTTG--CCTCTAGACATC-CAAAAATTACCA
1 -TTTGACCCTC-AAACTTCTCAAAAATTA-CA
* * * *
10998690 TTTTACCCTCGAACATC-CAAAAAATACCA
1 TTTGACCCTCAAACTTCTCAAAAATTA-CA
*
10998719 TTCT-ACCCTCAAACATC-CAAAAATTACCA
1 TT-TGACCCTCAAACTTCTCAAAAATTA-CA
* * * *
10998748 TTTTG-CCCTTAAGCATC-CAAAAATTAAAA
1 -TTTGACCCTCAAACTTCTCAAAAATT-ACA
* *
10998777 TTTTTGTCCCT-GAACTT-TCAAAAATTACA
1 --TTTGACCCTCAAACTTCTCAAAAATTACA
* *
10998806 TTTTG-CCCTCGAACATC-CAAAAATTACCA
1 -TTTGACCCTCAAACTTCTCAAAAATTA-CA
* * * *
10998835 TTTTGGCCC-CGAGCATC-CAAAAATTACCA
1 -TTTGACCCTCAAACTTCTCAAAAATTA-CA
*
10998864 TTTTACCCTCAAA
1 TTTGACCCTCAAA
10998877 TTTTCCAAAA
Statistics
Matches: 250, Mismatches: 32, Indels: 42
0.77 0.10 0.13
Matches are distributed among these distances:
27 4 0.02
28 50 0.20
29 150 0.60
30 42 0.17
31 4 0.02
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.31
Consensus pattern (29 bp):
TTTGACCCTCAAACTTCTCAAAAATTACA
Found at i:10998692 original size:87 final size:85
Alignment explanation
Indices: 10998543--10998886 Score: 320
Period size: 87 Copynumber: 4.0 Consensus size: 85
10998533 TAGAAATCAT
* * * * *
10998543 ATTTTGACCCTTAAACTTCTCAAAAATTA-CATTTGTACCCTCGTACTTCCAAAAATTA-CATTT
1 ATTTTG-CCCTCAAACATC-CAAAAATTACCATTT-TGCCCTAG-ACATCCAAAAATTACCATTT
* *
10998606 TGCCCTCAAACTTTCAAAAATTAT
62 TACCCTCAAACTTTCAAAAATTAC
* * *
10998630 ATTTTTGCCCCCAAACTTCAAAAAATTACCATTTTGCCTCTAGACATCCAAAAATTACCATTTTA
1 A-TTTTGCCCTCAAACATCCAAAAATTACCATTTTGCC-CTAGACATCCAAAAATTACCATTTTA
* * * *
10998695 CCCTCGAACATCCAAAAAATACC
64 CCCTCAAACTTTCAAAAATTA-C
* * **
10998718 ATTCTACCCTCAAACATCCAAAAATTACCATTTTGCCCTTA-AGCATCCAAAAATTAAAATTTTT
1 ATTTTGCCCTCAAACATCCAAAAATTACCATTTTGCCC-TAGA-CATCCAAAAATTACCA-TTTT
* *
10998782 GTCCCT-GAACTTTCAAAAATTAC
63 -ACCCTCAAACTTTCAAAAATTAC
* *
10998805 ATTTTGCCCTCGAACATCCAAAAATTACCATTTTGGCCC-CGAGCATCCAAAAATTACCATTTTA
1 ATTTTGCCCTCAAACATCCAAAAATTACCATTTT-GCCCTAGA-CATCCAAAAATTACCATTTTA
* *
10998869 CCCTCAAATTTTCCAAAA
64 CCCTCAAACTTTCAAAAA
10998887 GTTTAATTTT
Statistics
Matches: 212, Mismatches: 33, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
85 4 0.02
86 40 0.19
87 137 0.65
88 27 0.13
89 4 0.02
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (85 bp):
ATTTTGCCCTCAAACATCCAAAAATTACCATTTTGCCCTAGACATCCAAAAATTACCATTTTACC
CTCAAACTTTCAAAAATTAC
Found at i:10998712 original size:58 final size:56
Alignment explanation
Indices: 10998563--10998873 Score: 261
Period size: 58 Copynumber: 5.4 Consensus size: 56
10998553 TTAAACTTCT
* * * * *
10998563 CAAAAATTACATTTGTACCCTCGTACTTCCAAAAATTA-CATTTTGCCCTCAAACTTT
1 CAAAAATTACATTT-TACCCTCGAACATCCAAAAATTACCATTTTGCCCT-AGACATC
* * * * * *
10998620 CAAAAATTATATTTTTGCCCCCAAACTTCAAAAAATTACCATTTTGCCTCTAGACATC
1 CAAAAATTACA-TTTTACCCTCGAACATCCAAAAATTACCATTTTGCC-CTAGACATC
* * * *
10998678 CAAAAATTACCATTTTACCCTCGAACATCCAAAAAATACCATTCTACCCTCAAACATC
1 CAAAAATTA-CATTTTACCCTCGAACATCCAAAAATTACCATTTTGCCCT-AGACATC
* * ** * *
10998736 CAAAAATTACCATTTTGCCCT-TAAGCATCCAAAAATTAAAATTTTTGTCCCT-GAACTTT
1 CAAAAATTA-CATTTTACCCTCGAA-CATCCAAAAATTACCA-TTTTG-CCCTAG-ACATC
* *
10998795 CAAAAATTACATTTTGCCCTCGAACATCCAAAAATTACCATTTTGGCCC-CGAGCATC
1 CAAAAATTACATTTTACCCTCGAACATCCAAAAATTACCATTTT-GCCCTAGA-CATC
10998852 CAAAAATTACCATTTTACCCTC
1 CAAAAATTA-CATTTTACCCTC
10998874 AAATTTTCCA
Statistics
Matches: 205, Mismatches: 35, Indels: 27
0.77 0.13 0.10
Matches are distributed among these distances:
56 1 0.00
57 51 0.25
58 129 0.63
59 20 0.10
60 4 0.02
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (56 bp):
CAAAAATTACATTTTACCCTCGAACATCCAAAAATTACCATTTTGCCCTAGACATC
Found at i:11007895 original size:16 final size:16
Alignment explanation
Indices: 11007866--11007906 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11007856 AATTTTAAAT
*
11007866 TTTAAATTTTAATTTA
1 TTTAAATTTGAATTTA
*
11007882 TTTAAGTTTGAATTTA
1 TTTAAATTTGAATTTA
11007898 TTTTAAATT
1 -TTTAAATT
11007907 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TTTAAATTTGAATTTA
Found at i:11007963 original size:19 final size:20
Alignment explanation
Indices: 11007922--11007969 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
11007912 TAAATTTTAA
11007922 AAGTCCAAAATTACAAATTC
1 AAGTCCAAAATTACAAATTC
11007942 AAGTCCAAAA-TAC-AATTCC
1 AAGTCCAAAATTACAAATT-C
*
11007961 AAGCCCAAA
1 AAGTCCAAA
11007970 CACTAAATCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (20 bp):
AAGTCCAAAATTACAAATTC
Found at i:11009811 original size:29 final size:29
Alignment explanation
Indices: 11009776--11010086 Score: 235
Period size: 29 Copynumber: 10.8 Consensus size: 29
11009766 CCCCCATGCT
*
11009776 TCCAAAAATTA-CATTTTGCCCCTGAACT
1 TCCAAAAATTACCATTTTGCCCCTGAACA
* * **
11009804 TCCAAAAAATA-TATTTTTGCTCCC-GAATT
1 TCCAAAAATTACCA-TTTTGC-CCCTGAACA
*
11009833 TCCAAAAATTACCATTTTACCCCTTG-ACA
1 TCCAAAAATTACCATTTTGCCCC-TGAACA
* *
11009862 TCC-AAAATTACCATTTTACCCC-CAGACA
1 TCCAAAAATTACCATTTTGCCCCTGA-ACA
* * * *
11009890 TCCAAAAATTATCATTTT-ACTCTCAGACA
1 TCCAAAAATTACCATTTTGCCCCTGA-ACA
*
11009919 TCCAAAAATTACCATTTTGCCCCTGAGCA
1 TCCAAAAATTACCATTTTGCCCCTGAACA
* ** * *
11009948 TCCAATAATTAAAATTTTTGCCCCCGAACT
1 TCCAAAAATTACCA-TTTTGCCCCTGAACA
* * * *
11009978 TTCAAAAATGA-CATTTTTGCTCCTGAACT
1 TCCAAAAATTACCA-TTTTGCCCCTGAACA
* * *
11010007 TCCAAAAATTA-TATTGTTACCCCCGAACA
1 TCCAAAAATTACCATT-TTGCCCCTGAACA
* *
11010036 TCCAAAAACTACCATTTTGCCCCTGAGCA
1 TCCAAAAATTACCATTTTGCCCCTGAACA
*
11010065 TCCAAAAATCACCATTTTGCCC
1 TCCAAAAATTACCATTTTGCCC
11010087 TCAAATTTTC
Statistics
Matches: 227, Mismatches: 43, Indels: 25
0.77 0.15 0.08
Matches are distributed among these distances:
28 43 0.19
29 152 0.67
30 32 0.14
ACGTcount: A:0.34, C:0.29, G:0.07, T:0.31
Consensus pattern (29 bp):
TCCAAAAATTACCATTTTGCCCCTGAACA
Found at i:11010111 original size:117 final size:117
Alignment explanation
Indices: 11009890--11010101 Score: 286
Period size: 117 Copynumber: 1.8 Consensus size: 117
11009880 CCCCCAGACA
* * * *
11009890 TCCAAAAATTATCATTTTACTCTCAGACATCCAAAAATTACCATTTTGCCCCTGAGCATCCAATA
1 TCCAAAAATTATCATTTTACCCCCAGACATCCAAAAACTACCATTTTGCCCCTGAGCATCCAAAA
* *
11009955 ATTAAAATTTTTGCCCCCGAACTTTCAAAAATGACATTTTTGCTCCTGAACT
66 ATCAAAATTTTTGCCCCCAAACTTTCAAAAATGACATTTTTGCTCCTGAACT
11010007 TCCAAAAATTAT-ATTGTTACCCCC-GAACATCCAAAAACTACCATTTTGCCCCTGAGCATCCAA
