Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 187 of 320
Found at i:62094202 original size:82 final size:81
Alignment explanation
Indices: 62094062--62094217 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
62094052 AAATTGTACA
* * * *
62094062 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
62094127 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
62094143 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
62094206 TGTGCGAGTTGA
63 TGTGCGAATTGA
62094218 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:62102188 original size:55 final size:54
Alignment explanation
Indices: 62102093--62102242 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
62102083 CTACTTTGTT
* ** * *
62102093 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
62102147 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
62102202 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
62102243 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:62102205 original size:27 final size:27
Alignment explanation
Indices: 62102065--62102242 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
62102055 TAAATTGTAC
62102065 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
62102092 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
62102118 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
62102146 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
62102174 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
62102201 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
62102228 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62102243 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:62102206 original size:82 final size:81
Alignment explanation
Indices: 62102066--62102221 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
62102056 AAATTGTACA
* * * *
62102066 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
62102131 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
62102147 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
62102210 TGTGCGAGTTGA
63 TGTGCGAATTGA
62102222 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:62105334 original size:53 final size:52
Alignment explanation
Indices: 62105234--62105395 Score: 165
Period size: 47 Copynumber: 3.1 Consensus size: 52
62105224 CCATGGCAAC
* *
62105234 ATGTGATATGTGATTTCCGTATAAGACCATAGT-TGGGCTATGACATCGGAGAG
1 ATGTGATATGTG-CTTCCGTATAAGACCATA-TCTGGGATATGACATCGGAGAG
* *
62105287 ATGTGATTATGTGCTTCCGTATAAGACCATATCTAGGATATGGCATC---G-G
1 ATGTGA-TATGTGCTTCCGTATAAGACCATATCTGGGATATGACATCGGAGAG
* * * *
62105336 -TGTGATATATGCTACTGTATAAGACCATATCTGGGATATGACATCAGTGAGAT
1 ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGACATC-G-GAGAG
62105389 ATGTGAT
1 ATGTGAT
62105396 TCGTGTAAGA
Statistics
Matches: 90, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
47 35 0.39
48 5 0.06
49 1 0.01
50 1 0.01
52 2 0.02
53 34 0.38
54 12 0.13
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATATCTGGGATATGACATCGGAGAG
Found at i:62105454 original size:48 final size:47
Alignment explanation
Indices: 62105234--62105487 Score: 206
Period size: 48 Copynumber: 5.2 Consensus size: 47
62105224 CCATGGCAAC
* * *
62105234 ATGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTATGACATCGGAGA
1 ATGTGATATGTGA--TCCGTATAAGACCATAGCTGGGATATGGCATC---GA
* * *
62105286 GATGTGATTATGTGCTTCCGTATAAGACCATATCTAGGATATGGCATCG-
1 -ATGTGA-TATGTG-ATCCGTATAAGACCATAGCTGGGATATGGCATCGA
* * * * * *
62105335 GTGTGATATATGCTACTGTATAAGACCATATCTGGGATATGACATC-A
1 ATGTGATATGTGAT-CCGTATAAGACCATAGCTGGGATATGGCATCGA
* * * * *
62105382 GTGAGATATGTGATTCGTGTAAGACCATAGCTGGGTTATGGCATCGA
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGA
* * * *
62105429 TATGTGATATATGATCCGTGTAAGACCATAGCTGGGCTATGGTATCGA
1 -ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGA
62105477 TATGTGATATG
1 -ATGTGATATG
62105488 GGATTATGTG
Statistics
Matches: 167, Mismatches: 28, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
46 26 0.16
47 45 0.27
48 56 0.34
50 1 0.01
53 33 0.20
54 6 0.04
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (47 bp):
ATGTGATATGTGATCCGTATAAGACCATAGCTGGGATATGGCATCGA
Found at i:62111224 original size:46 final size:46
Alignment explanation
Indices: 62111174--62111346 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
62111164 TGGTTGAACA
*
62111174 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
62111220 TCCGAACTCGTTGAGTTGAGTCTGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* *
62111267 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
62111313 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
62111347 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 12, Indels: 20
0.77 0.09 0.15
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 3 0.03
46 56 0.53
47 25 0.24
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:62111331 original size:93 final size:93
Alignment explanation
Indices: 62111172--62111340 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
62111162 GATGGTTGAA
*
62111172 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTT
*
62111237 GAGTCTGAGTTTGTGAGATGTAACTAGG
66 GAGTCCGAGTTTGTGAGATGTAACTAGG
* * *
62111265 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAGT
62111329 TGAGTCCGAGTT
65 TGAGTCCGAGTT
62111341 CACTTAGGGG
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTTGTGAGATGTAACTAGG
Found at i:62111608 original size:19 final size:20
Alignment explanation
Indices: 62111571--62111608 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
62111561 ATAAGGTGGT
62111571 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
62111591 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
62111609 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:62115553 original size:40 final size:40
Alignment explanation
Indices: 62115498--62115725 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
62115488 GAGCATTGGA
62115498 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
62115538 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
62115578 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
62115618 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
62115658 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
62115698 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
62115726 ATGTGTTTGC
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:62129522 original size:22 final size:21
Alignment explanation
Indices: 62129497--62129562 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
62129487 GTAAATACGT
62129497 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* * *
62129519 TTGGCACAGAGCCAT-GTGTAGG
1 TTGGCACA-AACCATAAT-CAGG
62129541 TTGGCACAAAGCCATAATCAGG
1 TTGGCACAAA-CCATAATCAGG
62129563 ATAATTGACT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
21 2 0.06
22 31 0.91
23 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:62130076 original size:27 final size:27
Alignment explanation
Indices: 62130022--62130096 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
62130012 TTTCACCCTA
* * *
62130022 CAAGGGTGTATT-GGTAAATCTACGAAC
1 CAAGGGTGT-TTCGGTAATTTTACAAAC
62130049 CAAGGGTGTTTCGGTAATTTTACAAAC
1 CAAGGGTGTTTCGGTAATTTTACAAAC
* * *
62130076 CAATGGTATTTCTGTAATTTT
1 CAAGGGTGTTTCGGTAATTTT
62130097 TAAAAGTCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (27 bp):
CAAGGGTGTTTCGGTAATTTTACAAAC
Found at i:62130288 original size:81 final size:81
Alignment explanation
Indices: 62130051--62130446 Score: 281
Period size: 81 Copynumber: 4.9 Consensus size: 81
62130041 CTACGAACCA
* * * * * *
62130051 AGGGTGTTTCGGTAATTTTACAAA-CCAATGGTATTTCT-GTAATTTTTAAAAGTCAAGGGTATT
1 AGGGTATTTCGATAATTTTA-AAAGTCAAGGGTATTT-TGGTAA-TTTTACAAGTCGAGGGTATT
** *
62130114 TCTA-TAATTTTGTAAAT-T
63 TC-AGTAATTTTACAAATCG
* * * * * * * **
62130132 AGGGGTATTTCTATAATTTTCCAAA-TTAAGTGTATTTTGGAAATTTTCCAAATTAAGGGTATTT
1 A-GGGTATTTCGATAATTTT-AAAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTT
*
62130196 -AGGTAACTTTACAAATCG
64 CA-GTAATTTTACAAATCG
* * * * * *
62130214 AGAGTATTTTGGTAATTTTAAAAGTCAAGGGTATTTCGATAATTTTACAAGTCGAGGGAATTTC-
1 AGGGTATTTCGATAATTTTAAAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCA
*
62130278 GATAATTTTACAGGA-CG
66 G-TAATTTTACA-AATCG
*** * * *
62130295 AGGGTATTTCGATAATTTTACTGGTCGATGGTATTTTGGTAGTTTTACAAGTCGAGGGTATTTCA
1 AGGGTATTTCGATAATTTTAAAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCA
* * *
62130360 GTAATTTTACTAGTTG
66 GTAATTTTACAAATCG
* * *
62130376 AGGGTATTTCGATAATTTCACAAA-TCAAGGATATTTTGGTAATTTTGCTAA-TCGAGGGTATTT
1 AGGGTATTTCGATAATTTTA-AAAGTCAAGGGTATTTTGGTAATTTTAC-AAGTCGAGGGTATTT
62130439 CAGTAATT
64 CAGTAATT
