Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 100 of 186
Found at i:32759757 original size:21 final size:21
Alignment explanation
Indices: 32759731--32759770 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32759721 ACGGCCTGCG
*
32759731 CATACGGGCATGTGGAGTAAT
1 CATACGGGCATGTAGAGTAAT
*
32759752 CATACGGGTATGTAGAGTA
1 CATACGGGCATGTAGAGTA
32759771 GGCACAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (21 bp):
CATACGGGCATGTAGAGTAAT
Found at i:32767030 original size:21 final size:21
Alignment explanation
Indices: 32767004--32767094 Score: 92
Period size: 21 Copynumber: 4.2 Consensus size: 21
32766994 AGGAGAAAGA
* *
32767004 GGTGGAGGAGAATGCACTGGT
1 GGTGGAGGAGAGTGGACTGGT
* *
32767025 GGTGGAGGAGAGTGAACAGGT
1 GGTGGAGGAGAGTGGACTGGT
* *
32767046 GGAGGTGGAGAGTGGACTGGAGGT
1 GGTGGAGGAGAGTGGACT---GGT
*
32767070 GGTGGTGGAGAGTGGACTGGT
1 GGTGGAGGAGAGTGGACTGGT
32767091 GGTG
1 GGTG
32767095 TCGGGGGCTT
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
21 39 0.66
24 20 0.34
ACGTcount: A:0.21, C:0.05, G:0.55, T:0.19
Consensus pattern (21 bp):
GGTGGAGGAGAGTGGACTGGT
Found at i:32767069 original size:24 final size:24
Alignment explanation
Indices: 32767042--32767094 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
32767032 GAGAGTGAAC
32767042 AGGTGGAGGTGGAGAGTGGACTGG
1 AGGTGGAGGTGGAGAGTGGACTGG
*
32767066 AGGTGGTGGTGGAGAGTGGACTGG
1 AGGTGGAGGTGGAGAGTGGACTGG
*
32767090 TGGTG
1 AGGTG
32767095 TCGGGGGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.17, C:0.04, G:0.58, T:0.21
Consensus pattern (24 bp):
AGGTGGAGGTGGAGAGTGGACTGG
Found at i:32767335 original size:87 final size:88
Alignment explanation
Indices: 32767211--32767434 Score: 297
Period size: 96 Copynumber: 2.5 Consensus size: 88
32767201 AATAACTGGC
* *
32767211 GGAGACCGTTCCCTTGTTATAGGTGATTCCTCTTGTTTCGG-CACTGGTGTCGGGGGCTTAATAA
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGACACTGGTGTCGGGGGCTTAACAA
**
32767275 CTGGCGGTGGCAATTTTGGTGGT
66 CTGGCGGTGGCAATTTAAGTGGT
*
32767298 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGATGGTTTTGACACTGGTTTCGGGGG
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTC----G----GACACTGGTGTCGGGGG
32767363 CTTAACAACTGGCGGTGGCAATTTAAGTGGT
58 CTTAACAACTGGCGGTGGCAATTTAAGTGGT
** *
32767394 GGAGGTCGTTCCCTTGTTACAGGTGATTCCTCTTCTTTCGG
1 GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGG
32767435 TGGTTTTGGC
Statistics
Matches: 120, Mismatches: 8, Indels: 17
0.83 0.06 0.12
Matches are distributed among these distances:
87 38 0.32
88 1 0.01
91 1 0.01
92 1 0.01
95 1 0.01
96 78 0.65
ACGTcount: A:0.14, C:0.20, G:0.31, T:0.35
Consensus pattern (88 bp):
GGAGACCGTTCCCTTGTTACAGGTGATTCCTCTTGTTTCGGACACTGGTGTCGGGGGCTTAACAA
CTGGCGGTGGCAATTTAAGTGGT
Found at i:32767416 original size:96 final size:96
Alignment explanation
Indices: 32767252--32767442 Score: 310
Period size: 96 Copynumber: 2.0 Consensus size: 96
32767242 CTTGTTTCGG
* **
32767252 CACTGGTGTCGGGGGCTTAATAACTGGCGGTGGCAATTTTGGTGGTGGAGACCGTTCCCTTGTTA
1 CACTGGTGTCGGGGGCTTAACAACTGGCGGTGGCAATTTAAGTGGTGGAGACCGTTCCCTTGTTA
*
32767317 CAGGTGATTCCTCTTGTTTCGATGGTTTTGA
66 CAGGTGATTCCTCTTCTTTCGATGGTTTTGA
* **
32767348 CACTGGTTTCGGGGGCTTAACAACTGGCGGTGGCAATTTAAGTGGTGGAGGTCGTTCCCTTGTTA
1 CACTGGTGTCGGGGGCTTAACAACTGGCGGTGGCAATTTAAGTGGTGGAGACCGTTCCCTTGTTA
*
32767413 CAGGTGATTCCTCTTCTTTCGGTGGTTTTG
66 CAGGTGATTCCTCTTCTTTCGATGGTTTTG
32767443 GCTTAAGGGG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.14, C:0.18, G:0.32, T:0.36
Consensus pattern (96 bp):
CACTGGTGTCGGGGGCTTAACAACTGGCGGTGGCAATTTAAGTGGTGGAGACCGTTCCCTTGTTA
CAGGTGATTCCTCTTCTTTCGATGGTTTTGA
Found at i:32771013 original size:19 final size:18
Alignment explanation
Indices: 32770985--32771027 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
32770975 TTTATCCAAT
*
32770985 TCAA-TCTCAACTTTCTC
1 TCAATTCTCAAATTTCTC
32771002 TCACATTCTCAAATTTCTC
1 TCA-ATTCTCAAATTTCTC
32771021 TCAATTC
1 TCAATTC
32771028 CCTCTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 5 0.22
19 15 0.65
ACGTcount: A:0.26, C:0.33, G:0.00, T:0.42
Consensus pattern (18 bp):
TCAATTCTCAAATTTCTC
Found at i:32794568 original size:24 final size:24
Alignment explanation
Indices: 32794536--32794584 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
32794526 GCTTTGGTGG
32794536 TCATAACTAATTCCTATTTCGGGT
1 TCATAACTAATTCCTATTTCGGGT
32794560 TCATAACTAATTCCTATTTCGGGT
1 TCATAACTAATTCCTATTTCGGGT
32794584 T
1 T
32794585 TCTACTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.12, T:0.43
Consensus pattern (24 bp):
TCATAACTAATTCCTATTTCGGGT
Found at i:32798998 original size:26 final size:27
Alignment explanation
Indices: 32798964--32799026 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 27
32798954 CATAATTAAC
* * *
32798964 CCTAAGGGTATAACGGTCATTTT-ACA
1 CCTAGGGGTAAAACGGTAATTTTCACA
* *
32798990 CCTAGGGGTAAAATGGTAATTTTCATA
1 CCTAGGGGTAAAACGGTAATTTTCACA
*
32799017 CTTAGGGGTA
1 CCTAGGGGTA
32799027 GTTTAATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (27 bp):
CCTAGGGGTAAAACGGTAATTTTCACA
Found at i:32801119 original size:15 final size:15
Alignment explanation
Indices: 32801082--32801110 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32801072 CTTTCCTATC
32801082 TAATAATAATAATTA
1 TAATAATAATAATTA
32801097 TAATAATAATAATT
1 TAATAATAATAATT
32801111 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:32804017 original size:56 final size:56
Alignment explanation
Indices: 32803931--32804063 Score: 196
Period size: 56 Copynumber: 2.4 Consensus size: 56
32803921 ATGGCATCGA
* *
32803931 TATATGTGTGCGAGTAAGACCATATTTAATACGTTGGCA-TCGATATGTGATTCCGT
1 TATATGTGTGCGAGTAAGACCACATTTAATACGTTGG-AGTCGATATGTGACTCCGT
* * *
32803987 TATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGAGTCGATATGTGACTCTGT
1 TATATGTGTGCGAGTAAGACCACATTTAATACGTTGGAGTCGATATGTGACTCCGT
*
32804043 TATATGTGTGTGAGTAAGACC
1 TATATGTGTGCGAGTAAGACC
32804064 CTATCTGAGA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
55 1 0.01
56 69 0.99
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (56 bp):
TATATGTGTGCGAGTAAGACCACATTTAATACGTTGGAGTCGATATGTGACTCCGT
Found at i:32804089 original size:56 final size:54
Alignment explanation
Indices: 32803931--32804092 Score: 159
Period size: 56 Copynumber: 2.9 Consensus size: 54
32803921 ATGGCATCGA
* * *
32803931 TATATGTGTGCGAGTAAGACCATATTTAATACGTTGGCATCGATATGTGATTCCGT
1 TATATGTGTGCGAGTAAGACCCTA-TTAACA-GTTGGCATCGATATGTGACTCCGT
* *
32803987 TATATGTGTGCGAGTAAGACCACGT-TTAATATGTTGG-AGTCGATATGTGACTCTGT
1 TATATGTGTGCGAGTAAGACC-C-TATTAACA-GTTGGCA-TCGATATGTGACTCCGT
* *
32804043 TATATGTGTGTGAGTAAGACCCTATCTGAGACAG-TGGCATCTATATGTGA
1 TATATGTGTGCGAGTAAGACCCTAT-T-A-ACAGTTGGCATCGATATGTGA
32804093 TTACATGTAA
Statistics
Matches: 91, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
54 1 0.01
55 3 0.03
56 81 0.89
57 3 0.03
58 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.35
Consensus pattern (54 bp):
TATATGTGTGCGAGTAAGACCCTATTAACAGTTGGCATCGATATGTGACTCCGT
Found at i:32809474 original size:35 final size:35
Alignment explanation
Indices: 32809428--32809495 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
32809418 TTTTCATCAA
*
32809428 AATAGGGTCACACGCCATTGTGGCTTTGGACACTG
1 AATAGGGTCACACGCCATTGTGGCTTGGGACACTG
32809463 AATAGGGTCACACGCCATTGTGGCTTGGGACAC
1 AATAGGGTCACACGCCATTGTGGCTTGGGACAC
32809496 GTCCGTGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (35 bp):
AATAGGGTCACACGCCATTGTGGCTTGGGACACTG
Found at i:32812140 original size:21 final size:21
Alignment explanation
Indices: 32812116--32812226 Score: 65
Period size: 20 Copynumber: 5.5 Consensus size: 21
32812106 ATAAAAGTTA
32812116 TGAGGAAGTACAAAAAAAATC
1 TGAGGAAGTACAAAAAAAATC
*
32812137 TGA-GAGAGTACCAAAAAATAT-
1 TGAGGA-AGTA-CAAAAAAAATC
* * *
32812158 TAAGGAAG--CACAAAAAATA
1 TGAGGAAGTACAAAAAAAATC
* * * *
32812177 TGAGAAAATAC-CAAAAATTC
1 TGAGGAAGTACAAAAAAAATC
*
32812197 TGAGGGAA-TAC-AAAGAAATC
1 TGA-GGAAGTACAAAAAAAATC
32812217 TGAGGAAGTA
1 TGAGGAAGTA
32812227 TTGAGTATGT
Statistics
Matches: 69, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
18 8 0.12
19 9 0.13
20 26 0.38
21 15 0.22
22 11 0.16
ACGTcount: A:0.54, C:0.10, G:0.20, T:0.16
Consensus pattern (21 bp):
TGAGGAAGTACAAAAAAAATC
Found at i:32813660 original size:22 final size:22
Alignment explanation
Indices: 32813630--32813675 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
32813620 TCGATGATAT
32813630 TCAACTGTTGTTAGATCAACAC
1 TCAACTGTTGTTAGATCAACAC
*
32813652 TCAATTGTTGTTAGATCAACAC
1 TCAACTGTTGTTAGATCAACAC
32813674 TC
1 TC
32813676 GAAAATCGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (22 bp):
TCAACTGTTGTTAGATCAACAC
Found at i:32817268 original size:26 final size:25
Alignment explanation
Indices: 32817234--32817289 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
32817224 TTATTTTTTG
* **
32817234 TATACATTTCCTTTTAAATCTATATA
1 TATATATTTCCTTGCAAATCTAT-TA
32817260 TATATATTTCCTTGCAAATCTATTA
1 TATATATTTCCTTGCAAATCTATTA
32817285 TATAT
1 TATAT
32817290 TCTTAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (25 bp):
TATATATTTCCTTGCAAATCTATTA
Found at i:32818229 original size:125 final size:125
Alignment explanation
Indices: 32818002--32818230 Score: 352
Period size: 125 Copynumber: 1.8 Consensus size: 125
32817992 TAGTTAAAAG
* * *
32818002 TTTTTAAAAACAAGGCAATATTTCGTATTTTAAAATTCGAGAAATCGTGCCCTAACGTGCTGGGT
1 TTTTAAAAAACAAGGCAATATTTCATATTTGAAAATTCGAGAAATCGTGCCCTAACGTGCTGGGT
32818067 TTCGATTTTCCGTTTGACCAAATAACCAAATACCCTTTTTACATTCTGTGTTTTCTTCAA
66 TTCGATTTTCCGTTTGACCAAATAACCAAATACCCTTTTTACATTCTGTGTTTTCTTCAA
* *
32818127 TTTTAAAAAACAAGGCAATATTTCATATTTGGAAATTCGAGAAATCGTGCCCTAACGTGTTGGGT
