Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 178 of 199
Found at i:51809502 original size:34 final size:34
Alignment explanation
Indices: 51809464--51809543 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 34
51809454 ATTATGTAAG
* *
51809464 TTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
*
51809498 TTATGAAACTTATGTAAGTTGCGTAAGTTGTGTA
1 TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
51809532 TTATGTAACTTA
1 TTATGTAACTTA
51809544 CCCTTGACAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.29, C:0.04, G:0.23, T:0.45
Consensus pattern (34 bp):
TTATGTAACTTATGTAAGTTGCGTAAGTTGTGTA
Found at i:51809658 original size:9 final size:9
Alignment explanation
Indices: 51809644--51810054 Score: 154
Period size: 9 Copynumber: 47.9 Consensus size: 9
51809634 AAGTTATACA
51809644 TTATGTAAG
1 TTATGTAAG
51809653 TTATGTAAG
1 TTATGTAAG
*
51809662 TTGTGTAAG
1 TTATGTAAG
*
51809671 TTGTGT-A-
1 TTATGTAAG
* *
51809678 TTATGAAAC
1 TTATGTAAG
51809687 TTATGTAAG
1 TTATGTAAG
**
51809696 TTGCGTAAG
1 TTATGTAAG
*
51809705 TTGTGT-A-
1 TTATGTAAG
*
51809712 TTATGTAAC
1 TTATGTAAG
* *
51809721 TTATTTAAC
1 TTATGTAAG
*
51809730 TTATGTAGG
1 TTATGTAAG
*
51809739 GTATGTATTA-
1 TTATGTA--AG
*
51809749 TTATGTAAC
1 TTATGTAAG
* *
51809758 TTATTTAAA
1 TTATGTAAG
*
51809767 TTATGTAGG
1 TTATGTAAG
*
51809776 GTATGTAAG
1 TTATGTAAG
51809785 TTATGTAAG
1 TTATGTAAG
*
51809794 TTCTGT-A-
1 TTATGTAAG
*
51809801 TTATTTACA-
1 TTATGTA-AG
*
51809810 -CATGTAAG
1 TTATGTAAG
*
51809818 TTATGT--C
1 TTATGTAAG
*
51809825 TTATGTAAA
1 TTATGTAAG
***
51809834 TTGCATAAG
1 TTATGTAAG
*
51809843 TTGTGT-A-
1 TTATGTAAG
* *
51809850 TTATGAAAC
1 TTATGTAAG
51809859 TTATGTAAG
1 TTATGTAAG
**
51809868 TTGCGTAAG
1 TTATGTAAG
*
51809877 TTGTGT-A-
1 TTATGTAAG
*
51809884 TTATGTAAC
1 TTATGTAAG
* *
51809893 TTATTTAAT
1 TTATGTAAG
*
51809902 TTATGTAGG
1 TTATGTAAG
*
51809911 GTATGTATTA-
1 TTATGTA--AG
*
51809921 TTATGTAAC
1 TTATGTAAG
* *
51809930 TTATTTAAT
1 TTATGTAAG
*
51809939 TTATGTAGG
1 TTATGTAAG
*
51809948 GTATGTAAG
1 TTATGTAAG
51809957 TTATGTAAG
1 TTATGTAAG
*
51809966 TTCTGT-A-
1 TTATGTAAG
*
51809973 TTATTTACA-
1 TTATGTA-AG
*
51809982 -CATGTAAG
1 TTATGTAAG
*
51809990 TTGTGT-A-
1 TTATGTAAG
51809997 TTATGTAAG
1 TTATGTAAG
*
51810006 TTATGCAAG
1 TTATGTAAG
51810015 TTATGT-A-
1 TTATGTAAG
* *
51810022 TTAAGTAGG
1 TTATGTAAG
51810031 TTATGTAAG
1 TTATGTAAG
51810040 TTATGT--G
1 TTATGTAAG
51810047 TTATGTAA
1 TTATGTAA
51810055 ATGAATATAT
Statistics
Matches: 296, Mismatches: 76, Indels: 60
0.69 0.18 0.14
Matches are distributed among these distances:
7 51 0.17
8 23 0.08
9 210 0.71
10 12 0.04
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:51809681 original size:34 final size:34
Alignment explanation
Indices: 51809643--51809933 Score: 178
Period size: 34 Copynumber: 8.4 Consensus size: 34
51809633 TAAGTTATAC
*
51809643 ATTATGTAAGTTATGTAAGTTGTGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* *
51809677 ATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* * * * *
51809711 ATTATGTAACTTATTTAACTTATGTAGGGTATGTATT
1 ATTATGTAACTTATGTAAGTTGTGTA-AGT-TGT-GT
* * * * * *
51809748 ATTATGTAACTTATTTAAATTATGTAGGGTATGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* * * * ** *
51809782 AAGTTATGTAAGTTCTGT-A-TTATTTACACATGT-A
1 -A-TTATGTAACTTATGTAAGTTGTGTA-AGTTGTGT
* **
51809816 AGTTATGT--CTTATGTAAATTGCATAAGTTGTGT
1 A-TTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* *
51809849 ATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
* * * * *
51809883 ATTATGTAACTTATTTAATTTATGTAGGGTATGTATT
1 ATTATGTAACTTATGTAAGTTGTGTA-AGT-TGT-GT
51809920 ATTATGTAACTTAT
1 ATTATGTAACTTAT
51809934 TTAATTTATG
Statistics
Matches: 202, Mismatches: 41, Indels: 25
0.75 0.15 0.09
Matches are distributed among these distances:
31 5 0.02
32 10 0.05
33 13 0.06
34 103 0.51
35 10 0.05
36 20 0.10
37 41 0.20
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (34 bp):
ATTATGTAACTTATGTAAGTTGTGTAAGTTGTGT
Found at i:51809732 original size:189 final size:182
Alignment explanation
Indices: 51809351--51809723 Score: 642
Period size: 189 Copynumber: 2.0 Consensus size: 182
51809341 ATAACCGTCG
* *
51809351 CTTACCCTTGACAAATTCATCTAAGAATGGTCCATTTCTTAATTCTTGAAGTCTGACATTGACAA
1 CTTACCCTTGACAAATTCATCCAAGAATGGTCCATTTCTTAAATCTTGAAGTCTGACATTGACAA
*
51809416 TAAATTGCATGGGTTTAGGATTTAGGAATAAGTTATACATTATGTAAGTTATGTAAGTTATGTAA
66 TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATAC------T-AGTTATGTAAGTTATGTAA
51809481 GTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
124 GTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
51809540 CTTACCCTTGACAAATTCATCCAAGAATGGTCCATTTCTTAAATCTTGAAGTCTGACATTGACAA
1 CTTACCCTTGACAAATTCATCCAAGAATGGTCCATTTCTTAAATCTTGAAGTCTGACATTGACAA
51809605 TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATAC-A-TTATGTAAGTTATGTAAGTTGTGT
66 TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATACTAGTTATGTAAGTTATGTAAGTTGTGT
51809668 AAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
131 AAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
51809720 CTTA
1 CTTA
51809724 TTTAACTTAT
Statistics
Matches: 181, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
180 80 0.44
181 1 0.01
189 100 0.55
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (182 bp):
CTTACCCTTGACAAATTCATCCAAGAATGGTCCATTTCTTAAATCTTGAAGTCTGACATTGACAA
TAAATTGCACGGGTTTAGGATTTAGGAATAAGTTATACTAGTTATGTAAGTTATGTAAGTTGTGT
AAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGTATTATGTAA
Found at i:51809758 original size:37 final size:37
Alignment explanation
Indices: 51809710--51809954 Score: 160
Period size: 37 Copynumber: 7.0 Consensus size: 37
51809700 GTAAGTTGTG
*
51809710 TATTATGTAACTTATTTAACTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAT
51809747 TATTATGTAACTTATTTAAATTATGTAGGGTATGTA-
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAT
* * * * ***
51809783 -AGTTATGTAAGTTCTGT--ATTATTTA-CACATGTA-
1 TA-TTATGTAACTTATTTAAATTATGTAGGGTATGTAT
* *** * *
51809816 -AGTTATGT--CTTATGTAAATTGCATA-AGT-TGT-G
1 TA-TTATGTAACTTATTTAAATTATGTAGGGTATGTAT
* * * ** * *
51809848 TATTATGAAACTTATGTAAGTTGCGTA-AGT-TGT-G
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAT
*
51809882 TATTATGTAACTTATTTAATTTATGTAGGGTATGTAT
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTAT
*
51809919 TATTATGTAACTTATTTAATTTATGTAGGGTATGTA
1 TATTATGTAACTTATTTAAATTATGTAGGGTATGTA
51809955 AGTTATGTAA
Statistics
Matches: 172, Mismatches: 26, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
31 5 0.03
32 8 0.05
33 19 0.11
34 51 0.30
35 3 0.02
36 15 0.09
37 71 0.41
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (37 bp):
TATTATGTAACTTATTTAAATTATGTAGGGTATGTAT
Found at i:51809928 original size:172 final size:172
Alignment explanation
Indices: 51809644--51810004 Score: 641
Period size: 172 Copynumber: 2.1 Consensus size: 172
51809634 AAGTTATACA
* **
51809644 TTATGTAAGTTATGTAAGTTGTGTAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGT
1 TTATGT-A-TTATGTAAATTGCATAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGT
51809709 GTATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATGTA
64 GTATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATGTA
51809774 GGGTATGTAAGTTATGTAAGTTCTGTATTATTTACACATGTAAG
129 GGGTATGTAAGTTATGTAAGTTCTGTATTATTTACACATGTAAG
*
51809818 TTATGTCTTATGTAAATTGCATAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
1 TTATGTATTATGTAAATTGCATAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
* *
51809883 ATTATGTAACTTATTTAATTTATGTAGGGTATGTATTATTATGTAACTTATTTAATTTATGTAGG
66 ATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATGTAGG
51809948 GTATGTAAGTTATGTAAGTTCTGTATTATTTACACATGTAAG
131 GTATGTAAGTTATGTAAGTTCTGTATTATTTACACATGTAAG
*
51809990 TTGTGTATTATGTAA
1 TTATGTATTATGTAA
51810005 GTTATGCAAG
Statistics
Matches: 179, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
172 173 0.97
174 6 0.03
ACGTcount: A:0.30, C:0.05, G:0.19, T:0.46
Consensus pattern (172 bp):
TTATGTATTATGTAAATTGCATAAGTTGTGTATTATGAAACTTATGTAAGTTGCGTAAGTTGTGT
ATTATGTAACTTATTTAACTTATGTAGGGTATGTATTATTATGTAACTTATTTAAATTATGTAGG
GTATGTAAGTTATGTAAGTTCTGTATTATTTACACATGTAAG
Found at i:51810033 original size:25 final size:25
Alignment explanation
Indices: 51809987--51810054 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
51809977 TTACACATGT
* *
51809987 AAGTTGTGTATTATGTAAGTTATGC
1 AAGTTATGTATTAAGTAAGTTATGC
* *
51810012 AAGTTATGTATTAAGTAGGTTATGT
1 AAGTTATGTATTAAGTAAGTTATGC
* *
51810037 AAGTTATGTGTTATGTAA
1 AAGTTATGTATTAAGTAA
51810055 ATGAATATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (25 bp):
AAGTTATGTATTAAGTAAGTTATGC
Found at i:51810049 original size:16 final size:16
Alignment explanation
Indices: 51809983--51810054 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
51809973 TTATTTACAC
* *
51809983 ATGTAAGTTGTGTATT
1 ATGTAAGTTATGTGTT
*
51809999 ATGTAAGTTATGCAAGTT
1 ATGTAAGTTATG--TGTT
*
51810017 ATGT-A-TTAAGTAGGTT
1 ATGTAAGTTATGT--GTT
51810033 ATGTAAGTTATGTGTT
1 ATGTAAGTTATGTGTT
51810049 ATGTAA
1 ATGTAA
51810055 ATGAATATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
16 31 0.70
17 2 0.05
18 11 0.25
ACGTcount: A:0.31, C:0.01, G:0.24, T:0.44
Consensus pattern (16 bp):
ATGTAAGTTATGTGTT
Found at i:51810567 original size:212 final size:212
Alignment explanation
Indices: 51810051--51810828 Score: 1421
Period size: 212 Copynumber: 3.7 Consensus size: 212
51810041 TATGTGTTAT
*
51810051 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTATCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
* *
51810116 AATAAAATTTAAATATAGCTTACATATGCAATCTTTGCTTTTAAACTAATCTTCCACTTAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
*
51810181 TTGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATCT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAAT-T
*
51810246 GAAATATAGCTTACATAC
195 TAAATATAGCTTACATAC
51810264 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
*
51810329 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCATTGAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
51810394 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
51810459 AAATATAGCTTACATAC
196 AAATATAGCTTACATAC
*
51810476 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAACTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
51810541 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
51810606 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
131 TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
51810671 AAATATAGCTTACATAC
196 AAATATAGCTTACATAC
*
51810688 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAATTGTCAATTTATTATT
1 GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
* * * * *
51810753 AATAAAATTTAAATATACCTTACATAAGCAATCTTTGCTTTTAAACTTACCGGTCCACTAAATTA
66 AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATC-TTCCACTGAATTA
51810818 TTCGTGGAGAG
130 TTCGTGGAGAG
51810829 TGAATATACA
Statistics
Matches: 549, Mismatches: 15, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
212 339 0.62
213 210 0.38
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (212 bp):
GTAAATGAATATATGTATAATATTAAAAATATAGTAATACTTATTTAAGTTGTCAATTTATTATT
AATAAAATTTAAATATAGCTTACATAAGCAATCTTTGCTTTTAAACTAATCTTCCACTGAATTAT
TCGTGGAGAGGTATATGTGTACAAAATTGACAACAAAATATGTTTAAATATTATTAATAAAATTT
AAATATAGCTTACATAC
Found at i:51819821 original size:40 final size:40
Alignment explanation
Indices: 51819766--51820032 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
51819756 AGCATTGGAT
51819766 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
51819806 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
51819846 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
51819886 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
51819926 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
51819966 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
51820006 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
51820033 ATGTGTTTGC
Statistics
Matches: 221, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:51822226 original size:36 final size:34
Alignment explanation
Indices: 51822139--51822226 Score: 88
Period size: 36 Copynumber: 2.5 Consensus size: 34
51822129 ATATAGGCAT
* * *
51822139 ATATATTATATA-TTATATATATAATGACCATAG
1 ATATATTATATATTTATATATATAAAGACCACAC
* *
51822172 ATGTATGTATTTATTTTATATATATAACAAGACCACAC
1 ATATAT-TATATA-TTTATATATAT-A-AAGACCACAC
51822210 ATATATTATATATTTAT
1 ATATATTATATATTTAT
51822227 CGAGATGCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
33 5 0.12
34 5 0.12
36 15 0.35
37 6 0.14
38 12 0.28
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (34 bp):
ATATATTATATATTTATATATATAAAGACCACAC
Found at i:51826382 original size:9 final size:9
Alignment explanation
Indices: 51826364--51826439 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
51826354 TTTGGTTAAA
*
51826364 AATTACCCG
1 AATTAACCG
