Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 56 of 205
Found at i:16891768 original size:14 final size:13
Alignment explanation
Indices: 16891749--16891811 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
16891739 CCTCTCCTTT
16891749 TTCTTTTCTTTTTC
1 TTCTTTT-TTTTTC
16891763 TTCTTTCTTTCTTT-
1 TTCTTT-TTT-TTTC
*
16891777 TTCTTTTTTTCTC
1 TTCTTTTTTTTTC
16891790 -TCTCTTTTTTTTC
1 TTCT-TTTTTTTTC
16891803 -TCTTTTTTT
1 TTCTTTTTTT
16891812 AACAATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
12 11 0.26
13 14 0.33
14 14 0.33
15 4 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTCTTTTTTTTTC
Found at i:16891775 original size:17 final size:18
Alignment explanation
Indices: 16891748--16891781 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
16891738 GCCTCTCCTT
16891748 TTTCTTTTCTTTTTCTTC
1 TTTCTTTTCTTTTTCTTC
16891766 TTTC-TTTCTTTTTCTT
1 TTTCTTTTCTTTTTCTT
16891782 TTTTTCTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCTTC
Found at i:16891782 original size:23 final size:24
Alignment explanation
Indices: 16891748--16891811 Score: 80
Period size: 23 Copynumber: 2.7 Consensus size: 24
16891738 GCCTCTCCTT
16891748 TTTC-TTTTCTTTTTCTTCT-T-TC
1 TTTCTTTTTCTTTTT-TTCTCTCTC
16891770 TTTCTTTTTCTTTTTTTCTCTCTC
1 TTTCTTTTTCTTTTTTTCTCTCTC
*
16891794 TTTTTTTTCTCTTTTTTT
1 TTTCTTTT-TCTTTTTTT
16891812 AACAATTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 8 0.22
23 11 0.30
24 9 0.24
25 9 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTCTTTTTCTTTTTTTCTCTCTC
Found at i:16891809 original size:11 final size:11
Alignment explanation
Indices: 16891745--16891811 Score: 57
Period size: 11 Copynumber: 5.7 Consensus size: 11
16891735 TTGGCCTCTC
16891745 CTTTTTCTTT-T
1 CTTTTT-TTTCT
*
16891756 CTTTTTCTTCTTT
1 CTTTTT-TT-TCT
16891769 CTTTCTTTTTCT
1 CTTT-TTTTTCT
16891781 -TTTTTTCTCTCT
1 CTTTTTT-T-TCT
16891793 CTTTTTTTTCT
1 CTTTTTTTTCT
16891804 CTTTTTTT
1 CTTTTTTT
16891812 AACAATTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 12
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.06
11 24 0.49
12 7 0.14
13 13 0.27
14 2 0.04
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
CTTTTTTTTCT
Found at i:16892192 original size:16 final size:15
Alignment explanation
Indices: 16892171--16892225 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
16892161 CGGTAGAGGT
16892171 TTTTTTTTATTTTTTA
1 TTTTTTTT-TTTTTTA
16892187 TTTTTTTTTGTTTTTA
1 TTTTTTTTT-TTTTTA
* * *
16892203 TTTGTTTTTTATTTG
1 TTTTTTTTTTTTTTA
16892218 TTTTTTTT
1 TTTTTTTT
16892226 CCTCCAATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.35
16 22 0.65
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTTTTA
Found at i:16892194 original size:11 final size:11
Alignment explanation
Indices: 16892170--16892224 Score: 67
Period size: 11 Copynumber: 4.8 Consensus size: 11
16892160 CCGGTAGAGG
16892170 TTTTTTTTTAT
1 TTTTTTTTTAT
16892181 TTTTTATTTT-T
1 TTTTT-TTTTAT
16892192 TTTTGTTTTTAT
1 TTTT-TTTTTAT
*
16892204 TTGTTTTTTAT
1 TTTTTTTTTAT
16892215 TTGTTTTTTT
1 TT-TTTTTTT
16892225 TCCTCCAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
11 23 0.61
12 15 0.39
ACGTcount: A:0.07, C:0.00, G:0.05, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:16892210 original size:27 final size:28
Alignment explanation
Indices: 16892169--16892223 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
16892159 CCCGGTAGAG
*
16892169 GTTTTTTTTTATTTTTTATTT-TTTTTT
1 GTTTTTATTTATTTTTTATTTGTTTTTT
*
16892196 GTTTTTATTTGTTTTTTATTTGTTTTTT
1 GTTTTTATTTATTTTTTATTTGTTTTTT
16892224 TTCCTCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.85
Consensus pattern (28 bp):
GTTTTTATTTATTTTTTATTTGTTTTTT
Found at i:16895065 original size:109 final size:106
Alignment explanation
Indices: 16894754--16895074 Score: 365
Period size: 108 Copynumber: 3.0 Consensus size: 106
16894744 GATTAAGATA
* * * * * *
16894754 TAAAATGATATTTGGCTATTTGGTCCAACGAGAAAATCGAAACTCAGAACATTAGGACACGTTTC
1 TAAAAGGATATTTGGCTA-TTGGTCGAATGAGAAAATCGAAACCCAGCACATTAGGGCACGTTT-
* * * *
16894819 CTCGAATTTCTAAGCACAAAACATTACCTTATTTTGAAATTTT
64 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
* * * * **
16894862 TAAAAGGATATTCGGTTATCTGGTCGAATGAGAAAATCGAAATCCAGCACA-TAGGGGATTATTT
1 TAAAAGGATATTTGGCTAT-TGGTCGAATGAGAAAATCGAAACCCAGCACATTAGGGCA-CGTTT
* *
16894926 CGTCGAATTTCCAAAGGCAAAACCTTGCCTTATTTTGAAATTTT
64 C-TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
16894970 TAAAAGGATATTTGGCTATTAGGTCGAATGAGAAAAATCGAAACCCAGCACATTAGGGCACGCTT
1 TAAAAGGATATTTGGCTATT-GGTCGAATGAG-AAAATCGAAACCCAGCACATTAGGGCACG-TT
* * * *
16895035 TCTCGAACTTCCAAATGCAAAATATTGCCTTATTTAGAAA
63 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
16895075 AAAATTTCTT
Statistics
Matches: 177, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
107 8 0.05
108 108 0.61
109 51 0.29
110 10 0.06
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (106 bp):
TAAAAGGATATTTGGCTATTGGTCGAATGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTCT
CGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTT
Found at i:16903169 original size:33 final size:33
Alignment explanation
Indices: 16903124--16903201 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
16903114 CAGTGTTTAT
*
16903124 ATGTAAGACCATAGCTGGGCTATGGCA-T-TCAG
1 ATGTAAGACCATAACTGGGCTATGGCACTAT-AG
*
16903156 ATGATAAGACCATAACTGGGTTATGGCACTATAG
1 ATG-TAAGACCATAACTGGGCTATGGCACTATAG
16903190 ATGTAAGACCAT
1 ATGTAAGACCAT
16903202 GGTATGTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
32 3 0.07
33 31 0.76
34 6 0.15
35 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (33 bp):
ATGTAAGACCATAACTGGGCTATGGCACTATAG
Found at i:16903216 original size:101 final size:101
Alignment explanation
Indices: 16902988--16903204 Score: 317
Period size: 101 Copynumber: 2.1 Consensus size: 101
16902978 AATTATTCAA
* *
16902988 ACGTAACACCATGGTTGGACCATGACAGTGTTTATATGTAAGACTACAACTAGGCTATGACATTC
1 ACGTAACACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTC
* *
16903053 TGATGATAAGACCATAACTGGGTTATGGCACTATGG
66 AGATGATAAGACCATAACTGGGTTATGGCACTATAG
* * * * * * *
16903089 ACGGAATACCATGGTTGGACAATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTC
1 ACGTAACACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTC
16903154 AGATGATAAGACCATAACTGGGTTATGGCACTATAG
66 AGATGATAAGACCATAACTGGGTTATGGCACTATAG
* *
16903190 ATGTAAGACCATGGT
1 ACGTAACACCATGGT
16903205 ATGTCCATGG
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (101 bp):
ACGTAACACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCACAACTAGGCTATGACATTC
AGATGATAAGACCATAACTGGGTTATGGCACTATAG
Found at i:16903226 original size:101 final size:101
Alignment explanation
Indices: 16903020--16903247 Score: 264
Period size: 101 Copynumber: 2.3 Consensus size: 101
16903010 TGACAGTGTT
* * * * *
16903020 TATATGTAAGACTACAACTAGGCTATGACATTCTGATGATAAGACCATAACTGGGTTATGGCACT
1 TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
* * * ***
16903085 ATGGACGGAATACCATGGTTGGACAATGGCAGTGTT
66 ATAGACGGAAGACCATGGTTGGACAATGGCAATACA
*
16903121 TATATGTAAGACCATAGCTGGGCTATGGCATTCAGATGATAAGACCATAACTGGGTTATGGCACT
1 TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
* * * *
16903186 ATAGATGTAAGACCATGGTAT-GTCCATGGCAATACA
66 ATAGACGGAAGACCATGGT-TGGACAATGGCAATACA
* *
16903222 TATA--TAAGACCATAGTTGGACTATGA
1 TATATGTAAGACCATAGCTGGGCTATGA
16903248 TACAATAAGA
Statistics
Matches: 107, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
99 19 0.18
101 87 0.81
102 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
TATATGTAAGACCATAGCTGGGCTATGACATTCAGATGATAAGACCATAACTGGGTTATGGCACT
ATAGACGGAAGACCATGGTTGGACAATGGCAATACA
Found at i:16906576 original size:41 final size:41
Alignment explanation
Indices: 16906509--16906614 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
16906499 AAATGATTCT
*
16906509 CGAGCTTAAATTGTTTATCCAGAATATGA-CCTCAGAAGCA
1 CGAGCTTAAATTGTTTATCCAAAATATGATCCTCAGAAGCA
* * * **
16906549 CGAGTTTAAATTGTTAAATCCAAAATATGATGCTCCTAAGCA
1 CGAGCTTAAATTGTT-TATCCAAAATATGATCCTCAGAAGCA
*
16906591 CAAGCTTAAATTGTTTATCCAAAA
1 CGAGCTTAAATTGTTTATCCAAAA
16906615 AAACAATGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
40 14 0.25
41 20 0.36
42 21 0.38
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (41 bp):
CGAGCTTAAATTGTTTATCCAAAATATGATCCTCAGAAGCA
Found at i:16907036 original size:32 final size:32
Alignment explanation
Indices: 16906982--16907044 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
16906972 AGGAAAAATC
*
16906982 AAGAAATCAAATAATTTTAAAAT-ACTTTTATA
1 AAGAAATCAAATAATTTAAAAATGA-TTTTATA
* **
16907014 AAGAAATCATATTCTTTAAAAATGATTTTAT
1 AAGAAATCAAATAATTTAAAAATGATTTTAT
16907045 TTCTAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 25 0.96
33 1 0.04
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (32 bp):
AAGAAATCAAATAATTTAAAAATGATTTTATA
Found at i:16916034 original size:15 final size:15
Alignment explanation
Indices: 16916014--16916043 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16916004 ATTATACTTC
16916014 CTTTTTCTTTTTGGG
1 CTTTTTCTTTTTGGG
16916029 CTTTTTCTTTTTGGG
1 CTTTTTCTTTTTGGG
16916044 AAAGAAGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.20, T:0.67
Consensus pattern (15 bp):
CTTTTTCTTTTTGGG
Found at i:16920014 original size:239 final size:239
Alignment explanation
Indices: 16919595--16920074 Score: 960
Period size: 239 Copynumber: 2.0 Consensus size: 239
16919585 ATAATTAATA
16919595 TTGAGATAATTATTAAGGATTATTTTTAGGATTTTATTTTATCTTTATTTATCTTCAATTAAATG
1 TTGAGATAATTATTAAGGATTATTTTTAGGATTTTATTTTATCTTTATTTATCTTCAATTAAATG
16919660 TATTTATCTTTTAGGAATTTAAGTAGGATTAGACTATCTCCCCTTGCACTATAAATAGGGGGTGA
66 TATTTATCTTTTAGGAATTTAAGTAGGATTAGACTATCTCCCCTTGCACTATAAATAGGGGGTGA
16919725 AGTAACTCAAAAGGAGATCCTATCTTTTTCTGTAAACACTCTCTCCTCAAAAGTCTAGGCTTTTG
131 AGTAACTCAAAAGGAGATCCTATCTTTTTCTGTAAACACTCTCTCCTCAAAAGTCTAGGCTTTTG
16919790 TTCTTTTCATATTTCTTTTCAATAAAATCTTTACTTTTATTTTG
196 TTCTTTTCATATTTCTTTTCAATAAAATCTTTACTTTTATTTTG
16919834 TTGAGATAATTATTAAGGATTATTTTTAGGATTTTATTTTATCTTTATTTATCTTCAATTAAATG
1 TTGAGATAATTATTAAGGATTATTTTTAGGATTTTATTTTATCTTTATTTATCTTCAATTAAATG
16919899 TATTTATCTTTTAGGAATTTAAGTAGGATTAGACTATCTCCCCTTGCACTATAAATAGGGGGTGA
66 TATTTATCTTTTAGGAATTTAAGTAGGATTAGACTATCTCCCCTTGCACTATAAATAGGGGGTGA
16919964 AGTAACTCAAAAGGAGATCCTATCTTTTTCTGTAAACACTCTCTCCTCAAAAGTCTAGGCTTTTG
131 AGTAACTCAAAAGGAGATCCTATCTTTTTCTGTAAACACTCTCTCCTCAAAAGTCTAGGCTTTTG
16920029 TTCTTTTCATATTTCTTTTCAATAAAATCTTTACTTTTATTTTG
196 TTCTTTTCATATTTCTTTTCAATAAAATCTTTACTTTTATTTTG
16920073 TT
1 TT
16920075 TATTTTCTTT
Statistics
Matches: 241, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
239 241 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.45
Consensus pattern (239 bp):
TTGAGATAATTATTAAGGATTATTTTTAGGATTTTATTTTATCTTTATTTATCTTCAATTAAATG
TATTTATCTTTTAGGAATTTAAGTAGGATTAGACTATCTCCCCTTGCACTATAAATAGGGGGTGA
AGTAACTCAAAAGGAGATCCTATCTTTTTCTGTAAACACTCTCTCCTCAAAAGTCTAGGCTTTTG
TTCTTTTCATATTTCTTTTCAATAAAATCTTTACTTTTATTTTG
Found at i:16927411 original size:152 final size:152
Alignment explanation
Indices: 16927147--16927431 Score: 401
Period size: 152 Copynumber: 1.9 Consensus size: 152
16927137 TCGAATAAGG
* * * *
16927147 GACGATATGCATGTATTTTAATGGATTTTTCTATGATTATGAAATGTTTGGATATTGATGATTTT
1 GACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGAAATTGATGATTTT
* * * * ** *
16927212 AAGTTATGTTTTTATGGTAATGCTCTATAACCCTAATTCGACGACGGATATGGGTTAAGGGTGTT
66 AAGTTACGTTTTTACGATAATGCTCTATAACCCTAATTCGACCACGGATACAGATTAAGGGTGTT
16927277 ACATTTAGTGGCTCAAATGAGA
131 ACATTTAGTGGCTCAAATGAGA
* * *
16927299 GACGATATGCACGTGTTTGAATGGATTTTGCTATGGTTATTAAATGTTTGGAAATTGATGATTTT
1 GACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGAAATTGATGATTTT
* * *
16927364 AAGTTACGTTTTTACGATAATGCTCTGTAACCCT-ATTCCGGCCACGGATACAGATTAGGGGTGT
66 AAGTTACGTTTTTACGATAATGCTCTATAACCCTAATT-CGACCACGGATACAGATTAAGGGTGT
16927428 TACA
130 TACA
16927432 CGACCATATA
Statistics
Matches: 115, Mismatches: 17, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
151 3 0.03
152 112 0.97
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (152 bp):
GACGATATGCACGTATTTGAATGGATTTTGCTATGATTATGAAATGTTTGGAAATTGATGATTTT
AAGTTACGTTTTTACGATAATGCTCTATAACCCTAATTCGACCACGGATACAGATTAAGGGTGTT
ACATTTAGTGGCTCAAATGAGA