1 TTTTAAAAAACAAGGCAATATTTCATATTTGAAAATTCGAGAAATCGTGCCCTAACGTGCTGGGT
* * * * *
32818192 TTCTG-TTTTTCGTTTGGCCAAATAATCGAATATCCTTTT
66 TTC-GATTTTCCGTTTGACCAAATAACCAAATACCCTTTT
32818231 AAAATTTTCA
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 92 0.99
126 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.38
Consensus pattern (125 bp):
TTTTAAAAAACAAGGCAATATTTCATATTTGAAAATTCGAGAAATCGTGCCCTAACGTGCTGGGT
TTCGATTTTCCGTTTGACCAAATAACCAAATACCCTTTTTACATTCTGTGTTTTCTTCAA
Found at i:32821903 original size:33 final size:33
Alignment explanation
Indices: 32821861--32821926 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
32821851 CTAGCACATC
*
32821861 CAGATGTAAATGAGAAAGTTGACGTCTTTGCCT
1 CAGATGTAAAGGAGAAAGTTGACGTCTTTGCCT
32821894 CAGATGTAAAGGAGAAAGTTGACGTCTTTGCCT
1 CAGATGTAAAGGAGAAAGTTGACGTCTTTGCCT
32821927 TGAGTATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (33 bp):
CAGATGTAAAGGAGAAAGTTGACGTCTTTGCCT
Found at i:32832103 original size:44 final size:44
Alignment explanation
Indices: 32832055--32832304 Score: 136
Period size: 44 Copynumber: 5.7 Consensus size: 44
32832045 AGCCATCAGC
32832055 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAATAATTGTAGT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAATAATTGTAGT
* * * * *
32832099 CTTATCT-TCCTGAGATAGCAAGGAAACAGGCTGAA-GATTGTAGAT
1 CTTATCTCT-CTGAGGTAGCAAGGGAGCAGACT-AATAATTGTAG-T
* * * * * * * * *
32832144 CTTATCTCCCT-AAGCAG-TAGTGGAGCAGATTGAA-GATGGCGAAT
1 CTTATCTCTCTGAGGTAGCAAG-GGAGCAGACT-AATAATTG-TAGT
* * * * * **** *
32832188 CTTATCT-TCTCGAGGTAGTAGGGGAGCAAAGT-TTAGCCACTAGC
1 CTTATCTCTCT-GAGGTAGCAAGGGAGCAGACTAATA-ATTGTAGT
* *
32832232 CTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAATAAGTGTAGT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAATAATTGTAGT
*
32832276 CTTATCTTTCTGAGGTAGCAAGGGAGCAG
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAG
32832305 GCTGAAGAGT
Statistics
Matches: 148, Mismatches: 45, Indels: 26
0.68 0.21 0.12
Matches are distributed among these distances:
43 5 0.03
44 112 0.76
45 30 0.20
46 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAATAATTGTAGT
Found at i:32832338 original size:177 final size:175
Alignment explanation
Indices: 32832032--32832551 Score: 664
Period size: 177 Copynumber: 3.0 Consensus size: 175
32832022 GAGATAGCAA
*
32832032 GGGAGCAGATTTTAGCCA-TCAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGACTAATAATTGT
1 GGGAGCAGA-TTTAGCCACT-AGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAATAATTGT
* * * * *
32832096 AGTCTTATCTTCCTGAGATAGCAAGGAAACAGGCTGAAGATTGTAGATCTTATCTCCCTAAGCAG
64 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGA-TATAGATCTTATCTCCCAAAGCAG
* * *
32832161 TAGTGGAGCAGATTGAAGATGGCGAATCTTATCTTCTCGAGGTAGTAG
128 TAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAG
* *
32832209 GGGAGCAAAGTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAATAAGTGTA
1 GGGAGCAGA-TTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAATAATTGTA
* *
32832274 GTCTTATCTTTCTGAGGTAGCAAGGGAGCAGGCTGAAGAGTATAGATCTTATATCCCAAAGCAGT
65 GTCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGA-TATAGATCTTATCTCCCAAAGCAGT
* * *
32832339 AGTGGAGTAGATCGAAGATAGCGAATCTTATCTGCCCAAGGTAGTAG
129 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAG
* * * * * * * *
32832386 GGGAGCAGATTGTAGTCACCAGCCTTATTTCTTTGAGGTAGCAAGAGAGCAGGTTGAA-GATTAT
1 GGGAGCAGATT-TAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCT-AATAATTGT
* *
32832450 AGTCTTATCTTCCTAAGGTAGCAA-GG-G-A-GC---AGA-CTAGATCTTATCTCCCAAAGCAGT
64 AGTCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATATAGATCTTATCTCCCAAAGCAGT
*
32832507 AGTGGAACAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGT
129 AGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGT
32832552 TGTAACGTTC
Statistics
Matches: 304, Mismatches: 36, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
168 63 0.21
170 3 0.01
173 2 0.01
174 1 0.00
175 1 0.00
176 4 0.01
177 227 0.75
178 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (175 bp):
GGGAGCAGATTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGGGAGCAGGCTAATAATTGTAG
TCTTATCTTCCTGAGGTAGCAAGGGAGCAGGCTGAAGATATAGATCTTATCTCCCAAAGCAGTAG
TGGAGCAGATCGAAGATGGCGAATCTTATCTTCCCAAGGTAGTAG
Found at i:32834050 original size:55 final size:53
Alignment explanation
Indices: 32833907--32834107 Score: 170
Period size: 55 Copynumber: 3.7 Consensus size: 53
32833897 ATCCTTTTGA
* * * *
32833907 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
* * * *
32833960 AACTCACCGATGCCATGCCTTGGCATGGTCTTACATGGGAGCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTAT-G
* * * * **** *
32834014 TAACTTATCAATGTCATTTCTTGACATGGTCTTACATGATTTCTTTGCCTTA-G
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
* * *
32834067 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGG
1 -AA-CTCACCAA-TGCCATGTCTTGACATGGTCTTACATGG
32834108 TATCCTTAAA
Statistics
Matches: 118, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
53 47 0.40
54 8 0.07
55 63 0.53
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGAGCCTTGCCTTATG
Found at i:32838215 original size:16 final size:16
Alignment explanation
Indices: 32838196--32838226 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32838186 CTTCTTCACT
32838196 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
32838212 TACTTACTTACTTAA
1 TACTCACTTACTTAA
32838227 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:32838232 original size:20 final size:20
Alignment explanation
Indices: 32838193--32838232 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32838183 AAACTTCTTC
* *
32838193 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
32838213 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
32838233 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:32838343 original size:23 final size:24
Alignment explanation
Indices: 32838305--32838349 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
32838295 TTTGCTCTTC
*
32838305 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
32838329 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
32838350 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:32838606 original size:55 final size:53
Alignment explanation
Indices: 32838477--32838672 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 53
32838467 CTTACGATTT
*
32838477 CCATGTCTTGACATGGTCTTACATAGCATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGCATCCTTGCCTTATGAACTCACCAATG
* * * * *
32838530 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGCATCC-TTGCCTTAT-G-AACTCACCAATG
* *** *
32838585 CCATTTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAATTG
1 CCATGTCTTGACATGGTCTTACATGGCATCCTTGCCTTATG-AA-CTCACCAA-TG
* ** *
32838640 CCATGCCTTGGTATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGCATCCTT
32838673 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 36 0.31
54 8 0.07
55 69 0.59
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGCATCCTTGCCTTATGAACTCACCAATG
Found at i:32841416 original size:29 final size:29
Alignment explanation
Indices: 32841371--32841436 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
32841361 TACATGTTAT
* **
32841371 TTTATGTATACATTTT-CTTTTAAATCTA
1 TTTATATATACATTTTCCTTGCAAATCTA
*
32841399 TTTATATATATATATTTCCTTGCAAATCTA
1 TTTATATATACAT-TTTCCTTGCAAATCTA
32841429 -TTATATAT
1 TTTATATAT
32841437 TCTTAAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 11 0.34
29 11 0.34
30 10 0.31
ACGTcount: A:0.32, C:0.11, G:0.03, T:0.55
Consensus pattern (29 bp):
TTTATATATACATTTTCCTTGCAAATCTA
Found at i:32841478 original size:19 final size:19
Alignment explanation
Indices: 32841454--32841493 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
32841444 AACTCTTTCA
32841454 TATATATTTTTGTTATTAT
1 TATATATTTTTGTTATTAT
32841473 TATATATTTTTGTTATTAT
1 TATATATTTTTGTTATTAT
32841492 TA
1 TA
32841494 ACTCTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TATATATTTTTGTTATTAT
Found at i:32845306 original size:43 final size:43
Alignment explanation
Indices: 32845259--32845424 Score: 185
Period size: 43 Copynumber: 3.9 Consensus size: 43
32845249 GTTACCGAGA
* * * *
32845259 TGTGATTACATGTAGGACCATGTCTAGGAAATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
32845302 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGCTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-TAT
* * * * *
32845346 T-CGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
* *
32845387 ATGTGATAACATGTAAGACCATGTCTGGGATA-TGGCAT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT
32845425 TGTACGAGCT
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
41 2 0.02
42 7 0.07
43 92 0.88
44 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.31
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:32850236 original size:20 final size:20
Alignment explanation
Indices: 32850211--32850266 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 20
32850201 AAAATCCTAA
32850211 GAAATATAAAAAATTATGAT
1 GAAATATAAAAAATTATGAT
* *
32850231 AGAATACAAAAAAATATTATGAT
1 -GAA-ATATAAAAA-ATTATGAT
32850254 GAAATATAAAAAA
1 GAAATATAAAAAA
32850267 AATTGAAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.03
21 10 0.34
22 10 0.34
23 8 0.28
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (20 bp):
GAAATATAAAAAATTATGAT
Found at i:32850249 original size:23 final size:22
Alignment explanation
Indices: 32850218--32850270 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
32850208 TAAGAAATAT
32850218 AAAAAATTATGAT-AGAATACAA
1 AAAAAATTATGATGA-AATACAA
*
32850240 AAAAATATTATGATGAAATATAA
1 AAAAA-ATTATGATGAAATACAA
32850263 AAAAAATT
1 AAAAAATT