62130447 CTACCCTACA
Statistics
Matches: 242, Mismatches: 59, Indels: 28
0.74 0.18 0.09
Matches are distributed among these distances:
79 1 0.00
80 4 0.02
81 203 0.84
82 34 0.14
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGATAATTTTAAAAGTCAAGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCA
GTAATTTTACAAATCG
Found at i:62130314 original size:27 final size:27
Alignment explanation
Indices: 62130051--62130439 Score: 232
Period size: 27 Copynumber: 14.4 Consensus size: 27
62130041 CTACGAACCA
* * ** *
62130051 AGGGTGTTTCGGTAATTTTACAAACCA
1 AGGGTATTTCGATAATTTTACAAGTCG
* * *
62130078 ATGGTATTTCTG-TAATTTTTAAAAGTCA
1 AGGGTATTTC-GATAA-TTTTACAAGTCG
* * *
62130106 AGGGTATTTCTATAATTTTGTA-AATTAG
1 AGGGTATTTCGATAA-TTT-TACAAGTCG
* * * **
62130134 -GGGTATTTCTATAATTTTCCAAATTA
1 AGGGTATTTCGATAATTTTACAAGTCG
* * * * **
62130160 AGTGTATTTTGGA-AATTTTCCAAATTA
1 AGGGTA-TTTCGATAATTTTACAAGTCG
* * * *
62130187 AGGGTATTTAGGTAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAGTCG
* * * * *
62130214 AGAGTATTTTGGTAATTTTAAAAGTCA
1 AGGGTATTTCGATAATTTTACAAGTCG
62130241 AGGGTATTTCGATAATTTTACAAGTCG
1 AGGGTATTTCGATAATTTTACAAGTCG
* * *
62130268 AGGGAATTTCGATAATTTTACAGGACG
1 AGGGTATTTCGATAATTTTACAAGTCG
**
62130295 AGGGTATTTCGATAATTTTACTGGTCG
1 AGGGTATTTCGATAATTTTACAAGTCG
* * * *
62130322 ATGGTATTTTGGTAGTTTTACAAGTCG
1 AGGGTATTTCGATAATTTTACAAGTCG
* *
62130349 AGGGTATTTC-AGTAATTTTACTAGTTG
1 AGGGTATTTCGA-TAATTTTACAAGTCG
* * *
62130376 AGGGTATTTCGATAATTTCACAAATCA
1 AGGGTATTTCGATAATTTTACAAGTCG
* * * *
62130403 AGGATATTTTGGTAATTTTGCTAA-TCG
1 AGGGTATTTCGATAATTTTAC-AAGTCG
62130430 AGGGTATTTC
1 AGGGTATTTC
62130440 AGTAATTCTA
Statistics
Matches: 285, Mismatches: 66, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
25 1 0.00
26 10 0.04
27 236 0.83
28 36 0.13
29 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAGTCG
Found at i:62130439 original size:54 final size:54
Alignment explanation
Indices: 62130051--62130439 Score: 257
Period size: 54 Copynumber: 7.2 Consensus size: 54
62130041 CTACGAACCA
* * * * * * *
62130051 AGGGTGTTTCGGTAATTTTACAAACCAATGGTATTTCTGTAATTTTTA-AAAGTCA
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTAA-TTTTACTAA-TCG
* ** * * ** * * **
62130106 AGGGTATTTCTATAATTTTGTAAATTAGGGGTATTTCTATAATTTTCCAAATTA
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACTAATCG
* * * * * * *
62130160 AGTGTATTTTGGA-AATTTTCCAAATTAAGGGTATTTAGGTAACTTTACAAATCG
1 AGGGTA-TTTCGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACTAATCG
* * * *
62130214 AGAGTATTTTGGTAATTTTA-AAAGTCAAGGGTATTTCGATAATTTTAC-AAGTCG
1 AGGGTATTTCGATAATTTTACAAA-TCAAGGGTATTTCGGTAATTTTACTAA-TCG
* * * * **
62130268 AGGGAATTTCGATAATTTTACAGGA-CGAGGGTATTTCGATAATTTTACTGGTCG
1 AGGGTATTTCGATAATTTTACA-AATCAAGGGTATTTCGGTAATTTTACTAATCG
* * * * * * * * *
62130322 ATGGTATTTTGGTAGTTTTACAAGTCGAGGGTATTTCAGTAATTTTACTAGTTG
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACTAATCG
* * * *
62130376 AGGGTATTTCGATAATTTCACAAATCAAGGATATTTTGGTAATTTTGCTAATCG
1 AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACTAATCG
62130430 AGGGTATTTC
1 AGGGTATTTC
62130440 AGTAATTCTA
Statistics
Matches: 260, Mismatches: 65, Indels: 19
0.76 0.19 0.06
Matches are distributed among these distances:
53 9 0.03
54 210 0.81
55 40 0.15
56 1 0.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTTACAAATCAAGGGTATTTCGGTAATTTTACTAATCG
Found at i:62130460 original size:27 final size:26
Alignment explanation
Indices: 62130430--62130533 Score: 108
Period size: 27 Copynumber: 4.1 Consensus size: 26
62130420 TTGCTAATCG
62130430 AGGGTATTTCAGTAATTCTACCCTAC
1 AGGGTATTTCAGTAATTCTACCCTAC
* * *
62130456 AAGGGCATTTCAGTAATTCTACCTTTC
1 -AGGGTATTTCAGTAATTCTACCCTAC
62130483 AGGGATATTTCA-T--TT-TACCCTAC
1 AGGG-TATTTCAGTAATTCTACCCTAC
* * *
62130506 AGGGTATTTTAGTAATACTAGCCTAC
1 AGGGTATTTCAGTAATTCTACCCTAC
62130532 AG
1 AG
62130534 ATATGAGATT
Statistics
Matches: 63, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
22 6 0.10
23 11 0.17
24 2 0.03
25 1 0.02
26 14 0.22
27 29 0.46
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (26 bp):
AGGGTATTTCAGTAATTCTACCCTAC
Found at i:62131219 original size:22 final size:22
Alignment explanation
Indices: 62131193--62131258 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
62131183 GTAAATACGT
*
62131193 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
62131215 TTGGCACAGAGCCAT-GTGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
62131237 TTGGCACAAAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
62131259 ATAATTGACT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:62131461 original size:41 final size:41
Alignment explanation
Indices: 62131404--62131481 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
62131394 GCCACCAGTT
*
62131404 GATCCACGATCGTCAAGCAACCATGCAATCCTTAATTGGTG
1 GATCCACGATCGTCAAGCAACCATGCAATCCTCAATTGGTG
* *
62131445 GATCCACGATCGTCAAGGAACCATGCGATCCTCAATT
1 GATCCACGATCGTCAAGCAACCATGCAATCCTCAATT
62131482 TCTTCCTCCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (41 bp):
GATCCACGATCGTCAAGCAACCATGCAATCCTCAATTGGTG
Found at i:62131772 original size:27 final size:27
Alignment explanation
Indices: 62131745--62132243 Score: 231
Period size: 27 Copynumber: 18.4 Consensus size: 27
62131735 ATCTACGAAC
* *
62131745 CAAGGGTGTTTCGT-TAATTTTACAAAC
1 CAAGGGTATTTC-TATAATTTTACAAAT
* **
62131772 CAATGGTATTTCTATAATTTTTGAAAGT
1 CAAGGGTATTTCTATAATTTTACAAA-T
* **
62131800 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCTATAATTTTACAAAT
* *
62131827 CAGGGGTATTTCTATAATTTTCCAAAT
1 CAAGGGTATTTCTATAATTTTACAAAT
* ** *
62131854 TAAGGGTATTTCGGTAATTTTTCAAAT
1 CAAGGGTATTTCTATAATTTTACAAAT
* ** *
62131881 TAAGGGTATTTCGGTAACTTTACAAAT
1 CAAGGGTATTTCTATAATTTTACAAAT
* ** ** *
62131908 CGATAGTATTTCGGTAAGTTTT-CAAGT
1 CAAGGGTATTTCTATAA-TTTTACAAAT
* * *
62131935 CGAGGGTATTTCAATAATTTTACAAGT
1 CAAGGGTATTTCTATAATTTTACAAAT
* * **
62131962 CGAGGGAATTTCTATAATTTTACAAGG
1 CAAGGGTATTTCTATAATTTTACAAAT
* * ***
62131989 CGAGGGTATTTCGATAATTTTACTGGT
1 CAAGGGTATTTCTATAATTTTACAAAT
* * * * **
62132016 CGATGGTATTT-TGGTAGTTTTACAGGT
1 CAAGGGTATTTCT-ATAATTTTACAAAT
** ** * **
62132043 TGAGGGTATTTCGGTAATTTTATAGGT
1 CAAGGGTATTTCTATAATTTTACAAAT
* *
62132070 CGAGGGTA-TTCTAGTAATTTTACAAGT
1 CAAGGGTATTTCTA-TAATTTTACAAAT
** *
62132097 TGAGGGTATTTC-AGTAATTTTACAATT
1 CAAGGGTATTTCTA-TAATTTTACAAAT
** *
62132124 TGAGGGTATTT-TGATAATTTCACAAAT
1 CAAGGGTATTTCT-ATAATTTTACAAAT
* * *
62132151 CAAGGGTATTT-TGGTAATTTTGCTAAT
1 CAAGGGTATTTCT-ATAATTTTACAAAT
* ** *
62132178 CGAGGGTATTTCGGTAATTTTAAAAAT
1 CAAGGGTATTTCTATAATTTTACAAAT
* * * * *
62132205 TAGGGGTATTT-TGGTAATTTTGCTAAT
1 CAAGGGTATTTCT-ATAATTTTACAAAT
*
62132232 CGAGGGTATTTC
1 CAAGGGTATTTC
62132244 AGTAATTCTA
Statistics
Matches: 381, Mismatches: 78, Indels: 25
0.79 0.16 0.05
Matches are distributed among these distances:
26 8 0.02
27 344 0.90
28 29 0.08
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTCTATAATTTTACAAAT
Found at i:62131919 original size:81 final size:81
Alignment explanation
Indices: 62131802--62132243 Score: 365
Period size: 81 Copynumber: 5.5 Consensus size: 81
62131792 TTGAAAGTCA
* ** * * **
62131802 AGGGTATTTCTGTAATTTTGTAAATC-AGGGGTATTTCTATAATTTTCCAAATTAAGGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGA-GGGTATTTCTATAATTTTACAAGTCGAGGGTATTTC
* *
62131866 GGTAATTTTTCAAATTA
65 GGTAATTTTACAAATTG
* ** **
62131883 AGGGTATTTCGGTAACTTTACAAATCGATAGTATTTCGGTAAGTTTT-CAAGTCGAGGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCTATAA-TTTTACAAGTCGAGGGTATTTC
** * *
62131947 AATAATTTTACAAGTCG
65 GGTAATTTTACAAATTG
* ** ** * ** * *
62131964 AGGGAATTTCTATAATTTTACAAGGCGAGGGTATTTCGATAATTTTACTGGTCGATGGTATTTTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCTATAATTTTACAAGTCGAGGGTATTTCG
* **
62132029 GTAGTTTTACAGGTTG
66 GTAATTTTACAAATTG
* ** *
62132045 AGGGTATTTCGGTAATTTTATAGGTCGAGGGTA-TTCTAGTAATTTTACAAGTTGAGGGTATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCTA-TAATTTTACAAGTCGAGGGTATTTC
* *
62132109 AGTAATTTTACAATTTG
65 GGTAATTTTACAAATTG
* * * * * *
62132126 AGGGTATTTTGATAATTTCACAAATCAAGGGTATTT-TGGTAATTTTGCTAA-TCGAGGGTATTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCT-ATAATTTTAC-AAGTCGAGGGTATTT
*
62132189 CGGTAATTTTAAAAATT-
64 CGGTAATTTTACAAATTG
* * *
62132206 AGGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTTC
1 A-GGGTATTTCGGTAATTTTACAAATCGAGGGTATTTC
62132244 AGTAATTCTA
Statistics
Matches: 283, Mismatches: 69, Indels: 17
0.77 0.19 0.05
Matches are distributed among these distances:
80 9 0.03
81 265 0.94
82 9 0.03
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCTATAATTTTACAAGTCGAGGGTATTTCG
GTAATTTTACAAATTG