1 TCCAAAAATTATCATT-TTACCCCCAG-ACATCCAAAAACTACCATTTTGCCCCTGAGCATCCAA
** * * *
11010070 AAATCACCA-TTTTGCCCTCAAATTTTCCAAAA
64 AAATCAAAATTTTTGCCCCCAAACTTTCAAAAA
11010102 GTTTGATTTT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
116 23 0.28
117 59 0.72
ACGTcount: A:0.34, C:0.28, G:0.07, T:0.31
Consensus pattern (117 bp):
TCCAAAAATTATCATTTTACCCCCAGACATCCAAAAACTACCATTTTGCCCCTGAGCATCCAAAA
ATCAAAATTTTTGCCCCCAAACTTTCAAAAATGACATTTTTGCTCCTGAACT
Found at i:11010138 original size:28 final size:29
Alignment explanation
Indices: 11010085--11010175 Score: 80
Period size: 28 Copynumber: 3.1 Consensus size: 29
11010075 ACCATTTTGC
*
11010085 CCTCAAATTTTCCAAAAGTTTGATTTTAAT
1 CCTC-AATTTTCCAAAAATTTGATTTTAAT
*
11010115 -CTCAATTTTCCAAAAATTCT-ATTTTGAT
1 CCTCAATTTTCCAAAAATT-TGATTTTAAT
* * *
11010143 CCTCAAATTCCTCAAAAATTATG-TTTTCAT
1 CCTCAATTTTC-CAAAAATT-TGATTTTAAT
11010173 CCT
1 CCT
11010176 GAACTCTCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
28 21 0.41
29 12 0.24
30 18 0.35
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (29 bp):
CCTCAATTTTCCAAAAATTTGATTTTAAT
Found at i:11013344 original size:4 final size:4
Alignment explanation
Indices: 11013337--11013395 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
11013327 TAACAACAAG
* * *
11013337 ATAA ATAA ACAAA ATAA ATAA ATAA ATAA A-AA TTAA AT-A CTAAA ATAA
1 ATAA ATAA A-TAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA AT-AA ATAA
*
11013385 ATAA ACAA ATA
1 ATAA ATAA ATA
11013396 TAAACAATAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
3 4 0.09
4 34 0.79
5 5 0.12
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:11013408 original size:27 final size:27
Alignment explanation
Indices: 11013339--11013411 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
11013329 ACAACAAGAT
*
11013339 AAATAAACAA-AATAAATAAATAAATAA
1 AAATAAACAATAA-AAATAAATAAACAA
* *
11013366 AAATTAAATACT-AAAATAAATAAACAA
1 AAA-TAAACAATAAAAATAAATAAACAA
*
11013393 ATATAAACAATAAAAATAA
1 AAATAAACAATAAAAATAA
11013412 TTGGGATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 6 0.16
27 25 0.68
28 6 0.16
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (27 bp):
AAATAAACAATAAAAATAAATAAACAA
Found at i:11013481 original size:3 final size:3
Alignment explanation
Indices: 11013473--11013516 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11013463 TAAACAACTA
11013473 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
11013517 AGATGAACTC
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:11014241 original size:46 final size:45
Alignment explanation
Indices: 11014189--11014334 Score: 161
Period size: 45 Copynumber: 3.2 Consensus size: 45
11014179 GGTGTTGTAA
* * *
11014189 CTTCAATCTGCCCTATTGGATTTAGGGATAAAAGATTGGATGGTTG
1 CTTCAATCTGCCCTATTGGA-TTAGGGGTAAAAGACTGGATGGTGG
* *
11014235 CTTCAATCTACCC-ATCTAGATTAGGGGTAAAAGACTGGATGGTGG
1 CTTCAATCTGCCCTAT-TGGATTAGGGGTAAAAGACTGGATGGTGG
* * * * *
11014280 CTTGAATCTGTCCCT-CTGGATTAGGGGTAAAAGACTAGACGGTGA
1 CTTCAATCTG-CCCTATTGGATTAGGGGTAAAAGACTGGATGGTGG
11014325 CTTCAATCTG
1 CTTCAATCTG
11014335 TTTAGTTTTT
Statistics
Matches: 84, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
45 66 0.79
46 18 0.21
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (45 bp):
CTTCAATCTGCCCTATTGGATTAGGGGTAAAAGACTGGATGGTGG
Found at i:11014565 original size:98 final size:98
Alignment explanation
Indices: 11014463--11014891 Score: 382
Period size: 98 Copynumber: 4.4 Consensus size: 98
11014453 GTTAAATTTG
* * * * *
11014463 CCGTTGTGACTTCAATCTATCCTTCTTTAATTTTAGGGTGTTAGGT-T-CATCATTGC-AGGTTC
1 CCGTTGCGGCTTCAATCTATCCCTCTTCAATTTTAGGGTGTTAGGTCTAC-T-ATTGCGA-CTTC
11014525 AACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
63 AACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * * **
11014561 CCGTTACGGCTTCAATCTTTCCCTCTTCGATTTTAAGGTGTTAGGTCTGCCGTTGCGACTTCAAC
1 CCGTTGCGGCTTCAATCTATCCCTCTTCAATTTTAGGGTGTTAGGTCTACTATTGCGACTTCAAC
* **
11014626 CTATCCTTCTTCAATTTTAAGGTGTAAGATCTG
66 CTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * ** * **
11014659 TCGTTGTGGCTTTAATC-ATTCCCTATTCGGTTTTAGGGTGTTATGTCTACTATTGCGGTTTCAA
1 CCGTTGCGGCTTCAATCTA-TCCCTCTTCAATTTTAGGGTGTTAGGTCTACTATTGCGACTTCAA
* *
11014723 CCTATCCCTCTTCAATTTTAAGGTGTACGATTCA
65 CCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * * * * * * *
11014757 CCGTTGCGGTTTCAATCTTTTCCTCTTTAGTTTTAGAGCGTTAGGT-TCGCTGTTGCGACTTTAA
1 CCGTTGCGGCTTCAATCTATCCCTCTTCAATTTTAGGGTGTTAGGTCT-ACTATTGCGACTTCAA
* * *
11014821 CCTATCCCTCTTTAATTTTAAGGTGTAAGATTCG
65 CCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * *
11014855 CTGTTGCGACTTTAATCTTTCCCTCTTCGATTTTAGG
1 CCGTTGCGGCTTCAATCTATCCCTCTTCAATTTTAGG
11014892 ATTTGGTATG
Statistics
Matches: 263, Mismatches: 62, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
97 1 0.00
98 259 0.98
99 2 0.01
100 1 0.00
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (98 bp):
CCGTTGCGGCTTCAATCTATCCCTCTTCAATTTTAGGGTGTTAGGTCTACTATTGCGACTTCAAC
CTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
Found at i:11014575 original size:49 final size:49
Alignment explanation
Indices: 11014463--11014889 Score: 243
Period size: 49 Copynumber: 8.7 Consensus size: 49
11014453 GTTAAATTTG
* * * * * * * * *
11014463 CCGTTGTGACTTCAATCTATCCTTCTTTAATTTTAGGGTGTTAGGTTCA
1 CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* *
11014512 TCATTGCAGG-TTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
1 CCGTTGC-GGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * * * **
11014561 CCGTTACGGCTTCAATCTTTCCCTCTTCGATTTTAAGGTGTTAGGTCTG
1 CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * **
11014610 CCGTTGCGACTTCAACCTATCCTTCTTCAATTTTAAGGTGTAAGATCTG
1 CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * * ** * * *
11014659 TCGTTGTGGCTTTAATC-ATTCCCTATTCGGTTTTAGGGTGTTATG-TCTA
1 CCGTTGCGGCTTCAACCTA-TCCCTCTTCAATTTTAAGGTG-TAAGATCCA
** * * *
11014708 CTATTGCGGTTTCAACCTATCCCTCTTCAATTTTAAGGTGTACGATTCA
1 CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * * * * * *
11014757 CCGTTGCGGTTTCAATCTTTTCCTCTTTAGTTTTAGAGCGT-T-AGGTTCG
1 CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTA-AG-GTGTAAGATCCA
* * * * * *
11014806 CTGTTGCGACTTTAACCTATCCCTCTTTAATTTTAAGGTGTAAGATTCG