32850271 GAAGTAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.29
23 19 0.68
24 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (22 bp):
AAAAAATTATGATGAAATACAA
Found at i:32850956 original size:3 final size:3
Alignment explanation
Indices: 32850948--32850987 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
32850938 TCTTGTACTC
32850948 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
32850988 ACATTTAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:32854958 original size:15 final size:15
Alignment explanation
Indices: 32854938--32854979 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
32854928 TAAAAAAAGG
32854938 AATTTTTTATCAAGA
1 AATTTTTTATCAAGA
* *
32854953 AATTTTTAAT-AATA
1 AATTTTTTATCAAGA
*
32854967 TATTTTTTATCAA
1 AATTTTTTATCAA
32854980 TATGATTACG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (15 bp):
AATTTTTTATCAAGA
Found at i:32854981 original size:15 final size:15
Alignment explanation
Indices: 32854939--32854982 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
32854929 AAAAAAAGGA
* *
32854939 ATTTTTTATCAAGAA
1 ATTTTTTATCAATAT
*
32854954 ATTTTTAAT-AATAT
1 ATTTTTTATCAATAT
32854968 ATTTTTTATCAATAT
1 ATTTTTTATCAATAT
32854983 GATTACGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATCAATAT
Found at i:32867903 original size:51 final size:51
Alignment explanation
Indices: 32867838--32867939 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
32867828 ACTATAAATT
* * * *
32867838 GTTGGTGTGGAATTATAGGTTGAATAAAATATTTAATCAAAGCTTAATTAG
1 GTTGGTGTGAAATTATAGGCTGAATAAAATATGTAATCAAAGATTAATTAG
32867889 GTTGGTGTGAAATTATAGGCTGAATAAAATATGTAATCAAAGATTAATTAG
1 GTTGGTGTGAAATTATAGGCTGAATAAAATATGTAATCAAAGATTAATTAG
32867940 TCTAGTTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (51 bp):
GTTGGTGTGAAATTATAGGCTGAATAAAATATGTAATCAAAGATTAATTAG
Found at i:32868530 original size:48 final size:48
Alignment explanation
Indices: 32868465--32868571 Score: 180
Period size: 48 Copynumber: 2.2 Consensus size: 48
32868455 GCTGAAATTG
32868465 ATGTAT-AGGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGA-GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
32868513 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
32868561 ATGTAGGAGAT
1 ATGTATGAGAT
32868572 GTGTGTATAT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
48 55 0.98
49 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:32868767 original size:37 final size:37
Alignment explanation
Indices: 32868712--32868814 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
32868702 GGAAATATAT
32868712 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
32868749 TCCGGGTAAGACCTGATGACTATGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
32868786 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
32868815 GGACTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:32870650 original size:41 final size:41
Alignment explanation
Indices: 32870550--32870752 Score: 198
Period size: 41 Copynumber: 5.0 Consensus size: 41
32870540 AACAAATTAG
* * * * *
32870550 CTATATGTGGCACTTAGTGTGC--GATTCAACATAGCTTTGG
1 CTATATATGGCACTTAGTGTGCAAGATT-GAGATAGCTTCGA
* * * *
32870590 CTATATATATGGCATTTAGTGTGCAAGATAGAGATAGTTTCGG
1 C--TATATATGGCACTTAGTGTGCAAGATTGAGATAGCTTCGA
**
32870633 CTATATATGGCACTTAGTGTGTGAGATTGAGATAGCTTCGA
1 CTATATATGGCACTTAGTGTGCAAGATTGAGATAGCTTCGA
* * * *
32870674 CCATATATGGAACTTAGTGTGCAAGATTGATATAACTTCGA
1 CTATATATGGCACTTAGTGTGCAAGATTGAGATAGCTTCGA
*
32870715 CTATATATGGCACTTAGTGTGC--GATTTAAGATAGCTTC
1 CTATATATGGCACTTAGTGTGCAAGA-TTGAGATAGCTTC
32870753 AGCAATGAAC
Statistics
Matches: 134, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.01
40 11 0.08
41 89 0.66
42 19 0.14
43 10 0.07
44 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (41 bp):
CTATATATGGCACTTAGTGTGCAAGATTGAGATAGCTTCGA
Found at i:32870699 original size:82 final size:81
Alignment explanation
Indices: 32870550--32870752 Score: 228
Period size: 82 Copynumber: 2.5 Consensus size: 81
32870540 AACAAATTAG
* * * * * * *
32870550 CTATATGTGGCACTTAGTGTGCG-ATTCAACATAGCTTTGGCTATATATATGGCATTTAGTGTGC
1 CTATATATGGCACTTAGTGTGCGAATT-AAGATAGCTTCGAC--CATATATGGAACTTAGTGTGC
** *
32870614 AAGATAGAGATAGTTTCGG
63 AAGATAGAGATAACTTCGA
* *
32870633 CTATATATGGCACTTAGTGTGTGAGATTGAGATAGCTTCGACCATATATGGAACTTAGTGTGCAA
1 CTATATATGGCACTTAGTGTGCGA-ATTAAGATAGCTTCGACCATATATGGAACTTAGTGTGCAA
* *
32870698 GATTGATATAACTTCGA
65 GATAGAGATAACTTCGA
*
32870715 CTATATATGGCACTTAGTGTGCGATTTAAGATAGCTTC
1 CTATATATGGCACTTAGTGTGCGAATTAAGATAGCTTC
32870753 AGCAATGAAC
Statistics
Matches: 101, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
81 12 0.12
82 55 0.54
83 21 0.21
84 10 0.10
85 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (81 bp):
CTATATATGGCACTTAGTGTGCGAATTAAGATAGCTTCGACCATATATGGAACTTAGTGTGCAAG
ATAGAGATAACTTCGA
Found at i:32874584 original size:45 final size:46
Alignment explanation
Indices: 32874485--32874608 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 46
32874475 ATCTATGCCA
* * *
32874485 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCTTAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAAAACATCTCTTAATCG
32874531 ATG-CATGTCCCAGACAT-GTCTTACACTAAAAC-TCATCTTAATTATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAAAACATC-TCTT-A--AT--CG
* *
32874580 ATGTCATGTCCTAGACATGGTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
32874609 GGCTCTGATA
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 2 0.03
44 17 0.26
45 15 0.23
46 3 0.05
47 1 0.02
49 5 0.08
50 13 0.20
51 10 0.15
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAAAACATCTCTTAATCG
Found at i:32874602 original size:95 final size:96
Alignment explanation
Indices: 32874478--32874655 Score: 243
Period size: 95 Copynumber: 1.9 Consensus size: 96
32874468 CTAGTATATC
* * *
32874478 TATGCCAATGCCATGTCCCAGACATGGTCTTACACTGACAC-AT-CTCTTAGTCGATGCATGTCC
1 TATGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACGATAAT-GTAGCCGATGCATGTCC
32874541 CAGACATGTCTTACACTAAAACTCATCTTAAT
65 CAGACATGTCTTACACTAAAACTCATCTTAAT
* * * * * *
32874573 TATGCCGATGTCATGTCCTAGACATGGTCTTACACTGGCTCTGATAATGTGGCCGATGCATGTCC
1 TATGCCAATGCCATGTCCCAGACATGGTCTTACACTGACAC-GATAATGTAGCCGATGCATGTCC
32874638 CAGACATGTCTTACACTA
65 CAGACATGTCTTACACTA
32874656 GCTCACAATA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
95 36 0.51
97 34 0.48
98 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (96 bp):
TATGCCAATGCCATGTCCCAGACATGGTCTTACACTGACACGATAATGTAGCCGATGCATGTCCC
AGACATGTCTTACACTAAAACTCATCTTAAT
Found at i:32880948 original size:21 final size:21
Alignment explanation
Indices: 32880924--32880973 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
32880914 AACAGGGTAT
32880924 ACGCCCGTGTAGAGGGGCAAC
1 ACGCCCGTGTAGAGGGGCAAC
*
32880945 ACGCCTGTGTAGAGGGGCAAC
1 ACGCCCGTGTAGAGGGGCAAC
32880966 ACGCCCGT
1 ACGCCCGT
32880974 ATGGCCATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.36, T:0.12
Consensus pattern (21 bp):
ACGCCCGTGTAGAGGGGCAAC
Found at i:32882196 original size:46 final size:47
Alignment explanation
Indices: 32882109--32882327 Score: 188
Period size: 46 Copynumber: 4.7 Consensus size: 47
32882099 ATATCTATAT
* * **
32882109 CGATGCCATGCCCCAGACATGGTCTTACACTAAC--ACATCTCGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTATGTCTCGTAGGC
* *
32882155 TGATGCATGTCCCAGACATGTCTTATACTAGCTTATGTCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGTAGGC
* * *
32882201 CGATGCATGTCCTAGACATGTCTTACACTAGC--ACTCGTCTC-AATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTA-T-GTCTCGTAGGC
* **
32882247 CGATGTCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-AAT-GT-GGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-T-ATGTCTCGTAGGC
32882295 CGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
32882328 CACAATAACC
Statistics
Matches: 143, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
44 12 0.08
45 15 0.10
46 67 0.47
47 27 0.19
48 19 0.13
49 1 0.01
51 1 0.01
52 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTATGTCTCGTAGGC
Found at i:32884671 original size:13 final size:13
Alignment explanation
Indices: 32884653--32884678 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32884643 TCAATTATTG
32884653 CAATTGCGAACTA
1 CAATTGCGAACTA
32884666 CAATTGCGAACTA
1 CAATTGCGAACTA
32884679 ATAATATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (13 bp):
CAATTGCGAACTA
Found at i:32889093 original size:29 final size:29
Alignment explanation
Indices: 32889051--32889110 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
32889041 TACACCACAC
* * *
32889051 CAAGTTGCTCATCCGAGCTAAATATATAT
1 CAAGTTACCCATCCGAGCTAAACATATAT
* *
32889080 CAAGTTACCCATCCTAGCTAAACCTATAT
1 CAAGTTACCCATCCGAGCTAAACATATAT
32889109 CA
1 CA
32889111 CGACACATCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (29 bp):
CAAGTTACCCATCCGAGCTAAACATATAT
Found at i:32893160 original size:47 final size:47
Alignment explanation
Indices: 32893094--32893285 Score: 294
Period size: 47 Copynumber: 4.1 Consensus size: 47
32893084 GAAATGATAG
*
32893094 TAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32893141 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
32893188 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
32893235 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
32893282 TAAG
1 TAAG
32893286 TCCCGAAGGG
Statistics
Matches: 132, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:32893460 original size:37 final size:37
Alignment explanation
Indices: 32893404--32893482 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
32893394 CCGAGCTCTA
* * *
32893404 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