Found at i:62132248 original size:27 final size:26
Alignment explanation
Indices: 62131802--62132250 Score: 287
Period size: 27 Copynumber: 16.7 Consensus size: 26
62131792 TTGAAAGTCA
*
62131802 AGGGTATTTCTGTAATTTTGTA-AATC-
1 AGGGTATTTCGGTAA-TTT-TACAATCG
** * **
62131828 AGGGGTATTTCTATAATTTTCCAAATTA
1 A-GGGTATTTCGGTAATTTTAC-AATCG
* **
62131856 AGGGTATTTCGGTAATTTTTCAAATTA
1 AGGGTATTTCGGTAATTTTAC-AATCG
*
62131883 AGGGTATTTCGGTAACTTTACAAATCG
1 AGGGTATTTCGGTAATTTTAC-AATCG
**
62131910 ATAGTATTTCGGTAAGTTTT-CAAGTCG
1 AGGGTATTTCGGTAA-TTTTACAA-TCG
**
62131937 AGGGTATTTCAATAATTTTACAAGTCG
1 AGGGTATTTCGGTAATTTTACAA-TCG
* ** *
62131964 AGGGAATTTCTATAATTTTACAAGGCG
1 AGGGTATTTCGGTAATTTTACAA-TCG
* **
62131991 AGGGTATTTCGATAATTTTACTGGTCG
1 AGGGTATTTCGGTAATTTTAC-AATCG
* * * * *
62132018 ATGGTATTTTGGTAGTTTTACAGGTTG
1 AGGGTATTTCGGTAATTTTACA-ATCG
* *
62132045 AGGGTATTTCGGTAATTTTATAGGTCG
1 AGGGTATTTCGGTAATTTTACA-ATCG
* *
62132072 AGGGTA-TTCTAGTAATTTTACAAGTTG
1 AGGGTATTTC-GGTAATTTTACAA-TCG
* *
62132099 AGGGTATTTCAGTAATTTTACAATTTG
1 AGGGTATTTCGGTAATTTTACAA-TCG
* * * *
62132126 AGGGTATTTTGATAATTTCACAAATCA
1 AGGGTATTTCGGTAATTTTAC-AATCG
* *
62132153 AGGGTATTTTGGTAATTTTGCTAATCG
1 AGGGTATTTCGGTAATTTTAC-AATCG
* *
62132180 AGGGTATTTCGGTAATTTTAAAAAT-T
1 AGGGTATTTCGGTAATTTT-ACAATCG
* *
62132206 AGGGGTATTTTGGTAATTTTGCTAATCG
1 A-GGGTATTTCGGTAATTTTAC-AATCG
*
62132234 AGGGTATTTCAGTAATT
1 AGGGTATTTCGGTAATT
62132251 CTACCCTACA
Statistics
Matches: 344, Mismatches: 62, Indels: 33
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 14 0.04
27 319 0.93
28 10 0.03
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (26 bp):
AGGGTATTTCGGTAATTTTACAATCG
Found at i:62132296 original size:27 final size:27
Alignment explanation
Indices: 62132235--62132338 Score: 126
Period size: 27 Copynumber: 4.0 Consensus size: 27
62132225 TGCTAATCGA
*
62132235 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
62132262 AGGCATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
*
62132289 GGGTATTTC----ATTCTATCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
* *
62132312 GGGTATTTCAGTAATACTAGCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAG
62132339 ACATGAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
23 22 0.34
27 43 0.66
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAG
Found at i:62132301 original size:23 final size:23
Alignment explanation
Indices: 62132275--62132321 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
62132265 CATTTCAGTA
62132275 ATTCTACCCTACAGGGGTATTTC
1 ATTCTACCCTACAGGGGTATTTC
*
62132298 ATTCTATCCTACAGGGGTATTTC
1 ATTCTACCCTACAGGGGTATTTC
62132321 A
1 A
62132322 GTAATACTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (23 bp):
ATTCTACCCTACAGGGGTATTTC
Found at i:62136175 original size:40 final size:40
Alignment explanation
Indices: 62136130--62136321 Score: 192
Period size: 40 Copynumber: 4.8 Consensus size: 40
62136120 ATAACCACAA
* *
62136130 GCACAATTGCCTTCGGGTCTTAACCC-GAGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TATAGCAACTC
* *
62136170 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
62136210 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * * *
62136250 GCATAAAAGCCTTCGGGACTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
62136290 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
62136322 CATTCAAATG
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.95
41 6 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:62136262 original size:80 final size:81
Alignment explanation
Indices: 62136129--62136320 Score: 212
Period size: 80 Copynumber: 2.4 Consensus size: 81
62136119 TATAACCACA
* * * * * *
62136129 AGCACAATTGCCTTCGGGTCTTAACCC-GAGT-ATAGCAACTCGCACAAATGCCTTCAGGTCTTA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGA-TAAAAGCAACTAGCACAAAAGCCTTCAGGACTTA
* *
62136192 GCCCGGAT-ATATCAACT
65 GCCCAGATAAAATC-ACT
* * * *
62136209 CGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAAAGCCTTCGGGACTTAG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCACAAAAGCCTTCAGGACTTAG
62136273 CCCAGATAAAATCACT
66 CCCAGATAAAATCACT
* *
62136289 AGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATA
62136321 TCATTCAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 85 0.90
81 9 0.10
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (81 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCACAAAAGCCTTCAGGACTTAG
CCCAGATAAAATCACT
Found at i:62140882 original size:55 final size:55
Alignment explanation
Indices: 62140788--62140933 Score: 159
Period size: 55 Copynumber: 2.7 Consensus size: 55
62140778 TGCGACATGG
* * *
62140788 CCGTGGGCGAACCTACCAAAACAACACGGGTG-GTCGACACGCCGGTGCCTTGAAA
1 CCGTGGGCAAACCTACCAAAATAACACGGGCGTGT-GACACGCCGGTGCCTTGAAA
* * * **
62140843 CTGTGGGCAAAACTACCAAAATAACACGGGCGTGTGACACGCCTGTGTTTTGAAA
1 CCGTGGGCAAACCTACCAAAATAACACGGGCGTGTGACACGCCGGTGCCTTGAAA
* ** **
62140898 CCATGGGCAAACCTGTCAATTTAACACGGGCGTGTG
1 CCGTGGGCAAACCTACCAAAATAACACGGGCGTGTG
62140934 CCTTCATACA
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
55 73 0.97
56 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.18
Consensus pattern (55 bp):
CCGTGGGCAAACCTACCAAAATAACACGGGCGTGTGACACGCCGGTGCCTTGAAA
Found at i:62143008 original size:13 final size:13
Alignment explanation
Indices: 62142990--62143031 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
62142980 TTGGACTTCC
*
62142990 TCACACGGGCGTG
1 TCACACGGGCATG
*
62143003 TCACACGGTCATG
1 TCACACGGGCATG
*
62143016 TCACACGGTCATG
1 TCACACGGGCATG
62143029 TCA
1 TCA
62143032 ATTTGGCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.21, C:0.31, G:0.26, T:0.21
Consensus pattern (13 bp):
TCACACGGGCATG
Found at i:62154167 original size:30 final size:30
Alignment explanation
Indices: 62154133--62154193 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
62154123 TCCTTTACTC
62154133 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
62154163 AAACTTTTGCATATTTACACTTTTGCTCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
62154193 A
1 A
62154194 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:62158028 original size:38 final size:38
Alignment explanation
Indices: 62157977--62158220 Score: 204
Period size: 38 Copynumber: 5.9 Consensus size: 38
62157967 AAAAAAAAAA
*
62157977 GTGGTGCTAAGTGGATATACCACT-GTTATACGTGTAAC
1 GTGGTGCTAAGTGGATATACCA-TGGTTATACATGTAAC
**
62158015 GTGGTGCTAAGTGGATATACCACGATTACTCATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATA-C-C----A-T--GGTT-ATACATGTAAC
* * *
62158063 GTGGTGCTAAGTGGATATACCACGGTTAAACACGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTTATACATGTAAC
* *
62158101 GTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCATGGTT--ATACA-TG------TAAC
62158148 GTGGTGCTAAGTGGATATACCATGGTTCA-ACATGTAAC
1 GTGGTGCTAAGTGGATATACCATGGTT-ATACATGTAAC
*
62158186 GTGGTGCTAAGTGGATATGCCATGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCATGGTTATACATGT
62158221 TAATTTGAAA
Statistics
Matches: 171, Mismatches: 15, Indels: 40
0.76 0.07 0.18
Matches are distributed among these distances:
37 1 0.01
38 89 0.52
39 3 0.02
40 4 0.02
41 1 0.01
42 1 0.01
44 5 0.03
45 2 0.01
46 3 0.02
47 33 0.19
48 29 0.17
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.31
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCATGGTTATACATGTAAC
Found at i:62158064 original size:48 final size:46
Alignment explanation
Indices: 62158004--62158169 Score: 179
Period size: 48 Copynumber: 3.7 Consensus size: 46
62157994 TACCACTGTT
*
62158004 ATACGTGTAACGTGGTGCTAAGTGGATATACCACGATTACTCATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACG-TTACT-ATATTG
*
62158052 ATACATGTAACGTGGTGCTAAGTGGATATACCACG---GT-TA---
1 ATACATGTAACGTGGTGCTAAGTGGATATACCACGTTACTATATTG
* * *
62158091 A-ACACGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTG
1 ATACATGTAACGTGGTGCTAAGTGGATATACCA-CGTTAC-TATATTG
*
62158138 ATTCAT-TAACGTGGTGCTAAGTGGATATACCA
1 ATACATGTAACGTGGTGCTAAGTGGATATACCA
62158170 TGGTTCAACA
Statistics
Matches: 99, Mismatches: 9, Indels: 21
0.77 0.07 0.16
Matches are distributed among these distances:
38 29 0.29
39 2 0.02
42 2 0.02
43 1 0.01
44 3 0.03
47 26 0.26
48 36 0.36
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (46 bp):
ATACATGTAACGTGGTGCTAAGTGGATATACCACGTTACTATATTG
Found at i:62158136 original size:86 final size:85
Alignment explanation
Indices: 62157977--62158213 Score: 359
Period size: 86 Copynumber: 2.8 Consensus size: 85
62157967 AAAAAAAAAA
* * * * * *
62157977 GTGGTGCTAAGTGGATATACCACTGTTATACGTGTAACGTGGTGCTAAGTGGATATACCACGATT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTT
62158042 ACTCATATTGATACATGTAAC
66 ACTCATATTGATACAT-TAAC