1 CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
* * * * * *
11014855 CTGTTGCGACTTTAATCTTTCCCTCTTCGATTTTA
1 CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTA
11014890 GGATTTGGTA
Statistics
Matches: 290, Mismatches: 78, Indels: 20
0.75 0.20 0.05
Matches are distributed among these distances:
47 2 0.01
48 9 0.03
49 269 0.93
50 8 0.03
51 2 0.01
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.42
Consensus pattern (49 bp):
CCGTTGCGGCTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATCCA
Found at i:11014802 original size:196 final size:196
Alignment explanation
Indices: 11014492--11014891 Score: 519
Period size: 196 Copynumber: 2.0 Consensus size: 196
11014482 TCCTTCTTTA
11014492 ATTTTAGGGTGTTAGGTTCATCATTGCAGGTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGA
1 ATTTTAGGGTGTTAGGTTCATCATTGCAGGTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGA
* *
11014557 TCCACCGTTACGGCTTCAATCTTTCCCTCTTCGATTTTAAGGTGTTAGG-TCTGCCGTTGCGACT
66 TCCACCGTTACGGCTTCAATCTTTCCCTCTTAGATTTTAAGGCGTTAGGTTC-GCCGTTGCGACT
* * *
11014621 TCAACCTATCCTTCTTCAATTTTAAGGTGTAAGA-TCTG-TCGTTGTGGCTTTAATCATTCCCTA
130 TCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATTC-GCT-GTTGCGACTTTAATCATTCCCTA
11014684 TTCG
193 TTCG
* *
11014688 GTTTTAGGGTGTTATG-TC-TACTATTGC-GGTTTCAACCTATCCCTCTTCAATTTTAAGGTGTA
1 ATTTTAGGGTGTTAGGTTCAT-C-ATTGCAGG-TTCAACCTATCCCTCTTCAATTTTAAGGTGTA
* * * * * *
11014750 CGATTCACCGTTGCGGTTTCAATCTTTTCCTCTTTAG-TTTT-AGAGCGTTAGGTTCGCTGTTGC
63 AGATCCACCGTTACGGCTTCAATCTTTCCCTC-TTAGATTTTAAG-GCGTTAGGTTCGCCGTTGC
* * *
11014813 GACTTTAACCTATCCCTCTTTAATTTTAAGGTGTAAGATTCGCTGTTGCGACTTTAATCTTTCCC
126 GACTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGATTCGCTGTTGCGACTTTAATCATTCCC
*
11014878 TCTTCG
191 TATTCG
11014884 ATTTTAGG
1 ATTTTAGG
11014892 ATTTGGTATG
Statistics
Matches: 178, Mismatches: 18, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
194 1 0.01
195 7 0.04
196 162 0.91
197 8 0.04
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.41
Consensus pattern (196 bp):
ATTTTAGGGTGTTAGGTTCATCATTGCAGGTTCAACCTATCCCTCTTCAATTTTAAGGTGTAAGA
TCCACCGTTACGGCTTCAATCTTTCCCTCTTAGATTTTAAGGCGTTAGGTTCGCCGTTGCGACTT
CAACCTATCCCTCTTCAATTTTAAGGTGTAAGATTCGCTGTTGCGACTTTAATCATTCCCTATTC
G
Found at i:11015943 original size:25 final size:25
Alignment explanation
Indices: 11015915--11015977 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 25
11015905 CTCGTCCTCT
*
11015915 TCTTTTTCTTTTTTCCTTTTTTTTC
1 TCTTTTTCTTTTTTCCCTTTTTTTC
*
11015940 TCTTTTTC-TATTTCCCTTTTTTTC
1 TCTTTTTCTTTTTTCCCTTTTTTTC
*
11015964 TCTTTGTCTTTTTT
1 TCTTTTTCTTTTTT
11015978 TTTGAGCCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 21 0.64
25 12 0.36
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.76
Consensus pattern (25 bp):
TCTTTTTCTTTTTTCCCTTTTTTTC
Found at i:11021223 original size:27 final size:26
Alignment explanation
Indices: 11021185--11021236 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
11021175 TATGTGAGGA
11021185 TTTTTATTTTTATGA-TTTTTTATGAT
1 TTTTTATTTTTAT-ATTTTTTTATGAT
11021211 TTTTTATTTTTTATATTTTTTTATGA
1 TTTTTA-TTTTTATATTTTTTTATGA
11021237 AATTAAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (26 bp):
TTTTTATTTTTATATTTTTTTATGAT
Found at i:11021231 original size:9 final size:10
Alignment explanation
Indices: 11021191--11021236 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
11021181 AGGATTTTTA
11021191 TTTTTATGAT
1 TTTTTATGAT
11021201 TTTTTATGA-
1 TTTTTATGAT
11021210 TTTTT-T-AT
1 TTTTTATGAT
11021218 TTTTTAT-ATT
1 TTTTTATGA-T
11021228 TTTTTATGA
1 TTTTTATGA
11021237 AATTAAATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 1 0.03
8 6 0.19
9 7 0.22
10 17 0.53
11 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.74
Consensus pattern (10 bp):
TTTTTATGAT
Found at i:11021231 original size:17 final size:17
Alignment explanation
Indices: 11021185--11021234 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
11021175 TATGTGAGGA
* *
11021185 TTTTTAT-TTTTATGAT
1 TTTTTATATTTTTTTAT
11021201 TTTTTATGA-TTTTTTAT
1 TTTTTAT-ATTTTTTTAT
11021218 TTTTTATATTTTTTTAT
1 TTTTTATATTTTTTTAT
11021235 GAAATTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (17 bp):
TTTTTATATTTTTTTAT
Found at i:11025127 original size:13 final size:13
Alignment explanation
Indices: 11025098--11025147 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
11025088 AAATGACATG
11025098 AAAATAAATAAAAAC
1 AAAATAAAT--AAAC
*
11025113 AAGATAAATAAAC
1 AAAATAAATAAAC
*
11025126 AAAATAAATAAATA
1 AAAATAAATAAA-C
11025140 AAAATAAA
1 AAAATAAA
11025148 AATTAAATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 15 0.48
14 8 0.26
15 8 0.26
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAAC
Found at i:11025155 original size:17 final size:17
Alignment explanation
Indices: 11025099--11025141 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
11025089 AATGACATGA
*
11025099 AAATAAATAAA-AACA-
1 AAATAAATAAACAAAAT
*
11025114 AGATAAATAAACAAAAT
1 AAATAAATAAACAAAAT
11025131 AAATAAATAAA
1 AAATAAATAAA
11025142 AATAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 3 0.13
17 10 0.43
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (17 bp):
AAATAAATAAACAAAAT
Found at i:11025229 original size:15 final size:15
Alignment explanation
Indices: 11025208--11025248 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
11025198 ATTAGATATG
*
11025208 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
11025222 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
11025238 AAAAT-AATAAA
1 AAAATAAATAAA
11025249 TTAAATGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
15 12 0.50
16 5 0.21
ACGTcount: A:0.76, C:0.05, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:11031007 original size:27 final size:26
Alignment explanation
Indices: 11030967--11031019 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
11030957 TTTTTATCAT
*
11030967 TTTTTAATAATTATA-ATAATTTTTAA
1 TTTTCAATAATTATATAT-ATTTTTAA
11030993 TTTTCAATAATTTATATATATTTTTAA
1 TTTTCAATAA-TTATATATATTTTTAA
11031020 AAAAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 13 0.54
28 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTCAATAATTATATATATTTTTAA
Found at i:11031733 original size:2 final size:2