51826373 AATTAACCG
1 AATTAACCG
*
51826382 AATTACCCG
1 AATTAACCG
51826391 AATTAACCG
1 AATTAACCG
* *
51826400 GATTACCCG
1 AATTAACCG
51826409 AATTAACCG
1 AATTAACCG
*
51826418 AATTACCCG
1 AATTAACCG
51826427 AATTAACCG
1 AATTAACCG
51826436 AATT
1 AATT
51826440 GAATCACTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:51826387 original size:18 final size:18
Alignment explanation
Indices: 51826364--51826439 Score: 143
Period size: 18 Copynumber: 4.2 Consensus size: 18
51826354 TTTGGTTAAA
51826364 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
51826382 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
*
51826400 GATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
51826418 AATTACCCGAATTAACCG
1 AATTACCCGAATTAACCG
51826436 AATT
1 AATT
51826440 GAATCACTAC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 56 1.00
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.24
Consensus pattern (18 bp):
AATTACCCGAATTAACCG
Found at i:51833084 original size:15 final size:15
Alignment explanation
Indices: 51833066--51833095 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
51833056 TCTATTTTTT
51833066 TTATATCAATTTGAG
1 TTATATCAATTTGAG
*
51833081 TTATATCGATTTGAG
1 TTATATCAATTTGAG
51833096 CTTGAAAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.47
Consensus pattern (15 bp):
TTATATCAATTTGAG
Found at i:51835891 original size:19 final size:20
Alignment explanation
Indices: 51835849--51835891 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
51835839 TTAAAATACT
* *
51835849 TTTAAAATAATTTTTTTATT
1 TTTAAAATAATTTTTTAATG
51835869 TTTAAAATAA-TTTTTAATG
1 TTTAAAATAATTTTTTAATG
51835888 TTTA
1 TTTA
51835892 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:51837270 original size:3 final size:3
Alignment explanation
Indices: 51837264--51837289 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51837254 TATTTTGCCT
51837264 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
51837290 TCATTATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:51837904 original size:29 final size:29
Alignment explanation
Indices: 51837864--51837922 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
51837854 GAATAAAAAC
*
51837864 TATATTTTTTATTTTTAAAATATACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
51837893 TATATTTTTTATTTTTAAAATACACTACA
1 TATATTTTTTATTTTTAAAATACACTACA
51837922 T
1 T
51837923 TTAAAACAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAATACACTACA
Found at i:51840419 original size:5 final size:5
Alignment explanation
Indices: 51840411--51840458 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
51840401 CGAACAAATA
* *
51840411 ATTCG ATTCG ATTCG ATTCG ATCTCT ATCTC- ACTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG AT-TCG AT-TCG ATTCG ATTCG ATTCG AT
51840459 AAAACTTCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 2 0.05
5 29 0.76
6 7 0.18
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (5 bp):
ATTCG
Found at i:51842800 original size:24 final size:23
Alignment explanation
Indices: 51842744--51842944 Score: 106
Period size: 24 Copynumber: 8.7 Consensus size: 23
51842734 AAATAGGCAG
* * *
51842744 CATATACATACCAAATTTAACAG
1 CATATATACACCAAATTTAACAA
*
51842767 CACT-TTTACACCAAAATTTAACAA
1 CA-TATATACACC-AAATTTAACAA
* *
51842791 CATATATACAGCAAA--TAGGCAA
1 CATATATACACCAAATTTA-ACAA
* *
51842813 CATATACATACCAAATTTAACAA
1 CATATATACACCAAATTTAACAA
* *
51842836 CACT-TTTACACCAAAATTTAACAG
1 CA-TATATACACC-AAATTTAACAA
* **
51842860 CATATATACAACAAA-TTGGCAA
1 CATATATACACCAAATTTAACAA
* * * * *
51842882 CATATACATACCAAATTGAGCAG
1 CATATATACACCAAATTTAACAA
* * * *
51842905 CATTTTTACACCAAAATTTATCAG
1 CATATATACACC-AAATTTAACAA
*
51842929 CATATATACAACAAAT
1 CATATATACACCAAAT
51842945 GGGCAGCATA
Statistics
Matches: 132, Mismatches: 35, Indels: 22
0.70 0.19 0.12
Matches are distributed among these distances:
21 2 0.02
22 31 0.23
23 41 0.31
24 58 0.44
ACGTcount: A:0.47, C:0.21, G:0.05, T:0.26
Consensus pattern (23 bp):
CATATATACACCAAATTTAACAA
Found at i:51842820 original size:69 final size:69
Alignment explanation
Indices: 51842675--51842986 Score: 489
Period size: 69 Copynumber: 4.5 Consensus size: 69
51842665 TTTCCAAACC
**
51842675 TATACATACCAAATTTAACAGCACTTTTACACCATAAAATTTAACAGCATATATACAGTAAATAG
1 TATACATACCAAATTTAACAGCACTTTTACACC--AAAATTTAACAGCATATATACAACAAATAG
*
51842740 GCAGCA
64 GCAACA
* *
51842746 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAACATATATACAGCAAATAGGC
1 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
51842811 AACA
66 AACA
* *
51842815 TATACATACCAAATTTAACAACACTTTTACACCAAAATTTAACAGCATATATACAACAAATTGGC
1 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
51842880 AACA
66 AACA
* * * * *
51842884 TATACATACCAAATTGAGCAGCATTTTTACACCAAAATTTATCAGCATATATACAACAAATGGGC
1 TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
*
51842949 AGCA
66 AACA
51842953 TATACATACCAAATTTAACAGCACTTTTACACCA
1 TATACATACCAAATTTAACAGCACTTTTACACCA
51842987 TAAGATTATA
Statistics
Matches: 224, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
69 191 0.85
71 33 0.15
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.26
Consensus pattern (69 bp):
TATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAACAGCATATATACAACAAATAGGC
AACA
Found at i:51842954 original size:22 final size:23
Alignment explanation
Indices: 51842857--51842956 Score: 87
Period size: 22 Copynumber: 4.4 Consensus size: 23
51842847 CAAAATTTAA
51842857 CAGCATATATACAACAAATTG-G
1 CAGCATATATACAACAAATTGAG
* * * *
51842879 CAACATATACATACCAAATTGAG
1 CAGCATATATACAACAAATTGAG
* * * * *
51842902 CAGCATTTTTACACCAAAATTTAT
1 CAGCATATATACAAC-AAATTGAG
*
51842926 CAGCATATATACAACAAA-TGGG
1 CAGCATATATACAACAAATTGAG
51842948 CAGCATATA
1 CAGCATATA
51842957 CATACCAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
22 27 0.46
23 14 0.24
24 18 0.31
ACGTcount: A:0.44, C:0.20, G:0.11, T:0.25
Consensus pattern (23 bp):
CAGCATATATACAACAAATTGAG
Found at i:51843193 original size:69 final size:69
Alignment explanation
Indices: 51843111--51843473 Score: 690
Period size: 69 Copynumber: 5.3 Consensus size: 69
51843101 GGACAGCTTT
* *
51843111 TATATACAACAAATGGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
51843176 AGCA
66 AGCA
51843180 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
51843245 AGCA
66 AGCA
*
51843249 TATATACAGCAAATAGGCAACATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
51843314 AGCA
66 AGCA
51843318 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
51843383 AGCA
66 AGCA
*
51843387 TATATACAGTAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
1 TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
51843452 AGCA
66 AGCA
51843456 TATATACAGCAAATAGGC
1 TATATACAGCAAATAGGC
51843474 TTAAATATAA
Statistics
Matches: 288, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 288 1.00
ACGTcount: A:0.45, C:0.21, G:0.09, T:0.25
Consensus pattern (69 bp):
TATATACAGCAAATAGGCAGCATATACATACCAAATTTAACAGCACTTTTACACCAAAATTTAAC
AGCA
Found at i:51843360 original size:45 final size:45
Alignment explanation
Indices: 51843128--51843469 Score: 154
Period size: 47 Copynumber: 7.4 Consensus size: 45
51843118 AACAAATGGG
* * *
51843128 CAGCATATACATACCAAATTTAACAGCACTTTTAC--ACCAAAATTTAA
1 CAGCATATATACACCAAA-TTAACAGCA--TATACATACC-AAATTTAA
* *
51843175 CAGCATATATACAGCAAA-TAGGCAGCATATACATACCAAATTTAA
1 CAGCATATATACACCAAATTA-ACAGCATATACATACCAAATTTAA
* * * * *
51843220 CAGCACT-TTTACACCAAAATTTAACAGCATATATACAGCAAA--TAGG
1 CAGCA-TATATACACC-AAA-TTAACAGCATATACATACCAAATTTA-A
* * * *
51843266 CAACATATACATACCAAATTTAACAGCACTTTTAC--ACCAAAATTTAA
1 CAGCATATATACACCAAA-TTAACAGCA--TATACATACC-AAATTTAA
* *
51843313 CAGCATATATACAGCAAA-TAGGCAGCATATACATACCAAATTTAA
1 CAGCATATATACACCAAATTA-ACAGCATATACATACCAAATTTAA
* * * ** *
51843358 CAGCACT-TTTACACCAAAATTTAACAGCATATATACAGTAAA--TAGG
1 CAGCA-TATATACACC-AAA-TTAACAGCATATACATACCAAATTTA-A
* * *
51843404 CAGCATATACATACCAAATTTAACAGCACTTTTAC--ACCAAAATTTAA
1 CAGCATATATACACCAAA-TTAACAGCA--TATACATACC-AAATTTAA
*
51843451 CAGCATATATACAGCAAAT
1 CAGCATATATACACCAAAT
51843470 AGGCTTAAAT
Statistics
Matches: 222, Mismatches: 45, Indels: 57
0.69 0.14 0.18
Matches are distributed among these distances:
44 8 0.04
45 77 0.35
46 50 0.23
47 79 0.36
48 8 0.04
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.25
Consensus pattern (45 bp):
CAGCATATATACACCAAATTAACAGCATATACATACCAAATTTAA
Found at i:51844278 original size:41 final size:41
Alignment explanation
Indices: 51844233--51844389 Score: 215
Period size: 41 Copynumber: 3.8 Consensus size: 41
51844223 TTGTATAAAA
* * * * *
51844233 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* * *
51844274 CACCGGCACAAAGCCTACTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
51844315 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
51844356 CACCGGCATAAAGCTTGCTAGGCATAAAGCCTGA
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
51844390 ACTTACAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.19
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:51844805 original size:28 final size:30
Alignment explanation
Indices: 51844766--51844824 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 30
51844756 TTTTATTATA
51844766 TTAATATATTTAATTT-ATAA-AACTAACC
1 TTAATATATTTAATTTAATAATAACTAACC
*
51844794 TTAATGAT-TTTACTTTAATAATTAACTAACC
1 TTAAT-ATATTTAATTTAATAA-TAACTAACC
51844825 ATGTCCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 12 0.46
29 6 0.23
31 8 0.31
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (30 bp):
TTAATATATTTAATTTAATAATAACTAACC
Found at i:51850936 original size:44 final size:44
Alignment explanation
Indices: 51850873--51850962 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
51850863 ACACTGTTAG
*
51850873 CCAAATCTCTACTCATCATTTTTTTTCTTTCTCCATTTCCTTTC
1 CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
51850917 CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
1 CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
51850961 CC
1 CC
51850963 TTCTCTTCCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (44 bp):
CCAAATCTCTACTCATCATTTCTTTTCTTTCTCCATTTCCTTTC
Found at i:51852647 original size:34 final size:35
Alignment explanation
Indices: 51852598--51852678 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
51852588 CATTGCATAT
* * *
51852598 ACTGATCCTGATACTG-TAATGGGCTAAGGCCCAC
1 ACTGATACTGTTACTGTTAAAGGGCTAAGGCCCAC
* * *
51852632 ACTGATACTGTTACTGTTAAAGGGCTTAGGCCTAG
1 ACTGATACTGTTACTGTTAAAGGGCTAAGGCCCAC
*
51852667 ACTGATTCTGTT
1 ACTGATACTGTT
51852679 TCTATAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 14 0.36
35 25 0.64
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (35 bp):
ACTGATACTGTTACTGTTAAAGGGCTAAGGCCCAC
Found at i:51853598 original size:25 final size:25
Alignment explanation
Indices: 51853546--51853632 Score: 81
Period size: 25 Copynumber: 3.4 Consensus size: 25
51853536 AAAGTAAAAG
* *
51853546 AGAAAGAAATAG--AAAAAGAATGAG
1 AGAAAGAAA-AGAAAAAAAGAAGGAA
* *
51853570 AGAAAGAAACA-AAACAGAGAAGGAA
1 AGAAAGAAA-AGAAAAAAAGAAGGAA
51853595 AGAAAGAAAAGAAAAAAAGAAGGAA
1 AGAAAGAAAAGAAAAAAAGAAGGAA
51853620 AGAAGGAGAAAAG
1 AGAA--AGAAAAG
51853633 TTAAGTATAT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
24 11 0.22
25 33 0.65
27 7 0.14
ACGTcount: A:0.69, C:0.02, G:0.26, T:0.02
Consensus pattern (25 bp):
AGAAAGAAAAGAAAAAAAGAAGGAA
Found at i:51860751 original size:44 final size:44
Alignment explanation
Indices: 51860688--51860968 Score: 159
Period size: 44 Copynumber: 6.1 Consensus size: 44
51860678 CATCGTGGCC
51860688 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAGGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GCTACA
* * * * ***
51860732 AATCTTATCTCCCTGAAGTTACAGTAGAGCAAATTGAAGATGTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
51860776 AATCTTATTTCCTTGAAGTTACATTGGAACAGATTAAAGCTACAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-----A
** * * ***
51860825 CGAATCTTATCTCCCTGAAAATGCAGTGGAGTAGATTGAAGATGTG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** * *
51860871 AATCTTATTTCTTTGAAGTTGCAGTGGAACAGATTAAAGTGACAAGTTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T----TG--AAGCTACA
** * *
51860922 AATCTTATCTCCCTGAAGTTGCAGTATAGTAGATTGAAGCAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
51860966 AAT
1 AAT
51860969 TCTACACCTC
Statistics
Matches: 171, Mismatches: 51, Indels: 30
0.68 0.20 0.12
Matches are distributed among these distances:
44 102 0.60
45 3 0.02
46 2 0.01
49 2 0.01
50 1 0.01
51 61 0.36
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:51860871 original size:95 final size:95
Alignment explanation
Indices: 51860728--51860960 Score: 351
Period size: 95 Copynumber: 2.5 Consensus size: 95
51860718 AGATTAAGGC
* * *
51860728 TACAAATCTTATCTCCCTGAAGTTACAGTAGAGCAAATTGAAGATGTGAATCTTATTTCCTTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGTGAATCTTATTTCCTTGAA
*