32893441 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
32893478 AAGAC
1 AAGAC
32893483 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:32895544 original size:54 final size:54
Alignment explanation
Indices: 32895486--32895604 Score: 130
Period size: 54 Copynumber: 2.2 Consensus size: 54
32895476 TCCTCACCCA
* ** * * * * * *
32895486 TGTAACTCACTGAGTTGCCCCACATGCCTGTGTTCCAGGTCGTGTACTAGGCCG
1 TGTAACTCACTGAGCTGCAACACACGCCCGTGTACCAAGCCGTATACTAGGCCG
* * *
32895540 TGTAACTCTCTGAGCTGCAAGACACGCCCGTGTACCAAGCCGTATGCTAGGCCG
1 TGTAACTCACTGAGCTGCAACACACGCCCGTGTACCAAGCCGTATACTAGGCCG
32895594 TGTAACTCACT
1 TGTAACTCACT
32895605 AACTTGAAAC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.25
Consensus pattern (54 bp):
TGTAACTCACTGAGCTGCAACACACGCCCGTGTACCAAGCCGTATACTAGGCCG
Found at i:32902452 original size:20 final size:20
Alignment explanation
Indices: 32902427--32902466 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
32902417 GTTGGGCCTT
*
32902427 GCCCATATTAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
32902447 GCCCATCTCAATACAGTTGG
1 GCCCATATCAACACAGTTGG
32902467 CCTATAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:32903961 original size:13 final size:13
Alignment explanation
Indices: 32903925--32903971 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
32903915 GTTTCGGCTG
*
32903925 GAGAAGAAAAAAA
1 GAGAAGAAGAAAA
*
32903938 GGAGAAAAAGAAAA
1 -GAGAAGAAGAAAA
*
32903952 TAGAAGAAGAAAA
1 GAGAAGAAGAAAA
32903965 GAGAAGA
1 GAGAAGA
32903972 GAAGGAAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (13 bp):
GAGAAGAAGAAAA
Found at i:32903966 original size:18 final size:19
Alignment explanation
Indices: 32903943--32903981 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
32903933 AAAAAGGAGA
*
32903943 AAAAGAAAATAGAA-GAAG
1 AAAAGAAAAGAGAAGGAAG
*
32903961 AAAAGAGAAGAGAAGGAAG
1 AAAAGAAAAGAGAAGGAAG
32903980 AA
1 AA
32903982 TTCGGCACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (19 bp):
AAAAGAAAAGAGAAGGAAG
Found at i:32906549 original size:19 final size:20
Alignment explanation
Indices: 32906507--32906550 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
32906497 CTATATTAAC
** *
32906507 ACAGTTGGGCCCATCTCAAT
1 ACAGTTGGGCCCATAACAAG
32906527 ACAGTT-GGCCCATAACAAG
1 ACAGTTGGGCCCATAACAAG
32906546 ACAGT
1 ACAGT
32906551 CTCATATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAG
Found at i:32908048 original size:25 final size:23
Alignment explanation
Indices: 32907993--32908048 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
32907983 TTTCAGCTAG
32907993 AGAAGAAAAGAAGGAGAAAAAGA
1 AGAAGAAAAGAAGGAGAAAAAGA
*
32908016 AAATAGAAGAAGAGAGGAG-AAAAGA
1 AGA-AGAA-AAGA-AGGAGAAAAAGA
32908041 AGGAAGAA
1 A-GAAGAA
32908049 TTCAGCACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
24 4 0.15
25 15 0.56
26 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (23 bp):
AGAAGAAAAGAAGGAGAAAAAGA
Found at i:32910805 original size:14 final size:15
Alignment explanation
Indices: 32910786--32910815 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32910776 TCATATAAAT
32910786 TCAATA-AAATTCAA
1 TCAATATAAATTCAA
32910800 TCAATATAAATTCAA
1 TCAATATAAATTCAA
32910815 T
1 T
32910816 AAATTCATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (15 bp):
TCAATATAAATTCAA
Found at i:32923731 original size:6 final size:6
Alignment explanation
Indices: 32923720--32923746 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
32923710 TAAAACATAG
32923720 TAATTA TAATTA TAATTA TAATTA TAA
1 TAATTA TAATTA TAATTA TAATTA TAA
32923747 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:32926181 original size:20 final size:19
Alignment explanation
Indices: 32926136--32926193 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
32926126 TTTTAAATAA
* *
32926136 ATAAAATTTAAAATCTTA-
1 ATAAATTTTAAAATTTTAG
32926154 AGTAAATTTTAAAATATTTAG
1 A-TAAATTTTAAAAT-TTTAG
32926175 ATAAATTTTGAAAATTTTA
1 ATAAATTTT-AAAATTTTA
32926194 TGTAAGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 12 0.35
20 15 0.44
21 6 0.18
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (19 bp):
ATAAATTTTAAAATTTTAG
Found at i:32927240 original size:28 final size:28
Alignment explanation
Indices: 32927191--32927255 Score: 80
Period size: 28 Copynumber: 2.3 Consensus size: 28
32927181 AGTTTATGGG
32927191 TAAGGTTTTTGGAAAAAAAA-TTAGGGTT
1 TAAGGTTTTTGGAAAAAAAATTTA-GGTT
* *
32927219 TAAGATTTTT-GAAAAATGAATTTAGGTT
1 TAAGGTTTTTGGAAAAA-AAATTTAGGTT
32927247 TAAGGTTTT
1 TAAGGTTTT
32927256 AAGGGTTAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 6 0.19
28 23 0.72
29 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.42
Consensus pattern (28 bp):
TAAGGTTTTTGGAAAAAAAATTTAGGTT
Found at i:32927326 original size:79 final size:76
Alignment explanation
Indices: 32927194--32927340 Score: 179
Period size: 79 Copynumber: 1.9 Consensus size: 76
32927184 TTATGGGTAA
* * * * *
32927194 GGTTTTTGGAAAAAAAATTAGGGTTTAAGATTTTTGAAAAATGAATTTAGGTTTA-AGGTTTTAA
1 GGTTTTTGAAAAAAAAATTAAGGTTTAAGATTTTTAAAAAATAAATATAGGTTTAGA-GTTTT-A
32927258 GGGTTAGGGTTAG
64 GGGTTAGGGTTAG
* * *
32927271 GGTTTTTGAAAAAAATAAATTAAGGTTTATGGTTTTTAAAAAATAAATATGGGTTTAGAGTTTTA
1 GGTTTTTG-AAAAAA-AAATTAAGGTTTAAGATTTTTAAAAAATAAATATAGGTTTAGAGTTTTA
32927336 GGGTT
64 GGGTT
32927341 TTTTAATAGG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
77 8 0.14
78 11 0.19
79 39 0.66
80 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.40
Consensus pattern (76 bp):
GGTTTTTGAAAAAAAAATTAAGGTTTAAGATTTTTAAAAAATAAATATAGGTTTAGAGTTTTAGG
GTTAGGGTTAG
Found at i:32928522 original size:20 final size:21
Alignment explanation
Indices: 32928499--32928538 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32928489 ATACATGAGT
32928499 ATTTTG-ATGTTTAATGATAC
1 ATTTTGAATGTTTAATGATAC
*
32928519 ATTTTGAATGTTTGATGATA
1 ATTTTGAATGTTTAATGATA
32928539 GTCATGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (21 bp):
ATTTTGAATGTTTAATGATAC
Found at i:32935385 original size:488 final size:488
Alignment explanation
Indices: 32934469--32935925 Score: 2738
Period size: 488 Copynumber: 3.0 Consensus size: 488
32934459 GAGTTCCAGA
*
32934469 AGAAATATATAAGTCAGTAG-TTCATTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGG
1 AGAAATATATAAGTCAGCAGTTTC-TTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGG
*
32934533 CCGTATGACGGTGACCGAGTATGAAAGAGAATTTGTACGATTGATTAAGTATGCTCAGGAATATA
65 CCGTATGACGGTGACCGAGTATGAAAGAGAATTTGTACGGTTGATTAAGTATGCTCAGGAATATA
32934598 TTTCTACCGAAA-AAATCATGTGCAAACAATTTGTTGATGGGTTGAATGAGGATATTAAACTTCT
130 TTTCTACC-AAAGAAATCATGTGCAAACAATTTGTTGATGGGTTGAATGAGGATATTAAACTTCT
*
32934662 AGTCAGAATTCTAAAATTGAAAGAATTTGTTGTCCTGGTCGACAGAGCTTGCAAAGCCAATGAGC
194 AGTCAGAATTCTAGAATTGAAAGAATTTGTTGTCCTGGTCGACAGAGCTTGCAAAGCCAATGAGC
32934727 TTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTATAGACTCGAGAAAAAGACCAATGAATAAG
259 TTAGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTATAGACTCGAGAAAAAGACCAATGAATAAG
* *
32934792 CCATATCAATCTCCGTCAAAGAAATTCAAAGATTTGTTCACTCATCCAAATGTTTCAATCCGGCA
324 CCATATCAATCTCCATTAAAGAAATTCAAAGATTTGTTCACTCATCCAAATGTTTCAATCCGGCA
32934857 TTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCCTAAAGCTCAAGCTACATTGGTATCGAGTG
389 TTCGAGCAGAGATCGTGGAAAATAATTTTCAAGTCCTAAAGCTCAAGCTACATTGGTATCGAGTG
*
32934922 CTGACAGTGTGAGAAACTATAGACCTGATAGTGTG
454 CTGACAGTGTGAGAAACTATAGACCTGACAGTGTG
*
32934957 AGAAATATATAAGTCAGCAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGT
1 AGAAATATATAAGTCAGCAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGC
32935022 CGTATGACGGTGACCGAGTATGAAAGAGAATTTGTACGGTTGATTAAGTATGCTCAGGAATATAT
66 CGTATGACGGTGACCGAGTATGAAAGAGAATTTGTACGGTTGATTAAGTATGCTCAGGAATATAT
*
32935087 TTCTACCAAAGAAATCATGTGCAAACAATTTTTTGATGGGTTGAATGAGGATATTAAACTTCTAG
131 TTCTACCAAAGAAATCATGTGCAAACAATTTGTTGATGGGTTGAATGAGGATATTAAACTTCTAG
32935152 TCAGAATTCTAGAATTGAAAGAATTTGTTGTCCTGGTCGACAGAGCTTGCAAAGCCAATGAGCTT
196 TCAGAATTCTAGAATTGAAAGAATTTGTTGTCCTGGTCGACAGAGCTTGCAAAGCCAATGAGCTT
32935217 AGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTATAGACTCGAGAAAAAGACCAATGAATAAGCC
261 AGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTATAGACTCGAGAAAAAGACCAATGAATAAGCC
32935282 ATATCAATCTCCATTAAAGAAATTCAAAGATTTGTTCACTCATCCAAATGTTTCAATCCGGCATT
326 ATATCAATCTCCATTAAAGAAATTCAAAGATTTGTTCACTCATCCAAATGTTTCAATCCGGCATT
32935347 CGAGCAGAGATCGTGGAAAATAATTTTCAAGTCCTAAAGCTCAAGCTACATTGGTATCGAGTGCT
391 CGAGCAGAGATCGTGGAAAATAATTTTCAAGTCCTAAAGCTCAAGCTACATTGGTATCGAGTGCT
32935412 GACAGTGTGAGAAACTATAGACCTGACAGTGTG
456 GACAGTGTGAGAAACTATAGACCTGACAGTGTG
32935445 AGAAATATATAAGTCAGCAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGC
1 AGAAATATATAAGTCAGCAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGC
*
32935510 CGTATGACGGTGACCGAGTATGAAAAAGAATTTGTACGGTTGATTAAGTATGCTCAGGAATATAT
66 CGTATGACGGTGACCGAGTATGAAAGAGAATTTGTACGGTTGATTAAGTATGCTCAGGAATATAT
**
32935575 TTCTACTGAAGAAATCATGTGCAAACAATTTGTTGATGGGTTGAATGAGGATATTAAACTTCTAG
131 TTCTACCAAAGAAATCATGTGCAAACAATTTGTTGATGGGTTGAATGAGGATATTAAACTTCTAG
32935640 TCAGAATTCTAGAATTGAAAGAATTTGTTGTCCTGGTCGACAGAGCTTGCAAAGCCAATGAGCTT
196 TCAGAATTCTAGAATTGAAAGAATTTGTTGTCCTGGTCGACAGAGCTTGCAAAGCCAATGAGCTT
** *
32935705 AGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTGGAGACTCGAGAAAAAGATCAATGAATAAGCC
261 AGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTATAGACTCGAGAAAAAGACCAATGAATAAGCC
*
32935770 ATATCAATCTCCATTAAAGAAATTCAAAGATTTGTTCACTCATCCAAATGTTTCAATCGGGCATT
326 ATATCAATCTCCATTAAAGAAATTCAAAGATTTGTTCACTCATCCAAATGTTTCAATCCGGCATT
*
32935835 CGAGTAGAGATCGTGGAAAATAATTTTCAAGTCCTAAAGCTCAAGCTACATTGGTATCGAGTGCT
391 CGAGCAGAGATCGTGGAAAATAATTTTCAAGTCCTAAAGCTCAAGCTACATTGGTATCGAGTGCT