Alignment explanation
Indices: 11031728--11031754 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11031718 TTTTAGAATT
11031728 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11031755 TAAATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11032060 original size:12 final size:12
Alignment explanation
Indices: 11032043--11032088 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
11032033 AAATTCAAAT
11032043 ATTAAAATAAAA
1 ATTAAAATAAAA
*
11032055 ATTAAAATTAAA
1 ATTAAAATAAAA
*
11032067 ATTAAAAT-TAA
1 ATTAAAATAAAA
11032078 ATATAAAATAA
1 AT-TAAAATAA
11032089 GTAAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 4 0.14
12 25 0.86
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATTAAAATAAAA
Found at i:11032066 original size:18 final size:18
Alignment explanation
Indices: 11032030--11032088 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
11032020 AATATCAAAT
11032030 TAAAAATTCAAATATTAAAA
1 TAAAAATT-AAA-ATTAAAA
11032050 TAAAAATTAAAATTAAAA
1 TAAAAATTAAAATTAAAA
*
11032068 TTAAAATT-AAATATAAAA
1 TAAAAATTAAAAT-TAAAA
11032086 TAA
1 TAA
11032089 GTAAATAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.11
18 21 0.58
19 3 0.08
20 8 0.22
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAATTAAAATTAAAA
Found at i:11034193 original size:18 final size:20
Alignment explanation
Indices: 11034135--11034188 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
11034125 AAATTACAAA
*
11034135 AAAAAAATCAAAATAATTT-T
1 AAAAAATTCAAAAT-ATTTAT
*
11034155 CAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAATATTTAT
11034175 AAAAAATTCAAAAT
1 AAAAAATTCAAAAT
11034189 TTATATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 4 0.13
20 26 0.87
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAAAATTCAAAATATTTAT
Found at i:11034359 original size:16 final size:16
Alignment explanation
Indices: 11034340--11034370 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11034330 TTGAATGTTT
11034340 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
11034356 TTTCAAATTTATATG
1 TTTCAAATATATATG
11034371 CTCTAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:11034959 original size:142 final size:142
Alignment explanation
Indices: 11034703--11034986 Score: 532
Period size: 142 Copynumber: 2.0 Consensus size: 142
11034693 TTATGTACTA
11034703 ACTAAAGCCTATCAATGGTTTGAAACTCTCAGGCCCAACACGTTGACACTTTGAAGCCCGTTTTA
1 ACTAAAGCCTATCAATGGTTTGAAACTCTCAGGCCCAACACGTTGACACTTTGAAGCCCGTTTTA
*
11034768 GATTGGAATGCTACCGGCCCTTTGGTATTATGGGTTTAAGTTATATAATAAAATTTAGGCTTATT
66 GATTGGAATGCTACCGGCACTTTGGTATTATGGGTTTAAGTTATATAATAAAATTTAGGCTTATT
11034833 AGTAATAAAAGC
131 AGTAATAAAAGC
11034845 ACTAAAGCCTATCAATGGTTTGAAACTCTCAGGCCCAACACGTTGACACTTTGAAGCCCGTTTTA
1 ACTAAAGCCTATCAATGGTTTGAAACTCTCAGGCCCAACACGTTGACACTTTGAAGCCCGTTTTA
* * *
11034910 TATTGGAATGCTACCGGGACTTTGGTTTTATGGGTTTAAGTTATATAATAAAATTTAGGCTTATT
66 GATTGGAATGCTACCGGCACTTTGGTATTATGGGTTTAAGTTATATAATAAAATTTAGGCTTATT
11034975 AGTAATAAAAGC
131 AGTAATAAAAGC
11034987 CCTCAATGAA
Statistics
Matches: 138, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 138 1.00
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (142 bp):
ACTAAAGCCTATCAATGGTTTGAAACTCTCAGGCCCAACACGTTGACACTTTGAAGCCCGTTTTA
GATTGGAATGCTACCGGCACTTTGGTATTATGGGTTTAAGTTATATAATAAAATTTAGGCTTATT
AGTAATAAAAGC
Found at i:11036581 original size:28 final size:28
Alignment explanation
Indices: 11036550--11036606 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
11036540 TTATTTATTT
* *
11036550 AAATAATTTAAAAAGCTTATCCAAAATG
1 AAATAATTAAAAAAACTTATCCAAAATG
11036578 AAATAATTAAAAAAACTTATCCAAAATG
1 AAATAATTAAAAAAACTTATCCAAAATG
11036606 A
1 A
11036607 CCAACTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (28 bp):
AAATAATTAAAAAAACTTATCCAAAATG
Found at i:11036615 original size:27 final size:28
Alignment explanation
Indices: 11036559--11036618 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
11036549 TAAATAATTT
* * *
11036559 AAAAAGCTTATCCAAAATGAAATAATTA
1 AAAAAACTTATCCAAAATGAAACAACTA
*
11036587 AAAAAACTTATCCAAAATG-ACCAACTA
1 AAAAAACTTATCCAAAATGAAACAACTA
11036614 AAAAA
1 AAAAA
11036619 TCTACCAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.20
Consensus pattern (28 bp):
AAAAAACTTATCCAAAATGAAACAACTA
Found at i:11036774 original size:20 final size:20
Alignment explanation
Indices: 11036751--11036788 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11036741 TTAAGTTTAA
*
11036751 AAGTTCAAAATTACAAATTC
1 AAGTCCAAAATTACAAATTC
11036771 AAGTCCAAAATTACAAAT
1 AAGTCCAAAATTACAAAT
11036789 AAGCTTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (20 bp):
AAGTCCAAAATTACAAATTC
Found at i:11037352 original size:11 final size:11
Alignment explanation
Indices: 11037306--11037357 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
11037296 ATTTCTATAA
*
11037306 ATATTAAATAT
1 ATATTTAATAT
*
11037317 ATA-ATAATAT
1 ATATTTAATAT
*
11037327 ATATTT-ATTT
1 ATATTTAATAT
11037337 GATATTTAATAT
1 -ATATTTAATAT
11037349 ATATTTAAT
1 ATATTTAAT
11037358 GCATTTATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
10 11 0.33
11 19 0.58
12 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (11 bp):
ATATTTAATAT
Found at i:11037526 original size:26 final size:26
Alignment explanation
Indices: 11037476--11037526 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11037466 ATATTTTAAA
* *
11037476 TAATAATAAATAATAAATGATATTAT
1 TAATAATAAATAATAAAAGAAATTAT
11037502 TAATAAT-AATAATAAAGAGAAATTA
1 TAATAATAAATAATAAA-AGAAATTA
11037527 GGGGGACGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (26 bp):
TAATAATAAATAATAAAAGAAATTAT
Found at i:11038662 original size:29 final size:28
Alignment explanation
Indices: 11038586--11039077 Score: 232
Period size: 29 Copynumber: 16.9 Consensus size: 28
11038576 CCCCTACACT
* * *
11038586 TTTCCAAAATCACATTTTGACCCCCGAAAC
1 TTTCAAAAATTACATTTT-ACCCTC-AAAC
* *
11038616 TTCACAAAAATTATATTTTGACCCTCAAAC
1 TT-TCAAAAATTACATTTT-ACCCTCAAAC
*
11038646 TTTCAAAAATTACATTTTTGACCC-CAACC
1 TTTCAAAAATTACA-TTTT-ACCCTCAAAC
* *
11038675 TTCCTAAAAATTACATTTTACCCCCAAAC
1 TTTC-AAAAATTACATTTTACCCTCAAAC
* * * *
11038704 TTCCAAAAATCACATTTTTAACCTCGAAC
1 TTTCAAAAATTACA-TTTTACCCTCAAAC
11038733 TTTCTAAAAATTACCATTTTACCCTCAAAC