51860793 GTTACATTGGAACAGATTAAAGCT-ACAAGT
66 GTTACAGTGGAACAGATTAAAG-TGACAAGT
* ** * *
51860823 TACGAATCTTATCTCCCTGAAAATGCAGTGGAGTAGATTGAAGATGTGAATCTTATTTCTTTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGTGAATCTTATTTCCTTGAA
*
51860888 GTTGCAGTGGAACAGATTAAAGTGACAAGT
66 GTTACAGTGGAACAGATTAAAGTGACAAGT
*
51860918 TACAAATCTTATCTCCCTGAAGTTGCAGTATAGTAGATTGAAG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAG
51860961 CAACAAATTC
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 1 0.01
95 121 0.99
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGATGTGAATCTTATTTCCTTGAA
GTTACAGTGGAACAGATTAAAGTGACAAGT
Found at i:51860983 original size:95 final size:95
Alignment explanation
Indices: 51860728--51860992 Score: 241
Period size: 95 Copynumber: 2.8 Consensus size: 95
51860718 AGATTAAGGC
** * * * *** **
51860728 TACAAATCTTATCTCCCTGAAGTTACAGTAGAGCAAATTGAAGATGTGAATCTTATTTCCT-TGA
1 TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAGATACAAATCTTA-CACCTCTGA
*
51860792 AGTTACATTGGAACAGATTAAAGCTACAAGT
65 AGTTACAGTGGAACAGATTAAAGCTACAAGT
* * *** *** *
51860823 TACGAATCTTATCTCCCTGAAAATGCAGTGGAGTAGATTGAAGATGTGAATCTTATTTCTTTGAA
1 TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAGATACAAATCTTACACCTCTGAA
*
51860888 GTTGCAGTGGAACAGATTAAAG-TGACAAGT
66 GTTACAGTGGAACAGATTAAAGCT-ACAAGT
** *
51860918 TACAAATCTTATCTCCCTGAAGTTGCAGTATAGTAGATTGAAGCA-ACAAAT-TCTACACCTCTG
1 TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAG-ATACAAATCT-TACACCTCTG
*
51860981 AAGTTAGAGTGG
64 AAGTTACAGTGG
51860993 GTTAGAATGA
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
94 6 0.04
95 135 0.95
96 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTGAAAATGCAGTAGAGTAGATTGAAGATACAAATCTTACACCTCTGAA
GTTACAGTGGAACAGATTAAAGCTACAAGT
Found at i:51862561 original size:3 final size:3
Alignment explanation
Indices: 51862553--51862689 Score: 66
Period size: 3 Copynumber: 42.7 Consensus size: 3
51862543 TAGTTTGCCT
51862553 TTA TTA TTA TTA TTA TTA TTA TTCCA TTA TTCA TTTA TATA TTCA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TT--A TTA TT-A -TTA T-TA TT-A -TTA
** * *
51862602 TTA CTT- TTA TGTA TT- TTCAA AAA TTA -GA TTA TTTA TTA TTA TTG
1 TTA -TTA TTA T-TA TTA TT--A TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
51862646 TTA TTA CTA TTG TTA TTA TTA TCA TT- TTCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TT
51862690 TACGCATATT
Statistics
Matches: 103, Mismatches: 14, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
2 7 0.07
3 72 0.70
4 17 0.17
5 7 0.07
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:51868387 original size:21 final size:22
Alignment explanation
Indices: 51868342--51868387 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
51868332 CTGTTTGTGA
*
51868342 AACCTAGTGTGATTTTCTAGTAT
1 AACCTAGTGTAATTTTCTAG-AT
*
51868365 AACCTTGTGTAATTTTCTA-AT
1 AACCTAGTGTAATTTTCTAGAT
51868386 AA
1 AA
51868388 ATAATTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
23 17 0.81
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (22 bp):
AACCTAGTGTAATTTTCTAGAT
Found at i:51875135 original size:21 final size:21
Alignment explanation
Indices: 51875085--51875137 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
51875075 GGGACAGATT
*
51875085 GAATATATATAATTAAGGTTC
1 GAATATTTATAATTAAGGTTC
* *
51875106 AAATAATTTGTAATTAA-GTTCC
1 GAAT-ATTTATAATTAAGGTT-C
51875128 GAATATTTAT
1 GAATATTTAT
51875138 CTGTTAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (21 bp):
GAATATTTATAATTAAGGTTC
Found at i:51879076 original size:21 final size:21
Alignment explanation
Indices: 51879050--51879090 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51879040 AGACGAGCAA
* *
51879050 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
51879071 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
51879091 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:51881937 original size:14 final size:14
Alignment explanation
Indices: 51881918--51881945 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51881908 CCCTCATTCC
51881918 TATGTTAGGTTCAT
1 TATGTTAGGTTCAT
51881932 TATGTTAGGTTCAT
1 TATGTTAGGTTCAT
51881946 GGTATTGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.50
Consensus pattern (14 bp):
TATGTTAGGTTCAT
Found at i:51882165 original size:38 final size:38
Alignment explanation
Indices: 51882106--51882206 Score: 159
Period size: 38 Copynumber: 2.7 Consensus size: 38
51882096 TCCTTCTAGC
*
51882106 TTCTGCCGATTTTCTCCCTCTGTTT-TTTATCTTTTCTT
1 TTCTGCCGATTTGCTCCCTCTGTTTATTT-TCTTTTCTT
* *
51882144 TTTTGCCGATTTGCTCTCTCTGTTTATTTTCTTTTCTT
1 TTCTGCCGATTTGCTCCCTCTGTTTATTTTCTTTTCTT
51882182 TTCTGCCGATTTGCTCCCTCTGTTT
1 TTCTGCCGATTTGCTCCCTCTGTTT
51882207 CCCCTTTTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
38 54 0.95
39 3 0.05
ACGTcount: A:0.05, C:0.26, G:0.11, T:0.58
Consensus pattern (38 bp):
TTCTGCCGATTTGCTCCCTCTGTTTATTTTCTTTTCTT
Found at i:51884331 original size:18 final size:17
Alignment explanation
Indices: 51884303--51884337 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
51884293 ATTATTAAGA
*
51884303 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
51884320 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
51884338 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:51884425 original size:120 final size:120
Alignment explanation
Indices: 51884212--51884840 Score: 1177
Period size: 120 Copynumber: 5.2 Consensus size: 120
51884202 TTATTAAATC
*
51884212 ATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
* *
51884277 TCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
*
51884332 ATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
*
51884397 TCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
66 TCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
51884452 ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
51884517 TCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
66 TCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
51884572 ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
51884637 TCATATAAGAATATTGATTATTAAGAATTTTTATTAAATTATATATTTTAATTATA
66 TCATATAAGAATATTGATTATTAAGAA-TTTTATTAAATTATATATTTTAATTATA
*
51884693 ATATATTTAATAATTATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
51884758 TCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
66 TCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
*
51884813 ATATATTTAATAAAAATTATGTTTAAAT
1 ATATATTTAATAATAATTATG-TTAAAT
51884841 ATGATTAAAT
Statistics
Matches: 501, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
120 376 0.75
121 125 0.25
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
TCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATA
Found at i:51884457 original size:16 final size:16
Alignment explanation
Indices: 51884436--51884482 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
51884426 TTATTAAATT
51884436 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
51884452 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
51884467 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
51884483 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:51884577 original size:16 final size:16
Alignment explanation
Indices: 51884556--51884602 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
51884546 TTATTAAATT
51884556 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
51884572 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
51884587 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
51884603 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:51885092 original size:16 final size:16
Alignment explanation
Indices: 51885046--51885099 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
51885036 TTGATTTGCT
*
51885046 ATTACACCTCTATTAC
1 ATTACACCTCTATTCC
51885062 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
51885078 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
51885094 AATACA
1 ATTACA
51885100 ACGAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.33, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:51892041 original size:132 final size:132
Alignment explanation
Indices: 51891687--51892480 Score: 1378
Period size: 132 Copynumber: 6.0 Consensus size: 132
51891677 GGTTGTCAGC
*
51891687 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTTTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * * *
51891752 TCACCACATCAGGAAACTTTGGCTGCAGCTGCTGCCTACACAGACTGGCTTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
51891817 TA
131 TA
51891819 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATA---CAACTTCAAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* * *
51891881 TCACCACATCAGGAAACTTTGGCTGCAGCTGCTGCCGACATGGACTGGCCTGTTGATGAGGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
51891946 TA
131 TA
* *
51891948 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTACTCCGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
51892013 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
51892078 TA
131 TA
* *
51892080 TACAAACTTCATTTAGCCCTGCACCTAAAGGCAATATCTCAACTTCTAATGGCTATTCTGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* *
51892145 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACATGGACTGGCCTGTTGATGAGGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
51892210 TA
131 TA
*
51892212 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCCGGAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
*
51892277 TCACCACATCAGGAAACTTCGGCTGCAGCTGCAGCCGACACGGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
51892342 TA
131 TA
* * *
51892344 TACAAACTTCATTTAGCCCTGCACCTAAAGGCAATATCTCAACTTCTAATGGCTATTCTGCAAGT
1 TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
* *
51892409 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCAACATGGACTGGCCTGTTGATGAAGATCT
66 TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
51892474 TA
131 TA
51892476 TACAA
1 TACAA
51892481 GCTTTCTTTA
Statistics
Matches: 629, Mismatches: 30, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
129 123 0.20
132 506 0.80
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (132 bp):
TACAAACTTCATTTAGCCCTGCACCTCAAGGCAATATCTCAACTTCAAATGGCTATTCTGGAAGT
TCACCACATCAGGAAACTTCGGCTGCAGCTGCTGCCGACACGGACTGGCCTGTTGATGAAGATCT
TA
Found at i:51893272 original size:19 final size:19
Alignment explanation
Indices: 51893248--51893285 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
51893238 TTTTCTAATT
**
51893248 TTTAATTTCTTTAATTTTA
1 TTTAATTTCCATAATTTTA
51893267 TTTAATTTCCATAATTTTA
1 TTTAATTTCCATAATTTTA
51893286 AAAAAAGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAATTTCCATAATTTTA
Found at i:51894269 original size:14 final size:14
Alignment explanation
Indices: 51894250--51894300 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
51894240 GTAAGAGTCA
*
51894250 TTTAATAATATATT
1 TTTAATATTATATT
*
51894264 TTTAATATTATTTT
1 TTTAATATTATATT
51894278 TTTAATTATTATATT
1 TTTAA-TATTATATT
*
51894293 TTTGATAT
1 TTTAATAT
51894301 AAAATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TTTAATATTATATT
Found at i:51895438 original size:24 final size:24
Alignment explanation
Indices: 51895390--51895439 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
51895380 TGGAAGAACA
*
51895390 AGATAAAGATGAAGACAATGTTGG
1 AGATAAAGATGAAGACAATGATGG
*
51895414 AGATGAAGATGAAGATCAA-GATGG
1 AGATAAAGATGAAGA-CAATGATGG
51895438 AG
1 AG
51895440 GTGGAGGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 20 0.87
25 3 0.13
ACGTcount: A:0.46, C:0.04, G:0.32, T:0.18
Consensus pattern (24 bp):
AGATAAAGATGAAGACAATGATGG
Found at i:51895840 original size:75 final size:74
Alignment explanation
Indices: 51895689--51896019 Score: 376
Period size: 75 Copynumber: 4.5 Consensus size: 74
51895679 TTTTTTTATT
* * *
51895689 TCAATAATATAGTTATTTACAACCTAC-AAAAAATGAAAAAATTTGTTTGTATT-TAATTCTAGT
1 TCAATAATATACTTATTTACAATCTACAAAAAAATGAAAAAAGTTGTTTGTATTGT-ATTCTA-T
*
51895752 T-TATTTTAGA
64 TGTATTTTACA
* * *
51895762 TCAATAATATATTTATTTACAATCTACAAAAAAATGAAAAAAAGTTGTTTGTATTATACTCTATT
1 TCAATAATATACTTATTTACAATCTACAAAAAAATG-AAAAAAGTTGTTTGTATTGTATTCTATT
51895827 GTATTTTACA
65 GTATTTTACA
* * * *
51895837 TCAATAATGTACTTATTTACAAAT-TACAAAAAATTGAAAAAA-TTGTCTGTATTGT-TTGTATT
1 TCAATAATATACTTATTTAC-AATCTACAAAAAAATGAAAAAAGTTGTTTGTATTGTATTCTATT
51895899 GTATTTTACA
65 GTATTTTACA
* * * *
51895909 TTAATAACATACTTATTTACAATTTACGAAAAAATG-AAAAAGTTGTTTGTATTGTATTCTATTG
1 TCAATAATATACTTATTTACAATCTACAAAAAAATGAAAAAAGTTGTTTGTATTGTATTCTATTG
*
51895973 CATTTTTACA
66 TA-TTTTACA
* **
51895983 T---TAATATACTTATTTACAATGTACCCAAAAATGAAAA
1 TCAATAATATACTTATTTACAATCTACAAAAAAATGAAAA
51896020 GTCATGAAAA
Statistics
Matches: 224, Mismatches: 24, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
71 36 0.16
72 57 0.25
73 44 0.20
74 24 0.11
75 59 0.26
76 4 0.02
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (74 bp):
TCAATAATATACTTATTTACAATCTACAAAAAAATGAAAAAAGTTGTTTGTATTGTATTCTATTG