Found at i:16929385 original size:15 final size:14
Alignment explanation
Indices: 16929365--16929404 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
16929355 AATTTGACCC
16929365 AATATAATATTACA
1 AATATAATATTACA
*
16929379 TAATATAATAATACA
1 -AATATAATATTACA
16929394 AATTATAATAT
1 AA-TATAATAT
16929405 CAATGGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAATATTACA
Found at i:16929503 original size:18 final size:18
Alignment explanation
Indices: 16929472--16929524 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
16929462 TAATATGTAA
16929472 AATATTAT-TAAAATTTT
1 AATATTATATAAAATTTT
*
16929489 AATATTATATAAAATATT
1 AATATTATATAAAATTTT
16929507 AATTATGTATATAAAATT
1 AA-TAT-TATATAAAATT
16929525 AACACATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 8 0.26
18 10 0.32
19 3 0.10
20 10 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
AATATTATATAAAATTTT
Found at i:16929590 original size:17 final size:16
Alignment explanation
Indices: 16929565--16929614 Score: 59
Period size: 17 Copynumber: 3.2 Consensus size: 16
16929555 TTAGTTATGA
16929565 TATATAAAATATCTAT
1 TATATAAAATATCTAT
*
16929581 TATGATAAAACATCT-T
1 TAT-ATAAAATATCTAT
*
16929597 TATA-AAAATTTCTAT
1 TATATAAAATATCTAT
16929612 TAT
1 TAT
16929615 TTAGGAAGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 5 0.17
16 7 0.24
17 10 0.34
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (16 bp):
TATATAAAATATCTAT
Found at i:16943659 original size:43 final size:43
Alignment explanation
Indices: 16943565--16943652 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
16943555 TTACTAAAAG
*
16943565 AATGATTTTTTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
1 AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
16943608 AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
1 AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
16943651 AA
1 AA
16943653 GCATTTTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (43 bp):
AATGATTTTGTGGAAAATTGCTTAAATTCTTGAACTTGGGATT
Found at i:16950143 original size:23 final size:23
Alignment explanation
Indices: 16950086--16950143 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
16950076 GACTATATTG
* *
16950086 AAATCAGAAAAAAATTTGAAGAAA
1 AAATC-GAAATAAATTTGAAAAAA
* *
16950110 AATTCGTAATAAATTT-AAAAATA
1 AAATCGAAATAAATTTGAAAAA-A
16950133 AAATCGAAATA
1 AAATCGAAATA
16950144 GGACTGAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 4 0.15
23 19 0.70
24 4 0.15
ACGTcount: A:0.62, C:0.05, G:0.09, T:0.24
Consensus pattern (23 bp):
AAATCGAAATAAATTTGAAAAAA
Found at i:16951583 original size:25 final size:25
Alignment explanation
Indices: 16951554--16951604 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
16951544 AATTCTGGGC
* *
16951554 TTTGGTTTTTTATATTT-TTTTTGTA
1 TTTGGTTTATTAT-TTTCTTTGTGTA
16951579 TTTGGTTTATTATTTTCTTTGTGTA
1 TTTGGTTTATTATTTTCTTTGTGTA
16951604 T
1 T
16951605 GCGAGCCCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.12, C:0.02, G:0.14, T:0.73
Consensus pattern (25 bp):
TTTGGTTTATTATTTTCTTTGTGTA
Found at i:16951916 original size:44 final size:44
Alignment explanation
Indices: 16951845--16952393 Score: 239
Period size: 44 Copynumber: 12.6 Consensus size: 44
16951835 TTCTTCTGTT
* *
16951845 TACTCCACTGCAACTTCAGCGG-TATAAGATCTGCTTGCTTAGTC
1 TACTCCACTGCAACTTCAG-GGAGATAAGATCTGCTTGCTTAATC
* * *
16951889 TACTCCGCTGCAACTTCAGGGAGATAAGA-CTAG-ATGC--GATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCT-GCTTGCTTAATC
* * *
16951930 TACT-CTCTGTAACTTCAGAGAGATAAGATCTGTCATT--TTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTG-C-TTGCTTAATC
* ** * * * *
16951973 CACTCGGCTACAACTTTAGGGAGATAGGAT-T-ATTGGCTTTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTT-GC-TTAATC
* * * *
16952017 TGCTCCACTACAACTTTAGGGAGATAAGAT-TCGTCAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCT-G-CTTGCTT-AATC
* * * * *
16952062 TGCCCCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTTGCTTAATC
* * * *
16952106 TGCTCCGCTGCAACTTTAGGGAGATAAGA-CTAG-ATGC--AATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCT-GCTTGCTTAATC
* ** ** *
16952147 TGCT-CTTTGCAACTTCAGACAAATAAGATCTGTCATT--TTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTG-C-TTGCTTAATC
* * * * *
16952190 TGCTCCACTACAACTTCAGAGAGATAGGAT-T-ATTGGCTTTAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTT-GC-TTAATC
* * *
16952234 TGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCT-TGCTT-AATC
** * * * * *
16952279 CGCTCCACTACAACTTCAGGGATATAGGATTTACTAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCT-TGCTT-AATC
** * * *
16952324 CGCTCCATTGCAACTTCAGGGAGATAGGATTTG-TAT-CTTCAATC
1 TACTCCACTGCAACTTCAGGGAGATAAGATCTGCT-TGCTT-AATC
**
16952368 CGCTCCACTGCAACTTCAGGGAGATA
1 TACTCCACTGCAACTTCAGGGAGATA
16952394 GGATTTGTAT
Statistics
Matches: 404, Mismatches: 66, Indels: 70
0.75 0.12 0.13
Matches are distributed among these distances:
40 45 0.11
41 17 0.04
43 30 0.07
44 198 0.49
45 110 0.27
46 2 0.00
47 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
TACTCCACTGCAACTTCAGGGAGATAAGATCTGCTTGCTTAATC
Found at i:16952230 original size:217 final size:217
Alignment explanation
Indices: 16951849--16952299 Score: 679
Period size: 217 Copynumber: 2.1 Consensus size: 217
16951839 TCTGTTTACT
* * *
16951849 CCACTGCAACTTCAGCGGTATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
1 CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
* * * * *
16951914 AAGACTAGATGCGATCTACTCTCTGTAACTTCAGAGAGATAAGATCTGTCATTTTAATCCACTCG
66 AAGACTAGATGCAATCTACTCTCTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCCACTCC
* * * * *
16951979 GCTACAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGATAA
131 ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAA
*
16952044 GATTCG-TCATCTTCAATCTGCC
196 GATTCGCT-ATCTTCAATCCGCC
* *
16952066 CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTGCTCCGCTGCAACTTTAGGGAGAT
1 CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
* * **
16952131 AAGACTAGATGCAATCTGCTCTTTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCTGCTCC
66 AAGACTAGATGCAATCTACTCTCTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCCACTCC
*
16952196 ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
131 ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAA
* *
16952261 GATTTGCTATCTTCAATCCGCT
196 GATTCGCTATCTTCAATCCGCC
16952283 CCACTACAACTTCAGGG
1 CCACTACAACTTCAGGG
16952300 ATATAGGATT
Statistics
Matches: 210, Mismatches: 23, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
217 209 1.00
218 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (217 bp):
CCACTACAACTTCAGGGGGATAAGATCTGCTTGCTTAGTCTACTCCGCTGCAACTTCAGGGAGAT
AAGACTAGATGCAATCTACTCTCTGCAACTTCAGACAAATAAGATCTGTCATTTTAATCCACTCC
ACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGAGAGATAA
GATTCGCTATCTTCAATCCGCC
Found at i:16952306 original size:89 final size:88
Alignment explanation
Indices: 16952013--16952445 Score: 362
Period size: 89 Copynumber: 4.9 Consensus size: 88
16952003 TATTGGCTTT
* * * * * * * *
16952013 AATCTGCTCCACTACAACTTTAGGGAGATAAGATTCGTCATCTTCAATCTGCCCCACTACAACTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATT-ATTATCTTCAATCCGCTCCACTGCAACTT
* * *
16952078 CAGGGGGATAAGATCTGCT-TGCTT-
65 CAGAGAGATAAGATTTG-TAT-CTTC
* * * * * * * * * * **
16952102 AGTCTGCTCCGCTGCAACTTTAGGGAGATAAGACTA-GA--TGCAATCTGCT-CTTTGCAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTATCTTCAATCCGCTCCACTGCAACTTC
* * * *
16952163 AGACAAATAAGATCTGTCAT-TTT
66 AGAGAGATAAGATTTGT-ATCTTC
* * ** * *
16952186 AATCTGCTCCACTACAACTTCAGAGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTATCTTCAATCCGCTCCACTGCAACTTC
16952251 AGAGAGATAAGATTTGCTATCTTC
66 AGAGAGATAAGATTTG-TATCTTC
* * *
16952275 AATCCGCTCCACTACAACTTCAGGGATATAGGATTTACTATCTTCAATCCGCTCCATTGCAACTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGA-TTATTATCTTCAATCCGCTCCACTGCAACTT
* *
16952340 CAGGGAGATAGGATTTGTATCTTC
65 CAGAGAGATAAGATTTGTATCTTC
* *
16952364 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-TGTATCTTCAATCCGCTCCACTGTAACTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTAT-TATCTTCAATCCGCTCCACTGCAACTT
*
16952428 CA-AGAAGATAGGATTTGT
65 CAGAG-AGATAAGATTTGT
16952446 GGTTTCACCG
Statistics
Matches: 283, Mismatches: 49, Indels: 25
0.79 0.14 0.07
Matches are distributed among these distances:
83 3 0.01
84 50 0.18
85 10 0.04
87 11 0.04
88 67 0.24
89 102 0.36
90 40 0.14
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (88 bp):
AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTATCTTCAATCCGCTCCACTGCAACTTC
AGAGAGATAAGATTTGTATCTTC
Found at i:16952394 original size:44 final size:44
Alignment explanation
Indices: 16951983--16952445 Score: 377
Period size: 44 Copynumber: 10.5 Consensus size: 44
16951973 CACTCGGCTA
* ** * *
16951983 CAACTTTAGGGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTA
1 CAACTTCAGGGAGATAGGATT-TGTATCTTCAATCTGCTCCACTG
* * * * *
16952027 CAACTTTAGGGAGATAAGATTCGTCATCTTCAATCTGCCCCACTA
1 CAACTTCAGGGAGATAGGATTTGT-ATCTTCAATCTGCTCCACTG
* * * * *
16952072 CAACTTCAGGGGGATAAGATCTGCT-TGCTT-AGTCTGCTCCGCTG
1 CAACTTCAGGGAGATAGGATTTG-TAT-CTTCAATCTGCTCCACTG
* * * * * **
16952116 CAACTTTAGGGAGATAAGACTAG-A--TGCAATCTGCT-CTTTG
1 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
** * * * * *
16952156 CAACTTCAGACAAATAAGATCTGTCAT-TTTAATCTGCTCCACTA
1 CAACTTCAGGGAGATAGGATTTGT-ATCTTCAATCTGCTCCACTG
* ** *
16952200 CAACTTCAGAGAGATAGGATTAT-TGGCTTTAATCTGCTCCACTG
1 CAACTTCAGGGAGATAGGATT-TGTATCTTCAATCTGCTCCACTG
* * * *
16952244 CAACTTCAGAGAGATAAGATTTGCTATCTTCAATCCGCTCCACTA
1 CAACTTCAGGGAGATAGGATTTG-TATCTTCAATCTGCTCCACTG
* * * *
16952289 CAACTTCAGGGATATAGGATTTACTATCTTCAATCCGCTCCATTG
1 CAACTTCAGGGAGATAGGATTT-GTATCTTCAATCTGCTCCACTG
*
16952334 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
*
16952378 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
* * *
16952422 TAACTTCAAGAAGATAGGATTTGT
1 CAACTTCAGGGAGATAGGATTTGT
16952446 GGTTTCACCG
Statistics
Matches: 344, Mismatches: 60, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
40 20 0.06
41 7 0.02
42 1 0.00
43 10 0.03
44 191 0.56
45 114 0.33
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAGGATTTGTATCTTCAATCTGCTCCACTG
Found at i:16960843 original size:82 final size:82
Alignment explanation
Indices: 16960706--16960865 Score: 302
Period size: 82 Copynumber: 2.0 Consensus size: 82
16960696 AAAATAAATT
*
16960706 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCTTAATACTCAAGACCTTAATCCTCCTAAG
1 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
*
16960771 TAACGAGGTCAACAGAA
66 TAACGAGGCCAACAGAA
16960788 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
1 TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
16960853 TAACGAGGCCAAC
66 TAACGAGGCCAAC
16960866 TTTTGTCCCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (82 bp):
TCTTTACATAAAATGAACTACAAATAAGGCTTTGCCCTAATACTCAAGACCTTAATCCTCCTAAG
TAACGAGGCCAACAGAA
Found at i:16964452 original size:25 final size:27
Alignment explanation
Indices: 16964416--16964465 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
16964406 AATTTGGCAT
16964416 AAAACATAT-AAATAAATAA-AATAAAG
1 AAAACATATAAAAT-AATAATAATAAAG
16964442 AAAAC-TATAAAATAATAATAATAA
1 AAAACATATAAAATAATAATAATAA
16964466 TAATAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (27 bp):
AAAACATATAAAATAATAATAATAAAG
Found at i:16964460 original size:3 final size:3
Alignment explanation
Indices: 16964448--16964476 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
16964438 AAAGAAAACT
16964448 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
16964477 GTAACGAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:16964773 original size:23 final size:23
Alignment explanation
Indices: 16964724--16964782 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
16964714 GACTATATTG
* *
16964724 AAATCAGAATAAAATTTGAGAAAA
1 AAATCAAAAT-AAATTTGAAAAAA
*
16964748 AAATCATAATAAATTT-AAAAATA
1 AAATCAAAATAAATTTGAAAAA-A
16964771 AAATCAAAATAA
1 AAATCAAAATAA
16964783 GACTGAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.13
23 18 0.58
24 9 0.29
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (23 bp):
AAATCAAAATAAATTTGAAAAAA
Found at i:16965787 original size:23 final size:23
Alignment explanation