*
62158063 GTGGTGCTAAGTGGATATACCACGGTTAAACACGTAACGTGGTGCTAAGTGGATATGCCATGGTT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTT
*
62158128 ACAT-ATATTGATTCATTAAC
66 AC-TCATATTGATACATTAAC
* *
62158148 GTGGTGCTAAGTGGATATACCATGGTTCAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTT
62158213 A
66 A
62158214 TACATGTTAA
Statistics
Matches: 139, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
85 67 0.48
86 71 0.51
87 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (85 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAAGTGGATATGCCATGGTT
ACTCATATTGATACATTAAC
Found at i:62161462 original size:71 final size:67
Alignment explanation
Indices: 62161385--62161526 Score: 196
Period size: 67 Copynumber: 2.1 Consensus size: 67
62161375 TCACCAGATA
* * *
62161385 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGA-AGCCACCAGATTGCAGCG
1 CAGATATTGTGACAAAGCCACCAGAACAG----ATATATGTGGCGAGA-CCACCAGATTGCAGCG
62161449 AGGCTGC
61 AGGCTGC
*
62161456 CAGATATTGTGACAAAGTCACCAGAACAGATATATGTGGCGAGACCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAGACCACCAGATTGCAGCGAGGCT
62161521 GC
66 GC
62161523 CAGA
1 CAGA
62161527 ACACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
67 40 0.61
68 1 0.02
71 25 0.38
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAGACCACCAGATTGCAGCGAGGCT
GC
Found at i:62162164 original size:27 final size:27
Alignment explanation
Indices: 62162134--62162329 Score: 223
Period size: 27 Copynumber: 7.3 Consensus size: 27
62162124 GGGGCAAAAT
* *
62162134 GGTAATTTTACCCTACTA-GGGTATCTC
1 GGTAATTCTACCCTAC-AGGGGTATTTC
**
62162161 GGTAATTCTACAATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
62162188 AATATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
62162215 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
62162242 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
62162269 GGTAATTCTACCTTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
62162296 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
62162323 GGTAATT
1 GGTAATT
62162330 TTGCTAATCG
Statistics
Matches: 141, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:62162209 original size:54 final size:54
Alignment explanation
Indices: 62162135--62162329 Score: 255
Period size: 54 Copynumber: 3.6 Consensus size: 54
62162125 GGGCAAAATG
* * * * *
62162135 GTAATTTTACCCTACTAGGGTATCTCGGTAATTCTACAATACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTTA
* * * *
62162189 ATATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTTA
* * * *
62162243 GTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCTTATAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTTA
* *
62162297 GTAATTCTACCCTACAGGGGTATTTTGGTAATT
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATT
62162330 TTGCTAATCG
Statistics
Matches: 123, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 123 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCATACAGGGGTATTTTA
Found at i:62162384 original size:26 final size:27
Alignment explanation
Indices: 62162314--62162383 Score: 124
Period size: 26 Copynumber: 2.6 Consensus size: 27
62162304 TACCCTACAG
*
62162314 GGGTATTTTGGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTTGCTAATCAA
62162341 -GGTATTTTGGTAATTTTGCTAATCAA
1 GGGTATTTTGGTAATTTTGCTAATCAA
62162367 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
62162384 GGTAAACTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 25 0.61
27 16 0.39
ACGTcount: A:0.23, C:0.06, G:0.24, T:0.47
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGCTAATCAA
Found at i:62163999 original size:15 final size:15
Alignment explanation
Indices: 62163979--62164020 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
62163969 ACTGTAAATG
62163979 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
62163994 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
*
62164009 GGCTTTCCTTAT
1 GGATTTCCTTAT
62164021 TCTGGGCTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.14, C:0.19, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:62165047 original size:22 final size:22
Alignment explanation
Indices: 62165019--62165062 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
62165009 ATAAAGAGTG
62165019 TGAGGTTGAGATGAACTGGCTA
1 TGAGGTTGAGATGAACTGGCTA
62165041 TGAGGTTGAGATGAACTGGCTA
1 TGAGGTTGAGATGAACTGGCTA
62165063 GTTTTACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.27
Consensus pattern (22 bp):
TGAGGTTGAGATGAACTGGCTA
Found at i:62166909 original size:47 final size:47
Alignment explanation
Indices: 62166794--62167004 Score: 246
Period size: 47 Copynumber: 4.7 Consensus size: 47
62166784 GTTATATGTG
* * * *
62166794 TAACGTGGTGCTAAGTGGATACACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* **
62166841 GTAACGTGGTGCTAGGTGGATATGGCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
62166889 TAACGTGGTGCTAAGTGGATATACCACGG-T---TA-A--G---CACG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCA-T
*
62166927 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
62166974 TAACGTGGTGCTAAGTGGATAT-CCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
62167005 TACATGTTAA
Statistics
Matches: 139, Mismatches: 13, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
37 2 0.01
38 28 0.20
39 1 0.01
40 1 0.01
42 3 0.02
43 3 0.02
45 1 0.01
46 10 0.07
47 48 0.35
48 42 0.30
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:62166945 original size:85 final size:84
Alignment explanation
Indices: 62166841--62167004 Score: 301
Period size: 85 Copynumber: 1.9 Consensus size: 84
62166831 ATTGATACAT
* *
62166841 GTAACGTGGTGCTAGGTGGATATGGCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTG
1 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTG
62166906 GATATACCACGGTTAAGCAC
66 GATAT-CCACGGTTAAGCAC
62166926 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTG
1 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTG
62166991 GATATCCACGGTTA
66 GATATCCACGGTTA
62167005 TACATGTTAA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
84 9 0.12
85 68 0.88
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (84 bp):
GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTAAGTG
GATATCCACGGTTAAGCAC
Found at i:62167009 original size:133 final size:133
Alignment explanation
Indices: 62166760--62167004 Score: 363
Period size: 133 Copynumber: 1.9 Consensus size: 133
62166750 ATAAAAAAAA
* *
62166760 GTGGTGCTAAGTGGATATACCATGGTTATATGTGTAACGTGGTGCTAAGTGGATACACCACGATT
1 GTGGTGCTAAGTGGATATACCACGGTTATATGCGTAACGTGGTGCTAAGTGGATACACCACGATT
* *
62166825 ACACATATTGATACATGTAACGTGGTGCTAGGTGGATATGGCACGGTTACATATATTGATTCATT
66 ACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
62166890 AAC
131 AAC
** *
62166893 GTGGTGCTAAGTGGATATACCACGGTTA-A-GCACGTAACGTGGTGCTAAGTGGATATGCCACGG
1 GTGGTGCTAAGTGGATATACCACGGTTATATG--CGTAACGTGGTGCTAAGTGGATACACCACGA
* *
62166956 TTACATATATTGATTCAT-TAACGTGGTGCTAAGTGGATAT-CCACGGTTA
64 TTACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
62167005 TACATGTTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
131 9 0.09
132 22 0.22
133 70 0.69
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (133 bp):
GTGGTGCTAAGTGGATATACCACGGTTATATGCGTAACGTGGTGCTAAGTGGATACACCACGATT
ACACATATTGATACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
AAC
Found at i:62172959 original size:37 final size:37
Alignment explanation
Indices: 62172917--62172992 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
62172907 TAAAGGTGTG
* * *
62172917 AATAAATTAAAGATATGGGCTGCTAGGGACTCCATGA
1 AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
62172954 AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
1 AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
62172991 AA
1 AA
62172993 ATTCGGCTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.21
Consensus pattern (37 bp):
AATAAATAAAAGACATGGGCTGCTAAGGACTCCATGA
Found at i:62173566 original size:47 final size:47
Alignment explanation
Indices: 62173479--62173595 Score: 117
Period size: 47 Copynumber: 2.4 Consensus size: 47
62173469 CAGCTCGAAT
* * * * **
62173479 GAGCTTACTGATATTTCAGCTCATAAGAGCTTATTGTTTTCAGGTCGTTG
1 GAGCTTACTG-T-TTT-AGCTCATAAAAGCTTACTATTTTCAGCTCGTCA
**
62173529 GAGCTTACTGTTTTAGCTTGTAAAAGCTTACTATTTTCAGCTCGTCA
1 GAGCTTACTGTTTTAGCTCATAAAAGCTTACTATTTTCAGCTCGTCA
* *
62173576 GAGCTTACCGTTTAAGCTCA
1 GAGCTTACTGTTTTAGCTCA
62173596 ATAGAGCTTA
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
47 41 0.75
48 3 0.05
49 1 0.02
50 10 0.18
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (47 bp):
GAGCTTACTGTTTTAGCTCATAAAAGCTTACTATTTTCAGCTCGTCA
Found at i:62173580 original size:24 final size:24