TATTTTACA
Found at i:51895924 original size:72 final size:73
Alignment explanation
Indices: 51895689--51896019 Score: 358
Period size: 72 Copynumber: 4.5 Consensus size: 73
51895679 TTTTTTTATT
* ** *
51895689 TCAATAATATAGTTATTTACAACCTACAAAAAATGAAAAAATTTGTTTGTATT-TAATTCTAGTT
1 TCAATAATATACTTATTTACAAATTACAAAAAATGAAAAAAGTTGTTTGTATTGT-ATTCTA-TT
*
51895753 -TATTTTAGA
64 GTATTTTACA
* * *
51895762 TCAATAATATATTTATTTAC-AATCTACAAAAAAATGAAAAAAAGTTGTTTGTATTATACTCTAT
1 TCAATAATATACTTATTTACAAAT-TAC-AAAAAATG-AAAAAAGTTGTTTGTATTGTATTCTAT
51895826 TGTATTTTACA
63 TGTATTTTACA
* * *
51895837 TCAATAATGTACTTATTTACAAATTACAAAAAATTGAAAAAA-TTGTCTGTATTGT-TTGTATTG
1 TCAATAATATACTTATTTACAAATTACAAAAAA-TGAAAAAAGTTGTTTGTATTGTATTCTATTG
51895900 TATTTTACA
65 TATTTTACA
* * *
51895909 TTAATAACATACTTATTTACAATTTACGAAAAAATG-AAAAAGTTGTTTGTATTGTATTCTATTG
1 TCAATAATATACTTATTTACAAATTAC-AAAAAATGAAAAAAGTTGTTTGTATTGTATTCTATTG
*
51895973 CATTTTTACA
65 TA-TTTTACA
*
51895983 T---TAATATACTTATTTAC-AATGTACCCAAAAATGAAAA
1 TCAATAATATACTTATTTACAAAT-TA-CAAAAAATGAAAA
51896020 GTCATGAAAA
Statistics
Matches: 222, Mismatches: 22, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
70 2 0.01
71 29 0.13
72 57 0.26
73 47 0.21
74 30 0.14
75 53 0.24
76 4 0.02
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (73 bp):
TCAATAATATACTTATTTACAAATTACAAAAAATGAAAAAAGTTGTTTGTATTGTATTCTATTGT
ATTTTACA
Found at i:51896996 original size:15 final size:15
Alignment explanation
Indices: 51896958--51896999 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
51896948 ATATTCATGA
51896958 ATGAAAATAATGTAT
1 ATGAAAATAATGTAT
*
51896973 ATGTTAAATAATG-AT
1 ATG-AAAATAATGTAT
51896988 ATAGAAAATAAT
1 AT-GAAAATAAT
51897000 ATTTACTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.55, C:0.00, G:0.12, T:0.33
Consensus pattern (15 bp):
ATGAAAATAATGTAT
Found at i:51898287 original size:25 final size:24
Alignment explanation
Indices: 51898255--51898301 Score: 85
Period size: 25 Copynumber: 1.9 Consensus size: 24
51898245 CTCGAAAACG
51898255 GAAATAATCAACTTAAACCCTGACA
1 GAAATAATCAACTT-AACCCTGACA
51898280 GAAATAATCAACTTAACCCTGA
1 GAAATAATCAACTTAACCCTGA
51898302 GGCCTCTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (24 bp):
GAAATAATCAACTTAACCCTGACA
Found at i:51900561 original size:45 final size:45
Alignment explanation
Indices: 51900510--51900600 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
51900500 AAATGACTAA
51900510 ATCATAATAAATTAGGCTAAATCGAATAGACCTTAGAACTTAGGT
1 ATCATAATAAATTAGGCTAAATCGAATAGACCTTAGAACTTAGGT
*
51900555 ATCATAATAAATTGGGCTAAATCGAATAGACCTTAGAACTTAGGT
1 ATCATAATAAATTAGGCTAAATCGAATAGACCTTAGAACTTAGGT
51900600 A
1 A
51900601 GTAACGCCCC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (45 bp):
ATCATAATAAATTAGGCTAAATCGAATAGACCTTAGAACTTAGGT
Found at i:51907462 original size:23 final size:23
Alignment explanation
Indices: 51907436--51907487 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
51907426 TTTTGATGGA
51907436 TAACATTCTTACATATGTTTATT
1 TAACATTCTTACATATGTTTATT
51907459 TAACATTCTTACATATGTTTATT
1 TAACATTCTTACATATGTTTATT
51907482 T-ACATT
1 TAACATT
51907488 GATTCTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.17
23 24 0.83
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (23 bp):
TAACATTCTTACATATGTTTATT
Found at i:51911684 original size:22 final size:22
Alignment explanation
Indices: 51911659--51911714 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
51911649 ACTAGATCTT
*
51911659 ATGTCGCAACATGGGAGATCCA
1 ATGTCACAACATGGGAGATCCA
51911681 ATGTCACAACATGGGAGATCCA
1 ATGTCACAACATGGGAGATCCA
51911703 ATGTCACAACAT
1 ATGTCACAACAT
51911715 AGAGAGTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (22 bp):
ATGTCACAACATGGGAGATCCA
Found at i:51915384 original size:918 final size:915
Alignment explanation
Indices: 51912906--51917545 Score: 4380
Period size: 918 Copynumber: 5.0 Consensus size: 915
51912896 GGAGGTGGTC
* * * * *
51912906 AGTTTGCTACTCTTTAAGTTTTCTTGCATAAAAATCTTAACTTTCTCATTTCTCTCAAG-TTATA
1 AGTTTTCTGCTCTTTAAGTTTTCTTGCATAAAAATCTCAACTTTCACATTTTTCTCAAGCTT-TA
* ** *
51912970 C-TT--TAA-TG-GTTGTTTT-GTTTTCCATGTCCATTTC-TTTTACTTTGAGCATGAGTAGCTA
65 CTTTAATAACTGCTTTGTTTTCCATTTCCATGTCCATTTCTTTTTACTTTGAGCATGAGTAGTTA
* * *
51913028 AACCTCAAGGGAGGTTGGTTGATGGAGATGTGGGTAAACTAAAATCTTTGGACAAATGACTAAAT
130 AACCTCAAGGAAGGTTGGTTGATGGAGATATGGGTAAACTAAAACCTTT-G------G-----A-
* * * *
51913093 CATAATAAATTATTATAAATTGAATAGACCTGAGAACTTAGGTAGTGACTCCCCTAAGAGAATAT
182 C---A-AAA-GA--ATAAATTGAATAGACCTTAGAACTTAGGTAGTGAC-ACCCTAAGGGAATAT
* * * * * * ** *
51913158 TTAGGTAAGTGAGACTAGAAGGTAATGTTTTCGTGCACCGATTCATTAGTCTCAGGCTAGCTAGT
239 CTAGGCAAGTGAGACCAGAAGGTAATCTTGTCATGCACCG-TTCATTAGTCTCAGATTAACTAGT
* * * * *
51913223 GAGATGGGAAGATAAATCGTAGCTAATTCGTTTAAGTCGGTAAAATTGAGATTGAAAGATAAATT
303 GAGATCGAAAGATAAATCGTAGCTAATTCGTCTAAGTCGATAAAATTGAGATTGAAAGATAAAAT
* * * *
51913288 GGAGTCACTTAGTAATTTACACGATTTAAGTCCCTTATTTAAGGATCGGTGAACCAAATCAAAGT
368 GGAGTCACTTAGTAATTTACACGATTTAAGTCCCTTGTTTGAGGATCGGTGAACCACATCGAAGT
* *
51913353 CAACTAACCACCATTAGTTATTTATTGGATAGTCCCTTAGTTTTACATTCTTTGCAATTTAGTCC
433 CAACCAACCACCATTAGTTATTTATTGGATAGTCCCTTAGTTTTACATTATTTGCAATTTAGTCC
* * * *
51913418 TTAGAGTAGCATATCTAATTTT-TGAGCAATATTTTCTTGTTATGAATCGTTGTACTATAAAATC
498 TTAGAGTAGCATATCTAATTTTCT-TGCAATATTTTCTTGTTATGAATTGTCGTACTATAAAATT
*** * * * ** ** *
51913482 GTAGTAGTG-TTTACTTAGACTATATTGTGTATGCTAGATATTTCTCAATCGTCATCTTTTTTAG
562 GTAGTAG-GAGCCACTTAGACTCTATTGTGTATGCTAGTTATTGCTCAATCACCATCTCATTTGG
* * * * * * *
51913546 GTTTGACCTCTTGGAACACTTCGTGTTCCATCAGAACTATAAATATTACAACTGACTTATATGCT
626 GTTTAACC-CTTGGAATACTTTGTGTTCCATCGGAACTATAAATATTACAAATGACCTATACGCT
* * * * * *
51913611 TGCAGTAAAACCAAGCTTTAAAAAATTGTTTTATAAGTTCGTTGGTTTAATGTGCATATGTGAAG
690 TGTAGTAAAACC-AGCTTTAAAAAATTGTTTTATAAGTTTGTT-TTTTAATGCGCACATGCGAAG
* * * * * * * * *
51913676 CTGGTCAACTACCCCATGTTTAC-AATCCCGATGGACTCCATATGCTACTATAATCGAGCTATGC
753 CCGGTCAACAACCCCATATTTACTATTCCTGAAGGACTCCATATGCTGCCATAATCGAGCTATGG
* * * * * *
51913740 TTTTACACAATATACCCCATGTTTAACGTCCTTGCGGACTATTCCGTGCTTACTGTCCCGGCGGA
818 TTTTACACAATATACCCCATGTTTAACGTCCTGGCAGACTACT-CATGCTTACTATCCCGGCGAA
** * *
51913805 CTATACCAGTTGTCATAGTCGAGCCATGGTCTTA
882 CTATACTGGTTGTCATAGTAGAGCCATGGTATTA
* * *
51913839 AGTTTTCTGCTCTTCAAGTTTTCTTGCATAAAAATCTCAACTTTCATATTTTTTCTCAAGCTATA
1 AGTTTTCTGCTCTTTAAGTTTTCTTGCATAAAAATCTCAACTTTCACA-TTTTTCTCAAGCTTTA
* * * * * *
51913904 CTTTAATGATTGCTTTGTTTTCAATTTCCATGTCTATTTC-TTTTATTTTTAGCATGAGTAGTTA
65 CTTTAATAACTGCTTTGTTTTCCATTTCCATGTCCATTTCTTTTTACTTTGAGCATGAGTAGTTA
* * * *
51913968 AACCTAAAGGAAGATTGGTTGATAGAGATATGGGCAAACTAAAACCTTTGGA-AAAAGGAATAAA
130 AACCTCAAGGAAGGTTGGTTGATGGAGATATGGGTAAACTAAAACCTTTGGACAAAA-GAATAAA
* * * * ** *
51914032 TCGAATACACCTTAGAACGTAGATAGTGATGCCTCTAAGGGTATATCTAGGCAAGTGAGACCAGA
194 TTGAATAGACCTTAGAACTTAGGTAGTGACACC-CTAAGGGAATATCTAGGCAAGTGAGACCAGA
* * * * *
51914097 AGGTAATGTTGTCATGCACCTGTTCATTAGTC-CCGAATTAACTGGTTAAATCGAAAGATAAATC
258 AGGTAATCTTGTCATGCACC-GTTCATTAGTCTCAG-ATTAACTAGTGAGATCGAAAGATAAATC
* * * * * * *
51914161 GTAGATAATTCATCTAAGTC-AGAAAATT-TGATATCAGAAGATAAAATTGAG-C-CATACTGTA
321 GTAGCTAATTCGTCTAAGTCGATAAAATTGAGAT-TGA-AAGATAAAATGGAGTCACTTA--GTA
* * * * * *
51914222 ATTTGCGCAATTTAGGTCCTTTGCTTGAGGATCGGTGAACCACATCGAAGTCAACCAACCACCAT
382 ATTTACACGATTTAAGTCCCTTGTTTGAGGATCGGTGAACCACATCGAAGTCAACCAACCACCAT
*
51914287 TAGTTATTTATTGGATAGTCCCATT--TTTTACATTTTTTGCAATTTAGTCCTTAGAGTAGCATA
447 TAGTTATTTATTGGATAGTCCC-TTAGTTTTACATTATTTGCAATTTAGTCCTTAGAGTAGCATA
* * * * **
51914350 TCTACTTTTCTTCCAATATTTTCTTGTTATGAATTTTCATACTATAAAACCTT-T-GTAGTTGCC
511 TCTAATTTTCTTGCAATATTTTCTTGTTATGAATTGTCGTACTATAAAA--TTGTAGTAGGAGCC
* * * *
51914413 ACTTAGACTCTATTGTGTATGTTAGTCATTGCTCAATAACCATCTCCTTTGGGTTTAACCCTTGG
574 ACTTAGACTCTATTGTGTATGCTAGTTATTGCTCAATCACCATCTCATTTGGGTTTAACCCTTGG
* * * * * *
51914478 AATAATTCGTTTTCCATTGGAACTATAAATTTTACAAATGACCTATACGCTTGTAGTAAAACTGA
639 AATACTTTGTGTTCCATCGGAACTATAAATATTACAAATGACCTATACGCTTGTAGTAAAAC-CA
* * * *
51914543 GCTTTAAAAAATTATTTTATAAGTTAT-TTTATTTAATGTGCACATGCGAAGCCAGTCAACAACT
703 GCTTTAAAAAATTGTTTTATAAGTT-TGTTT-TTTAATGCGCACATGCGAAGCCGGTCAACAACC
* * * * * * * *
51914607 TCGTATTTACTATTTC-GAAGGACTCCATATGCTGCTATAATTGAGCTATGATCTTACCCAATAT
766 CCATATTTACTATTCCTGAAGGACTCCATATGCTGCCATAATCGAGCTATGGTTTTACACAATAT
* * * * * * *
51914671 GCCCTATATTTAACGTCCTGGCAGACTACCTCGTGTTTACTGTCTCGGCGAACTATACTGGTTGT
831 ACCCCATGTTTAACGTCCTGGCAGACTA-CTCATGCTTACTATCCCGGCGAACTATACTGGTTGT
** *
51914736 CATAGCCGAGCGATGGTATTA
895 CATAGTAGAGCCATGGTATTA
* * * *
51914757 A-TTTTCTGCTCTTTAAGTTTTCTTCCATAGAAATCTCAACTTTCATATTTTTCTTAAGCTTTAC
1 AGTTTTCTGCTCTTTAAGTTTTCTTGCATAAAAATCTCAACTTTCACATTTTTCTCAAGCTTTAC
*
51914821 TTTAATAACTGCTTTGTTTTCCATTTCCATGTCCATTTCTTTTTTCTTTGAGCATGAGTAGTTAA
66 TTTAATAACTGCTTTGTTTTCCATTTCCATGTCCATTTCTTTTTACTTTGAGCATGAGTAGTTAA
* * * *
51914886 ACCTCAAGGAAGGTTGGTTGATGGAAATGTGGGTGAAA-TAAAACCTTCGGACAAAAGACTAAAT
131 ACCTCAAGGAAGGTTGGTTGATGGAGATATGGGT-AAACTAAAACCTTTGGACAAAAGAATAAAT
* * * *
51914950 TGAATAAACCTTAGAACATAGGTAGTGACACCCATAAGTGAATATCTAGACAAGTGAGACCAGAA
195 TGAATAGACCTTAGAACTTAGGTAGTGACACCC-TAAGGGAATATCTAGGCAAGTGAGACCAGAA
* *
51915015 GGTAATCTTGTCATGCACTCGTTTATTAGTCTCAGATTAATTAGTGAGATCGAAAGATAAATCGT
259 GGTAATCTTGTCATGCAC-CGTTCATTAGTCTCAGATTAACTAGTGAGATCGAAAGATAAATCGT
* * *
51915080 AGCTAATTCGTTTAAGTCGATAAAATTGAGATTGAAAGATAAAATGGAGTCACCTAGTAATTTAT
323 AGCTAATTCGTCTAAGTCGATAAAATTGAGATTGAAAGATAAAATGGAGTCACTTAGTAATTTAC
* * * * * *
51915145 ACGATTTAATTCCTTTTTTTGAGGATCGGTGAACCACATCAAATTCAACCAACCACCATTAATTA
388 ACGATTTAAGTCCCTTGTTTGAGGATCGGTGAACCACATCGAAGTCAACCAACCACCATTAGTTA
* * *
51915210 TTTATTGGATA-CCCTCTTAGTTTTACATTATTTGCAATTAAGTCCTCAGAGTAGCATATCTAAT
453 TTTATTGGATAGTCC-CTTAGTTTTACATTATTTGCAATTTAGTCCTTAGAGTAGCATATCTAAT
* *
51915274 TTTCTTGCAATATTTTCTTATTATGAATTGTCGTACTATAAAATTGTAGTAGGAGCCACTTAAAC
517 TTTCTTGCAATATTTTCTTGTTATGAATTGTCGTACTATAAAATTGTAGTAGGAGCCACTTAGAC
* *
51915339 TCTATTATGTATGCTAGTTATTGCTCAATCACCATCTCATTTGGGTTCAACCCCTTGGAATACTT
582 TCTATTGTGTATGCTAGTTATTGCTCAATCACCATCTCATTTGGGTTTAA-CCCTTGGAATACTT
* * * * *
51915404 TATGTTCCATCGGAACTATAAATATTACAATTGACCTATATGCTTATTGTAAAACCAGGCTTT--
646 TGTGTTCCATCGGAACTATAAATATTACAAATGACCTATACGCTTGTAGTAAAACCA-GCTTTAA
* * * * * * ** *
51915467 AAATTTTTTTTATAAGTTTGTTTTTTTAATGCGTAGATACGAAGCCGGTCAACTACCCTTTGTTT
710 AAAATTGTTTTATAAGTTTG-TTTTTTAATGCGCACATGCGAAGCCGGTCAACAACCCCATATTT
* * *
51915532 A-TTTTCCTGGCAA--ACTCCATATGTTGCCATAA-CTGAGCTATGGTTTTACACAATATACCTC
774 ACTATTCCT-G-AAGGACTCCATATGCTGCCATAATC-GAGCTATGGTTTTACACAATATACCCC
* ** *
51915593 ATGTTTAACGT-CTTG-ATGAACTACTTCATGCTTACTGTATCGGTAAACTACCTCATATTTACT
836 ATGTTTAACGTCCTGGCA-G-ACTAC-TCATGCTTAC--TATC------C--CGGC-GA---ACT
* *
51915656 ATCTCAGTGGACTATATTGGTTTCCATAGAAGAGCCATGGTATTA
884 A--T-ACTGG------TT-G--T-CATAGTAGAGCCATGGTATTA
* * * *
51915701 AGTTTTCTTCTCTTTAAGTTTTCTTGCATAAAACTCGCAACATTCACATTTTTCTCAAGCTTTAC
1 AGTTTTCTGCTCTTTAAGTTTTCTTGCATAAAAATCTCAACTTTCACATTTTTCTCAAGCTTTAC
* * * * *
51915766 TTTAATAGCTGCATTGTTTTCCATTTCTATGTCCTTTTC-TTTTACTTTGAGCATGAGTAGCTAA
66 TTTAATAACTGCTTTGTTTTCCATTTCCATGTCCATTTCTTTTTACTTTGAGCATGAGTAGTTAA
* * * * * * *
51915830 ACTTCAAGGAAGGTTGGTTGATTGATATATGGGTAAACTAAAACATTTGGACAAAGGACTAAATC
131 ACCTCAAGGAAGGTTGGTTGATGGAGATATGGGTAAACTAAAACCTTTGGACAAAAGAATAAATT
* * * * * *
51915895 AAATAGACCTTAGAACTTAGGTAGCGACGCCCTAAGGGAATATTTAGGCAAGTGAGACTAAAAGG
196 GAATAGACCTTAGAACTTAGGTAGTGACACCCTAAGGGAATATCTAGGCAAGTGAGACCAGAAGG
* *
51915960 CAATCTTTTCATGCACCTGTTCATTAGTAC-CAGATTAACTAGTGAGATC-AGAAGATAAAATCG
261 TAATCTTGTCATGCACC-GTTCATTAGT-CTCAGATTAACTAGTGAGATCGA-AAGAT-AAATCG
* * *
51916023 TAGCTCATTCGTCCAAGTCGATAAAATTGAGATTGGAAGATAAAATGGAGTCACTTAGTAATTTA
322 TAGCTAATTCGTCTAAGTCGATAAAATTGAGATTGAAAGATAAAATGGAGTCACTTAGTAATTTA
* *
51916088 CACGATTTAAGTCCCTTGTTTGAGGATCGGTGAAACACATCGAATTCAACCAACCACCATTAGTT
387 CACGATTTAAGTCCCTTGTTTGAGGATCGGTGAACCACATCGAAGTCAACCAACCACCATTAGTT
* * * * *
51916153 ATATATTAGATAGTCCCTTATTTTTACACTATTTACAATTTAGTCCTTAGAGTAGCATATCTAAT
452 ATTTATTGGATAGTCCCTTAGTTTTACATTATTTGCAATTTAGTCCTTAGAGTAGCATATCTAAT
* ** * * *
51916218 ATTCTTGTTATACTTTCTTGTTATGAATTGTCATACTATAAAATTGTAGTAGAAGCCACTTAGAC
517 TTTCTTGCAATATTTTCTTGTTATGAATTGTCGTACTATAAAATTGTAGTAGGAGCCACTTAGAC
* ** * ** *
51916283 TCTATTGTGTATGATAGTTATTGCTCAATGTCCATCTCCTTTGGGATCGACCCCTTGGAATACTT
582 TCTATTGTGTATGCTAGTTATTGCTCAATCACCATCTCATTTGGG-TTTAACCCTTGGAATACTT
* * * *
51916348 TGTGTTCTATTGGAACTATAAATATTACAAATGACCTATACGCTTGTAGTATAACCAGGCTTTAC
646 TGTGTTCCATCGGAACTATAAATATTACAAATGACCTATACGCTTGTAGTAAAACCA-GCTTTAA
* ** * *
51916413 AAAATTGTTTTATAAGTTTGTTGTTTTAATGCACACATATGAAGCCGGTCAACTACCCCATACTT
710 AAAATTGTTTTATAAGTTTGTT-TTTTAATGCGCACATGCGAAGCCGGTCAACAACCCCATATTT
** * * * * *
51916478 ACTA-TCCTGGCGGACTCTATATGCTGCCATAGTCGAGTTATGGTATTACATAATATACCCCATG
774 ACTATTCCTGAAGGACTCCATATGCTGCCATAATCGAGCTATGGTTTTACACAATATACCCCATG