Indices: 16965761--16965805 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16965751 AATTCTGGGC
*
16965761 TTTGGTTTTTTATATTT-TTTGTA
1 TTTGGTTTATTAT-TTTCTTTGTA
16965784 TTTGGTTTATTATTTTCTTTGT
1 TTTGGTTTATTATTTTCTTTGT
16965806 GTATGTGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.11, C:0.02, G:0.13, T:0.73
Consensus pattern (23 bp):
TTTGGTTTATTATTTTCTTTGTA
Found at i:16980106 original size:16 final size:18
Alignment explanation
Indices: 16980070--16980107 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
16980060 TTTTTTTTGT
16980070 TTTTCATTCTTTAATAAG
1 TTTTCATTCTTTAATAAG
16980088 TTTTCATT-TTTAA-AAG
1 TTTTCATTCTTTAATAAG
16980104 TTTT
1 TTTT
16980108 GTATGCTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 8 0.40
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTCATTCTTTAATAAG
Found at i:16980619 original size:21 final size:21
Alignment explanation
Indices: 16980595--16980636 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
16980585 ATTTCCATAC
*
16980595 ATTATCTTTAAATTTACATTT
1 ATTATCTTCAAATTTACATTT
*
16980616 ATTATCTTCAAATTTTCATTT
1 ATTATCTTCAAATTTACATTT
16980637 TCATGCATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATCTTCAAATTTACATTT
Found at i:16981008 original size:10 final size:10
Alignment explanation
Indices: 16980993--16981018 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
16980983 GTATAAACAA
16980993 TTTTTTTTAT
1 TTTTTTTTAT
16981003 TTTTTTTTAT
1 TTTTTTTTAT
16981013 TTTTTT
1 TTTTTT
16981019 ATCATTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:16983080 original size:6 final size:6
Alignment explanation
Indices: 16983069--16983103 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
16983059 GTTCTCCCCA
16983069 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
16983104 CCAACATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:16986190 original size:44 final size:45
Alignment explanation
Indices: 16986125--16986215 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
16986115 ACCTCTATTC
* * *
16986125 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
16986169 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
16986214 CA
1 CA
16986216 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:16986217 original size:16 final size:16
Alignment explanation
Indices: 16986196--16986264 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
16986186 GATTAGCTAT
16986196 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16986212 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
16986229 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16986245 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
16986261 TACA
1 TACA
16986265 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:16986238 original size:33 final size:32
Alignment explanation
Indices: 16986196--16986264 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
16986186 GATTAGCTAT
16986196 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
16986229 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
16986261 TACA
1 TACA
16986265 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:16986798 original size:5 final size:5
Alignment explanation
Indices: 16986788--16986819 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
16986778 ACAATTTAAA
16986788 TTATT TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TT
16986820 CGTAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:16988191 original size:117 final size:116
Alignment explanation
Indices: 16988061--16988642 Score: 635
Period size: 119 Copynumber: 5.0 Consensus size: 116
16988051 AAATACGGAT
* *
16988061 ATACGAAAGAAAAAAAACAAAAAAAAA-ATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTG
1 ATACGAAA-AAAAAAAA-AAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
* * * * **
16988125 TACAGTACCAAAAAAAATTTTATATTTTTTTTGTGTCAGAGTCAGATTTAAAA
64 CACAGTACAAAAAAAAATTTTTTATTTTTTTTGTGTCAGAATCAGATAAAAAA
* * ** *
16988178 ATACGAAAAAAAAATAATAAAAAAATTTTTTGGGTATTGGCCTGTCAATGGCCGACACCCAGTAC
1 ATACGAAAAAAAAA-AAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
16988243 ACAGTACGAAGAAAAAAATTTTTTTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAA
65 ACAGTAC-AA-AAAAAAA----TTTTTTATTTTTTTT-GTGTCAGAATCAGATAAAAAA
* *
16988302 ATACG-AAAAAAATAAAAATAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT-CT
1 ATACGAAAAAAAAAAAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-
*** * *
16988365 ACAGTACCAAAAAATTTTTTTTTTGTTTTTTTTGTATCAGAATCAGATAAAAAA
65 ACAGTA-CAAAAAA-AAATTTTTTATTTTTTTTGTGTCAGAATCAGATAAAAAA
* * ***
16988419 ATACGAAAAAAATAATAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
1 ATACGAAAAAAA-AAAAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC
* *
16988484 ACAGTACGAAAAAAATAATTTTTTATTTTTTTCGTGTCAGAATCAAAT-AAAAA
65 ACAGTAC-AAAAAAA-AATTTTTTATTTTTTTTGTGTCAGAATCAGATAAAAAA
* *
16988537 ATACG--AAAAAAATAAAAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGAACA
1 ATACGAAAAAAAAAAAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
* * ** *
16988599 AATTA-TTAAAAAAA--TTTTATTTTTTTTCGTGTCAGAGTCAGATA
66 CAGTACAAAAAAAAATTTTTTATTTTTTTT-GTGTCAGAATCAGATA
16988643 TAAATTTACA
Statistics
Matches: 395, Mismatches: 51, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
109 12 0.03
110 13 0.03
111 2 0.01
112 5 0.01
114 41 0.10
115 9 0.02
116 18 0.05
117 74 0.19
118 32 0.08
119 88 0.22
120 1 0.00
121 5 0.01
122 50 0.13
123 22 0.06
124 23 0.06
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (116 bp):
ATACGAAAAAAAAAAAAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
CAGTACAAAAAAAAATTTTTTATTTTTTTTGTGTCAGAATCAGATAAAAAA
Found at i:16988465 original size:119 final size:117
Alignment explanation
Indices: 16988089--16988594 Score: 657
Period size: 117 Copynumber: 4.3 Consensus size: 117
16988079 AAAAAAAAAA
** *
16988089 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTACCAAAAAA--AATTTTATATTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAAAAAATTAATTTTTTATTT
* **
16988152 TTTTTGTGTCAGAGTCAGATTTAAAAATACGAAAAAAA-AATAATAAAAAAATTT
66 TTTTTGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAATAAT--AAAAA-TT
** * * **
16988206 TTTGGGTATTGGCCTGTCAATGGCCGACACCCAGTACACAGTACGAAGAAAAAAATTTTTTTTTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC----CAAAAAATTAATTTTTT
*
16988271 ATTTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAAAAATAAAAATT
62 ATTTTTTTT-GTGTCAGAATCAGATAAAAAAATACGAAAAAAATAATAATAAAAATT
** *
16988328 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT-CTACAGTACCAAAAAATTTTTTTTTTGTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-ACAGTACCAAAAAATTAATTTTTTATT
* *
16988392 TTTTTTGTATCAGAATCAGATAAAAAAATACGAAAAAAATAATAATAAAATTTTT
65 TTTTTTGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAATAATAAAA--ATT
* *
16988447 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACGAAAAAAATAATTTTTTATTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAAAAAATTAATTTTTTATTT
* * *
16988512 TTTTCGTGTCAGAATCAAAT-AAAAAATACGAAAAAAATAA-AA-AAAAAAT
66 TTTTTGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAATAATAAAAATT
16988561 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAG
16988595 AACAAATTAT
Statistics
Matches: 346, Mismatches: 31, Indels: 27
0.86 0.08 0.07
Matches are distributed among these distances:
114 35 0.10
116 4 0.01
117 83 0.24
118 44 0.13
119 77 0.22
120 1 0.00
121 7 0.02
122 41 0.12
123 19 0.05
124 30 0.09
125 5 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (117 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACCAAAAAATTAATTTTTTATTT
TTTTTGTGTCAGAATCAGATAAAAAAATACGAAAAAAATAATAATAAAAATT
Found at i:16990664 original size:119 final size:116
Alignment explanation
Indices: 16990541--16991761 Score: 1233
Period size: 115 Copynumber: 10.5 Consensus size: 116
16990531 TATGATTCTT
16990541 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
16990606 TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTCTTTCGTACTGTGTA
66 TTATCTGATTCTGACACAAAAAAAAATAAAA--TTTTTT-TTTCGTACTGTGTA
16990660 CTGGGTGCCGGCCATTGACAGGCCAGCA-CCAAAAAATTTTGTTTTTTTTTATTATTTTTTTCGT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA--TT-TTTTTTTTTA-T-TTTTTTTCGT
*
16990724 ATTTTTTATCTGATTCTGACACGAAAAAAAAT--AATTTTTTTTT-GTACTGTGTA
61 ATTTTTTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* *
16990777 CTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTGTTTTTTATTTATTTATTTTTTTTC
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA-----ATTTTT-TTT-TTTATTTTTTTTC
*
16990842 GTATTTTTTATCTGATTCTAACACGAAAAAAAAATAAAAAATAAAATTTTTTTTCGTACTGTGTA
59 GTATTTTTTATCTGATTCTGACAC-AAAAAAAAAT--AAAAT----TTTTTTTTCGTACTGTGTA
* *
16990907 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---ATTTTTTTATTTTTTTTCTTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
* *** ****
16990969 TTATCTGATTCTGACAC---GAATTTTTTTTTTTTTTTTTCGTACTGTGTA
66 TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* * * ***
16991017 CTGAGTGCCGGCCATTGACAGGCCAACACTCAAAAAA-----AAATTTA-TTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTA-TTT
* * ** *
16991076 TTTATCTAATTCTGACACGAAAAAAAAACAAAAAAAAATTTTTTTGGTACTGTAG-A
65 TTTATCTGATTCTGACAC---AAAAAAA-AATAAAATTTTTTTTTCGTACTGT-GTA
* *
16991132 CTGGGTGCCGGCCATTGACAGGCCAGCAGCGAAAAAA-TTTTTTTTTTATTTTTTTTTCGTATTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTA-TTTTTTTTCGTA-TT
*** * **
16991196 TTTTATCTGATTCTGACA-AAAAAAATAA-AAAA--AAATTTTGGTACTGTACA
64 TTTTATCTGATTCTGACACAAAAAAA-AATAAAATTTTTTTTTCGTACTGTGTA
* *
16991246 TTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTATTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTA-TTT
* * * **
16991311 TTTATTTGATTCTGACACGAAAAAAAAAACAAAAAATTTTTTTTTTAGTACTGTACA
65 TTTATCTGATTCTGACAC---AAAAAAAA-ATAAAA-TTTTTTTTTCGTACTGTGTA
16991368 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---TTTTTTTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
* * * **
16991430 TTATCTGATTCTGACACGAAAAAAAAT-AAATTTTTTTTTGGTATTGTACA
66 TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* * **
16991480 CTGGGTGCCGGCCATTGACAGGCCGGCATCCCCAAAAATTTTTTTTAAT-TTTTTTTTCGTATTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCA-CCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTT
*** *
16991544 TTTATCTGATTCTGACACAAAAAAAAATCAAAAAAAAATTTCTTCGTACTGTGTA
65 TTTATCTGATTCTGACACAAAAAAAAAT---AAAATTTTTTTTTCGTACTGTGTA
16991599 CTGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAA-TTTTTTTTTTATTTTTTTTCGTATTTT
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
* * * * **
16991661 TAAATCTGACTCTGACAC-------AA-AACA-TTTTTTTTAGTACTGTACA
66 T-TATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
* * *
16991704 CTGGGTGCTGGCCATTGACAGGCTAGCACCCAAAAAATTTTTTTTTTTGTTTTTTTTC
1 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTC
16991762 TTTCGTATAT
Statistics
Matches: 944, Mismatches: 96, Indels: 135
0.80 0.08 0.11
Matches are distributed among these distances:
105 42 0.04
106 3 0.00
107 14 0.01
108 43 0.05
110 55 0.06
112 45 0.05
113 11 0.01
114 83 0.09
115 114 0.12
116 35 0.04
117 61 0.06
118 49 0.05
119 104 0.11
120 71 0.08
121 61 0.06
122 56 0.06
123 41 0.04
125 3 0.00
129 8 0.01
130 45 0.05
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (116 bp):
CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTTTTATTTTTTTTCGTATTTT
TTATCTGATTCTGACACAAAAAAAAATAAAATTTTTTTTTCGTACTGTGTA
Found at i:16991092 original size:108 final size:109
Alignment explanation
Indices: 16990888--16991096 Score: 323
Period size: 110 Copynumber: 1.9 Consensus size: 109
16990878 AAAAATAAAA
* * **
16990888 TTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTA
1 TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACCCAAAAAAA-TAATTTA
* *
16990953 TTTTTTTTCTTATTTTTTATCTGATTCTGACACGAATTTTTTTTT
65 TTTTTTTTCGTATTTTTTATCTAATTCTGACACGAATTTTTTTTT
*
16990998 TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACTCAAAAAAA-AATTTA-
1 TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACCCAAAAAAATAATTTAT
16991061 TTTTTTTCGTATTTTTTTATCTAATTCTGACACGAA
66 TTTTTTTCGTA-TTTTTTATCTAATTCTGACACGAA
16991097 AAAAAAACAA
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 10 0.11
108 27 0.30
110 54 0.59
ACGTcount: A:0.23, C:0.18, G:0.14, T:0.44
Consensus pattern (109 bp):
TTTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACCCAAAAAAATAATTTAT
TTTTTTTCGTATTTTTTATCTAATTCTGACACGAATTTTTTTTT
Found at i:16991167 original size:115 final size:116
Alignment explanation
Indices: 16990824--16991757 Score: 866
Period size: 114 Copynumber: 8.1 Consensus size: 116
16990814 TTTGTTTTTT
* * *
16990824 ATTTATTTATTTTTTTTCGTATTTTTTATCTGATTCTAACACGAAAAAAAAATAAAAAATAAAAT
1 ATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAA-CAAAAA-AAAA-
16990889 TTTTTTTCGTACTGT-GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA
63 TTTTTTTCGTACTGTAG-ACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAA
* **********
16990944 ATTTTTTTATTTTTTTTCTTATTTTTTATCTGATTCTGACACG-------AATTTTTTTTTTTTT
1 ATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATTT
* * *
16991002 TTTTCGTACTGT-GTACTGAGTGCCGGCCATTGACAGGCCAACACTCAAAAA
66 TTTTCGTACTGTAG-ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*** *
16991053 A-AAATTTA-TTTTTTTCGTATTTTTTTATCTAATTCTGACACGAAAAAAAAACAAAAAAAAATT
1 ATTTTTTTATTTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATT
* * *
16991116 TTTTTGGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCAGCGAAAAA
65 TTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*
16991168 ATTTTTTTTTTATTTTTTTTTCGTATTTTTTTATCTGATTCTG--AC--AAAAAAAATAAAAAAA
1 A---TTTTTTTA-TTTTTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAA
* * *
16991229 AA---TTTTGGTACTGTACATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
61 AATTTTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*
16991282 ATTTTTTTATTTATTTTTTTTCGTATTTTTTTATTTGATTCTGACACGAAAAAAAAAACAAAAAA
1 A---TTTT-TTTATTTTTTTTCGTA-TTTTTTATCTGATTCTGACACG-AAAAAAAAACAAAAAA
*** * *
16991347 TTTTTTTTTTAGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
60 AAATTTTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
* **
16991404 ATTTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACG----AAAAA-AAATAAATTTT
1 A-TTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATT
* * * *
16991464 TTTTTGGTATTGTACACTGGGTGCCGGCCATTGACAGGCCGGCATCCCCAAAAA
65 TTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCA--CCCAAAAA
*
16991518 TTTTTTTTAATTTTTTTTTCGTATTTTTTATCTGATTCTGACAC-AAAAAAAAATCAAAAAAAAA
1 ATTTTTTT-A-TTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAA-CAAAAAAAAA
* *
16991582 -TTTCTTCGTACTGT-GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATT
63 TTTTTTTCGTACTGTAG-ACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-A
* * * *
16991636 TTTTTTTTATTTTTTTTCGTATTTTTAAATCTGACTCTGACAC------AAAAC-------ATTT
1 ATTTTTTTATTTTTTTTCGTATTTTT-TATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATT
* * * *
16991688 TTTTTAGTACTGTACACTGGGTGCTGGCCATTGACAGGCTAGCACCCAAAAA
65 TTTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
*
16991740 ATTTTTTTTTTTGTTTTT
1 ATTTTTTTATTT-TTTTT
16991758 TTTCTTTCGT
Statistics
Matches: 694, Mismatches: 80, Indels: 95
0.80 0.09 0.11
Matches are distributed among these distances:
104 11 0.02
105 51 0.07
107 10 0.01
108 25 0.04
109 6 0.01
110 46 0.07
111 1 0.00
112 54 0.08
113 14 0.02
114 93 0.13
115 86 0.12
116 20 0.03
117 39 0.06
118 34 0.05
119 75 0.11
120 51 0.07
121 28 0.04
122 50 0.07
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (116 bp):
ATTTTTTTATTTTTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAATTT
TTTTCGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAA
Found at i:16991187 original size:13 final size:13
Alignment explanation
Indices: 16991168--16991199 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
16991158 CAGCGAAAAA
16991168 ATTTTTTTTT--T
1 ATTTTTTTTTCGT
16991179 ATTTTTTTTTCGT
1 ATTTTTTTTTCGT
16991192 ATTTTTTT
1 ATTTTTTT
16991200 ATCTGATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
13 9 0.47
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.84
Consensus pattern (13 bp):
ATTTTTTTTTCGT
Found at i:16993911 original size:21 final size:21
Alignment explanation
Indices: 16993885--16993934 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
16993875 GGTGACGGTG
* *
16993885 AGATTAGTTACTGTAGCGATA
1 AGATTAGATACTGTAGCAATA
*
16993906 AGATTAGATACTGTAGCAATG
1 AGATTAGATACTGTAGCAATA
16993927 AGATTAGA
1 AGATTAGA
16993935 AACAATGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (21 bp):
AGATTAGATACTGTAGCAATA
Found at i:16995744 original size:21 final size:22
Alignment explanation
Indices: 16995664--16995739 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
16995654 CAAAACAGCA
* *
16995664 GTTTCTCCCCTCGTTCCTGCTG
1 GTTTCTCCCCTCGTTCTTACTG
*
16995686 GTTTCT-CCCTTGTTCTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
* *
16995707 GTTTGT-CCCTCGTTTTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
16995728 GTTTCTCCCCTC
1 GTTTCTCCCCTC
16995740 TTTTTTGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
21 35 0.76
22 11 0.24
ACGTcount: A:0.03, C:0.34, G:0.16, T:0.47
Consensus pattern (22 bp):
GTTTCTCCCCTCGTTCTTACTG
Found at i:17011189 original size:1 final size:1
Alignment explanation
Indices: 17011155--17011181 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
17011145 NNNNNNNNNN
17011155 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
17011182 CTGTTTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:17011358 original size:115 final size:117
Alignment explanation
Indices: 17011209--17011967 Score: 788
Period size: 114 Copynumber: 6.6 Consensus size: 117
17011199 TTTTTTTTTT
* ** * * * ***
17011209 TTTTTTTCGTACTGTGTACTGAGTGCCGGCCATTGACAGGCCAACACTCAAAAAA-AAATTTA-T
1 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTATT
*
17011272 TTTTTTCGTATTTTTTTATCTAATTCTGACACGAAAAAAAAACAAAAAAAAA
66 TTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAA
* * *
17011324 TTTTTTTGGTACTGTAGACTGGGTGCCGGCCATTGACAGGCCAGCAGCGAAAAAATTTTTTTTTT
1 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---TTTTTTT
*
17011389 ATTTTTTTTTCGTATTTTTTTATCTGATTCTG--AC--AAAAAAAATAAAAAAAAA
63 A-TTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAA
*
17011441 ---TTTTGGTACTGTACATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTATT
1 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA---TTTT-TT
* ***
17011503 TATTTTTTTTCGTATTTTTTTATTTGATTCTGACACGAAAAAAAAAACAAAAAATTT
62 TATTTTTTTTCGTATTTTTTTATCTGATTCTGACACG-AAAAAAAAACAAAAAAAAA
*
17011560 TTTTTTTAGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTTAT
1 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAA-TTTTTTTAT
* **
17011625 TTTTTTTCGTA-TTTTTTATCTGATTCTGACACG----AAAAA-AAATAAATT
65 TTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAA
* * *
17011672 TTTTTTTGGTATTGTACACTGGGTGCCGGCCATTGACAGGCCGGCATCCCCAAAAATTTTTTTTA
1 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCA--CCCAAAAAATTTTTTT-
17011737 ATTTTTTTTTCGTA-TTTTTTATCTGATTCTGACAC-AAAAAAAAATCAAAAAAAAA
63 A-TTTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAA-CAAAAAAAAA
* * ** **
17011792 -TTTCTTCGTACTGTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTAT
1 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA-AATTTTTTTAT
** * *
17011856 TTTTTTTCGTATTTTTAAATCTGACTCTGACAC------AAAAC-------AT
65 TTTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAA
* * * *
17011896 TTTTTTTAGTACTGTACACTGGGTGCTGGCCATTGACAGGCTAGCACCCAAAAAATTTTTTTTTT
1 TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTATT
17011961 TGTTTTT
66 T-TTTTT
17011968 TTTCTTTCGT
Statistics
Matches: 561, Mismatches: 54, Indels: 68
0.82 0.08 0.10
Matches are distributed among these distances:
104 11 0.02
105 51 0.09
111 1 0.00
112 54 0.10
113 12 0.02
114 93 0.17
115 84 0.15
116 14 0.02
117 43 0.08
118 34 0.06
119 75 0.13
120 11 0.02
121 28 0.05
122 50 0.09
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (117 bp):
TTTTTTTGGTACTGTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTTTATT
TTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAACAAAAAAAAA
Found at i:17011397 original size:13 final size:13
Alignment explanation
Indices: 17011378--17011409 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
17011368 CAGCGAAAAA
17011378 ATTTTTTTTT--T
1 ATTTTTTTTTCGT
17011389 ATTTTTTTTTCGT
1 ATTTTTTTTTCGT
17011402 ATTTTTTT
1 ATTTTTTT
17011410 ATCTGATTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.53
13 9 0.47
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.84
Consensus pattern (13 bp):
ATTTTTTTTTCGT
Found at i:17014121 original size:21 final size:21
Alignment explanation
Indices: 17014095--17014144 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
17014085 GGTGACGGTG
* *
17014095 AGATTAGTTACTGTAGCGATA
1 AGATTAGATACTGTAGCAATA
*
17014116 AGATTAGATACTGTAGCAATG
1 AGATTAGATACTGTAGCAATA
17014137 AGATTAGA
1 AGATTAGA
17014145 AACAATGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (21 bp):
AGATTAGATACTGTAGCAATA
Found at i:17015954 original size:21 final size:22
Alignment explanation
Indices: 17015874--17015949 Score: 93
Period size: 21 Copynumber: 3.5 Consensus size: 22
17015864 CAAAACAGCA
* *
17015874 GTTTCTCCCCTCGTTCCTGCTG
1 GTTTCTCCCCTCGTTCTTACTG
*
17015896 GTTTCT-CCCTTGTTCTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
* *
17015917 GTTTGT-CCCTCGTTTTTACTG
1 GTTTCTCCCCTCGTTCTTACTG
17015938 GTTTCTCCCCTC
1 GTTTCTCCCCTC
17015950 TTTTTTGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
21 35 0.76
22 11 0.24
ACGTcount: A:0.03, C:0.34, G:0.16, T:0.47
Consensus pattern (22 bp):
GTTTCTCCCCTCGTTCTTACTG
Found at i:17018023 original size:13 final size:13
Alignment explanation
Indices: 17018005--17018081 Score: 75
Period size: 13 Copynumber: 5.6 Consensus size: 13
17017995 AAGCAACCGT
17018005 AAATGGGAATGGG
1 AAATGGGAATGGG
17018018 AAATGGGAATGGG
1 AAATGGGAATGGG
17018031 AAATGGGAGGA-GGG
1 AAATGGGA--ATGGG
* **
17018045 CACGGTGGAATAGGG
1 AAATG-GGAAT-GGG
17018060 AAAATGGGAATGGG
1 -AAATGGGAATGGG
17018074 AAATGGGA
1 AAATGGGA
17018082 GGAGGGCACA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
13 30 0.58
14 8 0.15
15 12 0.23
16 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.47, T:0.13
Consensus pattern (13 bp):
AAATGGGAATGGG
Found at i:17018024 original size:7 final size:7
Alignment explanation
Indices: 17018005--17018038 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
17017995 AAGCAACCGT
17018005 AAATGGG
1 AAATGGG
17018012 -AATGGG
1 AAATGGG
17018018 AAATGGG
1 AAATGGG
17018025 -AATGGG
1 AAATGGG
17018031 AAATGGG
1 AAATGGG
17018038 A
1 A
17018039 GGAGGGCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.41, C:0.00, G:0.44, T:0.15
Consensus pattern (7 bp):
AAATGGG
Found at i:17018069 original size:43 final size:41
Alignment explanation
Indices: 17018010--17018097 Score: 149
Period size: 43 Copynumber: 2.1 Consensus size: 41
17018000 ACCGTAAATG
*
17018010 GGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGCACGGT
1 GGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGCACAGT
17018051 GGAATAGGGAAAATGGGAATGGGAAATGGGAGGAGGGCACAGT
1 GGAAT-GGG-AAATGGGAATGGGAAATGGGAGGAGGGCACAGT
17018094 GGAA
1 GGAA
17018098 GGGGGAATCG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 5 0.11
42 3 0.07
43 36 0.82
ACGTcount: A:0.35, C:0.05, G:0.49, T:0.11
Consensus pattern (41 bp):
GGAATGGGAAATGGGAATGGGAAATGGGAGGAGGGCACAGT
Found at i:17018184 original size:30 final size:30
Alignment explanation
Indices: 17018150--17018732 Score: 1023
Period size: 30 Copynumber: 19.5 Consensus size: 30
17018140 CATTGTATTT
17018150 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018180 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018210 GTGTATTTTAAAAAT--AAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
* *
17018238 GTGTATTTTAAAAATAAAAATATATATATA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
17018268 GTGTATTTTAAAAATAAAGAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018298 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
* *
17018328 GTGTATTTTAAAAATAAAAAAATACATGTG
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
17018358 GTGTATTTAAAAAATAAAAAAA-ATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018387 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018417 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018446 GTGTATTTTAAAAATAAAAAAATATATATGTA
1 GTGTATTTTAAAAAT-AAAAAA-ATATATGTA