Alignment explanation
Indices: 62173469--62173583 Score: 99
Period size: 24 Copynumber: 4.8 Consensus size: 24
62173459 GGACTCACCA
62173469 CAGCTCG-AATGAGCTTACTGATATTT
1 CAGCTCGTAA-GAGCTTACT-AT-TTT
* * *
62173495 CAGCTCATAAGAGCTTATTGTTTT
1 CAGCTCGTAAGAGCTTACTATTTT
* ** *
62173519 CAGGTCGTTGGAGCTTACTGTTTT
1 CAGCTCGTAAGAGCTTACTATTTT
* *
62173543 -AGCTTGTAAAAGCTTACTATTTT
1 CAGCTCGTAAGAGCTTACTATTTT
*
62173566 CAGCTCGTCAGAGCTTAC
1 CAGCTCGTAAGAGCTTAC
62173584 CGTTTAAGCT
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
23 17 0.24
24 36 0.51
25 1 0.01
26 14 0.20
27 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.37
Consensus pattern (24 bp):
CAGCTCGTAAGAGCTTACTATTTT
Found at i:62173768 original size:20 final size:20
Alignment explanation
Indices: 62173743--62173783 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
62173733 CAACAGGTAT
62173743 AAATATTGTTTATATGGATG
1 AAATATTGTTTATATGGATG
62173763 AAATATTGTTTATATGGATG
1 AAATATTGTTTATATGGATG
62173783 A
1 A
62173784 GCTACAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (20 bp):
AAATATTGTTTATATGGATG
Found at i:62173793 original size:20 final size:20
Alignment explanation
Indices: 62173750--62173793 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
62173740 TATAAATATT
**
62173750 GTTTATATGGATGAAATATT
1 GTTTATATGGATGAAATACA
**
62173770 GTTTATATGGATGAGCTACA
1 GTTTATATGGATGAAATACA
62173790 GTTT
1 GTTT
62173794 GCAAATGGAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.43
Consensus pattern (20 bp):
GTTTATATGGATGAAATACA
Found at i:62175050 original size:50 final size:52
Alignment explanation
Indices: 62174931--62175069 Score: 178
Period size: 52 Copynumber: 2.7 Consensus size: 52
62174921 GTTGTGAGAA
* * *
62174931 CACATGTGTAGTACTATGTGTAGGCTACTATGTG-ATTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGG-TTTAGGT
* * *
62174983 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
*
62175033 CGCATGTGTAGTACTAAGTGCA-GCTACTATGTGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACT
62175070 CGATAGCTTC
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
49 14 0.18
50 26 0.34
52 35 0.45
53 2 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (52 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACTAAAATGGTTTAGGT
Found at i:62175125 original size:50 final size:50
Alignment explanation
Indices: 62175044--62175178 Score: 139
Period size: 50 Copynumber: 2.7 Consensus size: 50
62175034 GCATGTGTAG
* *** *
62175044 TACTAAGTGCA-GCTACTATGTGTACTCGATAGCTTCGATCACAGTGTGA
1 TACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCAAAGTGTGA
* * * *
62175093 TGCTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTCAAAGTGTGG
1 TACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCAAAGTGTGA
* * *
62175143 TACTATGTGAAGGCCACTTTGTG-AAGAAGATAGCTT
1 TACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTT
62175179 TGACTACGAG
Statistics
Matches: 71, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 12 0.17
50 59 0.83
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
TACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTCGATCAAAGTGTGA
Found at i:62177261 original size:13 final size:13
Alignment explanation
Indices: 62177243--62177285 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
62177233 GAGACACTGG
62177243 CGTGTGTCTCGAC
1 CGTGTGTCTCGAC
*
62177256 CGTGTG--TCG-G
1 CGTGTGTCTCGAC
62177266 CGTGTGTCTCGAC
1 CGTGTGTCTCGAC
62177279 CGTGTGT
1 CGTGTGT
62177286 GACACACGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.05, C:0.26, G:0.37, T:0.33
Consensus pattern (13 bp):
CGTGTGTCTCGAC
Found at i:62177271 original size:23 final size:23
Alignment explanation
Indices: 62177241--62177285 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
62177231 TAGAGACACT
62177241 GGCGTGTGTCTCGACCGTGTGTC
1 GGCGTGTGTCTCGACCGTGTGTC
62177264 GGCGTGTGTCTCGACCGTGTGT
1 GGCGTGTGTCTCGACCGTGTGT
62177286 GACACACGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.04, C:0.24, G:0.40, T:0.31
Consensus pattern (23 bp):
GGCGTGTGTCTCGACCGTGTGTC
Found at i:62178982 original size:24 final size:24
Alignment explanation
Indices: 62178932--62178985 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
62178922 AATCGAATTT
*
62178932 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
62178956 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
62178980 GCACAC
1 GCACAC
62178986 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:62187902 original size:28 final size:28
Alignment explanation
Indices: 62187839--62188076 Score: 379
Period size: 28 Copynumber: 8.5 Consensus size: 28
62187829 ATATTAAGTC
*
62187839 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
62187866 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62187894 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62187922 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62187950 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62187978 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62188006 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62188034 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62188063 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62188077 CAATCTCATG
Statistics
Matches: 198, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.11
28 157 0.79
29 19 0.10
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62195949 original size:28 final size:28
Alignment explanation
Indices: 62195886--62196123 Score: 406
Period size: 28 Copynumber: 8.5 Consensus size: 28
62195876 ATATTAAGTC
*
62195886 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
62195913 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62195941 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
62195969 TGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62195997 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62196025 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62196053 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62196081 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62196109 CGCACACCTAGTGCT
1 CGCACACTTAGTGCT
62196124 GTACAATTTA
Statistics
Matches: 202, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
27 22 0.11
28 180 0.89
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62196423 original size:28 final size:28
Alignment explanation
Indices: 62196360--62196597 Score: 379
Period size: 28 Copynumber: 8.5 Consensus size: 28
62196350 ATATTAAGTC
*
62196360 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
62196387 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62196415 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
62196443 TGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
62196471 CGCACACTTAGTGCTACATAATCAAACA
1 CGCACACTTAGTGCTATATAATCAAACT
62196499 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
62196527 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
62196555 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
62196584 CGCACACTTAGTGC
1 CGCACACTTAGTGC
62196598 CAATCTCATG
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
27 22 0.11
28 155 0.79
29 19 0.10
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:62196544 original size:474 final size:475
Alignment explanation
Indices: 62195657--62196597 Score: 1785
Period size: 474 Copynumber: 2.0 Consensus size: 475
62195647 TGTATTTTCG
62195657 TTACAATCATACAACTAAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAA
1 TTACAATCATACAACTAAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAA
62195722 TTATGATTGTCACATAGGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTA
66 TTATGATTGTCACATAGGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTA
62195787 GCCATGAACTCAAGGTACTTACCCGATCCGCTGTCCGATATCAACTCAATAATGTCGCACACTTA
131 GCCATGAACTCAAGGTACTTACCCGATCCGCTGTCCGATATCAACTCAATAATGTCGCACACTTA
62195852 GTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGCACACTCAGTGCTATATAATCAACTCGCA
196 GTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGCACACTCAGTGCTATATAATCAACTCGCA
62195917 CACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTTGCACACTTAGTG
261 CACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTTGCACACTTAGTG
* * *
62195982 CTACATAATCAAACTTGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAAT
326 CTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACACGCACACTTAGTGCTACATAAT
* *
62196047 CAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATATAA-TCAAACTCG
391 CAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAATTCAAACCCG
62196111 CACACCTAGTGCTGTACAAT
456 CACACCTAGTGCTGTACAAT
62196131 TTACAATCATACAACTAAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAA
1 TTACAATCATACAACTAAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAA
62196196 TTATGATTGTCACATAGGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTA
66 TTATGATTGTCACATAGGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTA
62196261 GCCATGAACTCAAGGTACTTACCCGATCCGCTGTCCGATATCAACTCAATAATGTCGCACACTTA
131 GCCATGAACTCAAGGTACTTACCCGATCCGCTGTCCGATATCAACTCAATAATGTCGCACACTTA
62196326 GTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGCACACTCAGTGCTATATAATCAACTCGCA
196 GTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGCACACTCAGTGCTATATAATCAACTCGCA
62196391 CACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTTGCACACTTAGTG
261 CACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTTGCACACTTAGTG
* *
62196456 CTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACACGCACACTTAGTGCTATATAAT
326 CTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACACGCACACTTAGTGCTACATAAT
* *
62196521 CAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCCG
391 CAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAATTCAAACCCG
*
62196586 CACACTTAGTGC
456 CACACCTAGTGC
62196598 CAATCTCATG
Statistics
Matches: 456, Mismatches: 10, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
474 438 0.96
475 18 0.04
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.28
Consensus pattern (475 bp):
TTACAATCATACAACTAAACGACCTTTCACCTATTCCACAATAAATCTTATGTACGTGACTTCAA
TTATGATTGTCACATAGGTTCAAACTTACCAAGCTCAACTCCAAATATAAACATAGCGCCTATTA
GCCATGAACTCAAGGTACTTACCCGATCCGCTGTCCGATATCAACTCAATAATGTCGCACACTTA
GTGTCCATAGTGATTCAAAAGTATATATTAAGTCCGCACACTCAGTGCTATATAATCAACTCGCA
CACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTACATAATCAAACTTGCACACTTAGTG
CTACATAATCAAACTCGCACACTTAGTGCTACATAATCAAACACGCACACTTAGTGCTACATAAT
CAAACTCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAATTCAAACCCG
CACACCTAGTGCTGTACAAT
Found at i:62198522 original size:24 final size:24
Alignment explanation
Indices: 62198473--62198525 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
62198463 ATCGAATTTT
*
62198473 CACACATAGTGCTCGTCACACTCG
1 CACACATAGTGCTAGTCACACTCG
62198497 CACACATAGTGCCATAG-CACAC-CG
1 CACACATAGTG-C-TAGTCACACTCG
62198521 CACAC
1 CACAC
62198526 TCAGTGCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 18 0.69
25 6 0.23
26 2 0.08
ACGTcount: A:0.30, C:0.40, G:0.15, T:0.15
Consensus pattern (24 bp):
CACACATAGTGCTAGTCACACTCG
Found at i:62205934 original size:50 final size:49
Alignment explanation
Indices: 62205816--62206051 Score: 301
Period size: 49 Copynumber: 4.8 Consensus size: 49
62205806 TAACCAAAGC
* * *
62205816 TATCTGGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* ** *
62205865 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACATGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * *
62205915 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* * *
62205966 TATCGGGTACGCATAGTAACCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
62206015 TATCCGGTACACATAATAGCCTGCACTTAGTACTACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACA
62206052 GACCTGACCT
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 74 0.46
50 47 0.29
51 39 0.24
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:62212817 original size:43 final size:42
Alignment explanation
Indices: 62212752--62212907 Score: 188
Period size: 42 Copynumber: 3.7 Consensus size: 42
62212742 TACCGTACCA
* * * *
62212752 ATGCCATATCCCAAATCTGGTCTTACACGTAA-TCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACG-AAGTCTCATATCG
* * * *
62212794 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
* *
62212837 ATGCCATATCCTAGATATGGTTTTACACGAAGTCTCATATTG
1 ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
*
62212879 ATGCCATATCCTAGATATGGTTTTACACG
1 ATGCCATATCCTAGATATGGTCTTACACG
62212908 TAGTATTAGT
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 67 0.67
43 33 0.33
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:62214195 original size:19 final size:19
Alignment explanation
Indices: 62214167--62214204 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
62214157 TATTTGTGGG
62214167 AGTCCAGAGATCCGTTTAT
1 AGTCCAGAGATCCGTTTAT
*
62214186 AGTCCGGAGATCCGTTTAT
1 AGTCCAGAGATCCGTTTAT
62214205 CCGATGTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (19 bp):
AGTCCAGAGATCCGTTTAT
Found at i:62215975 original size:43 final size:42
Alignment explanation
Indices: 62215927--62216084 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 42
62215917 ACCATATACA
* *
62215927 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAA-ATCG
* *
62215970 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCAAA-ATCG
** * * *
62216012 ATGCTGATGTCCCAGACATGGTATTACACGTAAAAT-AAAAGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGT--AATCAAAA-TCG
* *
62216056 ATGCCAACGTCCTAGATGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
62216085 AAAATCACAT
Statistics
Matches: 89, Mismatches: 18, Indels: 15
0.73 0.15 0.12
Matches are distributed among these distances:
42 26 0.29
43 36 0.40
44 27 0.30
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCAAAATCG
Found at i:62222720 original size:172 final size:172
Alignment explanation
Indices: 62222434--62222778 Score: 636
Period size: 172 Copynumber: 2.0 Consensus size: 172
62222424 AACAATGGTT
*
62222434 ATACAATCTCAGAGCTTATTGGTGTACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
1 ATACAATCTCAGAGCTTATTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
*
62222499 CATCTGAAGTTCTGAATCAGAAATCAATTTATACTGAAATCCTTTTTAACTTATAATTAATAATA
66 CATCTGAAGTTCTGAATCAGAAATCAATTTATACTGAAATCCTTTTTAACTTATAATTAATAACA
*
62222564 CATTTCTATGTTTCTCGAATTCACTTAGTAAACATCAATTTA
131 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
*
62222606 ATACAATCTCAGAGCTTCTTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
1 ATACAATCTCAGAGCTTATTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
* *
62222671 CATCTGAAGTTTTGAATCAGAAATCAATTTATGCTGAAATCCTTTTTAACTTATAATTAATAACA
66 CATCTGAAGTTCTGAATCAGAAATCAATTTATACTGAAATCCTTTTTAACTTATAATTAATAACA
62222736 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
131 CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
62222778 A
1 A
62222779 CTTCTAATCC
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 167 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (172 bp):
ATACAATCTCAGAGCTTATTGGTATACACACTTTATTTCAAAGCAACAAGCAATCATCAATTTCA
CATCTGAAGTTCTGAATCAGAAATCAATTTATACTGAAATCCTTTTTAACTTATAATTAATAACA
CATTTCTATGTTTCACGAATTCACTTAGTAAACATCAATTTA
Found at i:62232744 original size:30 final size:30
Alignment explanation
Indices: 62232690--62232750 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
62232680 ACTAAGCAAC
62232690 TTTCATATACATGTATCATCCA-TTTCATG
1 TTTCATATACATGTATCATCCATTTTCATG
62232719 TTTCAATATACCATGTAAT-AT-CATTTTCATG
1 TTTC-ATATA-CATGT-ATCATCCATTTTCATG
62232750 T
1 T
62232751 ATTTCATGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
29 4 0.14
30 7 0.25
31 15 0.54
32 2 0.07
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTCATATACATGTATCATCCATTTTCATG
Found at i:62234535 original size:38 final size:38
Alignment explanation
Indices: 62234477--62234553 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
62234467 CCTTTGAAAC
* ** *
62234477 AAAGGACACTTTCATCATTGAGACCAAAATCTCCAAGA
1 AAAGGACACCTTCAGAATTGAGAACAAAATCTCCAAGA
62234515 AAAGGACACCTTCAGAATTGAGAACAAAATCTCCAAGA
1 AAAGGACACCTTCAGAATTGAGAACAAAATCTCCAAGA
62234553 A
1 A
62234554 CACCCAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.22, G:0.14, T:0.18
Consensus pattern (38 bp):
AAAGGACACCTTCAGAATTGAGAACAAAATCTCCAAGA
Found at i:62236194 original size:18 final size:18
Alignment explanation
Indices: 62236150--62236195 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
62236140 TCAAACCCTA
*
62236150 AGATTAAAAAATAAAACC
1 AGATTAAATAATAAAACC
**
62236168 AGATTAAATAATAAAAGT
1 AGATTAAATAATAAAACC
62236186 AGATTAAATA
1 AGATTAAATA
62236196 TGCTAACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.63, C:0.04, G:0.09, T:0.24
Consensus pattern (18 bp):
AGATTAAATAATAAAACC
Found at i:62250276 original size:43 final size:43
Alignment explanation
Indices: 62250119--62250277 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
62250109 TATGTGTTAT
* ***
62250119 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATAAATGA-TTA
* * *
62250163 CGTGTAAGACCATGTCTGGGACATTGGCATC-ATAAATAATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATAAATGATTA
* *** * *
62250205 CGTGTAAGACC-CTGTCTAGGATGGTGGCATCGATACATGACTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATAAATGATTA
*
62250248 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