1 TTTC-AAAAATTA-CATTTTACCCTCAAAC
* * *
11038763 -ATCCAAAATTACTATTTTACCCTCGAAC
1 TTTCAAAAATTAC-ATTTTACCCTCAAAC
* * *
11038791 GTCCAAAAATCACATTTTTAACCCT-AAAC
1 TTTCAAAAATTACA-TTTT-ACCCTCAAAC
* **
11038820 TTTCCCAAAATTACCATTTTACCCTTGAAC
1 TTT-CAAAAATTA-CATTTTACCCTCAAAC
* * *
11038850 -ATCGAAAATTACTATTTTACCC-CTAGA-
1 TTTCAAAAATTAC-ATTTTACCCTC-AAAC
* *
11038877 TGTCCAAAAATTACATTTTTGACCCT-GAAC
1 T-TTCAAAAATTACA-TTTT-ACCCTCAAAC
* * *
11038907 TTTCCAAAATTACCATTTTACCCCCGAA-
1 TTTCAAAAATTA-CATTTTACCCTCAAAC
* *
11038935 TGTCCAAAAATTACATTTTTGACCCT-GAAC
1 T-TTCAAAAATTACA-TTTT-ACCCTCAAAC
* ** *
11038965 TTTTCAAAAATTACCATTTTTCCCT-TGAG
1 -TTTCAAAAATTA-CATTTTACCCTCAAAC
* *
11038994 TGTCCAAAAATTACCATTTTACCCTCAAAA
1 T-TTCAAAAATTA-CATTTTACCCTCAAAC
* * * * * *
11039024 GTCCAAAACTTACCATTTTGCCCTC-GAG
1 TTTCAAAAATTA-CATTTTACCCTCAAAC
*
11039052 TGTTCAAAAATTACTGTTTTACCCTC
1 T-TTCAAAAATTAC-ATTTTACCCTC
11039078 GGATGTCCAA
Statistics
Matches: 361, Mismatches: 67, Indels: 69
0.73 0.13 0.14
Matches are distributed among these distances:
27 2 0.01
28 64 0.18
29 179 0.50
30 91 0.25
31 25 0.07
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.33
Consensus pattern (28 bp):
TTTCAAAAATTACATTTTACCCTCAAAC
Found at i:11038712 original size:58 final size:57
Alignment explanation
Indices: 11038587--11038984 Score: 291
Period size: 58 Copynumber: 6.8 Consensus size: 57
11038577 CCCTACACTT
* * * *
11038587 TTCC-AAAATCACA-TTTTGACCCCCGAAACTTCACAAAAATTATATTTTGACCCTCAAAC
1 TTCCAAAAATTACATTTTTGACCCTC--AACTTC-CAAAAATTACATTTT-ACCCCCAAAC
*
11038646 TTTCAAAAATTACATTTTTGACCC-CAACCTTCCTAAAAATTACATTTTACCCCCAAAC
1 TTCCAAAAATTACATTTTTGACCCTCAA-CTTCC-AAAAATTACATTTTACCCCCAAAC
* * * *
11038704 TTCCAAAAATCACATTTTT-AACCTCGAACTTTCTAAAAATTACCATTTTACCCTCAAAC
1 TTCCAAAAATTACATTTTTGACCCTC-AAC-TTCCAAAAATTA-CATTTTACCCCCAAAC
* * * * *
11038763 ATCC-AAAATTAC-TATTTT-ACCCTCGAACGTCCAAAAATCACATTTTTAACCCTAAAC
1 TTCCAAAAATTACAT-TTTTGACCCTC-AACTTCCAAAAATTACA-TTTTACCCCCAAAC
* * * * * *
11038820 TTTCCCAAAATTACCA-TTTT-ACCCTTGAACAT-CGAAAATTACTATTTTACCCCTAGA-
1 -TTCCAAAAATTA-CATTTTTGACCC-TCAACTTCCAAAAATTAC-ATTTTACCCCCAAAC
* *
11038877 TGTCCAAAAATTACATTTTTGACCCTGAACTTTCC-AAAATTACCATTTTACCCCCGAA-
1 T-TCCAAAAATTACATTTTTGACCCTCAAC-TTCCAAAAATTA-CATTTTACCCCCAAAC
* *
11038935 TGTCCAAAAATTACATTTTTGACCCTGAACTTTTCAAAAATTACCATTTT
1 T-TCCAAAAATTACATTTTTGACCCTCAAC-TTCCAAAAATTA-CATTTT
11038985 TCCCTTGAGT
Statistics
Matches: 285, Mismatches: 31, Indels: 46
0.79 0.09 0.13
Matches are distributed among these distances:
56 5 0.02
57 43 0.15
58 138 0.48
59 79 0.28
60 11 0.04
61 9 0.03
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (57 bp):
TTCCAAAAATTACATTTTTGACCCTCAACTTCCAAAAATTACATTTTACCCCCAAAC
Found at i:11038780 original size:87 final size:85
Alignment explanation
Indices: 11038588--11039042 Score: 352
Period size: 87 Copynumber: 5.2 Consensus size: 85
11038578 CCTACACTTT
* * * * *
11038588 TCCAAAATCACATTTTGACCCCCGAAACTTCACAAAAATTATATTTTGACCCTCAAACTTTCAAA
1 TCCAAAATTACATTTT-ACCCCC-AAACTTC-CAAAAATTACATTTTTAACCTCGAACTTTCAAA
* *
11038653 AATTA-CATTTTTGACCC-CAACCT
63 AATTACCA-TTTT-ACCCTCAAACA
*
11038676 TCCTAAAAATTACATTTTACCCCCAAACTTCCAAAAATCACATTTTTAACCTCGAACTTTCTAAA
1 TCC--AAAATTACATTTTACCCCCAAACTTCCAAAAATTACATTTTTAACCTCGAACTTTC-AAA
11038741 AATTACCATTTTACCCTCAAACA
63 AATTACCATTTTACCCTCAAACA
* * * * * *
11038764 TCCAAAATTACTATTTTACCCTCGAACGTCCAAAAATCACATTTTTAACC-CTAAACTTTCCCAA
1 TCCAAAATTAC-ATTTTACCCCCAAACTTCCAAAAATTACATTTTTAACCTC-GAACTTT-CAAA
**
11038828 AATTACCATTTTACCCTTGAACA
63 AATTACCATTTTACCCTCAAACA
* * * * *
11038851 TCGAAAATTACTATTTTACCCCTAGA-TGTCCAAAAATTACATTTTTGACC-CTGAACTTTCCAA
1 TCCAAAATTAC-ATTTTACCCCCAAACT-TCCAAAAATTACATTTTTAACCTC-GAACTTTCAAA
* * **
11038914 AATTACCATTTTACCCCCGAATG
63 AATTACCATTTTACCCTCAAACA
** * * * * *
11038937 TCCAAAAATTACATTTTTGA-CCCTGAACTTTTCAAAAATTACCATTTTT-CCCTTG-AGTGTCC
1 TCC-AAAATTACA-TTTT-ACCCCCAAAC-TTCCAAAAATTA-CATTTTTAACCTCGAACT-TTC
11038999 AAAAATTACCATTTTACCCTCAAA-A
60 AAAAATTACCATTTTACCCTCAAACA
11039024 GTCCAAAACTTACCATTTT
1 -TCCAAAA-TTA-CATTTT
11039043 GCCCTCGAGT
Statistics
Matches: 307, Mismatches: 40, Indels: 40
0.79 0.10 0.10
Matches are distributed among these distances:
86 35 0.11
87 165 0.54
88 77 0.25
89 18 0.06
90 12 0.04
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.33
Consensus pattern (85 bp):
TCCAAAATTACATTTTACCCCCAAACTTCCAAAAATTACATTTTTAACCTCGAACTTTCAAAAAT
TACCATTTTACCCTCAAACA
Found at i:11038830 original size:145 final size:145
Alignment explanation
Indices: 11038622--11038984 Score: 373
Period size: 145 Copynumber: 2.5 Consensus size: 145
11038612 AAACTTCACA
* * * * *
11038622 AAAATTA-TATTTTGACCCTCAAACTTTCAAAAATTACATTTTTGACCC-CAACCTTCCTAAAAA
1 AAAATTACTATTTT-ACCCTCGAACGTCCAAAAATTACATTTTTGACCCTAAACTTTCC-AAAAA
* * * *
11038685 TTA-CATTTTACCCCCAAACTTCCAAAAATCAC-ATTTTTAACCTCGA-ACTTTCTAAAAATTAC
64 TTACCATTTTACCCCCAAACAT-CAAAAATCACTA-TTTT-ACCCCGAGA-TGTCCAAAAATTA-
11038747 CA-TTTT-ACCCTCAAAC-ATCC
124 CATTTTTGACCCT-AAACTATCC
* * *
11038767 AAAATTACTATTTTACCCTCGAACGTCCAAAAATCACATTTTTAACCCTAAACTTTCCCAAAATT
1 AAAATTACTATTTTACCCTCGAACGTCCAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATT
*** * * *
11038832 ACCATTTTACCCTTGAACATCGAAAATTACTATTTTACCCCTAGATGTCCAAAAATTACATTTTT
66 ACCATTTTACCCCCAAACATCAAAAATCACTATTTTACCCCGAGATGTCCAAAAATTACATTTTT
* *
11038897 GACCCTGAACTTTCC
131 GACCCTAAACTATCC
* * * * *
11038912 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTACATTTTTGACCCTGAACTTTTCAAAAATT
1 AAAATTACTATTTTACCCTCGAACGTCCAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATT
11038977 ACCATTTT
66 ACCATTTT
11038985 TCCCTTGAGT
Statistics
Matches: 182, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
143 2 0.01
144 23 0.13
145 129 0.71
146 28 0.15
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (145 bp):
AAAATTACTATTTTACCCTCGAACGTCCAAAAATTACATTTTTGACCCTAAACTTTCCAAAAATT
ACCATTTTACCCCCAAACATCAAAAATCACTATTTTACCCCGAGATGTCCAAAAATTACATTTTT
GACCCTAAACTATCC
Found at i:11038975 original size:30 final size:28
Alignment explanation
Indices: 11038547--11039018 Score: 233
Period size: 29 Copynumber: 16.1 Consensus size: 28
11038537 CCTAGAAGGT
* * *
11038547 CCCTGAACTGTCCAAAAATCATATTTTGA