17018478 GTGTATTTTAAAAATGAAAAAAATATATGTA
1 GTGTATTTTAAAAAT-AAAAAAATATATGTA
*
17018509 GTGTATTTTAAAAAAAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018539 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018569 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018599 GTGTATTTTAAAAATAAAAAATATATATGTA
1 GTGTATTTTAAAAATAAAAAA-ATATATGTA
17018630 GTGTATTTTAAAAAT-AAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
*
17018659 GTGTATTTTAAAATTAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018689 GTGTATTTTAAAAATAAAAAAATATATGTA
1 GTGTATTTTAAAAATAAAAAAATATATGTA
17018719 GTGTATTTTAAAAA
1 GTGTATTTTAAAAA
17018733 CAAATCGATT
Statistics
Matches: 528, Mismatches: 17, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
28 28 0.05
29 78 0.15
30 340 0.64
31 52 0.10
32 30 0.06
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.37
Consensus pattern (30 bp):
GTGTATTTTAAAAATAAAAAAATATATGTA
Found at i:17018222 original size:22 final size:23
Alignment explanation
Indices: 17018196--17018251 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 23
17018186 TTTAAAAATA
17018196 AAAAAATATATGTAGTGTATTTT
1 AAAAAATATATGTAGTGTATTTT
17018219 AAAAATAAAAATATATGTAGTGTATTTT
1 ----A-AAAAATATATGTAGTGTATTTT
17018247 AAAAA
1 AAAAA
17018252 TAAAAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 4 0.14
24 1 0.04
27 1 0.04
28 22 0.79
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.38
Consensus pattern (23 bp):
AAAAAATATATGTAGTGTATTTT
Found at i:17022319 original size:21 final size:21
Alignment explanation
Indices: 17022295--17022343 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
17022285 CATTGTTTCT
*
17022295 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
17022316 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
17022337 AATCTCA
1 AATCTCA
17022344 TTGCCACCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.35, G:0.08, T:0.24
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:17026346 original size:10 final size:10
Alignment explanation
Indices: 17026331--17026393 Score: 60
Period size: 10 Copynumber: 6.3 Consensus size: 10
17026321 AATCACGTTC
17026331 AAAATTA-TA
1 AAAATTATTA
17026340 GAAAATTATTA
1 -AAAATTATTA
17026351 AAATATTATTA
1 AAA-ATTATTA
17026362 AAAATTA-TA
1 AAAATTATTA
17026371 AAAATATATT-
1 AAAAT-TATTA
**
17026381 GGAATTATTA
1 AAAATTATTA
17026391 AAA
1 AAA
17026394 CCGTCCATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
9 11 0.25
10 20 0.45
11 13 0.30
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:17026360 original size:11 final size:11
Alignment explanation
Indices: 17026344--17026377 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
17026334 ATTATAGAAA
17026344 ATTATTAAAAT
1 ATTATTAAAAT
17026355 ATTATTAAAA-
1 ATTATTAAAAT
*
17026365 ATTATAAAAAT
1 ATTATTAAAAT
17026376 AT
1 AT
17026378 ATTGGAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
ATTATTAAAAT
Found at i:17026365 original size:21 final size:19
Alignment explanation
Indices: 17026341--17026393 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
17026331 AAAATTATAG
17026341 AAAATTATTAAAATATTATT
1 AAAATTATTAAAATA-TATT
*
17026361 AAAAATTATAAAAATATATT
1 -AAAATTATTAAAATATATT
**
17026381 GGAATTATTAAAA
1 AAAATTATTAAAA
17026394 CCGTCCATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 10 0.36
20 4 0.14
21 14 0.50
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAATATATT
Found at i:17027506 original size:16 final size:16
Alignment explanation
Indices: 17027484--17027520 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
17027474 GGGCCTTAAG
*
17027484 ATTTGTTTAGGGTTTT
1 ATTTGTTTAAGGTTTT
*
17027500 GTTTGTTTAAGGTTTT
1 ATTTGTTTAAGGTTTT
17027516 ATTTG
1 ATTTG
17027521 AGGGTTTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (16 bp):
ATTTGTTTAAGGTTTT
Found at i:17031604 original size:4 final size:4
Alignment explanation
Indices: 17031597--17031621 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17031587 TATTTGAACG
17031597 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
17031622 GTTAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:17033108 original size:15 final size:15
Alignment explanation
Indices: 17033070--17033109 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
17033060 TTGACCTGAA
*
17033070 TCGAACCGACCGCAG
1 TCGAACCGGCCGCAG
*
17033085 TTGAACCGGCCGCAG
1 TCGAACCGGCCGCAG
17033100 TCGAACCGGC
1 TCGAACCGGC
17033110 TTGGGGTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.23, C:0.38, G:0.30, T:0.10
Consensus pattern (15 bp):
TCGAACCGGCCGCAG
Found at i:17038377 original size:6 final size:6
Alignment explanation
Indices: 17038324--17038370 Score: 58
Period size: 6 Copynumber: 7.3 Consensus size: 6
17038314 TCTCGGACAC
*
17038324 TTAATT TTAATT TCTAAACTT ATAATT TTAATT TTAATT TTAATT TT
1 TTAATT TTAATT T-T-AA-TT TTAATT TTAATT TTAATT TTAATT TT
17038371 TTATTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
6 28 0.78
7 3 0.08
8 3 0.08
9 2 0.06
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (6 bp):
TTAATT
Found at i:17038743 original size:18 final size:18
Alignment explanation
Indices: 17038720--17038754 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17038710 GTATTACAAG
*
17038720 TTTCCATTTTCATTTTTA
1 TTTCCATTTCCATTTTTA
17038738 TTTCCATTTCCATTTTT
1 TTTCCATTTCCATTTTT
17038755 GGAAACCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTCCATTTCCATTTTTA
Found at i:17039796 original size:15 final size:13
Alignment explanation
Indices: 17039732--17039820 Score: 67
Period size: 13 Copynumber: 6.9 Consensus size: 13
17039722 TTTAATTAAA
*
17039732 ACATAAAAATAAT
1 ACATAAATATAAT
*
17039745 A-ATACATGATAAT
1 ACATAAAT-ATAAT
* * **
17039758 GCATGAATGCAAT
1 ACATAAATATAAT
17039771 ACATAAATATAAT
1 ACATAAATATAAT
17039784 ACAT-AATA-ATAT
1 ACATAAATATA-AT
* *
17039796 ATATAAATGTAAT
1 ACATAAATATAAT
17039809 ACATAAATATAA
1 ACATAAATATAA
17039821 CAAGGATAAG
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
11 1 0.02
12 13 0.23
13 37 0.66
14 5 0.09
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (13 bp):
ACATAAATATAAT
Found at i:17041647 original size:102 final size:102
Alignment explanation
Indices: 17041471--17041666 Score: 295
Period size: 102 Copynumber: 1.9 Consensus size: 102
17041461 GCTTCGCTGT
*
17041471 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAATTTCAGGAAGATAAGAGTC
1 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAGTC
*
17041536 GCCATAATTTGTACCTTTAATCTGTTCCATCCGCTAC
66 ACCATAATTTGTACCTTTAATCTGTTCCATCCGCTAC
* * *
17041573 AACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAG-GTT
1 AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAG-T
* * * *
17041637 CATCATAATTTTTAGCTTTAATCTTTTCCA
65 CACCATAATTTGTACCTTTAATCTGTTCCA
17041667 CTGCAATGCT
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
101 1 0.01
102 83 0.99
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (102 bp):
AACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGAGTC
ACCATAATTTGTACCTTTAATCTGTTCCATCCGCTAC
Found at i:17041736 original size:143 final size:143
Alignment explanation
Indices: 17041565--17041915 Score: 472
Period size: 143 Copynumber: 2.5 Consensus size: 143
17041555 ATCTGTTCCA
*
17041565 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
1 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
* * * * * * * ** *
17041630 TAAGGTTCATCATAATTTTTAGCTTTAATCTTTTCCACTGCAATGCTAGGGAAATAAGATTCGCT
66 TAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCGAT
17041695 GTCTTTAGTCTGC
131 GTCTTTAGTCTGC
* * * **
17041708 TCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACTACTTTTGGAAGA
1 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
* *
17041773 TAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGTAACGCCAAAGAAATAAGATTCGAT
66 TAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCGAT
17041838 GTCTTTAGTCTGC
131 GTCTTTAGTCTGC
* * ** * *
17041851 TCCACTACAACTTCAGGGAGATAAGACT--TCACTTCAATCCGCTCCACTGCAACTTCAGGGAGA
1 TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
17041914 TA
66 TA
17041916 GGATTATTGG
Statistics
Matches: 179, Mismatches: 29, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
141 29 0.16
143 150 0.84
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (143 bp):
TCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGA
TAAGATCCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATAAGATTCGAT
GTCTTTAGTCTGC
Found at i:17041757 original size:245 final size:245
Alignment explanation
Indices: 17041327--17041809 Score: 720
Period size: 245 Copynumber: 2.0 Consensus size: 245
17041317 TGCTCCACTG
17041327 CAACTTCAGGGAGATAAGGCTAGTGGCTTCGATATGCTCCACTGCAACTTCAGGAAGATAAGATC
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCGATATGCTCCACTGCAACTTCAGGAAGATAAGATC
* * *
17041392 CGCCATAACTTGTGGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTTTCTTCA
66 CACCATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGTCTTCA
* * *
17041457 ATCTGCTTCGCTGTAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTGC-AATTTC
131 ATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACTAATTT-
17041521 AGGAAGATAAGAGT-CGCCATAATTTGTACCTTTAATCTGTTCCATCCGCTA
195 AGGAAGATAAGA-TCCGCCATAATTTGTACCTTTAATCTGTTCCATCCGCTA
* * *
17041572 CAACTTCAGGGAGATAAGGCTGGTGGCTTC-AGTCTGCTCCACTGCAACTTCAGGAAGATAAGGT
1 CAACTTCAGGGAGATAAGGCTAGTGGCTTCGA-TATGCTCCACTGCAACTTCAGGAAGATAAGAT
* * * * * * *
17041636 TCATCATAATTTTTAGCTTTAATCTTTTCCACTGCAATGCTAGGGAAATAAGATTCGCTGTCTTT
65 CCACCATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGTCTTC
* * * *
17041701 AGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACTACTTT
130 AATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACTAATTT
* *
17041766 TGGAAGATAAGATCCGCCATAATTTGTAGCTTTAATCTGTTCCA
195 AGGAAGATAAGATCCGCCATAATTTGTACCTTTAATCTGTTCCA
17041810 CTGTAACGCC
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
244 2 0.01
245 207 0.97
246 4 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (245 bp):
CAACTTCAGGGAGATAAGGCTAGTGGCTTCGATATGCTCCACTGCAACTTCAGGAAGATAAGATC
CACCATAACTTGTAGCTTTAATCTGTTCCACTGCAATGCCAGGGAAATAAGATTCGCTGTCTTCA
ATCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTCCACTACTAATTTA
GGAAGATAAGATCCGCCATAATTTGTACCTTTAATCTGTTCCATCCGCTA
Found at i:17041904 original size:42 final size:43
Alignment explanation
Indices: 17041849--17041963 Score: 133
Period size: 44 Copynumber: 2.7 Consensus size: 43
17041839 TCTTTAGTCT
* *
17041849 GCTCCACTACAACTTCAGGGAGATAAGA-CTTCACTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATATTCACTTCAATCC
* ** * *
17041891 GCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-TATTCACTTCAATCC
* *
17041935 ACTCGACTGCAACTTCAGGGAGATAAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGAT
17041964 TTGGCATAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 26 0.43
43 1 0.02
44 34 0.56
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (43 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATATTCACTTCAATCC
Found at i:17051984 original size:13 final size:13
Alignment explanation
Indices: 17051927--17052015 Score: 58
Period size: 13 Copynumber: 6.9 Consensus size: 13
17051917 TTTAATAAAA
*
17051927 ACATAAAAATAAT
1 ACATAAATATAAT
*
17051940 A-ATACATGATAAT
1 ACATAAAT-ATAAT
* * **
17051953 GCATGAATGCAAT
1 ACATAAATATAAT
*
17051966 AGATAAATATAAT
1 ACATAAATATAAT
17051979 ACAT-AATA-ATAT
1 ACATAAATATA-AT
* *
17051991 ATATAAATGTAAT
1 ACATAAATATAAT
17052004 ACATAAATATAA
1 ACATAAATATAA
17052016 CAAGGATAAG
Statistics
Matches: 54, Mismatches: 17, Indels: 10
0.67 0.21 0.12
Matches are distributed among these distances:
11 1 0.02
12 13 0.24
13 35 0.65
14 5 0.09
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
ACATAAATATAAT
Found at i:17053179 original size:12 final size:12
Alignment explanation
Indices: 17053164--17053204 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 12
17053154 ACTGTTAATG
17053164 TTTGTTTTTTTA
1 TTTGTTTTTTTA
*
17053176 TTTGGTTTTTTA
1 TTTGTTTTTTTA
17053188 TTTTGTTTTGTTTA
1 -TTTGTTTT-TTTA
17053202 TTT
1 TTT
17053205 AATCTGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 11 0.44
13 10 0.40
14 4 0.16
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.80
Consensus pattern (12 bp):
TTTGTTTTTTTA
Found at i:17059314 original size:14 final size:14