* *
51916542 TTTAATGTCTTGGC-GAACTACTCTATGCTTACTATCCCGGCAAACGTATTTATTGTCCCAATGG
839 TTTAACGTCCTGGCAG-ACTACTC-ATGCTTACTATCCCGG----C---------G-----A---
* *
51916606 ACTATACTGGTTGCCATAGTAGAGCCATGGTCTTA
881 ACTATACTGGTTGTCATAGTAGAGCCATGGTATTA
* ** * * * * *
51916641 ATTTTTCTTTTCATTAAGTTTTCTTGCATAAAAATCTCAAATTTTACATTTTTCTTAAGTTTTAC
1 AGTTTTCTGCTCTTTAAGTTTTCTTGCATAAAAATCTCAACTTTCACATTTTTCTCAAGCTTTAC
*** * *
51916706 TTTAATGGTTGCTTTGTTTTCCA-TT-C-TGT-CATTT-TCTTTAACTTTAAGCATGAGTA-TCT
66 TTTAATAACTGCTTTGTTTTCCATTTCCATGTCCATTTCT-TTTTACTTTGAGCATGAGTAGT-T
** * * *
51916765 AAACCTCAAAAAAGGTTGGTTGATGGAGATGTAGGTAAACTAAAACCTTTGGACAAAGGAATAAA
129 AAACCTCAAGGAAGGTTGGTTGATGGAGATATGGGTAAACTAAAACCTTTGGACAAAAGAATAAA
*
51916830 TTGAATAGACCTTAGAACTTAGGTAGTGA-AGCCCCTAAGGGAATATCTAGGCAAGTGAGACCAA
194 TTGAATAGACCTTAGAACTTAGGTAGTGACA--CCCTAAGGGAATATCTAGGCAAGTGAGACCAG
* * *
51916894 AAGGTAATATTGTCATCCA-C---C--T-GT-TC------A-T--T-AGATCGAAAGATGAATCG
257 AAGGTAATCTTGTCATGCACCGTTCATTAGTCTCAGATTAACTAGTGAGATCGAAAGATAAATCG
* * * * * *
51916941 TAGATAATTCGTCTAAGTCGGTAAAATTGAGATCGGAAGAAAAAATGGAGCCACTTAGTAATTTA
322 TAGCTAATTCGTCTAAGTCGATAAAATTGAGATTGAAAGATAAAATGGAGTCACTTAGTAATTTA
* * * *
51917006 CGCGATTTAAGTCCCTTGTTTGAGCATCGGTGAACCACATTGAAGTCAACCAACCATCATTAGTT
387 CACGATTTAAGTCCCTTGTTTGAGGATCGGTGAACCACATCGAAGTCAACCAACCACCATTAGTT
* * * * *
51917071 ATTTATTGGATAGTCCATTATTTTTACATTCTTTACAATTTAGTACTTAGAGTAGCATATCTAAT
452 ATTTATTGGATAGTCCCTTAGTTTTACATTATTTGCAATTTAGTCCTTAGAGTAGCATATCTAAT
* * * ** *
51917136 TTTCTTGCAATATTTTATTATTATGAATTATCGTACTATAAAATTGTCTTAGTAGCCACTTA-AT
517 TTTCTTGCAATATTTTCTTGTTATGAATTGTCGTACTATAAAATTGTAGTAGGAGCCACTTAGA-
* * * * * * *
51917200 CTCAATTATATATGCTAGTTATTGCGCAATCGCCATCT-ACTTTGGGTTTGACCCCTTGAAATAC
581 CTCTATTGTGTATGCTAGTTATTGCTCAATCACCATCTCA-TTTGGGTTT-AACCCTTGGAATAC
* ** * *
51917264 TTTGTGTTCCATCGGAACTATAAATATTACAACTGACCTATACGCTTACAGTAAAATCGAACTTT
644 TTTGTGTTCCATCGGAACTATAAATATTACAAATGACCTATACGCTTGTAGTAAAA-CCAGCTTT
* * * * ** * *
51917329 AAAAAATTGTTTTATAGGTTTGTTGTTTTCATGCGCACATGCGAAGCTGGTCAACTACATCGTGT
708 AAAAAATTGTTTTATAAGTTTGTT-TTTTAATGCGCACATGCGAAGCCGGTCAACAACCCCATAT
* * * * * * *
51917394 TTATTA-TCCTGATA-GACTCCATATGTTGTCATAGTCGACCTATAGTCTTACACAATATACCCC
772 TTACTATTCCTGA-AGGACTCCATATGCTGCCATAATCGAGCTATGGTTTTACACAATATACCCC
* * * * * * *
51917457 AAGTTTAACGTCCTAGCGGATTACTCCGTGCTTACTGTCCCGGC-AGACTATACTAGTTGTCATA
836 ATGTTTAACGTCCTGGCAGACTACT-CATGCTTACTATCCCGGCGA-ACTATACTGGTTGTCATA
* * ** *
51917521 ATTGAAACATGGTCTTA
899 GTAGAGCCATGGTATTA
51917538 AGTTTTCT
1 AGTTTTCT
51917546 TTTTTGTAAC
Statistics
Matches: 3083, Mismatches: 497, Indels: 290
0.80 0.13 0.07
Matches are distributed among these distances:
897 37 0.01
899 1 0.00
914 1 0.00
915 1 0.00
916 67 0.02
917 432 0.14
918 871 0.28
919 235 0.08
920 215 0.07
921 4 0.00
922 5 0.00
923 2 0.00
927 2 0.00
928 2 0.00
929 1 0.00
930 2 0.00
931 5 0.00
933 45 0.01
934 17 0.01
935 3 0.00
936 5 0.00
937 107 0.03
938 48 0.02
939 10 0.00
940 175 0.06
941 1 0.00
942 2 0.00
943 79 0.03
944 473 0.15
945 99 0.03
946 121 0.04
947 4 0.00
950 4 0.00
951 1 0.00
953 6 0.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (915 bp):
AGTTTTCTGCTCTTTAAGTTTTCTTGCATAAAAATCTCAACTTTCACATTTTTCTCAAGCTTTAC
TTTAATAACTGCTTTGTTTTCCATTTCCATGTCCATTTCTTTTTACTTTGAGCATGAGTAGTTAA
ACCTCAAGGAAGGTTGGTTGATGGAGATATGGGTAAACTAAAACCTTTGGACAAAAGAATAAATT
GAATAGACCTTAGAACTTAGGTAGTGACACCCTAAGGGAATATCTAGGCAAGTGAGACCAGAAGG
TAATCTTGTCATGCACCGTTCATTAGTCTCAGATTAACTAGTGAGATCGAAAGATAAATCGTAGC
TAATTCGTCTAAGTCGATAAAATTGAGATTGAAAGATAAAATGGAGTCACTTAGTAATTTACACG
ATTTAAGTCCCTTGTTTGAGGATCGGTGAACCACATCGAAGTCAACCAACCACCATTAGTTATTT
ATTGGATAGTCCCTTAGTTTTACATTATTTGCAATTTAGTCCTTAGAGTAGCATATCTAATTTTC
TTGCAATATTTTCTTGTTATGAATTGTCGTACTATAAAATTGTAGTAGGAGCCACTTAGACTCTA
TTGTGTATGCTAGTTATTGCTCAATCACCATCTCATTTGGGTTTAACCCTTGGAATACTTTGTGT
TCCATCGGAACTATAAATATTACAAATGACCTATACGCTTGTAGTAAAACCAGCTTTAAAAAATT
GTTTTATAAGTTTGTTTTTTAATGCGCACATGCGAAGCCGGTCAACAACCCCATATTTACTATTC
CTGAAGGACTCCATATGCTGCCATAATCGAGCTATGGTTTTACACAATATACCCCATGTTTAACG
TCCTGGCAGACTACTCATGCTTACTATCCCGGCGAACTATACTGGTTGTCATAGTAGAGCCATGG
TATTA
Found at i:51926185 original size:18 final size:18
Alignment explanation
Indices: 51926169--51926205 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
51926159 TTATTCTCAG
51926169 TTCCATCTTCGTTCTCAAC
1 TTCC-TCTTCGTTCTCAAC
*
51926188 TTCCTCTTCGTTATCAAC
1 TTCCTCTTCGTTCTCAAC
51926206 CATAGTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.16, C:0.35, G:0.05, T:0.43
Consensus pattern (18 bp):
TTCCTCTTCGTTCTCAAC
Found at i:51928660 original size:10 final size:11
Alignment explanation
Indices: 51928624--51928682 Score: 72
Period size: 10 Copynumber: 5.6 Consensus size: 11
51928614 GATAAATATT
51928624 ATATTAATTTA
1 ATATTAATTTA
*
51928635 ATAAT-ATTTA
1 ATATTAATTTA
51928645 ATATTTAATTTA
1 ATA-TTAATTTA
51928657 AT-TTAA-TT-
1 ATATTAATTTA
51928665 ATATTAATTTA
1 ATATTAATTTA
51928676 ATATTAA
1 ATATTAA
51928683 AGTGATTAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
8 2 0.05
9 6 0.15
10 14 0.34
11 12 0.29
12 7 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTAATTTA
Found at i:51928671 original size:14 final size:15
Alignment explanation
Indices: 51928621--51928677 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
51928611 GTAGATAAAT
51928621 ATTATA-TTAATTTA
1 ATTATATTTAATTTA
*
51928635 ATAATATTTAA--TA
1 ATTATATTTAATTTA
*
51928648 TTTA-ATTTAATTTA
1 ATTATATTTAATTTA
51928662 ATTATA-TTAATTTA
1 ATTATATTTAATTTA
51928676 AT
1 AT
51928678 ATTAAAGTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 6 0.17
13 4 0.11
14 20 0.57
15 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTATATTTAATTTA
Found at i:51934485 original size:16 final size:18
Alignment explanation
Indices: 51934459--51934495 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
51934449 GCAATTTATT
51934459 TTTATTATTTA-AAAAAA
1 TTTATTATTTATAAAAAA
*
51934476 TTTA-TATTTATATAAAA
1 TTTATTATTTATAAAAAA
51934493 TTT
1 TTT
51934496 CAAAAAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTATTATTTATAAAAAA
Found at i:51935005 original size:44 final size:46
Alignment explanation
Indices: 51934918--51935016 Score: 141
Period size: 44 Copynumber: 2.2 Consensus size: 46
51934908 TTTCGTTCGC
* *
51934918 TGTAATGGAATAGAGGCGTAATAGATAATTCTTTTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGATAATTCTTATGTTTGGTTGAA
*
51934964 T-TGAATAGAATAGAGGTGTAATAG-T-ATTCTTATGTTTGGTTGAA
1 TGT-AATAGAATAGAGGCGTAATAGATAATTCTTATGTTTGGTTGAA
51935008 TGTAATAGA
1 TGTAATAGA
51935017 GCTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 25 0.52
45 3 0.06
46 20 0.42
ACGTcount: A:0.32, C:0.03, G:0.25, T:0.39
Consensus pattern (46 bp):
TGTAATAGAATAGAGGCGTAATAGATAATTCTTATGTTTGGTTGAA
Found at i:51935023 original size:39 final size:41
Alignment explanation
Indices: 51934921--51935031 Score: 111
Period size: 44 Copynumber: 2.6 Consensus size: 41
51934911 CGTTCGCTGT
* *
51934921 AATGGAATAGAGGC-GTAATAGATAATTCTTTTGTTTGGTTG
1 AATGTAATAGA-GCTGTAATAGATAATTCTTATGTTTGGTTG
*
51934962 AATTGAATAGAATAGAGGTGTAATAG-T-ATTCTTATGTTTGGTTG
1 AA-TG--T--AATAGAGCTGTAATAGATAATTCTTATGTTTGGTTG
51935006 AATGTAATAGAGCTGTAATAGCATAA
1 AATGTAATAGAGCTGTAATAG-ATAA
51935032 GAAAAAAAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
39 15 0.26
41 4 0.07
42 3 0.05
43 2 0.04
44 18 0.32
45 2 0.04
46 13 0.23
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (41 bp):
AATGTAATAGAGCTGTAATAGATAATTCTTATGTTTGGTTG
Found at i:51935218 original size:15 final size:16
Alignment explanation
Indices: 51935198--51935227 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51935188 ATATATAATT
51935198 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
51935213 TAATAAATATTCTTA
1 TAATAAATATTCTTA
51935228 TATGGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:51935304 original size:102 final size:100
Alignment explanation
Indices: 51935190--51936128 Score: 404
Period size: 91 Copynumber: 9.6 Consensus size: 100
51935180 TAATAAAAAT
* *
51935190 ATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGGATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATAT
51935255 AATACTATAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTT-AAATAATT-TTATTAA
*
51935292 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATGT
1 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATAT
* * *
51935357 AATACTATAAAATATAGTTTAATTAGTTTTATTAA
66 AATACTATAAAATATAATTTAAATAATTTTATTAA
* * *
51935392 ATATAATTTAATAAAAATATATAATTTAATAAA-ATTATTAATAATAAATATT-CTTATATGAAT
1 ATATAATTTAATAAAATTCT-TAA--TAATAAATATTATT-AT-ATGAAT-TTAC-TA-A--AA-
* * *
51935455 TTACTAAAATCATAATATATAATACTATAAAATATAATTTAATTAGTTTTATTAA
55 -T-C----ATAAT-AT--ATAATACTATAAAATATAATTTAAATAATTTTATTAA
* * ** * *
51935510 ATATAATTTAATAAAAATATATAATTTAATAAA-AAAATTTAGTAATAAATATT-CT--TAT-AT
1 ATATAATTTAATAAAATTCT-TAA--TAATAAATATTA-TTA-T-ATGAAT-TTACTAAAATCAT
* * * * * * *
51935570 GAATTTGT-ATAATTTAAAATAATTATTATTAAATAAATTTAATAA
59 -AATATATAATACTATAAAAT-A-TAAT-TTAAATAATTTTATTAA
* * * * * * * *
51935615 TATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATACGAATTT-GTATAAT-TTAA-A-A
1 -ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATA
* *
51935676 TAATTATTATTAAATATAATTT-AAT-A----A-T--
65 TAA-TACTATAAAATATAATTTAAATAATTTTATTAA
* * * * * * * *
51935704 ATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATACGAATTT-GTATAAT-TTAA-A-AT
1 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATAT
* * *
51935765 AATTAGTATTAAATATAATTT-AATAA---TA--AT
66 AA-TACTATAAAATATAATTTAAATAATTTTATTAA
* * * * * *
51935795 ATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTT-GTACAAT-TTAA-A-AT
1 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATAT
* *
51935856 AATTATTATTAAATATAATTT-AAT-A----A-T--
66 AA-TACTATAAAATATAATTTAAATAATTTTATTAA
* * * * * *
51935883 ATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTT-GTACAAT-TTAA-A-AT
1 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATAT
* * *
51935944 AATTATTATTAAATATAATTT-AATAA---TA--AT
66 AA-TACTATAAAATATAATTTAAATAATTTTATTAA
* * * * * *
51935974 ATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTT-GTATAAT-TTAA-A-AT
1 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATAT
* * *
51936035 AATTATTATTAAATATAATTT-AATAA--TGA-T--
66 AA-TACTATAAAATATAATTTAAATAATTTTATTAA
* * *
51936065 ATATAATTTCATAAAATTCTTACTAATAAATATTCTTATATGAATTTACTAAAATCATAATATA
1 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATA
51936129 ACTTGATAAT
Statistics
Matches: 732, Mismatches: 58, Indels: 101
0.82 0.07 0.11
Matches are distributed among these distances:
88 169 0.23
89 3 0.00
90 3 0.00
91 211 0.29
92 7 0.01
93 3 0.00
94 1 0.00
95 1 0.00
96 1 0.00
97 3 0.00
98 2 0.00
99 4 0.01
100 30 0.04
101 23 0.03
102 101 0.14
103 21 0.03
104 9 0.01
105 22 0.03
106 20 0.03
108 2 0.00
110 1 0.00
111 2 0.00
113 1 0.00
115 4 0.01
116 2 0.00
118 72 0.10
119 14 0.02
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (100 bp):
ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAATAATTTTATTAA
Found at i:51935368 original size:61 final size:60
Alignment explanation
Indices: 51935302--51935487 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 60
51935292 ATATAATTTA
*
51935302 ATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATGTAATACT
1 ATAAAATTATTAATAATAAATATTATTATATGAATTTACTAAAATCATAATAT-TAATACT
* * * * *
51935363 ATAAAATATAGTT--TAATTAGTTTTATTAAATAT-AATTTAATAAAA--AT-ATA-TAAT-TT
1 ATAAAAT-TA-TTAATAATAAATATTATT--ATATGAATTTACTAAAATCATAATATTAATACT
*
51935419 AATAAAATTATTAATAATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTATTAATAATAAATATTATTATATGAATTTACTAAAATCATAATAT-TAATACT
51935481 ATAAAAT
1 ATAAAAT
51935488 ATAATTTAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
55 6 0.06
56 14 0.14
57 21 0.21
58 2 0.02
59 6 0.06
60 2 0.02
61 29 0.29
62 13 0.13
63 6 0.06
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (60 bp):
ATAAAATTATTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATTAATACT
Found at i:51935427 original size:118 final size:117
Alignment explanation
Indices: 51935292--51935575 Score: 487
Period size: 118 Copynumber: 2.4 Consensus size: 117
51935282 TTATTATTAA
* *
51935292 ATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAATATGT
1 ATATAATTTAATAAAATT-TTAATAATAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
51935357 AATACTATAAAATATAGTTTAATTAGTTTTATTAAATATAATTTAATAAAAAT
65 AATACTATAAAATATAATTTAATTAGTTTTATTAAATATAATTTAATAAAAAT
51935410 ATATAATTTAATAAAATTATTAATAATAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATT-TTAATAATAAATATTCTTATATGAATTTACTAAAATCATAATATAT
51935475 AATACTATAAAATATAATTTAATTAGTTTTATTAAATATAATTTAATAAAAAT
65 AATACTATAAAATATAATTTAATTAGTTTTATTAAATATAATTTAATAAAAAT
* *
51935528 ATATAATTTAATAAAAAAATTTAGTAATAAATATTCTTATATGAATTT
1 ATATAATTTAAT--AAAATTTTAATAATAAATATTCTTATATGAATTT
51935576 GTATAATTTA