1 CCCTGAACT-TCCAAAAATTACATTTTTA
* *
11038576 CCCCT-ACACTTTTCC-AAAATCACATTTTGA
1 -CCCTGA-AC--TTCCAAAAATTACATTTTTA
* * *
11038606 CCCCCGAAACTTCACAAAAATTATATTTTGA
1 -CCCTG-AACTTC-CAAAAATTACATTTTTA
* *
11038637 CCCTCAAACTTTCAAAAATTACATTTTTGA
1 CCCT-GAACTTCCAAAAATTACATTTTT-A
*
11038667 CCC-CAACCTTCCTAAAAATTACA-TTTTA
1 CCCTGAA-CTTCC-AAAAATTACATTTTTA
** *
11038695 CCCCCAAACTTCCAAAAATCACATTTTTA
1 -CCCTGAACTTCCAAAAATTACATTTTTA
* *
11038724 ACCTCGAACTTTCTAAAAATTACCA-TTTTA
1 CCCT-GAAC-TTCCAAAAATTA-CATTTTTA
* *
11038754 CCCTCAAACATCC-AAAATTAC-TATTTTA
1 CCCT-GAACTTCCAAAAATTACAT-TTTTA
* *
11038782 CCCTCGAACGTCCAAAAATCACATTTTTAA
1 CCCT-GAACTTCCAAAAATTACATTTTT-A
* *
11038812 CCCTAAACTTTCCCAAAATTACCA-TTTTA
1 CCCTGAAC-TTCCAAAAATTA-CATTTTTA
* *
11038841 CCCTTGAACAT-CGAAAATTAC-TATTTTA
1 CCC-TGAACTTCCAAAAATTACAT-TTTTA
11038869 CCCCT-AGA-TGTCCAAAAATTACATTTTTGA
1 -CCCTGA-ACT-TCCAAAAATTACATTTTT-A
11038899 CCCTGAACTTTCC-AAAATTACCA-TTTTA
1 CCCTGAAC-TTCCAAAAATTA-CATTTTTA
*
11038927 CCCCCGAA-TGTCCAAAAATTACATTTTTGA
1 -CCCTGAACT-TCCAAAAATTACATTTTT-A
*
11038957 CCCTGAACTTTTCAAAAATTACCATTTTT-
1 CCCTGAAC-TTCCAAAAATTA-CATTTTTA
*
11038986 CCCTTG-AGTGTCCAAAAATTACCA-TTTTA
1 CCC-TGAACT-TCCAAAAATTA-CATTTTTA
11039015 CCCT
1 CCCT
11039019 CAAAAGTCCA
Statistics
Matches: 355, Mismatches: 39, Indels: 98
0.72 0.08 0.20
Matches are distributed among these distances:
27 4 0.01
28 65 0.18
29 138 0.39
30 115 0.32
31 31 0.09
32 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (28 bp):
CCCTGAACTTCCAAAAATTACATTTTTA
Found at i:11039018 original size:58 final size:58
Alignment explanation
Indices: 11038680--11039237 Score: 368
Period size: 58 Copynumber: 9.7 Consensus size: 58
11038670 CAACCTTCCT
* * * * * *
11038680 AAAAATTA-CATTTTACCCCCAAACT-TCCAAAAATCA-CATTTTTAACCTCGAACTTTC
1 AAAAATTACCATTTTACCCTC-GAGTGTCCAAAAATTACCA-TTTTACCCTCGAACGTTC
* *** * *
11038737 TAAAAATTACCATTTTACCCTCAAACATCC-AAAATTACTATTTTACCCTCGAACGTCC
1 -AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAACGTTC
* ** * * * * *
11038795 AAAAATCA-CATTTTTAACCCTAAACTTTCCCAAAATTACCATTTTACCCTTGAAC-ATC
1 AAAAATTACCA-TTTT-ACCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAACGTTC
* * * *
11038853 GAAAATTACTATTTTACCC-CTAGATGTCCAAAAATTA-CATTTTTGACCCT-GAACTTTC
1 AAAAATTACCATTTTACCCTCGAG-TGTCCAAAAATTACCA-TTTT-ACCCTCGAACGTTC
* * * *
11038911 CAAAATTACCATTTTACCCCCGAATGTCCAAAAATTA-CATTTTTGACCCT-GAACTTTTC
1 AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTACCA-TTTT-ACCCTCGAAC-GTTC
* * * * *
11038970 AAAAATTACCATTTTTCCCTTGAGTGTCCAAAAATTACCATTTTACCCTCAAAAGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAACGTTC
* * * ** * * *
11039028 AAAACTTACCATTTTGCCCTCGAGTGTTCAAAAATTACTGTTTTACCCTCGGATGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAACGTTC
* * * * ** * *
11039086 AAAAGTTACCATTTTGCCCTTGAGTGTACAAAAATTACTGTTTTACCCTCGATCGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAACGTTC
* * * ** * ** * *
11039144 CAAAATTACCATTTTGCCCTCGGGCATCTAAAAATTA-CATTTTTGCCTCGAACTTTT
1 AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAACGTTC
* **
11039201 AAAAATTACCATTTTACCCCCGA-CATCCAAAAATTAC
1 AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTAC
11039238 ATCTTGACTC
Statistics
Matches: 409, Mismatches: 75, Indels: 33
0.79 0.15 0.06
Matches are distributed among these distances:
56 17 0.04
57 65 0.16
58 243 0.59
59 82 0.20
60 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.33
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCTCGAGTGTCCAAAAATTACCATTTTACCCTCGAACGTTC
Found at i:11039078 original size:29 final size:29
Alignment explanation
Indices: 11038738--11039237 Score: 281
Period size: 29 Copynumber: 17.3 Consensus size: 29
11038728 CGAACTTTCT
* ***
11038738 AAAAATTACCATTTTACCCTCAAACATCC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
* **
11038767 -AAAATTACTATTTTACCCTCGAACGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
* ** * *
11038795 AAAAATCA-CATTTTTAACCCTAAACTTTCC
1 AAAAATTACCA-TTTT-ACCCTCGAGTGTCC
* * ***
11038825 CAAAATTACCATTTTACCCTTGAACAT-C
1 AAAAATTACCATTTTACCCTCGAGTGTCC
* * *
11038853 GAAAATTACTATTTTACCC-CTAGATGTCC
1 AAAAATTACCATTTTACCCTCGAG-TGTCC
* *
11038882 AAAAATTA-CATTTTTGACCCT-GAACTTTCC
1 AAAAATTACCA-TTTT-ACCCTCG-AGTGTCC
* *
11038912 -AAAATTACCATTTTACCCCCGAATGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
* * *
11038940 AAAAATTA-CATTTTTGACCCT-GAACTTTTC
1 AAAAATTACCA-TTTT-ACCCTCG-AGTGTCC
* *
11038970 AAAAATTACCATTTTTCCCTTGAGTGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
* **
11038999 AAAAATTACCATTTTACCCTCAAAAGTCC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
* * *
11039028 AAAACTTACCATTTTGCCCTCGAGTGTTC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
**
11039057 AAAAATTACTGTTTTACCCTCG-GATGTCC
1 AAAAATTACCATTTTACCCTCGAG-TGTCC
* * * *
11039086 AAAAGTTACCATTTTGCCCTTGAGTGTAC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
**
11039115 AAAAATTACTGTTTTACCCTCGA-TCGTCC
1 AAAAATTACCATTTTACCCTCGAGT-GTCC
* * * ** *
11039144 CAAAATTACCATTTTGCCCTCGGGCATCT
1 AAAAATTACCATTTTACCCTCGAGTGTCC
** * **
11039173 AAAAATTA-CATTTTTGCCTCGAACT-TTT
1 AAAAATTACCATTTTACCCTCG-AGTGTCC
* **
11039201 AAAAATTACCATTTTACCCCCGA-CATCC
1 AAAAATTACCATTTTACCCTCGAGTGTCC
11039229 AAAAATTAC
1 AAAAATTAC
11039238 ATCTTGACTC
Statistics
Matches: 357, Mismatches: 89, Indels: 51
0.72 0.18 0.10
Matches are distributed among these distances:
27 1 0.00
28 91 0.25
29 209 0.59
30 51 0.14
31 5 0.01
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCTCGAGTGTCC
Found at i:11039164 original size:87 final size:85
Alignment explanation
Indices: 11038739--11039237 Score: 325
Period size: 87 Copynumber: 5.8 Consensus size: 85
11038729 GAACTTTCTA
* ** * *
11038739 AAAATTACCATTTTACCCTCAAACATCC-AAAATTACTATTTTACCCTCGAACGTCCAAAAATCA
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACTATTTTACCCTCG-ATGTCCAAAAATTA
* ** *
11038803 -CATTTTTAACCCTAAACTTTCCC
65 CCA-TTTT-GCCCTGGACTGT-CC
* ** * *
11038826 AAAATTACCATTTTACCCTTGAACAT-CGAAAATTACTATTTTACCCCTAGATGTCCAAAAATTA
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACTATTTTA-CCCTCGATGTCCAAAAATTA
* *
11038890 -CATTTTTGACCCTGAACTTTCC
65 CCA-TTTTG-CCCTGGACTGTCC
* * *
11038912 AAAATTACCATTTTACCCCCGAATGTCCAAAAATTAC-ATTTTTGACCCT-GAACTTTTCAAAAA