Alignment explanation
Indices: 17059295--17059325 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
17059285 TTCGTTGACG
17059295 ATGCAACTTGGGTT
1 ATGCAACTTGGGTT
17059309 ATGCAACTTGGGTT
1 ATGCAACTTGGGTT
17059323 ATG
1 ATG
17059326 AGTTGACCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.35
Consensus pattern (14 bp):
ATGCAACTTGGGTT
Found at i:17063872 original size:13 final size:13
Alignment explanation
Indices: 17063854--17063904 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
17063844 ATTTAAAAAT
17063854 AATAATTTTTAAA
1 AATAATTTTTAAA
17063867 AATAATTTTT-AA
1 AATAATTTTTAAA
17063879 AAT--TTTTTAAAA
1 AATAATTTTT-AAA
*
17063891 AATAATATTTAAA
1 AATAATTTTTAAA
17063904 A
1 A
17063905 TATTTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 5 0.15
12 10 0.30
13 14 0.42
14 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATAATTTTTAAA
Found at i:17063886 original size:24 final size:24
Alignment explanation
Indices: 17063859--17063945 Score: 81
Period size: 23 Copynumber: 3.7 Consensus size: 24
17063849 AAAATAATAA
*
17063859 TTTTT-AAAAATAATTTTTAAAAT
1 TTTTTAAAAAATAATATTTAAAAT
17063882 TTTTTAAAAAATAATATTTAAAA-
1 TTTTTAAAAAATAATATTTAAAAT
* * *
17063905 TATTTAAAATAT-ACATTTAAAAT
1 TTTTTAAAAAATAATATTTAAAAT
* *
17063928 ATTATAAACCAAATAATA
1 TTTTTAAA--AAATAATA
17063946 AATTTGAAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
22 9 0.18
23 20 0.40
24 16 0.32
25 3 0.06
26 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (24 bp):
TTTTTAAAAAATAATATTTAAAAT
Found at i:17063889 original size:23 final size:22
Alignment explanation
Indices: 17063857--17063922 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 22
17063847 TAAAAATAAT
17063857 AATTTTTAAAAATAATTTTTAA
1 AATTTTTAAAAATAATTTTTAA
*
17063879 AATTTTTTAAAAAATAATATTTAA
1 AA-TTTTT-AAAAATAATTTTTAA
*
17063903 AATATTTAAAATATACATTT
1 AATTTTTAAAA-ATA-ATTT
17063923 AAAATATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 6 0.16
23 12 0.32
24 19 0.51
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
AATTTTTAAAAATAATTTTTAA
Found at i:17063935 original size:23 final size:23
Alignment explanation
Indices: 17063864--17063935 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 23
17063854 AATAATTTTT
** *
17063864 AAAAATAATTTTTAAAATTTTTTA
1 AAAAATAACATTTAAAA-TATTTA
*
17063888 AAAAATAATATTTAAAATATTTA
1 AAAAATAACATTTAAAATATTTA
*
17063911 AAATAT-ACATTTAAAATATTATA
1 AAAAATAACATTTAAAATATT-TA
17063934 AA
1 AA
17063936 CCAAATAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.30
23 14 0.33
24 16 0.37
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (23 bp):
AAAAATAACATTTAAAATATTTA
Found at i:17064023 original size:22 final size:23
Alignment explanation
Indices: 17063989--17064055 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 23
17063979 TTTTAAATGT
*
17063989 TTTATAATATTAAAAA-AATATA
1 TTTAAAATATTAAAAATAATATA
*
17064011 TTTAAAATTTTAAAAATAATAT-
1 TTTAAAATATTAAAAATAATATA
* * * *
17064033 TATAAAACATTTAAAATATTATA
1 TTTAAAATATTAAAAATAATATA
17064056 AAACCAACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 31 0.86
23 5 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (23 bp):
TTTAAAATATTAAAAATAATATA
Found at i:17064033 original size:21 final size:22
Alignment explanation
Indices: 17064002--17064059 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 22
17063992 ATAATATTAA
*
17064002 AAAAATATATT-TAAAA-TTTT
1 AAAAATATATTATAAAACATTT
17064022 AAAAATAATATTATAAAACATTT
1 AAAAAT-ATATTATAAAACATTT
17064045 --AAA-ATATTATAAAAC
1 AAAAATATATTATAAAAC
17064060 CAACAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 8 0.24
22 5 0.15
23 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATATATTATAAAACATTT
Found at i:17064045 original size:23 final size:20
Alignment explanation
Indices: 17064002--17064048 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 20
17063992 ATAATATTAA
*
17064002 AAAAATATATTTAAAATTTT
1 AAAAATATATTTAAAAATTT
17064022 AAAAATAATATTATAAAACATTT
1 AAAAAT-ATATT-TAAAA-ATTT
17064045 AAAA
1 AAAA
17064049 TATTATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 5 0.22
22 5 0.22
23 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAATATATTTAAAAATTT
Found at i:17064081 original size:24 final size:24
Alignment explanation
Indices: 17064053--17064106 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
17064043 TTAAAATATT
*
17064053 ATAAAACCAACAATA-AACAAATAA
1 ATAAAACAAACAA-AGAACAAATAA
* *
17064077 ATAAAACAAATAAAGGACAAATAA
1 ATAAAACAAACAAAGAACAAATAA
17064101 ATAAAA
1 ATAAAA
17064107 AAAAGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.72, C:0.11, G:0.04, T:0.13
Consensus pattern (24 bp):
ATAAAACAAACAAAGAACAAATAA
Found at i:17064084 original size:20 final size:23
Alignment explanation
Indices: 17064069--17064115 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
17064059 CCAACAATAA
17064069 ACAAATAAATAAAACAAATAAAGG
1 ACAAATAAATAAAACAAATAAA-G
*
17064093 ACAAATAAATAAAAAAAAGTAAA
1 ACAAATAAATAAAACAAA-TAAA
17064116 AAACAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.13
Consensus pattern (23 bp):
ACAAATAAATAAAACAAATAAAG
Found at i:17064085 original size:13 final size:12
Alignment explanation
Indices: 17064067--17064131 Score: 53
Period size: 13 Copynumber: 5.2 Consensus size: 12
17064057 AACCAACAAT
17064067 AAACAAATAAATA
1 AAACAAATAAA-A
17064080 AAACAAAT-AAA
1 AAACAAATAAAA
**
17064091 GGACAAATAAATA
1 AAACAAATAAA-A
*
17064104 AAAAAAAGT-AAA
1 AAACAAA-TAAAA
17064116 AAACAAAATAAAA
1 AAAC-AAATAAAA
17064129 AAA
1 AAA
17064132 TGAAAAAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
11 7 0.17
12 9 0.22
13 24 0.59
14 1 0.02
ACGTcount: A:0.78, C:0.06, G:0.05, T:0.11
Consensus pattern (12 bp):
AAACAAATAAAA
Found at i:17064150 original size:26 final size:26
Alignment explanation
Indices: 17064088--17064159 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 26
17064078 TAAAACAAAT
17064088 AAAGGACAAATAAATAAAAAAAAGTAA
1 AAAGGACAAA-AAATAAAAAAAAGTAA
*
17064115 AAA--AC--AAAATAAAAAAATG-AA
1 AAAGGACAAAAAATAAAAAAAAGTAA
*
17064136 AAAGGACAAAGAAATGAAAAAAAG
1 AAAGGACAAA-AAATAAAAAAAAG
17064160 AATCAGAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
21 5 0.14
22 12 0.32
23 3 0.08
25 3 0.08
26 11 0.30
27 3 0.08
ACGTcount: A:0.75, C:0.04, G:0.12, T:0.08
Consensus pattern (26 bp):
AAAGGACAAAAAATAAAAAAAAGTAA
Found at i:17064157 original size:29 final size:30
Alignment explanation
Indices: 17064120--17064191 Score: 78
Period size: 32 Copynumber: 2.4 Consensus size: 30
17064110 AGTAAAAAAC
*
17064120 AAAATAAAAAAAT-GAAAAAGG-ACAAA-G
1 AAAAAAAAAAAATAGAAAAAGGAACAAATG
17064147 AAATGAAAAAAAGAATCAGAAAAAGGAACAAATG
1 AAA--AAAAAAA-AAT-AGAAAAAGGAACAAATG
17064181 AAAAAAAAAAA
1 AAAAAAAAAAA
17064192 TTCAGACTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 3 0.08
29 6 0.16
30 3 0.08
31 1 0.03
32 15 0.41
33 5 0.14
34 4 0.11
ACGTcount: A:0.75, C:0.04, G:0.14, T:0.07
Consensus pattern (30 bp):
AAAAAAAAAAAATAGAAAAAGGAACAAATG
Found at i:17068426 original size:22 final size:23
Alignment explanation
Indices: 17068401--17068444 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
17068391 ATTATACACT
17068401 TTAAAATTT-TCAAATATTTTAA
1 TTAAAATTTCTCAAATATTTTAA
** *
17068423 TTAAGCTTTCTCAAATTTTTTA
1 TTAAAATTTCTCAAATATTTTA
17068445 TAAATTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAAAATTTCTCAAATATTTTAA
Found at i:17084302 original size:25 final size:28
Alignment explanation
Indices: 17084260--17084311 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
17084250 AGAACACCTA
*
17084260 TATATTATATAAAGAAAT-ATGTATATG
1 TATACTATATAAAGAAATCATGTATATG
17084287 TATACTATAT-AA-AAATGCATGTATA
1 TATACTATATAAAGAAAT-CATGTATA
17084312 AGTTTAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 2 0.09
27 16 0.73
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (28 bp):
TATACTATATAAAGAAATCATGTATATG
Found at i:17085924 original size:50 final size:49
Alignment explanation
Indices: 17085849--17086339 Score: 260
Period size: 50 Copynumber: 9.8 Consensus size: 49
17085839 TCTGCTCCAC
* * * * *
17085849 TGCAATGTCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
1 TGCAATGTTAGGAAACT-AGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* **
17085899 TGCAATGTTAGGAAAACTAGATCCGCCGTCGTAGCTTCAATCTATTCCAT
1 TGCAATGTTAGG-AAACTAGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * ** *
17085949 TGCACTGTTAAGG-AAGTAAGATCCGCCGTTTTGGCTTCAATCTTTTTAAT
1 TGCAATGTT-AGGAAACT-AGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * * *
17085999 TGCAATATTAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCT-AC
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAATCT-TTTTAAT
* * * * * * *
17086049 TGCATTGCTAAGG-AAGTAAGATCCGCCGTTGT-GACTTTAATCCTTTTGAT
1 TGCAATG-TTAGGAAACT-AGATCCGCCGTCGTAG-CTTCAATCTTTTTAAT
* * * * * ** *
17086099 TGCAATATCAGGGAAACCAGATCTGCCGTCATAGCTTCAAT-TTGTTCCAC
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAATCTT-TTTAAT
* * * * * *
17086149 TGCACTGCTAAGG-AAGTAAGATCCGCCGTTGT-GACTTCAATATTTTTGAT
1 TGCAATG-TTAGGAAACT-AGATCCGCCGTCGTAG-CTTCAATCTTTTTAAT
* * * * ** *
17086199 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAC
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * * * * * * *
17086249 TACACTGCTAAGG-AAGTAAGATCCGCTGTTGTGGCTTTAATCTTTTTAAT
1 TGCAATG-TTAGGAAACT-AGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
* * *
17086299 TGCAATATTAGGGAAACCAGATCTGCCGTCGTAGCTTCAAT
1 TGCAATGTTA-GGAAACTAGATCCGCCGTCGTAGCTTCAAT
17086340 TTGTTCCACT
Statistics
Matches: 321, Mismatches: 95, Indels: 50
0.69 0.20 0.11
Matches are distributed among these distances:
49 22 0.07
50 272 0.85
51 27 0.08
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (49 bp):
TGCAATGTTAGGAAACTAGATCCGCCGTCGTAGCTTCAATCTTTTTAAT
Found at i:17086033 original size:100 final size:100
Alignment explanation
Indices: 17085860--17086366 Score: 780
Period size: 100 Copynumber: 5.1 Consensus size: 100
17085850 GCAATGTCAG
* * *
17085860 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTTAGGAAAACTAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
* * *
17085925 CGTCGTAGCTTCAATCTATTCCATTGCACTGTTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
*
17085960 GGAAGTAAGATCCGCCGTTTTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
* *
17086025 CGTCGTAGCTTCAATCTGTTCTACTGCATTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
* * * * * *
17086060 GGAAGTAAGATCCGCCGTTGTGACTTTAATCCTTTTGATTGCAATATCAGGGAAACCAGATCTGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
* *
17086125 CGTCATAGCTTCAATTTGTTCCACTGCACTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
* * * *
17086160 GGAAGTAAGATCCGCCGTTGTGACTTCAATATTTTTGATTGCAATATCAGGGAAACCAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
*
17086225 CGTCGTAGCTTCAATCTGTTCCACTACACTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
* * *
17086260 GGAAGTAAGATCCGCTGTTGTGGCTTTAATCTTTTTAATTGCAATATTAGGGAAACCAGATCTGC
1 GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
*
17086325 CGTCGTAGCTTCAATTTGTTCCACTGCACTGCTAA
66 CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
17086360 GGAAGTA
1 GGAAGTA
17086367 GAATTACTGC
Statistics
Matches: 371, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 371 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (100 bp):
GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATCCGC
CGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAA
Found at i:17086801 original size:262 final size:263
Alignment explanation
Indices: 17086360--17087390 Score: 1442
Period size: 262 Copynumber: 3.9 Consensus size: 263
17086350 GCACTGCTAA
* *
17086360 GGAAGTAGAATTACT-GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCACCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTT
* * ** *
17086424 CGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
* * * * *
17086489 AGTG-AGATAGAATTATTGGCTTCAATGTACTCTACTGTAACCTTAGGGAGGTAAAATCCACCAT
131 AGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
** *
17086553 ATTTGATCTGCTCTTCTACTGCTTAGGGAGATAAGATCTG-TTCTTCAATCTATTCCGCTGCTGC
195 ATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATTCTTCAATCTATTCCGCTGCTGC
17086617 CCAG
260 CCAG
* ** *
17086621 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTT
* ** *
17086686 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
* * *
17086751 AGTG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCAT
131 AGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
* * *
17086815 CTTTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTG-TTCTTCAATCTATTCCGCTGCTGC
195 ATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATTCTTCAATCTATTCCGCTGCTGC
17086879 CCAG
260 CCAG
** *
17086883 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATATT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTT
* **
17086948 CGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
* **
17087013 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATA
131 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATA
* * * *
17087078 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCTGC
196 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG-ATTCTTCAATCTATTCCGCTGCTGC
17087143 CCAG
260 CCAG
* * * *
17087147 GGAAGTAAAATTACCGGCTTCAATGTACTCCACGGTAACCACAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTT
* * * *
17087212 TGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCT
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
* * * * * * ** *
17087277 AGGGAAGTAGAATTACCGGCTTCAATATACTCCACGGCAATCACAGGAAGGTAAAATCTGCCATC
131 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATA
* *
17087342 TTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGCTATCTTCAA
196 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAT-TCTTCAA
17087391 CCTGCTCCCC
Statistics
Matches: 706, Mismatches: 59, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
261 14 0.02
262 446 0.63
263 2 0.00
264 244 0.35
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (263 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCTGCCATCTT
CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATA
TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATTCTTCAATCTATTCCGCTGCTGCC
CAG
Found at i:17086975 original size:44 final size:44
Alignment explanation
Indices: 17086901--17087130 Score: 124
Period size: 44 Copynumber: 5.2 Consensus size: 44
17086891 AATTACTGGC
* * **
17086901 TTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATA
1 TTCAATCTACTCCACTACTGCTT-AGGGAGGTAAAATCTGCCATA
* * * * ** *
17086946 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATC
1 TTCAATCTACTCCACTACTGCTTAGGGAGGTAAAATCTGCCATA
* ** * ** * * *
17086990 TTCAATCTATTCTGCTGCTGCCCAGGGAAGTAGAATTACTGGC---
1 TTCAATCTACTCCACTACTGCTTAGGGAGGTA-AAAT-CTGCCATA
* * **
17087033 TTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATA
1 TTCAATCTACTCCACTACTGCTT-AGGGAGGTAAAATCTGCCATA
* * * * ** *
17087078 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATC
1 TTCAATCTACTCCACTACTGCTTAGGGAGGTAAAATCTGCCATA
17087122 TTCAATCTA
1 TTCAATCTA
17087131 TTCTGCTGCT
Statistics
Matches: 130, Mismatches: 49, Indels: 13
0.68 0.26 0.07
Matches are distributed among these distances:
42 4 0.03
43 18 0.14
44 69 0.53
45 36 0.28
46 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
TTCAATCTACTCCACTACTGCTTAGGGAGGTAAAATCTGCCATA
Found at i:17087084 original size:394 final size:393
Alignment explanation
Indices: 17086360--17087390 Score: 1489
Period size: 394 Copynumber: 2.6 Consensus size: 393
17086350 GCACTGCTAA
*
17086360 GGAAGTAGAATTACT-GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCACCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
* * * * *
17086424 CGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAT-TCTTCAATCTATTCCGCTGCTGCCC
* * * * **
17086489 AGTG-AGATAGAATTATTGGCTTCAATGTACTCTACTGTAACCTT-AGGGAGGTAAAATCCACCA
130 AGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGCAA-CTTCAGGGAGGTAAAATCTGCCA
** * *
17086552 TATTTGATCTGCTCTTCTACTGCTTAGGGAGATAAGATCTGTTCTTCAATCTATTCCGCTGCTGC
193 TATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATCTTCAATCTATTCCGCTGCTGC
17086617 CCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCA
258 CCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCA
* * ** *
17086682 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCT
323 TATTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT
17086747 GCCCAG
388 GCCCAG
* * * **
17086753 TG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCT
*
17086817 TTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTG-TTCTTCAATCTATTCCGCTGCTGCCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGATTCTTCAATCTATTCCGCTGCTGCCC
17086881 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATA
130 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATA
* * *
17086946 TTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCTGC
195 TTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG--ATCTTCAATCTATTCCGCTGCTGC
* *
17087011 CCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCA
258 CCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCA
* **
17087076 TATTCGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCT
323 TATTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCT
17087141 GCCCAG
388 GCCCAG
* * *
17087147 GGAAGTAAAATTACCGGCTTCAATGTACTCCACGGTAACCACAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
* * * *
17087212 TGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCT
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG-ATTCTTCAATCTATTCCGCTGCTGCCC
* * * * *
17087277 AGGGAAGTAGAATTACCGGCTTCAATATACTCCACGGCAA-TCACAGGAAGGTAAAATCTGCCAT
130 AGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACT-TCAGGGAGGTAAAATCTGCCAT
* *
17087341 CTTTGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGCTATCTTCAA
194 ATTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTG--ATCTTCAA
17087391 CCTGCTCCCC
Statistics
Matches: 570, Mismatches: 58, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
391 3 0.01
392 111 0.19
393 13 0.02
394 315 0.55
395 3 0.01
396 125 0.22
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (393 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGATTCTTCAATCTATTCCGCTGCTGCCCA
GGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATAT
TTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATCTTCAATCTATTCCGCTGCTGCCCA
GGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATAT
TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCC
CAG
Found at i:17087413 original size:132 final size:132
Alignment explanation
Indices: 17086360--17087390 Score: 1428
Period size: 132 Copynumber: 7.8 Consensus size: 132
17086350 GCACTGCTAA
* * *
17086360 GGAAGTAGAATTACT-GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCACCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTT
* * * * *
17086424 CGATCCGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCCC
17086489 AG
131 AG
* * * * * ** *
17086491 TG-AGATAGAATTATTGGCTTCAATGTACTCTACTGTAACCTTAGGGAGGTAAAATCCACCATAT
1 GGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCT
* ** *
17086555 TTGATCTGCTCTTCTACTGCTTAGGGAGATAAGATCTG-T-TCTTCAATCTATTCCGCTGCTGCC
65 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCC
17086618 CAG
130 CAG
* * *
17086621 GAAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTT
* * * *
17086686 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTTATCTTTAATCTATTCCACTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCCC
17086751 AG
131 AG
* * * **
17086753 TG-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCT
* * *
17086817 TTGATCTGCTCCTCTACTGCTTAGGGAGATAAGATCTG-T-TCTTCAATCTATTCCGCTGCTGCC
65 TCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCC
17086880 CAG
130 CAG
* *
17086883 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATATT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTT
* * *
17086948 CGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCCC
17087013 AG
131 AG
* *
17087015 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCTGCCATATT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTT
* * *
17087080 CGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCTATTCTGCTGCTGCCC
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCCC
17087145 AG
131 AG
* * * * *
17087147 GGAAGTAAAATTACCGGCTTCAATGTACTCCACGGTAACCACAGGGAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTT
* * * *
17087212 TGACCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGCCT
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCCC
17087277 AG
131 AG
* * * * * *
17087279 GGAAGTAGAATTACCGGCTTCAATATACTCCACGGCAATCACAGGAAGGTAAAATCTGCCATCTT
1 GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTT
* * *
17087344 TGATCTGCTCCACTACTGCTTAGAGAGACAAGATCTGCTATCTTCAA
66 CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAA
17087391 CCTGCTCCCC
Statistics
Matches: 818, Mismatches: 73, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
130 227 0.28
131 19 0.02
132 572 0.70
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
GGAAGTAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTT
CGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGATATCTTCAATCTATTCCGCTGCTGCCC
AG
Found at i:17088721 original size:7 final size:7
Alignment explanation
Indices: 17088707--17088739 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
17088697 TCCATTTTAT
17088707 TTTTTCA
1 TTTTTCA
*
17088714 TTTCTCA
1 TTTTTCA
17088721 TTTTTCA
1 TTTTTCA
17088728 TTTTTCA
1 TTTTTCA
17088735 TTTTT
1 TTTTT
17088740 TCACATCACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:17088725 original size:15 final size:15
Alignment explanation
Indices: 17088705--17088742 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
17088695 TCTCCATTTT
17088705 ATTTTTTCATTTCTC
1 ATTTTTTCATTTCTC
*
17088720 A-TTTTTCATTTTTC
1 ATTTTTTCATTTCTC
17088734 ATTTTTTCA
1 ATTTTTTCA
17088743 CATCACTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTTTTCATTTCTC
Found at i:17094047 original size:25 final size:28
Alignment explanation
Indices: 17094005--17094056 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
17093995 AGAACACCTA
*
17094005 TATATTATATAAAGAAAT-ATGTATATG
1 TATACTATATAAAGAAATCATGTATATG
17094032 TATACTATAT-AA-AAATGCATGTATA
1 TATACTATATAAAGAAAT-CATGTATA
17094057 AGTTTAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 2 0.09
27 16 0.73
ACGTcount: A:0.48, C:0.04, G:0.10, T:0.38
Consensus pattern (28 bp):
TATACTATATAAAGAAATCATGTATATG
Found at i:17099306 original size:19 final size:19
Alignment explanation
Indices: 17099269--17099307 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17099259 ATTGCGTGTC
* * *
17099269 TGAATAGAAAAGAACGAAA
1 TGAATAAAAAAAAAAGAAA
17099288 TGAATAAAAAAAAAAGAAA
1 TGAATAAAAAAAAAAGAAA
17099307 T
1 T
17099308 AGGAAACATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.15, T:0.13
Consensus pattern (19 bp):
TGAATAAAAAAAAAAGAAA
Found at i:17099590 original size:26 final size:26
Alignment explanation
Indices: 17099556--17099628 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
17099546 AATTTTCTCC
17099556 AAATTTTATCGAGGGTAAAATCATCA
1 AAATTTTATCGAGGGTAAAATCATCA
* * *
17099582 AAATTTTATTGAAGGCAAAATCATCA
1 AAATTTTATCGAGGGTAAAATCATCA
*
17099608 AAATTTTA-CTGGGGGTAAAAT
1 AAATTTTATC-GAGGGTAAAAT
17099629 TGCCAAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (26 bp):
AAATTTTATCGAGGGTAAAATCATCA
Found at i:17100160 original size:43 final size:43
Alignment explanation
Indices: 17100094--17100259 Score: 197
Period size: 43 Copynumber: 3.9 Consensus size: 43
17100084 AACACATAGT
* * * *
17100094 TCGCCTATTGGCGAATACAATACACAAGCAGACTTCATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
* *
17100137 TCGCCCATTGACGAATATTATACACAAGCAAACTTTATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
* * * **
17100180 TTGCCTATTGGTGAATACTATACACAATTAAACTTTATACAAC
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
* ** *
17100223 TCTCCCATTGGTAAATATTATACACAAGCAAACTTTA
1 TCGCCCATTGGCGAATACTATACACAAGCAAACTTTA
17100260 CAGCAGACTT
Statistics
Matches: 103, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (43 bp):
TCGCCCATTGGCGAATACTATACACAAGCAAACTTTATACAAC
Found at i:17100203 original size:86 final size:86
Alignment explanation
Indices: 17100096--17100259 Score: 238
Period size: 86 Copynumber: 1.9 Consensus size: 86
17100086 CACATAGTTC
* *
17100096 GCCTATTGGCGAATACAATACACAAGCAGACTTCATACAACTCGCCCATTGACGAATATTATACA