62250278 GGTATGATCT
Statistics
Matches: 91, Mismatches: 21, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
42 27 0.30
43 34 0.37
44 30 0.33
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATAAATGATTA
Found at i:62252416 original size:16 final size:15
Alignment explanation
Indices: 62252386--62252456 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
62252376 TATATATCTT
*
62252386 TATATTA-TATATTA
1 TATATTATTTTATTA
62252400 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
*
62252416 TACATTATTTTA-TA
1 TATATTATTTTATTA
*
62252430 TTGCTATTA-TTTATTA
1 -T-ATATTATTTTATTA
62252446 TATATTATTTT
1 TATATTATTTT
62252457 TTACAAACTA
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
14 10 0.22
15 22 0.48
16 14 0.30
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:62252474 original size:30 final size:30
Alignment explanation
Indices: 62252433--62252503 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
62252423 TTTTATATTG
* *
62252433 CTATTATTTATTATATATTATTTTTTACAAA
1 CTATTA-TTATTATACATTATTATTTACAAA
* * *
62252464 CTATTATTATTTTACATTATTATTTATATA
1 CTATTATTATTATACATTATTATTTACAAA
62252494 CTATTATTAT
1 CTATTATTAT
62252504 ATTTCTACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 29 0.83
31 6 0.17
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (30 bp):
CTATTATTATTATACATTATTATTTACAAA
Found at i:62256067 original size:18 final size:18
Alignment explanation
Indices: 62256025--62256067 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
62256015 GCCCATTCCG
*
62256025 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
62256043 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
62256061 AAGTATG
1 AAGTATG
62256068 CCCATTCGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:62256589 original size:27 final size:28
Alignment explanation
Indices: 62256505--62256602 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
62256495 CATGAGATTG
* * *
62256505 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
62256534 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
62256562 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62256589 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
62256603 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62256616 original size:29 final size:27
Alignment explanation
Indices: 62256533--62256616 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
62256523 TAAATTGTTC
* *
62256533 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
62256561 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
62256588 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
62256617 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:62260979 original size:18 final size:17
Alignment explanation
Indices: 62260951--62260985 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62260941 ATTATTAAGA
*
62260951 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62260968 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62260986 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:62261123 original size:18 final size:17
Alignment explanation
Indices: 62261095--62261129 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62261085 ATTATTAAGA
*
62261095 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
62261112 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
62261130 TAAATAATAA
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:62261406 original size:21 final size:21
Alignment explanation
Indices: 62261377--62261419 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
62261367 ACACCTCTAT
*
62261377 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
62261398 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
62261419 T
1 T
62261420 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:62268255 original size:18 final size:18
Alignment explanation
Indices: 62268213--62268255 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
62268203 GCCCATTCCG
*
62268213 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
62268231 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
62268249 AAGTATG
1 AAGTATG
62268256 CCCATTCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:62268777 original size:27 final size:28
Alignment explanation
Indices: 62268693--62268790 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
62268683 CATGAGATTG
* * *
62268693 GCACTAAGTGTGCGGGTTTAAATTGT-TCA
1 GCACTAAGTGTGCGAGTTT-GATTATAT-A
62268722 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
62268750 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
62268777 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
62268791 GACTTAATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 24 0.38
28 21 0.33
29 19 0.30
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:62268804 original size:29 final size:27
Alignment explanation
Indices: 62268721--62268804 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
62268711 TAAATTGTTC
* *
62268721 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
62268749 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
*
62268776 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
62268805 TTTTGAATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.46
28 22 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:62269554 original size:1 final size:1
Alignment explanation
Indices: 62269514--62269540 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
62269504 TTTTTATGCA
62269514 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
62269541 GATTTGCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:62270400 original size:19 final size:18
Alignment explanation
Indices: 62270363--62270406 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
62270353 ATACATGCAG
62270363 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
62270380 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
62270399 TACTAATT
1 TAATAATT
62270407 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:62285381 original size:47 final size:47
Alignment explanation
Indices: 62285313--62285751 Score: 747
Period size: 47 Copynumber: 9.2 Consensus size: 47
62285303 NNNNNNNNNN
62285313 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
62285360 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--A
*
62285409 TATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
62285455 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
62285502 TATATACACTTTCACATTCATCACATCGGCTATTAGG-CTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--A
* *
62285550 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATC--ACA
62285599 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
*
62285646 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--A
*
62285695 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
62285742 TATATACACT
1 TATATACACT
62285752 GTCTTGGCTG
Statistics
Matches: 375, Mismatches: 7, Indels: 20
0.93 0.02 0.05
Matches are distributed among these distances:
46 45 0.12
47 150 0.40
48 45 0.12
49 134 0.36
51 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (47 bp):
TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACA
Found at i:62285431 original size:49 final size:49
Alignment explanation
Indices: 62285313--62285747 Score: 755
Period size: 49 Copynumber: 9.1 Consensus size: 49
62285303 NNNNNNNNNN
62285313 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
62285360 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
*
62285409 TATATACACTTTCACATTCATCACATCGGCCATTAGG-CTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
62285455 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
62285502 TATATACACTTTCACATTCATCACATCGGCTATTAGG-CTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
* *
62285550 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCATATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
62285599 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC--A
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
*
62285646 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
*
62285695 TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
62285744 TATA
1 TATA
62285748 CACTGTCTTG
Statistics
Matches: 373, Mismatches: 7, Indels: 14
0.95 0.02 0.04
Matches are distributed among these distances:
46 45 0.12
47 138 0.37
48 45 0.12
49 145 0.39
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
TATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATA
Found at i:62288873 original size:40 final size:40
Alignment explanation
Indices: 62288779--62288923 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