32935900 GACAGTGTGAGAAACTATAGACCTGA
456 GACAGTGTGAGAAACTATAGACCTGA
32935926 ATGTTAACAA
Statistics
Matches: 949, Mismatches: 18, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
487 3 0.00
488 943 0.99
489 3 0.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (488 bp):
AGAAATATATAAGTCAGCAGTTTCTTGATCAAAAGCACAAAGAGTTTCTAGAATTGAAACAGGGC
CGTATGACGGTGACCGAGTATGAAAGAGAATTTGTACGGTTGATTAAGTATGCTCAGGAATATAT
TTCTACCAAAGAAATCATGTGCAAACAATTTGTTGATGGGTTGAATGAGGATATTAAACTTCTAG
TCAGAATTCTAGAATTGAAAGAATTTGTTGTCCTGGTCGACAGAGCTTGCAAAGCCAATGAGCTT
AGTAAAGAAAAGAGAAAAGCACATTCAGAGGCTATAGACTCGAGAAAAAGACCAATGAATAAGCC
ATATCAATCTCCATTAAAGAAATTCAAAGATTTGTTCACTCATCCAAATGTTTCAATCCGGCATT
CGAGCAGAGATCGTGGAAAATAATTTTCAAGTCCTAAAGCTCAAGCTACATTGGTATCGAGTGCT
GACAGTGTGAGAAACTATAGACCTGACAGTGTG
Found at i:32940154 original size:20 final size:21
Alignment explanation
Indices: 32940131--32940170 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32940121 ATACATGAGT
32940131 ATTTTG-ATGTTTAATGATAC
1 ATTTTGAATGTTTAATGATAC
*
32940151 ATTTTGAATGTTTGATGATA
1 ATTTTGAATGTTTAATGATA
32940171 GTCATACAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (21 bp):
ATTTTGAATGTTTAATGATAC
Found at i:32941997 original size:38 final size:38
Alignment explanation
Indices: 32941946--32942022 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
32941936 GTGTTAAATT
32941946 TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
1 TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
*
32941984 TGAAACCTAGTCAGTATGTTTCACATGGGCGTGTGACC
1 TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
32942022 T
1 T
32942023 AGCCGCGTGG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.29
Consensus pattern (38 bp):
TGAAACCAAGTCAGTATGTTTCACATGGGCGTGTGACC
Found at i:32943513 original size:37 final size:37
Alignment explanation
Indices: 32943463--32943539 Score: 154
Period size: 37 Copynumber: 2.1 Consensus size: 37
32943453 TATATACGGG
32943463 TTAGCTTCTTTGCTTAGGTTCTTCAATTATCTTCTGA
1 TTAGCTTCTTTGCTTAGGTTCTTCAATTATCTTCTGA
32943500 TTAGCTTCTTTGCTTAGGTTCTTCAATTATCTTCTGA
1 TTAGCTTCTTTGCTTAGGTTCTTCAATTATCTTCTGA
32943537 TTA
1 TTA
32943540 TGTATTTTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.17, C:0.18, G:0.13, T:0.52
Consensus pattern (37 bp):
TTAGCTTCTTTGCTTAGGTTCTTCAATTATCTTCTGA
Found at i:32944177 original size:18 final size:18
Alignment explanation
Indices: 32944154--32944190 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32944144 TATAGTTTGA
*
32944154 TATTCAATTTATTCGAAT
1 TATTCAAGTTATTCGAAT
32944172 TATTCAAGTTATTCGAAT
1 TATTCAAGTTATTCGAAT
32944190 T
1 T
32944191 CGAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (18 bp):
TATTCAAGTTATTCGAAT
Found at i:32945346 original size:34 final size:34
Alignment explanation
Indices: 32945308--32945382 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
32945298 GTTAATAAAA
* * *
32945308 TTATATTTGTATTAA-AAATAATTATTTAAATT-TT
1 TTATATTTG-ATTAATAAA-AAATATTAAAATTAAT
*
32945342 TTATAATTGATTAATAAAAAATATTAAAATTAAT
1 TTATATTTGATTAATAAAAAATATTAAAATTAAT
32945376 TTATATT
1 TTATATT
32945383 AAACAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (34 bp):
TTATATTTGATTAATAAAAAATATTAAAATTAAT
Found at i:32945355 original size:33 final size:34
Alignment explanation
Indices: 32945308--32945372 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
32945298 GTTAATAAAA
* * *
32945308 TTATATTTGTATTAA-AAATAATTATTTAAATTTT
1 TTATAATTGTATTAATAAA-AAATATTAAAATTTT
32945342 TTATAATTG-ATTAATAAAAAATATTAAAATT
1 TTATAATTGTATTAATAAAAAATATTAAAATT
32945373 AATTTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 16 0.59
34 11 0.41
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (34 bp):
TTATAATTGTATTAATAAAAAATATTAAAATTTT
Found at i:32950918 original size:28 final size:28
Alignment explanation
Indices: 32950886--32950942 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
32950876 AATTCGAATC
32950886 AAATACAAAACTAAAAATTATTAACTTT
1 AAATACAAAACTAAAAATTATTAACTTT
32950914 AAATACAAAACTAAAAATTATTAACTTT
1 AAATACAAAACTAAAAATTATTAACTTT
32950942 A
1 A
32950943 CTTCCAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (28 bp):
AAATACAAAACTAAAAATTATTAACTTT
Found at i:32953516 original size:16 final size:16
Alignment explanation
Indices: 32953468--32953521 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
32953458 ATTTATTATT
32953468 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
32953483 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
32953498 TATTATAAGATATTTA
1 TATAATAAGATATTTA
32953514 TATAATAA
1 TATAATAA
32953522 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:32953735 original size:9 final size:9
Alignment explanation
Indices: 32953721--32953748 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
32953711 GGTAAGAATG
32953721 AAAGAAAGA
1 AAAGAAAGA
32953730 AAAGAAAGA
1 AAAGAAAGA
32953739 AAAGAAAGA
1 AAAGAAAGA
32953748 A
1 A
32953749 GAAAGGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (9 bp):
AAAGAAAGA
Found at i:32961759 original size:23 final size:23
Alignment explanation
Indices: 32961677--32961763 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
32961667 CCTGATCAGT
*
32961677 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
32961699 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
32961719 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
* *
32961742 ATATGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
32961764 TCGATAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.63
22 1 0.02
23 18 0.33
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:32962162 original size:15 final size:15
Alignment explanation
Indices: 32962136--32962192 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
32962126 CATATATATT
32962136 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
32962150 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
32962165 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
32962180 ATATAAATTCAAT
1 ATATAATTTCAAT
32962193 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:32963471 original size:5 final size:5
Alignment explanation
Indices: 32963463--32963524 Score: 124
Period size: 5 Copynumber: 12.4 Consensus size: 5
32963453 TCTTTAGTTT
32963463 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
32963513 ATATA ATATA AT
1 ATATA ATATA AT
32963525 TAAAACATAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 57 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:32967773 original size:35 final size:35
Alignment explanation
Indices: 32967733--32967885 Score: 135
Period size: 35 Copynumber: 4.4 Consensus size: 35
32967723 GTATGTACAT
*
32967733 ATGTGATGATATATTGAACTTGTATATTTGGCCAC
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
* * ** * *
32967768 ATGTGATGTTATATTAAACTAAAATATTTGACTAC
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
* * * * * * *
32967803 CTGTGATGTTTTATTGAGCTTGAATATTCGGTCAT
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
* * * * *
32967838 ATATGATGATAAATTGTACTTGTATATTTGGCCAT
1 ATGTGATGATATATTGAACTTGAATATTTGGCCAC
32967873 ATGTGATGATATA
1 ATGTGATGATATA
32967886 ATAAACCTTG
Statistics
Matches: 88, Mismatches: 30, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
35 88 1.00
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (35 bp):
ATGTGATGATATATTGAACTTGAATATTTGGCCAC
Found at i:32976998 original size:11 final size:12
Alignment explanation
Indices: 32976982--32977059 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 12
32976972 TAATAGATTT
32976982 TATTAAT-TTAA
1 TATTAATATTAA
32976993 TATTAAAGTGATT-A
1 TATT-AA-T-ATTAA
*
32977007 TCTTAATATTAA
1 TATTAATATTAA
32977019 -ATTTAAT-TTAA
1 TA-TTAATATTAA
32977030 TATTTAAATATT-A
1 TA-TT-AATATTAA
32977043 TATTAAT-TTAA
1 TATTAATATTAA
32977054 TATTAA
1 TATTAA
32977060 AATGATTAAG
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
10 2 0.04
11 21 0.38
12 15 0.27
13 9 0.16
14 6 0.11
15 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (12 bp):
TATTAATATTAA
Found at i:32977017 original size:67 final size:61
Alignment explanation
Indices: 32976942--32977067 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 61
32976932 TTTTAATAGT
* * *
32976942 TTAATATTAAATTTAACTTAATAGTTATCTTAATAGATTTTATTAATTTAATATTAAAGTGATTA
1 TTAATATTAAATTTAA-TT--TA-ATAT-TTAA-AGATTATATTAATTTAATATTAAAATGATTA
32977007 TC
60 TC
*
32977009 TTAATATTAAATTTAATTTAATATTTAAATATTATATTAATTTAATATTAAAATGATTA
1 TTAATATTAAATTTAATTTAATATTTAAAGATTATATTAATTTAATATTAAAATGATTA
32977068 AGTTTAATCA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
61 28 0.51
62 4 0.07
63 3 0.05
64 2 0.04
66 2 0.04
67 16 0.29
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (61 bp):
TTAATATTAAATTTAATTTAATATTTAAAGATTATATTAATTTAATATTAAAATGATTATC
Found at i:32977048 original size:24 final size:25
Alignment explanation
Indices: 32977011--32977075 Score: 87
Period size: 24 Copynumber: 2.6 Consensus size: 25
32977001 TGATTATCTT
*
32977011 AATATTAAATTTAATTTAATATTTA
1 AATATTAAATTTAATTTAATATTAA
*
32977036 AATATTATA-TTAATTTAATATTAA
1 AATATTAAATTTAATTTAATATTAA
*
32977060 AATGATTAAGTTTAAT
1 AAT-ATTAAATTTAAT
32977076 CATAGTTGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 17 0.50
25 12 0.35
26 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (25 bp):
AATATTAAATTTAATTTAATATTAA
Found at i:32977053 original size:5 final size:6
Alignment explanation
Indices: 32976982--32977059 Score: 51
Period size: 5 Copynumber: 13.0 Consensus size: 6
32976972 TAATAGATTT
*
32976982 TATTAA T-TTAA TATTAAA GTGATT-A TCTTAA TATTAA -ATTTAA T-TTAA
1 TATTAA TATTAA TATT-AA -T-ATTAA TATTAA TATTAA TA-TTAA TATTAA