1 AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACTA-TTTT-ACCCTCG-A-TGTCCAAAAA
* * *
11038975 TTACCATTTTTCCCTTGAGTGTCC
62 TTACCATTTTGCCCTGGACTGTCC
* * * * * *
11038999 AAAAATTACCATTTTACCCTCAAAAGTCCAAAACTTACCATTTTGCCCTCGAGTGTTCAAAAATT
1 -AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACTATTTTACCCTCGA-TGTCCAAAAATT
** *
11039064 ACTGTTTTACCCTCGGA-TGTCC
64 ACCATTTTGCCCT-GGACTGTCC
* * * * * *
11039086 AAAAGTTACCATTTTGCCCTTGAGTGTACAAAAATTACTGTTTTACCCTCGATCGTCCCAAAATT
1 AAAA-TTACCATTTTACCCTCGAATGTCCAAAAATTACTATTTTACCCTCGAT-GTCCAAAAATT
* * *
11039151 ACCATTTTGCCCTCGGGC-ATCTA
64 ACCATTTTGCCCT-GGACTGTC-C
** ** * * **
11039174 AAAATTA-CATTTTTGCCTCGAACT-TTTAAAAATTACCATTTTACCCCCGACATCCAAAAATTA
1 AAAATTACCATTTTACCCTCGAA-TGTCCAAAAATTACTATTTTACCCTCGATGTCCAAAAATTA
11039237 C
65 C
11039238 ATCTTGACTC
Statistics
Matches: 334, Mismatches: 60, Indels: 38
0.77 0.14 0.09
Matches are distributed among these distances:
85 11 0.03
86 64 0.19
87 191 0.57
88 65 0.19
89 3 0.01
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (85 bp):
AAAATTACCATTTTACCCTCGAATGTCCAAAAATTACTATTTTACCCTCGATGTCCAAAAATTAC
CATTTTGCCCTGGACTGTCC
Found at i:11039185 original size:28 final size:29
Alignment explanation
Indices: 11039145--11039237 Score: 93
Period size: 28 Copynumber: 3.3 Consensus size: 29
11039135 CGATCGTCCC
*
11039145 AAAATTACCATTTTGCCCTCGGGCATCTA
1 AAAATTACCATTTTGCCCTCGGACATCTA
* * *
11039174 AAAATTA-CATTTTTG-CCTCGAACTTTTA
1 AAAATTACCA-TTTTGCCCTCGGACATCTA
* * *
11039202 AAAATTACCATTTTACCC-CCGACATCCA
1 AAAATTACCATTTTGCCCTCGGACATCTA
11039230 AAAATTAC
1 AAAATTAC
11039238 ATCTTGACTC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
28 35 0.69
29 16 0.31
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (29 bp):
AAAATTACCATTTTGCCCTCGGACATCTA
Found at i:11040425 original size:20 final size:19
Alignment explanation
Indices: 11040383--11040444 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
11040373 TTATAAAATA
* *
11040383 TTAAAATTTCTAATATATAT
1 TTAAAATTTTTAATA-ATTT
11040403 TTAAAATTCTTTAATAATTT
1 TTAAAATT-TTTAATAATTT
*
11040423 TTATAATTTTGTAATAATTT
1 TTAAAATTTT-TAATAATTT
11040443 TT
1 TT
11040445 TTGTAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 2 0.05
20 29 0.78
21 6 0.16
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (19 bp):
TTAAAATTTTTAATAATTT
Found at i:11040439 original size:11 final size:10
Alignment explanation
Indices: 11040383--11040444 Score: 58
Period size: 11 Copynumber: 6.2 Consensus size: 10
11040373 TTATAAAATA
11040383 TTAA-AATTT
1 TTAATAATTT
* *
11040392 CTAATATATAT
1 TTAATA-ATTT
11040403 TTAA-AATTCT
1 TTAATAATT-T
11040413 TTAATAATTT
1 TTAATAATTT
11040423 TT-ATAATTT
1 TTAATAATTT
11040432 TGTAATAATTT
1 T-TAATAATTT
11040443 TT
1 TT
11040445 TTGTAAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
9 13 0.30
10 12 0.28
11 18 0.42
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (10 bp):
TTAATAATTT
Found at i:11040641 original size:29 final size:30
Alignment explanation
Indices: 11040587--11040646 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
11040577 AATCTCAAAA
* *
11040587 TTATATATAAATTTTGATTTAATGTGTAATT
1 TTATATATAAATTTTAATTT-ATGTGAAATT
*
11040618 TTATATATGAATTTTAATTT-TGTGAAATT
1 TTATATATAAATTTTAATTTATGTGAAATT
11040647 ATGCACTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 8 0.31
31 18 0.69
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (30 bp):
TTATATATAAATTTTAATTTATGTGAAATT
Found at i:11040882 original size:16 final size:16
Alignment explanation
Indices: 11040832--11040883 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 16
11040822 TAATTTACAA
*
11040832 AAAATTA-ATCAAATC
1 AAAATTACATAAAATC
* *
11040847 AAAATTTCA-AATAT-
1 AAAATTACATAAAATC
11040861 AAAATTACATAAAATC
1 AAAATTACATAAAATC
11040877 AAAATTA
1 AAAATTA
11040884 ATGTATATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
14 8 0.28
15 13 0.45
16 8 0.28
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTACATAAAATC
Found at i:11051516 original size:36 final size:36
Alignment explanation
Indices: 11051448--11051516 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
11051438 ATTTTGAGCA
* * *
11051448 TTTTAATTTTTTTTTATGTTCTTTTATTTTTTTTAT
1 TTTTAATTTTCTTTTATGTTCTCTTATATTTTTTAT
*
11051484 TTTTAATTTTCTTTTGT-TTCTCCTTATATTTTT
1 TTTTAATTTTCTTTTATGTTCT-CTTATATTTTT
11051517 CTTGCTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 4 0.14
36 24 0.86
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (36 bp):
TTTTAATTTTCTTTTATGTTCTCTTATATTTTTTAT
Found at i:11063521 original size:30 final size:30
Alignment explanation
Indices: 11063405--11063704 Score: 163
Period size: 30 Copynumber: 10.1 Consensus size: 30
11063395 GAAATTTCGG
* *
11063405 GGAAA-TTCGAGGTTAAAAATGG-GATTTT
1 GGAAAGTTCGAGGGTAAAAATGGTAATTTT
* *
11063433 GGAAGGTTTGAGGGT-AAAATGGTAATTTTT
1 GGAAAGTTCGAGGGTAAAAATGGTAA-TTTT
* *
11063463 GGTGGAA--TCGAGGTTAAAAATAGG--ATTTT
1 -G-GAAAGTTCGAGGGTAAAAAT-GGTAATTTT
* * *
11063492 TGAATGTTCAAGGGTAAAAATGGTAATTTT
1 GGAAAGTTCGAGGGTAAAAATGGTAATTTT
** *
11063522 GGATAAAATCG-GGGTTAAAAATGG-GATTTT
1 GGA-AAGTTCGAGGG-TAAAAATGGTAATTTT
*
11063552 GGAAGGTAT-GAGGGT-AAAATGGTAATTTGT
1 GGAAAGT-TCGAGGGTAAAAATGGTAATTT-T
** *
11063582 GG-AAGTTTTAGGGTCAAAAAT-GAAATTTT
1 GGAAAGTTCGAGGGT-AAAAATGGTAATTTT
11063611 GGAAAGTTCGAGGGT-AAAATGGTAATTTTT
1 GGAAAGTTCGAGGGTAAAAATGGTAA-TTTT
11063641 GGTGAAA--TCGA-GGTCAAAAATGG-AATTTTT
1 -G-GAAAGTTCGAGGGT-AAAAATGGTAA-TTTT
*
11063671 GGAAAGTTTG-GAGGT-AAAATGGTAATTTTT
1 GGAAAGTTCGAG-GGTAAAAATGGTAA-TTTT
11063701 GGAA
1 GGAA
11063705 GTTTTGGGAT
Statistics
Matches: 210, Mismatches: 30, Indels: 62
0.70 0.10 0.21
Matches are distributed among these distances:
27 2 0.01
28 30 0.14
29 56 0.27
30 80 0.38
31 34 0.16
32 8 0.04
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (30 bp):
GGAAAGTTCGAGGGTAAAAATGGTAATTTT
Found at i:11063700 original size:60 final size:59
Alignment explanation
Indices: 11063406--11063702 Score: 307
Period size: 59 Copynumber: 5.0 Consensus size: 59
11063396 AAATTTCGGG
* *
11063406 GAAATTCGAGGTTAAAAATGGGATTTTGGAAGGTTTGAGGGTAAAATGGTAATTTTTGGT
1 GAAA-TCGAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
* * * **