Statistics
Matches: 158, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
118 126 0.80
119 27 0.17
120 5 0.03
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (117 bp):
ATATAATTTAATAAAATTTTAATAATAAATATTCTTATATGAATTTACTAAAATCATAATATATA
ATACTATAAAATATAATTTAATTAGTTTTATTAAATATAATTTAATAAAAAT
Found at i:51935533 original size:18 final size:18
Alignment explanation
Indices: 51935510--51935544 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51935500 GTTTTATTAA
51935510 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
51935528 ATATAATTTAATAAAAA
1 ATATAATTTAATAAAAA
51935545 AATTTAGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:51935590 original size:220 final size:209
Alignment explanation
Indices: 51935158--51935662 Score: 609
Period size: 220 Copynumber: 2.4 Consensus size: 209
51935148 ATATTTTAAC
51935158 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
51935223 TCTTATATGGATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA
66 TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA
* * * * *
51935288 TTAAATATAATTTAATAAAATTCTTAATAATAAATATTATTATATGAATTTACTAAAATCATAAT
131 TTAAATATAATTTAATAAAAATATTAATAATAAAAATTAGTATATAAATTTACT-AAATCATAAT
*
51935353 ATGTAATACTATAAAATA
195 ATGTAATA--ATATAA-A
*
51935371 TAGTTTAATTAGTTTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATAA
1 -A---TAATTA---TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAA
*
51935436 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTT-AATTA
59 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATA
*
51935500 GTT-TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAAAATTTAGTA-ATAAATATT
124 ATTATTATTAAATATAATTTAATAAAAATAT-TAA--TAAT--AAAAA-TTAGTATATAAAT-TT
* * *
51935563 -CT-TAT-ATGAATTTGT-ATAATTTAAA
182 ACTAAATCAT-AATATGTAATAATATAAA
* * *
51935588 ATAATTATTATTAAATA-AATTTAAT---AATATATAATTTCATAAAATTCTTACTAATAAATTT
1 ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
51935649 TCTTATACGAATTT
66 TCTTATATGAATTT
51935663 GTATAATTTA
Statistics
Matches: 259, Mismatches: 18, Indels: 36
0.83 0.06 0.12
Matches are distributed among these distances:
206 45 0.17
209 8 0.03
210 10 0.04
213 6 0.02
214 1 0.00
216 1 0.00
217 7 0.03
218 29 0.11
219 9 0.03
220 113 0.44
221 12 0.05
223 11 0.04
224 7 0.03
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (209 bp):
ATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
TCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTA
TTAAATATAATTTAATAAAAATATTAATAATAAAAATTAGTATATAAATTTACTAAATCATAATA
TGTAATAATATAAA
Found at i:51935698 original size:179 final size:178
Alignment explanation
Indices: 51935487--51936111 Score: 974
Period size: 179 Copynumber: 3.5 Consensus size: 178
51935477 TACTATAAAA
* * * *
51935487 TATAATTT-AATTAGTT-TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAAAAT-T
1 TATAATTTAAAATAATTATTATTAAATATAATTTAAT---AATATATAATTTCAT--AAAATTCT
*
51935549 TAGTAATAAATATTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATA-AA-TT-TA
61 TACTAATAAATATTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTATA
* * * *
51935611 ATAATATATAATTTCATAAAATTCTTACTAATAAATTTTCTTATACGAATTTG
126 ATAATATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTTG
51935664 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTCATAAAATTCTTACTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTCATAAAATTCTTACTA
* * *
51935729 ATAAATTTTCTTATACGAATTTGTATAATTTAAAATAATTAGTATTAAATATAATTTAATAATAA
66 ATAAATATTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTT-ATAATAA
51935794 TATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTTG
130 TATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTTG
* *
51935843 TACAATTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTCATAAAATTCTTAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTCATAAAATTCTTACTA
* *
51935908 GTAAATATTCTTATATGAATTTGTACAATTTAAAATAATTATTATTAAATATAATTTAATAATAA
66 ATAAATATTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTT-ATAATAA
51935973 TATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTTG
130 TATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTTG
51936022 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAAT-A--ATATATAATTTCATAAAATTCTTA
51936087 CTAATAAATATTCTTATATGAATTT
63 CTAATAAATATTCTTATATGAATTT
51936112 ACTAAAATCA
Statistics
Matches: 416, Mismatches: 22, Indels: 15
0.92 0.05 0.03
Matches are distributed among these distances:
174 5 0.01
175 53 0.13
176 16 0.04
177 10 0.02
178 6 0.01
179 278 0.67
180 1 0.00
182 47 0.11
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (178 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATATAATTTCATAAAATTCTTACTA
ATAAATATTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTATAATAAT
ATATAATTTCATAAAATTCTTAATAGTAAATATTCTTATATGAATTTG
Found at i:51935707 original size:15 final size:15
Alignment explanation
Indices: 51935664--51935717 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
51935654 TACGAATTTG
51935664 TATAATTTAA-AATA
1 TATAATTTAATAATA
* *
51935678 -ATTA-TTATTAA-A
1 TATAATTTAATAATA
51935690 TATAATTTAATAATA
1 TATAATTTAATAATA
*
51935705 TATAATTTCATAA
1 TATAATTTAATAA
51935718 AATTCTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
12 4 0.13
13 8 0.26
14 6 0.19
15 13 0.42
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
TATAATTTAATAATA
Found at i:51935840 original size:91 final size:91
Alignment explanation
Indices: 51935487--51936111 Score: 961
Period size: 91 Copynumber: 7.0 Consensus size: 91
51935477 TACTATAAAA
* * * * *
51935487 TATAATTT-AATTAGTT-TTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAAAAT-T
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCAT--AAAATTCT
*
51935549 TAGTAATAAATATTCTTATATGAATTTG
64 TAATAATAAATATTCTTATATGAATTTG
51935577 TATAATTTAAAATAATTATTATTAAATA-AA-TT--TAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
* * *
51935638 CTAATAAATTTTCTTATACGAATTTG
66 ATAATAAATATTCTTATATGAATTTG
51935664 TATAATTTAAAATAATTATTATTAAATATAA-TT--TAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
* * *
51935726 CTAATAAATTTTCTTATACGAATTTG
66 ATAATAAATATTCTTATATGAATTTG
*
51935752 TATAATTTAAAATAATTAGTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
51935817 ATAGTAAATATTCTTATATGAATTTG
66 ATAATAAATATTCTTATATGAATTTG
*
51935843 TACAATTTAAAATAATTATTATTAAATATAA-TT--TAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
51935905 ATAGTAAATATTCTTATATGAATTTG
66 ATAATAAATATTCTTATATGAATTTG
*
51935931 TACAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
51935996 ATAGTAAATATTCTTATATGAATTTG
66 ATAATAAATATTCTTATATGAATTTG
*
51936022 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
*
51936087 CTAATAAATATTCTTATATGAATTT
66 ATAATAAATATTCTTATATGAATTT
51936112 ACTAAAATCA
Statistics
Matches: 506, Mismatches: 19, Indels: 19
0.93 0.03 0.03
Matches are distributed among these distances:
86 5 0.01
87 54 0.11
88 192 0.38
89 4 0.01
90 12 0.02
91 229 0.45
92 10 0.02
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTA
ATAATAAATATTCTTATATGAATTTG
Found at i:51936639 original size:27 final size:25
Alignment explanation
Indices: 51936586--51936676 Score: 103
Period size: 25 Copynumber: 3.6 Consensus size: 25
51936576 TACCATCAAG
* *
51936586 AAACATAAAGAGACATACAA-AATAT
1 AAACATACAGAAACATA-AAGAATAT
* *
51936611 AAACATACAAAAACGTAAATTGAATAT
1 AAACATACAGAAACATAAA--GAATAT
*
51936638 AAACATACAGAAACATACAGAATAT
1 AAACATACAGAAACATAAAGAATAT
51936663 AAACATACAGAAAC
1 AAACATACAGAAAC
51936677 CATTTCCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 2 0.04
25 33 0.59
27 21 0.38
ACGTcount: A:0.62, C:0.14, G:0.08, T:0.16
Consensus pattern (25 bp):
AAACATACAGAAACATAAAGAATAT
Found at i:51952156 original size:6 final size:6
Alignment explanation
Indices: 51952129--51952206 Score: 50
Period size: 6 Copynumber: 12.5 Consensus size: 6
51952119 TGTTTATTTG
* * * * * *
51952129 TTTTCT TTTTAA TTTTAA TTTTATT TTTTAT GTTTAT GTTTAT TTTTCT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TTTTAT TTTTAT TTTTAT
*
51952178 TTTTAAT TGTTT-T GTTTTAG TTTTAT TTT
1 TTTT-AT T-TTTAT -TTTTAT TTTTAT TTT
51952207 CTTGTACTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
6 47 0.81
7 8 0.14
8 3 0.05
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:51952164 original size:25 final size:25
Alignment explanation
Indices: 51952140--51952206 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
51952130 TTTCTTTTTA
*
51952140 ATTTTAATTTTATTTTTTA-TGTTT
1 ATTTTAATTTTATTTTTAATTGTTT
* *
51952164 ATGTTTATTTTTCTTTTTAATTGTTTT
1 AT-TTTAATTTTATTTTTAATTG-TTT
* *
51952191 GTTTTAGTTTTATTTT
1 ATTTTAATTTTATTTT
51952207 CTTGTACTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 2 0.06
25 14 0.41
26 14 0.41
27 4 0.12
ACGTcount: A:0.16, C:0.01, G:0.07, T:0.75
Consensus pattern (25 bp):
ATTTTAATTTTATTTTTAATTGTTT
Found at i:51954702 original size:13 final size:13
Alignment explanation
Indices: 51954684--51954710 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51954674 TTAATCAACA
51954684 TAAAGTCAGTTGT
1 TAAAGTCAGTTGT
51954697 TAAAGTCAGTTGT
1 TAAAGTCAGTTGT
51954710 T
1 T
51954711 CTTACTCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TAAAGTCAGTTGT
Found at i:51958607 original size:42 final size:42
Alignment explanation
Indices: 51958561--51958658 Score: 135
Period size: 42 Copynumber: 2.3 Consensus size: 42
51958551 TCTCAGATGT
* *
51958561 GGTCTTACATGTAATCAAATAACGATGCCATTGTCC-AGATAG
1 GGTCTTACATGTAATCAAAT-ACGATGCCAATGTCCTAGACAG
* *
51958603 GGTCTTACATGTAATCATATACGATGCCAATGTCCTAGACAT
1 GGTCTTACATGTAATCAAATACGATGCCAATGTCCTAGACAG
*
51958645 GGTCTTACACGTAA
1 GGTCTTACATGTAA
51958659 ATCTCAAATC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
41 14 0.28
42 36 0.72
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCCAATGTCCTAGACAG
Found at i:51960483 original size:21 final size:20
Alignment explanation
Indices: 51960433--51960488 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
51960423 TCTTTGCAAA
*
51960433 ATAAGAGTATCGATAATTATT
1 ATAA-AGTATCGATAATTATG
* * *
51960454 TTAAGGTATCGATACTTTATG
1 ATAAAGTATCGATA-ATTATG
51960475 ATAAAGTAT-GATAA
1 ATAAAGTATCGATAA
51960489 AGTATCAATA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
20 13 0.48
21 14 0.52
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (20 bp):
ATAAAGTATCGATAATTATG
Found at i:51975959 original size:35 final size:35
Alignment explanation
Indices: 51975913--51975980 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
51975903 AAGATAATTC
51975913 AAATTTAAAATAAAGTAGCACTTATCGACATTTTT
1 AAATTTAAAATAAAGTAGCACTTATCGACATTTTT
51975948 AAATTTAAAATAAAGTAGCACTTATCGACATTT
1 AAATTTAAAATAAAGTAGCACTTATCGACATTT
51975981 CCCCAATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (35 bp):
AAATTTAAAATAAAGTAGCACTTATCGACATTTTT
Found at i:51979100 original size:19 final size:19
Alignment explanation
Indices: 51979072--51979108 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
51979062 GACAGATTTC
*
51979072 TTTTGATTTTTTGATTTTA
1 TTTTGATTTTTTCATTTTA
*
51979091 TTTTGTTTTTTTCATTTT
1 TTTTGATTTTTTCATTTT
51979109 CGGCTATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (19 bp):
TTTTGATTTTTTCATTTTA
Found at i:51987011 original size:129 final size:129
Alignment explanation
Indices: 51986803--51987359 Score: 938
Period size: 129 Copynumber: 4.3 Consensus size: 129
51986793 GCTCCCTGAC
* *
51986803 CAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCTCCCTGAGCAATAGCGGAGCAGATCAAA
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAA
* * *
51986868 GACGGTGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGTCACAAGTCCTATATCCCTGGC
66 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
51986932 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAA
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAA
** *
51986997 GATAGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATATCCCTGGT
66 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
*
51987061 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGGAGCAGATCGAA
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATC-AA
* * *
51987126 AG-TGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
65 AGACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
* *
51987190 CAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGTAGATCAAA
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAA
*
51987254 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATTCCTGGT
66 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
* *
51987318 CAGCAGTGGAATAGGTTGGGAAATTACAGATCCTCTCTCCCT
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCT
51987360 GAAGTTGTAG
Statistics
Matches: 403, Mismatches: 22, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
127 4 0.01
128 116 0.29
129 279 0.69
130 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (129 bp):
CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAA
GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
Found at i:51987397 original size:257 final size:258
Alignment explanation
Indices: 51986803--51987399 Score: 925
Period size: 257 Copynumber: 2.3 Consensus size: 258
51986793 GCTCCCTGAC
* *
51986803 CAGCAGTGGAATAGGTTAGGAAATTACAGATCTTGTCTCCCTG-AGCAATAGCGGAGCAGATCAA
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTGAAGCAGTAGCGGAGCAGATCAA
* *
51986867 AG-ACGGT-GAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGTCACAAGTCCTATATCCCTG
66 AGTA--GTAG-ATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTG
51986930 GCCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCA
128 GCCAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCA
* *
51986995 AAGATAGCGAATCTTATCTTCAAGTGTAAGGAAGTAGATTTAAGCCACAAGTCCTATATCCCTGG
193 AAGACAGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGG
51987060 T
258 T
51987061 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCT-AAGCAGTAGCGGAGCAGATCGA
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTGAAGCAGTAGCGGAGCAGATC-A
* * * *
51987125 AAGTGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
65 AAGTAGTAGATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGC
* *
51987190 CAGCAGTGGAATAGGTT-GGAAATTACAGATCTTGTCTCCCTAAGCAATAGTGGAGTAGATCAAA
130 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAA
* *
51987254 GACGGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATTCCTGGT
195 GACAGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
* * ** * * *
51987318 CAGCAGTGGAATAGGTTGGGAAATTACAGATCCTCTCTCCCTGAAGTTGTAGTGGAGCAGGTTAA
1 CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTGAAGCAGTAGCGGAGCAGATCAA
*
51987383 AGTAATAGATCTTATCT
66 AGTAGTAGATCTTATCT
51987400 CTCTGAAGTT
Statistics
Matches: 309, Mismatches: 25, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
257 160 0.52
258 145 0.47
259 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (258 bp):
CAGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTGAAGCAGTAGCGGAGCAGATCAA
AGTAGTAGATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGCC
AGCAGTGGAATAGGTTGGGAAATTACAGATCTTGTCTCCCTAAGCAATAGCGGAGCAGATCAAAG
ACAGCGAATCTTATCTTCAAGTGTAAGGAAGCAGATTTAAGCCACAAGTCCTATATCCCTGGT
Found at i:51987572 original size:44 final size:43
Alignment explanation
Indices: 51987353--51987640 Score: 181
Period size: 44 Copynumber: 6.6 Consensus size: 43
51987343 ACAGATCCTC
* *
51987353 TCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTAATAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATA-ATCTTA
* * ** **** * *
51987397 TCTCTCTGAAGTTGCAGTAGAGTGGACCGCA-TCA-AGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAATCTTA
* * * *
51987438 TCTCCGTGAGGTTGCAGTGGAGCAGACTGAGAA--AACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGTAATAA-TCTTA
* * * * *** *
51987482 TCCCCCTGAAGTTACAGTGGGGTAGACCGAAG-AAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAA--TAATCTTA
* * * *
51987526 TCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGTCGATAATCCTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGT-AATAATCTTA
* *
51987570 TCTCCCTGAAGTTGTAGTGGAGCGGATTAAAGTAATAGATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATA-ATCTTA
* *
51987614 TCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TCTCCCTGAAGTTGCAGTGGAGCAGAT
51987641 CGCATCAAGT
Statistics
Matches: 180, Mismatches: 54, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
41 25 0.14
42 4 0.02
43 9 0.05
44 139 0.77
45 2 0.01
46 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (43 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTAATAATCTTA
Found at i:51989098 original size:11 final size:11
Alignment explanation
Indices: 51989082--51989107 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
51989072 TTTGATTATT
51989082 ATATTTTTAAA
1 ATATTTTTAAA
51989093 ATATTTTTAAA
1 ATATTTTTAAA
51989104 ATAT
1 ATAT
51989108 GACAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:51995655 original size:22 final size:22
Alignment explanation
Indices: 51995623--51995687 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
51995613 TTCCAGAAAC
* *
51995623 CAGAATGGCTAAAAGCCGTAAA
1 CAGAATAGCTAAAAGCCATAAA
* * *
51995645 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTAAAAGCCATAAA
* *
51995667 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTAAAAGCCATAA
51995688 GTACAGTATT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (22 bp):
CAGAATAGCTAAAAGCCATAAA
Found at i:51995747 original size:32 final size:32
Alignment explanation
Indices: 51995704--51995786 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
51995694 TATTATGATT
51995704 GGCACAAAGCCATCAGTAGTAGTAATATAATC
1 GGCACAAAGCCATCAGTAGTAGTAATATAATC
* * * * *
51995736 GGCACACAGCCATCAGTAATGGTAATATGATT
1 GGCACAAAGCCATCAGTAGTAGTAATATAATC
*
51995768 GGCACAAAGTCATCAGTAG
1 GGCACAAAGCCATCAGTAG
51995787 CGTCGCAGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAGTAGTAATATAATC
Found at i:51995822 original size:26 final size:26
Alignment explanation
Indices: 51995792--51995841 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
51995782 AGTAGCGTCG
51995792 CAGCAAAGCTGCCAGTAACAGTATCA
1 CAGCAAAGCTGCCAGTAACAGTATCA
*
51995818 CAGCAAAGCTGCCTGTAACAGTAT
1 CAGCAAAGCTGCCAGTAACAGTAT
51995842 ATGTGGCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.18
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTATCA
Found at i:51995862 original size:27 final size:26
Alignment explanation
Indices: 51995832--51995893 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 26
51995822 AAAGCTGCCT
51995832 GTAACAGTATATGTGGCCA-AGCCACCA
1 GTAACAGTAT-TGTGG-CAGAGCCACCA
* *
51995859 GTAATAGTGATTGTGGTAGAGCCACCA
1 GTAACAGT-ATTGTGGCAGAGCCACCA
51995886 GT-ACAGTA
1 GTAACAGTA
51995894 CTTCCTCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
25 1 0.03
26 5 0.17
27 22 0.73
28 2 0.07
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (26 bp):
GTAACAGTATTGTGGCAGAGCCACCA
Found at i:51996111 original size:24 final size:24
Alignment explanation
Indices: 51995969--51996114 Score: 184
Period size: 24 Copynumber: 6.1 Consensus size: 24
51995959 TCCGTCATAC
* **
51995969 AAATCACAGACAAATCTGTCATAC
1 AAATCACAGACAAATCAGTCATTT
* *
51995993 CAATCATAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
51996017 AAATCACAGACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
*
51996041 AAATCACAAACAAATCAGTCATTT
1 AAATCACAGACAAATCAGTCATTT
* * * *
51996065 ACATCTCGGACAAATCAATCATTT
1 AAATCACAGACAAATCAGTCATTT
* *
51996089 ACATCACAGACAAATCAATCATTT
1 AAATCACAGACAAATCAGTCATTT
51996113 AA
1 AA
51996115 CCTCAAGGGG
Statistics
Matches: 106, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 106 1.00
ACGTcount: A:0.45, C:0.23, G:0.07, T:0.25
Consensus pattern (24 bp):
AAATCACAGACAAATCAGTCATTT
Found at i:51996161 original size:26 final size:26
Alignment explanation
Indices: 51996132--51996272 Score: 99
Period size: 27 Copynumber: 5.3 Consensus size: 26
51996122 GGGTAAAATA
*
51996132 GTCATTTACCCT-CTAGGATCATTACG
1 GTCATTTACCCTAC-AGGAGCATTACG
*
51996158 GTCATATTACCCTACAGGGGCATTACG
1 GTCAT-TTACCCTACAGGAGCATTACG
* * *
51996185 GTTATTTCACCCTATAAGG-GCATTAAG
1 GTCATTT-ACCCTA-CAGGAGCATTACG
* * **
51996212 ATCATTTTACCCTATAAGG-GCATTATA
1 GTCA-TTTACCCTA-CAGGAGCATTACG
*
51996239 GTCATTTTACCCTACAGGGGCATTACG
1 GTCA-TTTACCCTACAGGAGCATTACG
*
51996266 GTTATTT
1 GTCATTT
51996273 TACAAATATT
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
26 13 0.14
27 75 0.79
28 7 0.07
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (26 bp):
GTCATTTACCCTACAGGAGCATTACG
Found at i:51996181 original size:27 final size:27
Alignment explanation
Indices: 51996151--51996275 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
51996141 CCTCTAGGAT
* *
51996151 CATTACGGTCATATTACCCTACAGGGG
1 CATTACGGTCATTTTACCCTACAAGGG
* * *
51996178 CATTACGGTTATTTCACCCTATAAGGG
1 CATTACGGTCATTTTACCCTACAAGGG
* * *
51996205 CATTAAGATCATTTTACCCTATAAGGG
1 CATTACGGTCATTTTACCCTACAAGGG
** *
51996232 CATTATAGTCATTTTACCCTACAGGGG
1 CATTACGGTCATTTTACCCTACAAGGG
*
51996259 CATTACGGTTATTTTAC
1 CATTACGGTCATTTTAC
51996276 AAATATTGGT
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
CATTACGGTCATTTTACCCTACAAGGG
Found at i:51996273 original size:54 final size:54
Alignment explanation
Indices: 51996129--51996275 Score: 145
Period size: 54 Copynumber: 2.7 Consensus size: 54
51996119 AAGGGGTAAA
** * *
51996129 ATAGTCA-TTTACCCT-CTAGGATCATTACGGTCATATTACCCTACAGGGGCATT
1 ATAGTCATTTTACCCTAC-AGGGGCATTACGGTCATTTTACCCTACAAGGGCATT
** * * * * * * *
51996182 ACGGTTATTTCACCCTATAAGGGCATTAAGATCATTTTACCCTATAAGGGCATT
1 ATAGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATT
*
51996236 ATAGTCATTTTACCCTACAGGGGCATTACGGTTATTTTAC
1 ATAGTCATTTTACCCTACAGGGGCATTACGGTCATTTTAC
51996276 AAATATTGGT
Statistics
Matches: 70, Mismatches: 22, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
53 4 0.06
54 66 0.94
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (54 bp):
ATAGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATT
Found at i:51996648 original size:17 final size:17
Alignment explanation
Indices: 51996626--51996667 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
51996616 TTATCTGTGT
51996626 GGCCCACAAGCCCACTA
1 GGCCCACAAGCCCACTA
*
51996643 GGCCCATAAGCCCACTA
1 GGCCCACAAGCCCACTA
51996660 GGCCCACA
1 GGCCCACA
51996668 CAACCCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.29, C:0.45, G:0.19, T:0.07
Consensus pattern (17 bp):
GGCCCACAAGCCCACTA
Found at i:51996664 original size:9 final size:9
Alignment explanation
Indices: 51996626--51996666 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
51996616 TTATCTGTGT
51996626 GGCCCAC-A
1 GGCCCACTA
*
51996634 AGCCCACTA
1 GGCCCACTA
51996643 GGCCCA-TA
1 GGCCCACTA
*
51996651 AGCCCACTA
1 GGCCCACTA
51996660 GGCCCAC
1 GGCCCAC
51996667 ACAACCCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 13 0.48
9 14 0.52
ACGTcount: A:0.27, C:0.46, G:0.20, T:0.07
Consensus pattern (9 bp):
GGCCCACTA
Found at i:52002892 original size:33 final size:33
Alignment explanation
Indices: 52002835--52002949 Score: 149
Period size: 33 Copynumber: 3.4 Consensus size: 33
52002825 ACATTTTCAG
* * * *
52002835 TCCAACCAAACACACTAGATGCTCACACGAGCCAA
1 TCCAACC-AACACACCA-ATGCTCATAAGAGCTAA
**
52002870 TCCCTCCAACACACCAATGCTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
*
52002903 TCCAACCAACACACCAATACTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
52002936 TCCAACCAACACAC
1 TCCAACCAACACAC
52002950 TAAACAGAGT
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
33 58 0.82
34 8 0.11
35 5 0.07
ACGTcount: A:0.41, C:0.37, G:0.08, T:0.14
Consensus pattern (33 bp):
TCCAACCAACACACCAATGCTCATAAGAGCTAA
Found at i:52003899 original size:21 final size:21
Alignment explanation
Indices: 52003873--52003914 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
52003863 AAAGTTACCA
52003873 TGTTTTAATTT-CACTTTAATT
1 TGTTTTAATTTCCA-TTTAATT
52003894 TGTTTTAATTTCCATTTAATT
1 TGTTTTAATTTCCATTTAATT
52003915 ATAAAATTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.24, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
TGTTTTAATTTCCATTTAATT
Found at i:52006050 original size:22 final size:23
Alignment explanation
Indices: 52006025--52006072 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
52006015 AATGATATTT
52006025 ATGTATGGGTA-ATGTGT-ATAGC
1 ATGTAT-GGTATATGTGTAATAGC
*
52006047 ATGTATGTTATATGTGTAATAGC
1 ATGTATGGTATATGTGTAATAGC
52006070 ATG
1 ATG
52006073 ATGTGGTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 3 0.13
22 12 0.52
23 8 0.35
ACGTcount: A:0.29, C:0.04, G:0.27, T:0.40
Consensus pattern (23 bp):
ATGTATGGTATATGTGTAATAGC
Found at i:52015986 original size:21 final size:19
Alignment explanation
Indices: 52015953--52015993 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
52015943 ATGTGGACCA
*
52015953 CCTTTTTTTAATTTTTTTT
1 CCTTTTTTTAATTCTTTTT
52015972 CCTTTTTTTCGAATTCTTTTT
1 CCTTTTTTT--AATTCTTTTT
52015993 C
1 C
52015994 AAATCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.10, C:0.17, G:0.02, T:0.71
Consensus pattern (19 bp):
CCTTTTTTTAATTCTTTTT
Found at i:52018926 original size:26 final size:26
Alignment explanation
Indices: 52018892--52018954 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
52018882 GGAATCAAAC
* * *
52018892 AAAAGAAAAATTAAAATGTAAAAATA
1 AAAATAAAAATAAAAATATAAAAATA
* * *
52018918 AAATTAAAAACAAAAATATTAAAATA
1 AAAATAAAAATAAAAATATAAAAATA
52018944 AAAATAAAAAT
1 AAAATAAAAAT
52018955 GGCTAAATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.21
Consensus pattern (26 bp):
AAAATAAAAATAAAAATATAAAAATA
Found at i:52018945 original size:20 final size:21
Alignment explanation
Indices: 52018916--52018954 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
52018906 AATGTAAAAA
52018916 TAAAATTAAAAACAAAAATAT
1 TAAAATTAAAAACAAAAATAT
*
52018937 TAAAA-TAAAAATAAAAAT
1 TAAAATTAAAAACAAAAAT