32977030 TATTTAAA TATT-A TATTAA T-TTAA TATTAA
1 TA-TT-AA TATTAA TATTAA TATTAA TATTAA
32977060 AATGATTAAG
Statistics
Matches: 58, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
5 23 0.40
6 20 0.34
7 7 0.12
8 5 0.09
9 3 0.05
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (6 bp):
TATTAA
Found at i:32989253 original size:20 final size:21
Alignment explanation
Indices: 32989228--32989284 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
32989218 CCTAAATTTA
*
32989228 AACCT-AAACCTTGAATTCTG
1 AACCTAAAACCTTAAATTCTG
32989248 AACCTAAAACCTTAAATTCT-
1 AACCTAAAACCTTAAATTCTG
* * *
32989268 AAACTCAAACCCTAAAT
1 AACCTAAAACCTTAAAT
32989285 CTCGAGATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.44, C:0.26, G:0.04, T:0.26
Consensus pattern (21 bp):
AACCTAAAACCTTAAATTCTG
Found at i:32989259 original size:21 final size:20
Alignment explanation
Indices: 32989211--32989267 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
32989201 AACTTGTAAC
*
32989211 CCTAAATCC-TAAATT-TAAA
1 CCTAAA-CCTTAAATTCTGAA
*
32989230 CCTAAACCTTGAATTCTGAA
1 CCTAAACCTTAAATTCTGAA
32989250 CCTAAAACCTTAAATTCT
1 CCT-AAACCTTAAATTCT
32989268 AAACTCAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 2 0.06
19 11 0.34
20 6 0.19
21 13 0.41
ACGTcount: A:0.40, C:0.25, G:0.04, T:0.32
Consensus pattern (20 bp):
CCTAAACCTTAAATTCTGAA
Found at i:33000174 original size:19 final size:18
Alignment explanation
Indices: 33000133--33000177 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
33000123 ATGTATTTAT
33000133 ATAATTT-ATTTTAATAA
1 ATAATTTAATTTTAATAA
*
33000150 AAAATTTAATTTTATATAA
1 ATAATTTAATTTTA-ATAA
*
33000169 TTAATTTAA
1 ATAATTTAA
33000178 GTAATCATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 6 0.26
18 6 0.26
19 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAATTTAATTTTAATAA
Found at i:33000332 original size:23 final size:21
Alignment explanation
Indices: 33000274--33000332 Score: 50
Period size: 23 Copynumber: 2.7 Consensus size: 21
33000264 ATGCAATAAA
33000274 TAATAATATTATTT-CGAATTC
1 TAATAATATT-TTTGCGAATTC
*
33000295 TAA-AATAAGTATTTGCGTAATTGC
1 TAATAAT-A-TTTTTGCG-AATT-C
33000319 TAATAATATTTTTG
1 TAATAATATTTTTG
33000333 TTTTGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
20 3 0.10
21 7 0.23
22 3 0.10
23 9 0.30
24 5 0.17
25 3 0.10
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (21 bp):
TAATAATATTTTTGCGAATTC
Found at i:33006268 original size:14 final size:14
Alignment explanation
Indices: 33006249--33006275 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33006239 AAGATATTCT
33006249 TTTTCTAAATAAAA
1 TTTTCTAAATAAAA
33006263 TTTTCTAAATAAA
1 TTTTCTAAATAAA
33006276 GTTGAACCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (14 bp):
TTTTCTAAATAAAA
Found at i:33013709 original size:43 final size:45
Alignment explanation
Indices: 33013661--33013774 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
33013651 ATGATGGGCT
*
33013661 TTAACCCCTTAAGCAGTAGGGTAACAAGCCG-A-ATTTACA-AGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAGATTTACAGA-CC
* * * *
33013704 TTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAGATTTACAGACC
*
33013749 TTAACCCCCTAAGCAGTAGGGAAACA
1 TTAACCCCCTAAGCAGTAGGGTAACA
33013775 GATTGAAGAC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
43 27 0.44
44 1 0.02
45 32 0.52
46 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (45 bp):
TTAACCCCCTAAGCAGTAGGGTAACAAGCCGAAGATTTACAGACC
Found at i:33013755 original size:45 final size:43
Alignment explanation
Indices: 33013661--33013935 Score: 186
Period size: 44 Copynumber: 6.3 Consensus size: 43
33013651 ATGATGGGCT
* * * *
33013661 TTAACCCCTTAAGCAGTAGGGTAACA-AGCCGAATTTACA-AGCC
1 TTAACCCCCTAAGCAGTAGGGTAACAGA-CTGAAATTACAGA-TC
* *
33013704 TTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGACTGAA-A-TTACAGATC
* * ** *
33013749 TTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGACGA-AGGGTC
1 TTAACCCCCTAAGCAGTAGGGTAACAGACTGAA-ATTACA-GATC
* * *
33013793 TTAAACCCCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGACTGAAATTACAGATC
* * * * * *
33013835 TTATCCCCCTAAGCAGTGGGGAAACAGA-TCAAA-GACAAAGGGTC
1 TTAACCCCCTAAGCAGTAGGGTAACAGACTGAAATTAC--A-GATC
* * * *
33013879 TTAAACCCCTAAGTAGTAAGGTAACAGACCG-AATTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGACTGAAATTACAGATC
* *
33013921 TTATCTCCCTAAGCA
1 TTAACCCCCTAAGCA
33013936 TTAGTGGAGA
Statistics
Matches: 178, Mismatches: 42, Indels: 25
0.73 0.17 0.10
Matches are distributed among these distances:
41 1 0.01
42 46 0.26
43 34 0.19
44 57 0.32
45 39 0.22
46 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGACTGAAATTACAGATC
Found at i:33013810 original size:44 final size:44
Alignment explanation
Indices: 33013745--33014078 Score: 186
Period size: 44 Copynumber: 7.7 Consensus size: 44
33013735 AAGATTTACA
* *
33013745 GATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGACGAAG
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG
* * * * *
33013789 GGTCTTAAACCCCTAAGCAGTAGGGTAACAGA-CCAA-ATTGCA-
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGA-CGAAG
** * * *
33013831 GATCTTATCCCCCTAAGCAGTGGGGAAACAGATCAAAGACAAAG
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG
* * * * * *
33013875 GGTCTTAAACCCCTAAGTAGTAAGGTAACAGACCGAATTAC--A-
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAA-GACGAAG
* * * * *
33013917 GATCTT-ATCTCCCTAAGCATTAGTGGAGATA-ATCGAGGACGAAG
1 GATCTTAAAC-CCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAG
* * * * ** **
33013961 AACCTTAAACCCCTAAGCAGTAGGGCAACAGGTTAAATTC-ACA-
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AG
* * *
33014004 GATCTT-ATCACCCTAAGTAGTAGGGAAACAGATCGAAGACGATG
1 GATCTTAAAC-CCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG
** * * *
33014048 GGCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 GATCTTAAACCCCTAAGCAGTAGGGAAACAG
33014079 GCTAGAAATC
Statistics
Matches: 208, Mismatches: 65, Indels: 34
0.68 0.21 0.11
Matches are distributed among these distances:
41 4 0.02
42 49 0.24
43 46 0.22
44 103 0.50
45 6 0.03
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (44 bp):
GATCTTAAACCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAG
Found at i:33013857 original size:86 final size:86
Alignment explanation
Indices: 33013701--33014078 Score: 425
Period size: 86 Copynumber: 4.3 Consensus size: 86
33013691 GAATTTACAA
* * * * *
33013701 GCCTTAACCCCCTAAGCAGTAGGGTAATAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGAC-CAA-A-TTACAGATCTTATCCCCCTAAGCAGT
*
33013766 AGGGAAACAGATTGAAGACGAAGG
63 AGGGAAACAGATCGAAGACGAAGG
* * *
33013790 GTCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCCCCCTAAGCAGTGGG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCCCCCTAAGCAGTAGG
* *
33013855 GAAACAGATCAAAGACAAAGG
66 GAAACAGATCGAAGACGAAGG
* * * * * *
33013876 GTCTTAAACCCCTAAGTAGTAAGGTAACAGACCGAATTACAGATCTTATCTCCCTAAGCATTAGT
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCCCCCTAAGCAGTAG-
* * * *
33013941 GGAGATA-ATCGAGGACGAAGA
65 GGAAACAGATCGAAGACGAAGG
* * *** * *
33013962 ACCTTAAACCCCTAAGCAGTAGGGCAACAGGTTAAATTCACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATT-ACAGATCTTATCCCCCTAAGCAGTAG
*
33014027 GGAAACAGATCGAAGACGATGG
65 GGAAACAGATCGAAGACGAAGG
* *
33014049 GCCTTAACCCCCTAAGTAGTAGGGTAACAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAG
33014079 GCTAGAAATC
Statistics
Matches: 241, Mismatches: 45, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
86 145 0.60
87 66 0.27
88 2 0.01
89 28 0.12
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (86 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGACCAAATTACAGATCTTATCCCCCTAAGCAGTAGG
GAAACAGATCGAAGACGAAGG
Found at i:33013933 original size:172 final size:173
Alignment explanation
Indices: 33013740--33014078 Score: 439
Period size: 173 Copynumber: 2.0 Consensus size: 173
33013730 GGCTGAAGAT
* ***
33013740 TTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATTGAAGACGAAGGGTCTTAAACCCCTA
1 TTACAGATCTTAACCCCCTAAGCAGTAGTGGAAACA-ATCGAAGACGAAGAACCTTAAACCCCTA
* * * *
33013804 AGCAGTAGGGTAACAGACCAAATT-GCAGATCTTATCCCCCTAAGCAGTGGGGAAACAGATCAAA
65 AGCAGTAGGGCAACAGACCAAATTCACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAA
*
33013868 GACAAAGGGTCTTAAACCCCTAAGTAGTAAGGTAACAGACCGAA
130 GACAAAGGGCCTTAAACCCCTAAGTAGTAAGGTAACAGACCGAA
* * * * * *
33013912 TTACAGATCTTATCTCCCTAAGCATTAGTGGAGATAATCGAGGACGAAGAACCTTAAACCCCTAA
1 TTACAGATCTTAACCCCCTAAGCAGTAGTGGAAACAATCGAAGACGAAGAACCTTAAACCCCTAA
*** * *
33013977 GCAGTAGGGCAACAGGTTAAATTCACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAG
66 GCAGTAGGGCAACAGACCAAATTCACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAG
* * * *
33014042 ACGATGGGCCTTAACCCCCTAAGTAGTAGGGTAACAG
131 ACAAAGGGCCTTAAACCCCTAAGTAGTAAGGTAACAG
33014079 GCTAGAAATC
Statistics
Matches: 141, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
172 68 0.48
173 73 0.52
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (173 bp):
TTACAGATCTTAACCCCCTAAGCAGTAGTGGAAACAATCGAAGACGAAGAACCTTAAACCCCTAA
GCAGTAGGGCAACAGACCAAATTCACAGATCTTATCACCCTAAGCAGTAGGGAAACAGATCAAAG
ACAAAGGGCCTTAAACCCCTAAGTAGTAAGGTAACAGACCGAA
Found at i:33014437 original size:44 final size:44
Alignment explanation
Indices: 33014280--33014438 Score: 126
Period size: 44 Copynumber: 3.6 Consensus size: 44
33014270 CAGACTGAAA
* * * *
33014280 ATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATCAAAG
1 ATAGCAGATCTGACATCCCTATGCTTATAGGGAA-CAGATCGAAG
** * * *
33014325 ATTTCAG--CATGGCATCCCTATGCTTATAGGGAACA-AGTTGAAA
1 ATAGCAGATC-TGACATCCCTATGCTTATAGGGAACAGA-TCGAAG
* * * * *
33014368 ACAGTAGATTTGGCATCCCTGTGCTTATAGGGAACAGATCGAAG
1 ATAGCAGATCTGACATCCCTATGCTTATAGGGAACAGATCGAAG