11063466 GGAATCGAGGTTAAAAATAGG-ATTTTTGAATGTTCAAGGGTAAAAATGGTAA-TTTTGGAT
1 GAAATCGAGGTTAAAAAT-GGAATTTTGGAAAGTTTGAGGGT-AAAATGGTAATTTTTGG-T
* * * * * *
11063526 AAAATCGGGGTTAAAAATGGGATTTTGGAAGGTATGAGGGTAAAATGGTAATTTGT-G-
1 GAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
* ** * * *
11063583 GAAGTTTTAGGGTCAAAAATGAAATTTTGGAAAGTTCGAGGGTAAAATGGTAATTTTTGGT
1 GAA-ATCGA-GGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
*
11063644 GAAATCGAGGTCAAAAATGGAATTTTTGGAAAGTTTG-GAGGTAAAATGGTAATTTTTGG
1 GAAATCGAGGTTAAAAATGGAA-TTTTGGAAAGTTTGAG-GGTAAAATGGTAATTTTTGG
11063703 AAGTTTTGGG
Statistics
Matches: 195, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
57 2 0.01
58 1 0.01
59 104 0.53
60 85 0.44
61 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (59 bp):
GAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGTAAAATGGTAATTTTTGGT
Found at i:11063704 original size:119 final size:118
Alignment explanation
Indices: 11063406--11063727 Score: 375
Period size: 119 Copynumber: 2.7 Consensus size: 118
11063396 AAATTTCGGG
** **
11063406 GAAATTCGAGGTTAAAAATGGGATTTTGGAAGGTTTGAGGGTAAAATGGTAATTTTTGGTGGAAT
1 GAAA-TCGAGGTTAAAAATGGGATTTTGGAAGGTTTGAGGGTAAAATGGTAATTTTTGGAAGTTT
* * * * *
11063471 CGAGGTTAAAAAT-AGGATTTTTGAATGTTCAAGGGTAAAAATGGTAATTTTGGAT
65 TG-GGTCAAAAATGA-AATTTTGGAAAGTTCAAGGGTAAAAATGGTAATTTTGGAT
* * * *
11063526 AAAATCGGGGTTAAAAATGGGATTTTGGAAGGTATGAGGGTAAAATGGTAATTTGTGGAAGTTTT
1 GAAATCGAGGTTAAAAATGGGATTTTGGAAGGTTTGAGGGTAAAATGGTAATTTTTGGAAGTTTT
*
11063591 AGGGTCAAAAATGAAATTTTGGAAAGTTCGAGGGT-AAAATGGTAATTTTTGG-T
66 -GGGTCAAAAATGAAATTTTGGAAAGTTCAAGGGTAAAAATGGTAA-TTTTGGAT
* * *
11063644 GAAATCGAGGTCAAAAATGGAATTTTTGGAAAGTTTG-GAGGTAAAATGGTAATTTTTGGAAGTT
1 GAAATCGAGGTTAAAAATGGGA-TTTTGGAAGGTTTGAG-GGTAAAATGGTAATTTTTGGAAGTT
*
11063708 TTGGGATC-AAAATGTAATTT
64 TTGGG-TCAAAAATGAAATTT
11063728 CTAGATAATT
Statistics
Matches: 174, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
118 44 0.25
119 125 0.72
120 5 0.03
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (118 bp):
GAAATCGAGGTTAAAAATGGGATTTTGGAAGGTTTGAGGGTAAAATGGTAATTTTTGGAAGTTTT
GGGTCAAAAATGAAATTTTGGAAAGTTCAAGGGTAAAAATGGTAATTTTGGAT
Found at i:11063711 original size:30 final size:30
Alignment explanation
Indices: 11063567--11063727 Score: 110
Period size: 30 Copynumber: 5.4 Consensus size: 30
11063557 GTATGAGGGT
* *
11063567 AAAATGGTAATTTGTGGAAGTTT-TAGGGTC
1 AAAATGGTAATTTTTGGAAGTTTCGA-GGTC
*
11063597 AAAAAT-G-AAATTTTGGAAAG-TTCGAGGGT-
1 -AAAATGGTAATTTTTGG-AAGTTTCGA-GGTC
*
11063626 AAAATGGTAATTTTTGGTGAA--ATCGAGGTC
1 AAAATGGTAATTTTT-G-GAAGTTTCGAGGTC
*
11063656 AAAAATGG-AATTTTTGGAAAGTTTGGAGGT-
1 -AAAATGGTAATTTTTGG-AAGTTTCGAGGTC
*
11063686 AAAATGGTAATTTTTGGAAGTTTTG-GGATC
1 AAAATGGTAATTTTTGGAAGTTTCGAGG-TC
11063716 AAAAT-GTAATTT
1 AAAATGGTAATTT
11063728 CTAGATAATT
Statistics
Matches: 108, Mismatches: 8, Indels: 30
0.74 0.05 0.21
Matches are distributed among these distances:
28 8 0.07
29 38 0.35
30 40 0.37
31 21 0.19
32 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTTCGAGGTC
Found at i:11065686 original size:17 final size:17
Alignment explanation
Indices: 11065666--11065729 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
11065656 AATTTAATTT
*
11065666 TAAATTTATATTTATAA
1 TAAATTTAAATTTATAA
* **
11065683 TAAACTTAAATTT-TGTG
1 TAAATTTAAATTTAT-AA
*
11065700 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTATAA
11065717 TAAATTT-AATTTA
1 TAAATTTAAATTTA
11065730 AAACCAAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
16 7 0.19
17 30 0.81
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:11065738 original size:17 final size:16
Alignment explanation
Indices: 11065701--11065741 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
11065691 AATTTTGTGT
*
11065701 AAATTTAAATTTAAAAT
1 AAATTT-AATTTAAAAC
11065718 AAATTTAATTTAAAACC
1 AAATTTAATTTAAAA-C
11065735 AAATTTA
1 AAATTTA
11065742 TCTCATTGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTTAATTTAAAAC
Found at i:11067030 original size:24 final size:23
Alignment explanation
Indices: 11066978--11067030 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
11066968 CACGATTTTT
*
11066978 TTTTAAAATGTAGTATTTATATA
1 TTTTAAAATGTAATATTTATATA
11067001 TATTTAAAATTCGTAATATTTATA-A
1 T-TTTAAAA-T-GTAATATTTATATA
11067026 TTTTA
1 TTTTA
11067031 TTTTACATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 1 0.04
24 11 0.42
25 3 0.12
26 11 0.42
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (23 bp):
TTTTAAAATGTAATATTTATATA
Found at i:11071218 original size:24 final size:24
Alignment explanation
Indices: 11071183--11071269 Score: 147
Period size: 24 Copynumber: 3.6 Consensus size: 24
11071173 TAAACTAATA
*
11071183 AGAGTTTGATTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAATAAAC
*
11071207 AGAGTTTAATTGAAACAAATAAAT
1 AGAGTTTAATTGAAACAAATAAAC
*
11071231 AGAGTTTAATTGAAACAAATTAAC
1 AGAGTTTAATTGAAACAAATAAAC
11071255 AGAGTTTAATTGAAA
1 AGAGTTTAATTGAAA
11071270 GATTATTTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.51, C:0.06, G:0.15, T:0.29
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAATAAAC
Found at i:11076927 original size:54 final size:55
Alignment explanation
Indices: 11076868--11076985 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 55
11076858 GTTTTTCAGT
* *
11076868 TTTTAATGGG-CTCAATTTTTTAAATTTTTAAAGG-CCAA-AATTTTTTTTACCAAC
1 TTTTAAGGGGTCTCAATTTTTT-AACTTTTAAAGGTCCAACAA-TTTTTTTACCAAC
* * *
11076922 TTTTAAGGGGTCTCAATTTTTTAGCTTTTAAGGGTCCAACAATTTTTTTATCAAC
1 TTTTAAGGGGTCTCAATTTTTTAACTTTTAAAGGTCCAACAATTTTTTTACCAAC
*
11076977 TTTCAAGGG
1 TTTTAAGGG
11076986 ACCTAAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 18 0.33
55 35 0.64
56 2 0.04
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (55 bp):
TTTTAAGGGGTCTCAATTTTTTAACTTTTAAAGGTCCAACAATTTTTTTACCAAC
Found at i:11083411 original size:29 final size:28
Alignment explanation
Indices: 11083366--11083422 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
11083356 TAGCATTTTC
*
11083366 TTGCATTTAATGCTTTTTCCCTACATTTA
1 TTGCATTTAATCCTTTTT-CCTACATTTA
11083395 TTGCA-TTAATCCATTTTTCCTACATTTA
1 TTGCATTTAATCC-TTTTTCCTACATTTA
11083423 ATGTTCAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (28 bp):
TTGCATTTAATCCTTTTTCCTACATTTA
Done.