52018955 GGCTAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAATTAAAAACAAAAATAT
Found at i:52018947 original size:6 final size:6
Alignment explanation
Indices: 52018910--52018954 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
52018900 AATTAAAATG
* *
52018910 TAAAAA TAAAAT TAAAAA CAAAAA TATTAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA T
52018955 GGCTAAATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 27 0.82
8 6 0.18
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (6 bp):
TAAAAA
Found at i:52032521 original size:38 final size:38
Alignment explanation
Indices: 52032479--52032597 Score: 141
Period size: 38 Copynumber: 3.0 Consensus size: 38
52032469 GCCCATATTT
52032479 GATTAAAAATAAAAAATATATATTTAATATATAATTCG
1 GATTAAAAATAAAAAATATATATTTAATATATAATTCG
* ** * *
52032517 GATTAAAAGTCCAAAATATATATTTAATAAAAAGTATATT-T
1 GATTAAAAATAAAAAATATATATTTAAT--ATA-TA-ATTCG
52032558 GATTAAAAATAAAAATATATATATTTAATATATAATTCG
1 GATTAAAAATAAAAA-ATATATATTTAATATATAATTCG
52032597 G
1 G
52032598 GCTGGGCCAG
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
38 28 0.43
39 3 0.05
40 4 0.06
41 14 0.22
42 16 0.25
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (38 bp):
GATTAAAAATAAAAAATATATATTTAATATATAATTCG
Found at i:52034551 original size:69 final size:69
Alignment explanation
Indices: 52034465--52034604 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
52034455 TGTTTAGGTT
52034465 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
1 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
52034530 GCAA
66 GCAA
*
52034534 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGATAGAGT
1 ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
52034599 GCAA
66 GCAA
52034603 AT
1 AT
52034605 TGAATTGTAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (69 bp):
ATGTAATGATAGCTTATTGAGTGCATTCTAATTTGTTCATTGATGGTCTATTTTTGTGAGAGAGT
GCAA
Found at i:52035488 original size:21 final size:20
Alignment explanation
Indices: 52035432--52035497 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
52035422 ATATTTTTAT
52035432 TTTTTAATAAAAATTTTAAAA
1 TTTTTAAT-AAAATTTTAAAA
** * *
52035453 TTTTTGTTTATAATTTTAATGA
1 TTTTT-AATAAAATTTTAA-AA
52035475 TTTTTAATAAAA-TTTAAAA
1 TTTTTAATAAAATTTTAAAA
52035494 TTTT
1 TTTT
52035498 AAAAAGGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 5 0.14
20 5 0.14
21 18 0.51
22 7 0.20
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (20 bp):
TTTTTAATAAAATTTTAAAA
Found at i:52036231 original size:5 final size:5
Alignment explanation
Indices: 52036221--52036260 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
52036211 AACTTCACAT
52036221 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
52036261 CTAATTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:52036400 original size:36 final size:36
Alignment explanation
Indices: 52036332--52036400 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
52036322 AATTTAAGGT
*
52036332 TTTATTTATTTCACTAAAAATAATTTTCAAAAATGA
1 TTTATTAATTTCACTAAAAATAATTTTCAAAAATGA
*
52036368 TTTATTAATTT-ACTAGAAAGT-ATTTTCTAAAAA
1 TTTATTAATTTCACTA-AAAATAATTTTC-AAAAA
52036401 AATTAATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 10 0.34
36 19 0.66
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (36 bp):
TTTATTAATTTCACTAAAAATAATTTTCAAAAATGA
Found at i:52043545 original size:43 final size:43
Alignment explanation
Indices: 52043477--52043600 Score: 194
Period size: 43 Copynumber: 2.9 Consensus size: 43
52043467 ATAGGGAACG
* * *
52043477 TGAGAGGAATTCAGACTCCTCTAGTTTTGTTCAGAGGCAAGAA
1 TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGCAAGAA
*
52043520 TGAGAGGGATTCGGACCCCTTTAGTTTTGTTCAGAGGCAAGAA
1 TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGCAAGAA
* *
52043563 TGAGAGGGATTCGAACCCCTCTAGTTCTGTTCAGAGGC
1 TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGC
52043601 CTAAGAAATG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (43 bp):
TGAGAGGGATTCGGACCCCTCTAGTTTTGTTCAGAGGCAAGAA
Found at i:52046082 original size:36 final size:36
Alignment explanation
Indices: 52046031--52046103 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
52046021 CGAGGTAGGG
52046031 TATGTGTACCAAATGATTATAATCTAAGGCAGTTGA
1 TATGTGTACCAAATGATTATAATCTAAGGCAGTTGA
* * *
52046067 TATGTGTATCGAATGATTCTAATCTAAGGCAGTTGA
1 TATGTGTACCAAATGATTATAATCTAAGGCAGTTGA
52046103 T
1 T
52046104 TCTGAGGGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (36 bp):
TATGTGTACCAAATGATTATAATCTAAGGCAGTTGA
Found at i:52047521 original size:21 final size:21
Alignment explanation
Indices: 52047496--52047539 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
52047486 ATATTCGAGG
52047496 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
52047517 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
52047538 AT
1 AT
52047540 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:52047545 original size:19 final size:19
Alignment explanation
Indices: 52047495--52047550 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
52047485 AATATTCGAG
52047495 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
52047514 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
52047535 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
52047551 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:52047557 original size:22 final size:23
Alignment explanation
Indices: 52047508--52047573 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
52047498 ATGCAATCTT
*
52047508 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
52047529 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
52047551 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
52047574 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:52047583 original size:22 final size:23
Alignment explanation
Indices: 52047539--52047583 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
52047529 AGATATGATA
*
52047539 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
52047562 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
52047584 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:52048233 original size:4 final size:4
Alignment explanation
Indices: 52048183--52048249 Score: 57
Period size: 4 Copynumber: 17.0 Consensus size: 4
52048173 GATTATTTCT
* * * * * *
52048183 TTTA TTT- TTTA ATTA GTT- TTTA TTTA TATA TATA TATA TTGTT TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA
52048230 TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA
52048250 AAACAAATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 5 0.09
4 45 0.85
5 3 0.06
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:52048247 original size:25 final size:26
Alignment explanation
Indices: 52048183--52048247 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
52048173 GATTATTTCT
52048183 TTTATTT-TTTAATTAGTTTTTATTTA
1 TTTATTTATTT-ATTAGTTTTTATTTA
* * *
52048209 TATATATATATATT-GTTTTTATTTA
1 TTTATTTATTTATTAGTTTTTATTTA
52048234 TTTATTTATTTATT
1 TTTATTTATTTATT
52048248 TAAAACAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 22 0.69
26 8 0.25
27 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (26 bp):
TTTATTTATTTATTAGTTTTTATTTA
Found at i:52053415 original size:45 final size:45
Alignment explanation
Indices: 52053360--52053509 Score: 119
Period size: 45 Copynumber: 3.2 Consensus size: 45
52053350 TTATGTATTG
52053360 CATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAAT
1 CATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAAT
* * * * * * * *
52053405 CATATGTATATTTTAATC-TT-CATAATTTCTATGTAAA-TCATATGT-ATT
1 CATATATATA-TAT-A-CGTTCCATAA--CCCA--AAAATTTATTTGTAAAT
52053453 GCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAAT
1 -CATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAAT
*
52053499 CATATGTATAT
1 CATATATATAT
52053510 TTTAATCTTC
Statistics
Matches: 76, Mismatches: 17, Indels: 24
0.65 0.15 0.21
Matches are distributed among these distances:
44 3 0.04
45 25 0.33
46 12 0.16
47 6 0.08
48 12 0.16
49 15 0.20
50 3 0.04
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (45 bp):
CATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAAT
Found at i:52053427 original size:83 final size:84
Alignment explanation
Indices: 52053340--52053547 Score: 282
Period size: 94 Copynumber: 2.4 Consensus size: 84
52053330 TTTCTTTATA
52053340 TTCATAAATTT-TATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAA
1 TTCATAAATTTCTATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAA
52053404 TCATATGTATATTTTAATC
66 TCATATGTATATTTTAATC
52053423 TTCATAATTTCTATGTAAATCATATGTATTGCATATATATATATACGTTCCATAACCCAAAAATT
1 TTCATAA-----AT-T---TC-TATGTATTGCATATATATATATACGTTCCATAACCCAAAAATT
52053488 TATTTGTAAATCATATGTATATTTTAATC
56 TATTTGTAAATCATATGTATATTTTAATC
52053517 TTCAT-AATTTCTATG--TT-CATATTATATATAT
1 TTCATAAATTTCTATGTATTGCATA-TATATATAT
52053548 TCTTTTCTTC
Statistics
Matches: 113, Mismatches: 0, Indels: 26
0.81 0.00 0.19
Matches are distributed among these distances:
80 4 0.04
81 11 0.10
83 11 0.10
84 2 0.02
87 1 0.01
88 4 0.04
89 1 0.01
92 1 0.01
93 1 0.01
94 77 0.68
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.46
Consensus pattern (84 bp):
TTCATAAATTTCTATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAA
TCATATGTATATTTTAATC
Found at i:52053449 original size:94 final size:94
Alignment explanation
Indices: 52053351--52053532 Score: 364
Period size: 94 Copynumber: 1.9 Consensus size: 94
52053341 TCATAAATTT
52053351 TATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAATCATATGTATAT
1 TATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAATCATATGTATAT
52053416 TTTAATCTTCATAATTTCTATGTAAATCA
66 TTTAATCTTCATAATTTCTATGTAAATCA
52053445 TATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAATCATATGTATAT
1 TATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAATCATATGTATAT
52053510 TTTAATCTTCATAATTTCTATGT
66 TTTAATCTTCATAATTTCTATGT
52053533 TCATATTATA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 88 1.00
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.45
Consensus pattern (94 bp):
TATGTATTGCATATATATATATACGTTCCATAACCCAAAAATTTATTTGTAAATCATATGTATAT
TTTAATCTTCATAATTTCTATGTAAATCA
Found at i:52058015 original size:36 final size:36
Alignment explanation
Indices: 52057968--52058041 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
52057958 AAGTATATTA
52057968 AAATTTTATATTGATCATGATGGATATCTACTTAAT
1 AAATTTTATATTGATCATGATGGATATCTACTTAAT
52058004 AAATTTTATATTGATCATGATGGATATCTACTTAAT
1 AAATTTTATATTGATCATGATGGATATCTACTTAAT
52058040 AA
1 AA
52058042 GATATTCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (36 bp):
AAATTTTATATTGATCATGATGGATATCTACTTAAT
Found at i:52058630 original size:25 final size:26
Alignment explanation
Indices: 52058602--52058656 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
52058592 AGTTATGAAT
*
52058602 TTAATAT-ATATTTATT-ATTAAAATA
1 TTAATATAAT-TTTATTCAATAAAATA
*
52058627 TTAATATAATTTTTTTCAATAAAATA
1 TTAATATAATTTTATTCAATAAAATA
52058653 TTAA
1 TTAA
52058657 GAATATTACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAATATAATTTTATTCAATAAAATA
Found at i:52058706 original size:19 final size:18
Alignment explanation
Indices: 52058670--52058715 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
52058660 TATTACTCAA
52058670 AATTTAAAA-TTATTATT
1 AATTTAAAATTTATTATT
*
52058687 AATGTTAAAATTTTTTATT
1 AAT-TTAAAATTTATTATT
52058706 AATTTAAAAT
1 AATTTAAAAT
52058716 CATAATATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 13 0.50
19 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
AATTTAAAATTTATTATT
Found at i:52058745 original size:21 final size:21
Alignment explanation
Indices: 52058719--52058767 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
52058709 TTAAAATCAT
* *
52058719 AATATTAAATAATTTTATTAA
1 AATATTAAATAATGTTAATAA
*
52058740 AATATTAAATTATGTTAATAA
1 AATATTAAATAATGTTAATAA
*
52058761 ATTATTA
1 AATATTA
52058768 TACTATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
AATATTAAATAATGTTAATAA
Found at i:52061911 original size:6 final size:6
Alignment explanation
Indices: 52061903--52061963 Score: 86
Period size: 6 Copynumber: 10.2 Consensus size: 6
52061893 GGTATTATTG
* * * *
52061903 TTGTTG TTGTTG TTGTTG TTGTTA TTGTTG TTGTTA TTGTTA TTGTTA
1 TTGTTA TTGTTA TTGTTA TTGTTA TTGTTA TTGTTA TTGTTA TTGTTA
52061951 TTGTTA TTGTTA T
1 TTGTTA TTGTTA T
52061964 ATTTCTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (6 bp):
TTGTTA
Found at i:52061917 original size:12 final size:12
Alignment explanation
Indices: 52061903--52061963 Score: 95
Period size: 12 Copynumber: 5.1 Consensus size: 12
52061893 GGTATTATTG
*
52061903 TTGTTGTTGTTG
1 TTGTTGTTGTTA
52061915 TTGTTGTTGTTA
1 TTGTTGTTGTTA
52061927 TTGTTGTTGTTA
1 TTGTTGTTGTTA
*
52061939 TTGTTATTGTTA
1 TTGTTGTTGTTA
*
52061951 TTGTTATTGTTA
1 TTGTTGTTGTTA
52061963 T
1 T
52061964 ATTTCTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (12 bp):
TTGTTGTTGTTA
Done.