* *
33014412 ATAGCATATCTGACATTCCTATGCTTA
1 ATAGCAGATCTGACATCCCTATGCTTA
33014439 CAGTGAAGCA
Statistics
Matches: 85, Mismatches: 24, Indels: 11
0.71 0.20 0.09
Matches are distributed among these distances:
42 1 0.01
43 9 0.11
44 69 0.81
45 6 0.07
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
ATAGCAGATCTGACATCCCTATGCTTATAGGGAACAGATCGAAG
Found at i:33014522 original size:132 final size:132
Alignment explanation
Indices: 33014280--33014546 Score: 329
Period size: 132 Copynumber: 2.0 Consensus size: 132
33014270 CAGACTGAAA
* * *
33014280 ATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATCAAAGATTTCAGCATGGCATCCCTA
1 ATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCAAAGATTTCAGCATCGCATCCCTA
** * * *
33014345 TGCTTATAGGGAACAAGTTGAAAACAGTAGATTTGGCATCCCTGTGCTT-ATAGGGAACAGATCG
66 TGCTTATAGGGAACAAGTTGAAAACAACAGATTTGACATCCCTGTG-TTGATAGAGAACAGATCA
33014409 AAG
130 AAG
* *** * *
33014412 ATAGCATATCTGACATTCCTATGCTTACAGTGAAGCAGATTGGAGATTTCAGCATCGTATCCCTG
1 ATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCAAAGATTTCAGCATCGCATCCCTA
* * * ** * *
33014477 TGTTTATAGGGAACAAGTTGAAGATAACAGATTTGATGTCTCTGTGTTGATAGAGAGCAGATCAA
66 TGCTTATAGGGAACAAGTTGAAAACAACAGATTTGACATCCCTGTGTTGATAGAGAACAGATCAA
33014542 AG
131 AG
33014544 ATA
1 ATA
33014547 ACAGGTTTGG
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
131 2 0.02
132 111 0.98
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.28
Consensus pattern (132 bp):
ATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCAAAGATTTCAGCATCGCATCCCTA
TGCTTATAGGGAACAAGTTGAAAACAACAGATTTGACATCCCTGTGTTGATAGAGAACAGATCAA
AG
Found at i:33014545 original size:44 final size:43
Alignment explanation
Indices: 33014497--33014642 Score: 143
Period size: 45 Copynumber: 3.3 Consensus size: 43
33014487 GAACAAGTTG
*
33014497 AAGATAACAGATTTGATGTCTCTGTGTTGATAGAGAGCAGATCA
1 AAGATAACAGATTTGA-GTCTCTGTGTTGACAGAGAGCAGATCA
* *
33014541 AAGATAACAGGTTTG-GCATATCTGTGTTGACAGAAGAGCAGATCGA
1 AAGATAACAGATTTGAG--TCTCTGTGTTGACAG-AGAGCAGATC-A
* * * *
33014587 AA-ATGACAGATTTGGAGTCTCTGTATTAGACGGGGAGCAGATCA
1 AAGATAACAGATTT-GAGTCTCTGTGTT-GACAGAGAGCAGATCA
*
33014631 AAGATAGCAGAT
1 AAGATAACAGAT
33014643 ATCGCATTCC
Statistics
Matches: 83, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.01
44 30 0.36
45 43 0.52
46 8 0.10
47 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.25
Consensus pattern (43 bp):
AAGATAACAGATTTGAGTCTCTGTGTTGACAGAGAGCAGATCA
Found at i:33014921 original size:30 final size:30
Alignment explanation
Indices: 33014885--33014942 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
33014875 AGCCCACTAT
33014885 GTTTTTAGCCGCATGCCTTCAACCACCAAA
1 GTTTTTAGCCGCATGCCTTCAACCACCAAA
33014915 GTTTTTAGCCGCATGCCTTCAACCACCA
1 GTTTTTAGCCGCATGCCTTCAACCACCA
33014943 GCCTTCTCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (30 bp):
GTTTTTAGCCGCATGCCTTCAACCACCAAA
Found at i:33030492 original size:40 final size:40
Alignment explanation
Indices: 33030394--33030544 Score: 182
Period size: 40 Copynumber: 3.8 Consensus size: 40
33030384 TTTGAGCTAC
* * *
33030394 TTTCAGTAGAA-TCAGTATGTATGGCTCAATAGAGCATAC-
1 TTTCAGTA-AATTCAGTAGGTATGGCTCGATAGCGCATACA
* *
33030433 TTTCAGTAGAA-TCAATAGGTATAGCTCGATAGCGCATACA
1 TTTCAGTA-AATTCAGTAGGTATGGCTCGATAGCGCATACA
* *
33030473 TTTCAATAAATTCAGTAGGTATGGCTCCATAGCGCATACA
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAGCGCATACA
* *
33030513 TTTCAGTATATTCAGTAGGTATGACTCGATAG
1 TTTCAGTAAATTCAGTAGGTATGGCTCGATAG
33030545 TATTTCAACT
Statistics
Matches: 97, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
39 36 0.37
40 61 0.63
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (40 bp):
TTTCAGTAAATTCAGTAGGTATGGCTCGATAGCGCATACA
Found at i:33047715 original size:23 final size:23
Alignment explanation
Indices: 33047647--33047718 Score: 89
Period size: 21 Copynumber: 3.3 Consensus size: 23
33047637 CCTGATCAGT
** *
33047647 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
33047669 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
33047689 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
33047712 ATACGAC
1 ATACGAC
33047719 GCAAAGTGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.02
21 34 0.79
22 1 0.02
23 7 0.16
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.14
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:33064140 original size:47 final size:49
Alignment explanation
Indices: 33064018--33064197 Score: 200
Period size: 47 Copynumber: 3.8 Consensus size: 49
33064008 TGTAACCCGC
* * * *
33064018 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
33064064 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
33064114 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
33064158 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
33064198 TCAACCATCC
Statistics
Matches: 114, Mismatches: 7, Indels: 22
0.80 0.05 0.15
Matches are distributed among these distances:
42 2 0.02
43 1 0.01
44 5 0.04
45 1 0.01
46 37 0.32
47 58 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:33064186 original size:94 final size:93
Alignment explanation
Indices: 33064026--33064197 Score: 299
Period size: 94 Copynumber: 1.8 Consensus size: 93
33064016 GCCCATAAGT
* * *
33064026 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
33064091 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
33064119 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATT-CACATCCATAAGTGAACTCGGACTCAACTCA
33064184 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
33064198 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 30 0.41
94 44 0.59
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:33064651 original size:30 final size:30
Alignment explanation
Indices: 33064617--33064676 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
33064607 ATTTAATACG
33064617 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
33064647 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
33064677 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:33066315 original size:43 final size:43
Alignment explanation
Indices: 33066215--33066322 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
33066205 GATTAACGAG
33066215 ATGTGATTATGTGTAAGACCATGCCTAGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGCCTAGGACATTGGCATCATT
* * * * * *
33066258 ATGTGGTCACGTGTAAGACTATGTCT-GGCACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGCCTAGG-ACATTGGCATCATT
* *
33066301 ATTTGATTTTGTGTAAGACCAT
1 ATGTGATTATGTGTAAGACCAT
33066323 AGCTGGGCTA
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 2 0.04
43 50 0.96
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGCCTAGGACATTGGCATCATT
Found at i:33079355 original size:20 final size:20
Alignment explanation
Indices: 33079311--33079349 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33079301 CAATAGCTTC
*
33079311 ATTAAAATAAGGTTTATTAA
1 ATTAAAATAAGGTTAATTAA
*
33079331 ATTAAAGTAAGGTTAATTA
1 ATTAAAATAAGGTTAATTA
33079350 TTTTAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTAAAATAAGGTTAATTAA
Found at i:33080490 original size:20 final size:19
Alignment explanation
Indices: 33080452--33080505 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
33080442 TATACACTTA
33080452 TGCGCCAAGATGCACCTTG
1 TGCGCCAAGATGCACCTTG
*
33080471 TGCGCCAAGTATGCATCTTG
1 TGCGCCAAG-ATGCACCTTG
* * *
33080491 TACGTCAGGATGCAC
1 TGCGCCAAGATGCAC
33080506 TTCGATGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (19 bp):
TGCGCCAAGATGCACCTTG
Found at i:33080708 original size:19 final size:19
Alignment explanation
Indices: 33080686--33080736 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
33080676 TACATTAGGC
*
33080686 GCCAAGATGCACCTTGTGT
1 GCCAAGATGCACCTTGTAT
* *
33080705 GCCAGGTATGCATCTTGTAT
1 GCCAAG-ATGCACCTTGTAT
*
33080725 GTCAAGATGCAC
1 GCCAAGATGCAC
33080737 TCCGATGCCA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (19 bp):
GCCAAGATGCACCTTGTAT
Found at i:33082297 original size:23 final size:23
Alignment explanation
Indices: 33082271--33082316 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
33082261 ACATAGTTTT
33082271 ACACTAGCTCACATGTCGAGGCC
1 ACACTAGCTCACATGTCGAGGCC
*
33082294 ACACTAGCTCATATGTCGAGGCC
1 ACACTAGCTCACATGTCGAGGCC
33082317 GATGCCATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.33, G:0.22, T:0.20
Consensus pattern (23 bp):
ACACTAGCTCACATGTCGAGGCC
Found at i:33082367 original size:48 final size:48
Alignment explanation
Indices: 33082315--33082588 Score: 232
Period size: 48 Copynumber: 5.7 Consensus size: 48
33082305 TATGTCGAGG
* * * ** *
33082315 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATA
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTA
* * * *
33082363 CCGATGCCATG-TCTCAGACATGCTCTTACTC-AGGCTCTCGTAACATTA
1 CCGATGCCATGTTC-CAAACATGGTCTTACACTA-GCTCTCATAACATTA
* * * * * *
33082411 CTGATGCCATGTTCCAAAAATGGTCTTACATTGGGTCTCATAACATTG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTA
* * * *
33082459 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATTG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTA
* * * *
33082507 CCAATGCCATGTTCCAAACATGGTCTTGCACTAGCTTTCAT-A-ATGTG
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACAT-TA
* * * * *
33082554 TCGATTCCATGTCCCAAACATGGCCTTACAGTAGC
1 CCGATGCCATGTTCCAAACATGGTCTTACACTAGC
33082589 ACACATATCA
Statistics
Matches: 187, Mismatches: 34, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
46 2 0.01
47 33 0.18
48 150 0.80
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCTCATAACATTA
Found at i:33090134 original size:48 final size:48
Alignment explanation
Indices: 33090027--33090182 Score: 136