1 GCCTATTGGCGAATACAATACACAAGCAAACTTCATACAACTCGCCCATTGACAAATATTATACA
17100161 CAAGCAAACTTTATACAACTT
66 CAAGCAAACTTTATACAACTT
* * ** * * **
17100182 GCCTATTGGTGAATACTATACACAATTAAACTTTATACAACTCTCCCATTGGTAAATATTATACA
1 GCCTATTGGCGAATACAATACACAAGCAAACTTCATACAACTCGCCCATTGACAAATATTATACA
17100247 CAAGCAAACTTTA
66 CAAGCAAACTTTA
17100260 CAGCAGACTT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
86 68 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.28
Consensus pattern (86 bp):
GCCTATTGGCGAATACAATACACAAGCAAACTTCATACAACTCGCCCATTGACAAATATTATACA
CAAGCAAACTTTATACAACTT
Found at i:17103382 original size:21 final size:21
Alignment explanation
Indices: 17103341--17103382 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17103331 TTAGAAATGC
* *
17103341 TTTTGTCCTAAAAGTAATTTT
1 TTTTGTCCCAAAACTAATTTT
*
17103362 TTTTGTCCCAAAACTACTTTT
1 TTTTGTCCCAAAACTAATTTT
17103383 GAGAAGCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTTGTCCCAAAACTAATTTT
Found at i:17110318 original size:47 final size:46
Alignment explanation
Indices: 17110232--17110324 Score: 114
Period size: 47 Copynumber: 2.0 Consensus size: 46
17110222 ATCTAATGCT
* * * *
17110232 AAATGGATGTCCATACCCCCAAATTTATCCTATTGTAACCCTTAAA
1 AAATGAATGTCCATACCCCCAAATTTATCATATTATAACCCCTAAA
* * *
17110278 AAATGAATGTCCATAACCCCTAAATTTATTATTTTATAACCCCTAAA
1 AAATGAATGTCCAT-ACCCCCAAATTTATCATATTATAACCCCTAAA
17110325 TTACTTATAG
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 13 0.33
47 26 0.67
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (46 bp):
AAATGAATGTCCATACCCCCAAATTTATCATATTATAACCCCTAAA
Found at i:17114413 original size:37 final size:37
Alignment explanation
Indices: 17114363--17114437 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
17114353 AAGGTATTTT
17114363 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
1 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
17114400 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
1 AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
17114437 A
1 A
17114438 GGCTGTAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (37 bp):
AATTCAAACAAGGTTGACTCATTGTGTTATAAAATTG
Found at i:17114664 original size:8 final size:8
Alignment explanation
Indices: 17114653--17114677 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17114643 TAAAATGTTG
17114653 AAATCTGA
1 AAATCTGA
17114661 AAATCTGA
1 AAATCTGA
17114669 AAATCTGA
1 AAATCTGA
17114677 A
1 A
17114678 TAGTTAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (8 bp):
AAATCTGA
Found at i:17125321 original size:35 final size:36
Alignment explanation
Indices: 17125257--17125327 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 36
17125247 TTTAATTATA
17125257 TTATTGTTAACAAATTTAACTTATATAAACAAAATT
1 TTATTGTTAACAAATTTAACTTATATAAACAAAATT
*
17125293 TTATTGTTAA-AAATTTAA-TTAATTTAAACAAAATT
1 TTATTGTTAACAAATTTAACTT-ATATAAACAAAATT
17125328 GAAATATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 2 0.06
35 21 0.64
36 10 0.30
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.44
Consensus pattern (36 bp):
TTATTGTTAACAAATTTAACTTATATAAACAAAATT
Found at i:17128658 original size:18 final size:17
Alignment explanation
Indices: 17128635--17128684 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
17128625 TAAGCCTAAA
17128635 GCTTTCTCTTGCTCTTTC
1 GCTTTCTCTT-CTCTTTC
* *
17128653 GCTTTCACTT-TCCTTTT
1 GCTTTCTCTTCT-CTTTC
17128670 GCTTT-TCTTCTCTTT
1 GCTTTCTCTTCTCTTT
17128685 TCTTAACAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 8 0.30
17 10 0.37
18 9 0.33
ACGTcount: A:0.02, C:0.30, G:0.08, T:0.60
Consensus pattern (17 bp):
GCTTTCTCTTCTCTTTC
Found at i:17131393 original size:25 final size:25
Alignment explanation
Indices: 17131360--17131417 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
17131350 TTCAAGGATC
* *
17131360 AAAA-TGAATTTAGTTGCCAAATTT
1 AAAAGTGAATCTAATTGCCAAATTT
17131384 AAAAGTGAATCTAATTGCCAAATTT
1 AAAAGTGAATCTAATTGCCAAATTT
17131409 AAAAGTGAA
1 AAAAGTGAA
17131418 AAAAAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (25 bp):
AAAAGTGAATCTAATTGCCAAATTT
Found at i:17132023 original size:19 final size:19
Alignment explanation
Indices: 17131987--17132026 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
17131977 TAATTCGAAA
**
17131987 CAAAACAGAAAAGTAAGGT
1 CAAAACAGAAAACAAAGGT
*
17132006 CAAAACATAAAACAAAGGT
1 CAAAACAGAAAACAAAGGT
17132025 CA
1 CA
17132027 TACGGCCGTG
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:0.60, C:0.15, G:0.15, T:0.10
Consensus pattern (19 bp):
CAAAACAGAAAACAAAGGT
Found at i:17139786 original size:18 final size:18
Alignment explanation
Indices: 17139749--17139787 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
17139739 TGTATTTGTC
*
17139749 AAACTGTGCTTATTCGTT
1 AAACTGTGCTTATTCCTT
17139767 AAACTGTGCTCT-TTCCTT
1 AAACTGTGCT-TATTCCTT
17139785 AAA
1 AAA
17139788 TCCTTACAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (18 bp):
AAACTGTGCTTATTCCTT
Found at i:17142669 original size:6 final size:5
Alignment explanation
Indices: 17142644--17142681 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
17142634 TGGGGATGAA
*
17142644 TTTAT TTTAT TTTAT TTTATT TTTAT TTT-T GTTAT TTT
1 TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTT
17142682 GTTATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 21 0.72
6 5 0.17
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:17150839 original size:32 final size:32
Alignment explanation
Indices: 17150800--17150941 Score: 107
Period size: 31 Copynumber: 4.5 Consensus size: 32
17150790 GCCCTCAAAA
*
17150800 TTTTTGAAAATTTTAATTAGACCCTTTAAATT
1 TTTTTGAAAATTTTAATTAAACCCTTTAAATT
* *
17150832 TTTTTGAAAATTATT-ATTAAA-CTTTTGAAA-A
1 TTTTTGAAAATT-TTAATTAAACCCTTT-AAATT
* * *
17150863 TTTTT-AAAATTTTCAATTAAACTC-TTGACTT
1 TTTTTGAAAATTTT-AATTAAACCCTTTAAATT
* * * * *
17150894 TTTTTTAAAATTTTCA-TAAAACCTCTAATTT
1 TTTTTGAAAATTTTAATTAAACCCTTTAAATT
*
17150925 TTTTTCAAAATTTTAAT
1 TTTTTGAAAATTTTAAT
17150942 CAGACCTATC
Statistics
Matches: 85, Mismatches: 16, Indels: 18
0.71 0.13 0.15
Matches are distributed among these distances:
29 2 0.02
30 12 0.14
31 41 0.48
32 28 0.33
33 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.04, T:0.51
Consensus pattern (32 bp):
TTTTTGAAAATTTTAATTAAACCCTTTAAATT
Found at i:17153765 original size:27 final size:27
Alignment explanation
Indices: 17153734--17153792 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
17153724 CACATAGTGT
17153734 TAGTGACAATTCAGTGCAATTAAATGA
1 TAGTGACAATTCAGTGCAATTAAATGA
* ** * * *
17153761 TAGTGGCGCTTCGGTGCAATTTAGTGA
1 TAGTGACAATTCAGTGCAATTAAATGA
17153788 TAGTG
1 TAGTG
17153793 GCTCATTGGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (27 bp):
TAGTGACAATTCAGTGCAATTAAATGA
Found at i:17157116 original size:16 final size:17
Alignment explanation
Indices: 17157095--17157126 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
17157085 AAATATGCAA
17157095 TCACATAA-TTCATATT
1 TCACATAACTTCATATT
17157111 TCACATAACTTCATAT
1 TCACATAACTTCATAT
17157127 CATCAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.41
Consensus pattern (17 bp):
TCACATAACTTCATATT
Found at i:17157349 original size:43 final size:43
Alignment explanation
Indices: 17157287--17157449 Score: 145
Period size: 43 Copynumber: 3.8 Consensus size: 43
17157277 CAATGCCAAC
* * *
17157287 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCTAAT
1 GTCCCAGACATGGTCTTACATGAAAACACATATCGATGCTAAT
* * * * *
17157330 ATCCCAGACATGGTCTTACA-CAAATCAAATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACATGAAAACACATATCGATGCTAAT
* * * *
17157371 GTCCTAGACATGGTCTTACACGTAAACACA-AGTCGATG-TCAAC
1 GTCCCAGACATGGTCTTACATGAAAACACATA-TCGATGCT-AAT
** *
17157414 GTCCCAGATGTGGTCTTACATGAAAACACGTATCGA
1 GTCCCAGACATGGTCTTACATGAAAACACATATCGA
17157450 AATCCTATGT
Statistics
Matches: 95, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 28 0.29
42 13 0.14
43 53 0.56
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAAACACATATCGATGCTAAT
Found at i:17157380 original size:41 final size:42
Alignment explanation
Indices: 17157279--17157391 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 42
17157269 GACTCGTACA
* * ** *
17157279 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACA-CAAATCAAATATCG
* *
17157322 ATGCTAATATCCCAGACATGGTCTTACACAAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACAAATCAAATATCG
*
17157363 ATGCCAATGTCCTAGACATGGTCTTACAC
1 ATGCCAATGTCCCAGACATGGTCTTACAC
17157392 GTAAACACAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 28 0.47
42 8 0.13
43 24 0.40
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACAAATCAAATATCG
Found at i:17157420 original size:84 final size:84
Alignment explanation
Indices: 17157279--17157433 Score: 197
Period size: 84 Copynumber: 1.8 Consensus size: 84
17157269 GACTCGTACA
* * * *
17157279 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCTAATATCCCAGACATGGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCTAACATCCCAGACATGGT
17157344 CTTACACAAATCAAATACG
66 CTTACACAAATCAAATACG
* * * **
17157363 ATGCCAATGTCCTAGACATGGTCTTACACGTAAACACA-AGTCGATG-TCAACGTCCCAGATGTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATA-TCGATGCT-AACATCCCAGACATG
17157426 GTCTTACA
64 GTCTTACA
17157434 TGAAAACACG
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
83 2 0.03
84 58 0.97
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACATATCGATGCTAACATCCCAGACATGGT
CTTACACAAATCAAATACG
Found at i:17157757 original size:244 final size:244
Alignment explanation
Indices: 17157388--17157878 Score: 973
Period size: 244 Copynumber: 2.0 Consensus size: 244
17157378 ACATGGTCTT
17157388 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
1 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
*
17157453 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTTGGACGTCGTAA
66 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTCGGACGTCGTAA
17157518 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
131 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
17157583 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
196 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
17157632 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
1 ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
17157697 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTCGGACGTCGTAA
66 CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTCGGACGTCGTAA
17157762 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
131 CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
17157827 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
196 TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
17157876 ACA
1 ACA
17157879 ACGTCTATTT
Statistics
Matches: 246, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
244 246 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.29
Consensus pattern (244 bp):
ACACGTAAACACAAGTCGATGTCAACGTCCCAGATGTGGTCTTACATGAAAACACGTATCGAAAT
CCTATGTCATAACATATGTATCCTAACTATTCCTAAGGCTCATACGGGGCTTTCGGACGTCGTAA
CTCAGTCGAAACAAATTCATAAACATAGCTGCCAAGCTTGTACACATTCGGCTAATACATATATT
TATTCACATATTCACTTCAGCACATATAATTCACATTTAATTAAAATTA
Found at i:17163681 original size:13 final size:12
Alignment explanation
Indices: 17163645--17163705 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
17163635 AAAATCTTTT
17163645 AAAATTATAAAA
1 AAAATTATAAAA
*
17163657 GAAAA-TACAAAA
1 -AAAATTATAAAA
*
17163669 AAAATTATTAAA
1 AAAATTATAAAA
*
17163681 AAAA-TATAAAT
1 AAAATTATAAAA
* *
17163692 AGAATTGTAAAA
1 AAAATTATAAAA
17163704 AA
1 AA
17163706 TCCTATATGG
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
11 12 0.32
12 21 0.57
13 4 0.11
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:17164869 original size:49 final size:49
Alignment explanation
Indices: 17164797--17164896 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
17164787 CACTGACGTG
17164797 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
1 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
17164846 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
1 GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
17164895 GT
1 GT
17164897 GATGGGACTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (49 bp):
GTAAACTTGCACCAATAGGCTATCATCATAGAACGCTTGGGGGAAGTAC
Done.