Period size: 48 Copynumber: 3.2 Consensus size: 48
33090017 GGGTAAATTA
* * * * * * *
33090027 CCGATACCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCGAGG
1 CCGATACCATGTCCAAGACATGGTCTTACACTAGCTCTCGTATCAATG
* * *
33090075 CTGATATCATGTCCAAGACATGGTCTTACACTAGCTCTCGTCTCAATG
1 CCGATACCATGTCCAAGACATGGTCTTACACTAGCTCTCGTATCAATG
* * * * *
33090123 CCGATGCCATGTCCCAA-ACTTGGTCTTA-ATCTAGCTCTTGTAACATTG
1 CCGATACCATGT-CCAAGACATGGTCTTACA-CTAGCTCTCGTATCAATG
*
33090171 CCGATGCCATGT
1 CCGATACCATGT
33090183 AACACCCCTA
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 84 0.94
49 4 0.04
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (48 bp):
CCGATACCATGTCCAAGACATGGTCTTACACTAGCTCTCGTATCAATG
Found at i:33092264 original size:17 final size:17
Alignment explanation
Indices: 33092242--33092279 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
33092232 TAAAACTTTT
33092242 GTCCCTTATGCGATTTA
1 GTCCCTTATGCGATTTA
33092259 GTCCCTTATGCGATTTA
1 GTCCCTTATGCGATTTA
33092276 GTCC
1 GTCC
33092280 TTTTTCGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.39
Consensus pattern (17 bp):
GTCCCTTATGCGATTTA
Found at i:33094922 original size:15 final size:16
Alignment explanation
Indices: 33094893--33094927 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
33094883 TATAAAATAA
33094893 ATTAAAAAAAGTTCAT
1 ATTAAAAAAAGTTCAT
*
33094909 ATTAAAACAA-TTCAT
1 ATTAAAAAAAGTTCAT
33094924 ATTA
1 ATTA
33094928 TTTTAAAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.54, C:0.09, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTAAAAAAAGTTCAT
Found at i:33102469 original size:7 final size:7
Alignment explanation
Indices: 33102453--33102485 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
33102443 ACCTTTAATG
*
33102453 AAAAGCC
1 AAAAGGC
33102460 AAAAGGC
1 AAAAGGC
33102467 AAAAGGC
1 AAAAGGC
33102474 AAAAGGC
1 AAAAGGC
33102481 AAAAG
1 AAAAG
33102486 CCCCCACTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.61, C:0.15, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAGGC
Found at i:33102689 original size:14 final size:14
Alignment explanation
Indices: 33102658--33102691 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
33102648 AGTTCGTCTC
* *
33102658 TTCTCTCTCTCTCT
1 TTCTCTCTCTCCCG
33102672 TTCTCTCTCTCCCG
1 TTCTCTCTCTCCCG
33102686 TTCTCT
1 TTCTCT
33102692 TAATCTCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.00, C:0.44, G:0.03, T:0.53
Consensus pattern (14 bp):
TTCTCTCTCTCCCG
Found at i:33114415 original size:20 final size:19
Alignment explanation
Indices: 33114392--33114442 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
33114382 TTGGGAAGAG
33114392 AAAGAAAAATTAAAATTAGA
1 AAAGAAAAA-TAAAATTAGA
*
33114412 AAAGAAAAATAAAATTATA
1 AAAGAAAAATAAAATTAGA
33114431 ATAA-AAAAATAA
1 A-AAGAAAAATAA
33114443 GAAATCCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 18 0.62
20 11 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.20
Consensus pattern (19 bp):
AAAGAAAAATAAAATTAGA
Found at i:33115418 original size:19 final size:20
Alignment explanation
Indices: 33115390--33115428 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
33115380 TATGAATAAT
33115390 CACATAATAATTTAA-CATA
1 CACATAATAATTTAATCATA
*
33115409 CACATCATAATTTAATCATA
1 CACATAATAATTTAATCATA
33115429 ATGTTCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (20 bp):
CACATAATAATTTAATCATA
Found at i:33116132 original size:21 final size:22
Alignment explanation
Indices: 33116102--33116143 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
33116092 TCCATTTGAG
*
33116102 TATTAACTTGAACATACCATAT
1 TATTAACTTGAACATAACATAT
33116124 TATT-ACTTGAACATAACATA
1 TATTAACTTGAACATAACATA
33116144 CATATGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.43, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TATTAACTTGAACATAACATAT
Found at i:33117666 original size:15 final size:15
Alignment explanation
Indices: 33117646--33117679 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33117636 CCTTTTTCTT
33117646 TTTCTTTCTATTTTC-
1 TTTCTTTCT-TTTTCG
33117661 TTTCTTTCTTTTTCG
1 TTTCTTTCTTTTTCG
33117676 TTTC
1 TTTC
33117680 AACTTTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTCTTTCTTTTTCG
Found at i:33117763 original size:11 final size:12
Alignment explanation
Indices: 33117736--33117769 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
33117726 TTTTATTTTA
33117736 ATTATAATGATAT
1 ATTATAAT-ATAT
33117749 ATTATAATA-AT
1 ATTATAATATAT
33117760 ATTATAATAT
1 ATTATAATAT
33117770 TTACTTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.55
12 1 0.05
13 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
ATTATAATATAT
Found at i:33118860 original size:10 final size:10
Alignment explanation
Indices: 33118841--33118873 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
33118831 TGAGGATTAC
33118841 AAAAAA-AAA
1 AAAAAAGAAA
33118850 AAAAAAGAAA
1 AAAAAAGAAA
*
33118860 AGAAAAGAAA
1 AAAAAAGAAA
33118870 AAAA
1 AAAA
33118874 GATTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:33118870 original size:18 final size:16
Alignment explanation
Indices: 33118841--33118875 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
33118831 TGAGGATTAC
33118841 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
33118857 AAAAGAAAAGAAAAAAAG
1 AAAA-AAAA-AAAAAAAG
33118875 A
1 A
33118876 TTTACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 9 0.53
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:33119871 original size:11 final size:11
Alignment explanation
Indices: 33119855--33119880 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33119845 CGGATTCCTC
33119855 GAAAAGGAAAG
1 GAAAAGGAAAG
33119866 GAAAAGGAAAG
1 GAAAAGGAAAG
33119877 GAAA
1 GAAA
33119881 GGACAAAGTT
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:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (11 bp):
GAAAAGGAAAG
Found at i:33119878 original size:16 final size:17
Alignment explanation
Indices: 33119857--33119888 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
33119847 GATTCCTCGA
33119857 AAAGGAAAGGA-AAAGG
1 AAAGGAAAGGACAAAGG
33119873 AAAGGAAAGGACAAAG
1 AAAGGAAAGGACAAAG
33119889 TTGTTGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.62, C:0.03, G:0.34, T:0.00
Consensus pattern (17 bp):
AAAGGAAAGGACAAAGG
Found at i:33122397 original size:1 final size:1
Alignment explanation
Indices: 33122393--33122418 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
33122383 AAAAAAAAAA
33122393 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
33122419 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:33131163 original size:42 final size:42
Alignment explanation
Indices: 33131116--33131199 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
33131106 AAAACAGCAG
*
33131116 GAATTTTGAAACCTGGAAAGAAAGGCAAAAGTTTGCAGACAC
1 GAATTTAGAAACCTGGAAAGAAAGGCAAAAGTTTGCAGACAC
*
33131158 GAATTTAGAAACCTGGAAAGAAAGGCAAACGTTTGCAGACAC
1 GAATTTAGAAACCTGGAAAGAAAGGCAAAAGTTTGCAGACAC
33131200 CAAGTTAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.43, C:0.15, G:0.24, T:0.18
Consensus pattern (42 bp):
GAATTTAGAAACCTGGAAAGAAAGGCAAAAGTTTGCAGACAC
Found at i:33133119 original size:48 final size:48
Alignment explanation
Indices: 33133047--33133153 Score: 196
Period size: 48 Copynumber: 2.2 Consensus size: 48
33133037 TTAATTAGCG
*
33133047 TATCTGCCATTGTACGAATTCCATTATCAAACTGATGTTTATTGTGTA
1 TATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTA
*
33133095 TATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTA
1 TATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTA
33133143 TATCTGCCATT
1 TATCTGCCATT
33133154 ATTTGTATCT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 57 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.42
Consensus pattern (48 bp):
TATCTGCCATTGTACGAATGCCATTATCAAACTGATGTTTATTGTGTA
Found at i:33133223 original size:64 final size:64
Alignment explanation
Indices: 33133085--33133226 Score: 221
Period size: 64 Copynumber: 2.2 Consensus size: 64
33133075 AAACTGATGT
* * * *
33133085 TTATTGTGTATATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTG
1 TTATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
** *
33133149 CCATTATTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
1 TTATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
33133213 TTATTGTTTGTATC
1 TTATTGTTTGTATC
33133227 CAAGATCCTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.46
Consensus pattern (64 bp):
TTATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTAATGTTTATTGTGTATATCTA
Found at i:33135312 original size:40 final size:40
Alignment explanation
Indices: 33135213--33135313 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
33135203 TTAGTGAATG
*
33135213 TTTTTAATATGCATGCACTGATTGTTGGTGTGTTGAATAT
1 TTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGAATAT
*
33135253 TTTTTAATATGCATACAGTGATTGTTGGTGTGTTGAATAT
1 TTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGAATAT
33135293 TTTTTAATATGCATGCAGTGA
1 TTTTTAATATGCATGCAGTGA
33135314 GTATTTTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.25, C:0.07, G:0.22, T:0.47
Consensus pattern (40 bp):
TTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGAATAT
Found at i:33136023 original size:21 final size:21
Alignment explanation
Indices: 33135997--33136037 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33135987 GTGTCCTAAC
33135997 TCAGCAACAGGCTACCCCAAA
1 TCAGCAACAGGCTACCCCAAA
* *
33136018 TCAGCAAGAGGGTACCCCAA
1 TCAGCAACAGGCTACCCCAA
33136038 CTCAACAGGC
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:0.37, C:0.34, G:0.20, T:0.10
Consensus pattern (21 bp):
TCAGCAACAGGCTACCCCAAA
Done.