62288769 TACTCGAATG
*
62288779 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
62288820 ACATCTGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * * *
62288860 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
62288900 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
62288924 CTTGTGCGAG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 59 0.67
41 27 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:62290021 original size:68 final size:68
Alignment explanation
Indices: 62289912--62290049 Score: 267
Period size: 68 Copynumber: 2.0 Consensus size: 68
62289902 CAGAGATAAT
62289912 TAGAAGTCATGCCATATATGCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAAACAAACGGCAT
1 TAGAAGTCATGCCATATATGCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAAACAAACGGCAT
62289977 CAG
66 CAG
62289980 TAGAAGTCATGCCATATATGCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAAACAAACGGCAT
1 TAGAAGTCATGCCATATATGCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAAACAAACGGCAT
*
62290045 TAG
66 CAG
62290048 TA
1 TA
62290050 TTGAAGCCCT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (68 bp):
TAGAAGTCATGCCATATATGCATAGATTCCTTTTTGAGTCTAGTTTCTATAGAAACAAACGGCAT
CAG
Found at i:62291830 original size:27 final size:28
Alignment explanation
Indices: 62291787--62291853 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
62291777 GTGGGGTGCA
*
62291787 TCGGTGTTGTTCGTAAA-GAAGA-CAGCC
1 TCGGTATT-TTCGTAAACGAAGAGCAGCC
* * *
62291814 TCGGTATTTTCGATAAACTAAGAGGATCC
1 TCGGTATTTTCG-TAAACGAAGAGCAGCC
62291843 TCGGTATTTTC
1 TCGGTATTTTC
62291854 TAAGATCGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 11 0.33
28 4 0.12
29 14 0.42
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (28 bp):
TCGGTATTTTCGTAAACGAAGAGCAGCC
Found at i:62296266 original size:20 final size:20
Alignment explanation
Indices: 62296241--62296287 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
62296231 ATTTTGATAT
*
62296241 ACATGAT-TGATATGATTTGC
1 ACATGATATG-TATGATATGC
62296261 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
62296281 ACATGAT
1 ACATGAT
62296288 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:62296400 original size:27 final size:26
Alignment explanation
Indices: 62296337--62296434 Score: 155
Period size: 27 Copynumber: 3.8 Consensus size: 26
62296327 GAGGAAGTGC
*
62296337 AAAAGGGCTTTTGCCC-AGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTATTG
62296362 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCTAGTTTATTG
*
62296388 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCTAGTTTATTG
62296415 AAAAGGGCTT-TGCCCTAGTT
1 AAAAGGGCTTATGCCCTAGTT
62296435 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
25 24 0.35
26 19 0.28
27 25 0.37
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCTAGTTTATTG
Found at i:62304315 original size:25 final size:25
Alignment explanation
Indices: 62304286--62304333 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
62304276 TTATATTATG
* * *
62304286 AAAATAACTGTTTTGCCCCTAGGTA
1 AAAATAACCGTTATACCCCTAGGTA
*
62304311 AAAATGACCGTTATACCCCTAGG
1 AAAATAACCGTTATACCCCTAGG
62304334 GTTTACTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATAACCGTTATACCCCTAGGTA
Found at i:62304394 original size:20 final size:19
Alignment explanation
Indices: 62304369--62304435 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 19
62304359 ATTTTGATAT
* *
62304369 ACATGATTGATATGATTTAC
1 ACATGATTG-TATGATATGC
62304389 ACATGATATGTATGATATGC
1 ACATGAT-TGTATGATATGC
*
62304409 GCATGATTTGTATGATATGC
1 ACATGA-TTGTATGATATGC
62304429 ACATGAT
1 ACATGAT
62304436 CTATTCATAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 1 0.02
20 37 0.90
21 3 0.07
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.37
Consensus pattern (19 bp):
ACATGATTGTATGATATGC
Found at i:62304610 original size:25 final size:26
Alignment explanation
Indices: 62304487--62304635 Score: 230
Period size: 27 Copynumber: 5.7 Consensus size: 26
62304477 GGAAGTGCAG
*
62304487 AAGGGCTTATGCCCTAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AA
*
62304514 AAGGGCTTATGCCACAGTTTATTGAAA
1 AAGGGCTTATGCCCCAGTTTATTG-AA
62304541 AAGGGCTTATGCCCCAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
62304567 AAGGGCTTATGCCCCAGTTTATTGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
* *
62304593 AAGAGCTT-TGCCCCAGTTTATCGAA
1 AAGGGCTTATGCCCCAGTTTATTGAA
62304618 AAGGGCTT-TGCCCCAGTT
1 AAGGGCTTATGCCCCAGTT
62304636 ATTAAAGAGG
Statistics
Matches: 116, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
25 33 0.28
26 35 0.30
27 48 0.41
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
AAGGGCTTATGCCCCAGTTTATTGAA
Found at i:62311444 original size:22 final size:22
Alignment explanation
Indices: 62311419--62311461 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62311409 ACTATATGAC
62311419 CCAAAAATCCAA-CTTCCTAAAG
1 CCAAAAAT-CAATCTTCCTAAAG
*
62311441 CCAAAACTCAATCTTCCTAAA
1 CCAAAAATCAATCTTCCTAAA
62311462 CTTAGCATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.21
Consensus pattern (22 bp):
CCAAAAATCAATCTTCCTAAAG
Found at i:62316532 original size:47 final size:47
Alignment explanation
Indices: 62316463--62316588 Score: 225
Period size: 47 Copynumber: 2.7 Consensus size: 47
62316453 TTTTATGTGT
*
62316463 ATATATGCGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
*
62316510 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
*
62316557 ATATATGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
62316589 AATACGTATG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 75 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
Found at i:62316627 original size:48 final size:48
Alignment explanation
Indices: 62316558--62316788 Score: 383
Period size: 48 Copynumber: 4.8 Consensus size: 48
62316548 TGAACATGCA
* * *
62316558 TATATGTGATAAGGCCGAATGGCTAATGTGAAATACGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
62316606 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
62316654 CATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
62316702 CATATGTGGTAAAGCCGAATGG-TCAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATGAGATATG
*
62316750 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
62316789 GGCGATGTGC
Statistics
Matches: 175, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 1 0.01
48 173 0.99
49 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:62317043 original size:37 final size:37
Alignment explanation
Indices: 62316935--62317043 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
62316925 GGAAATATAT
*
62316935 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
62316972 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
62317009 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
62317044 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:62333989 original size:31 final size:31
Alignment explanation
Indices: 62333951--62334021 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
62333941 AAAGTGTCAC
62333951 ACGCCCGTGTAGATGGGTCGTGTGGATTCAA
1 ACGCCCGTGTAGATGGGTCGTGTGGATTCAA
* *
62333982 ACGCCCGTATAGATGGGTCGTGTGGATTCAC
1 ACGCCCGTGTAGATGGGTCGTGTGGATTCAA
62334013 AC-CCCGTGT
1 ACGCCCGTGT
62334022 GGCTTGGGGC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 6 0.16
31 31 0.84
ACGTcount: A:0.18, C:0.24, G:0.32, T:0.25
Consensus pattern (31 bp):
ACGCCCGTGTAGATGGGTCGTGTGGATTCAA
Found at i:62343230 original size:12 final size:12
Alignment explanation
Indices: 62343213--62343238 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62343203 CCACAAACTC
62343213 TCTTCCTCTCAT
1 TCTTCCTCTCAT
62343225 TCTTCCTCTCAT
1 TCTTCCTCTCAT
62343237 TC
1 TC
62343239 ATTCATAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTTCCTCTCAT
Found at i:62344036 original size:21 final size:20
Alignment explanation
Indices: 62344010--62344049 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
62344000 GCATTACGGT
62344010 AAGTTGGGCCTCAAGGGGCTG
1 AAGTTGGGCCT-AAGGGGCTG
*
62344031 AAGTTGGGCCTAATGGGCT
1 AAGTTGGGCCTAAGGGGCT
62344050 TTCGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (20 bp):
AAGTTGGGCCTAAGGGGCTG
Found at i:62344348 original size:25 final size:25
Alignment explanation
Indices: 62344319--62344366 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
62344309 TTATATTATG
* * *
62344319 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
62344344 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
62344367 GTTTACTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:62344436 original size:9 final size:9
Alignment explanation
Indices: 62344424--62344469 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
62344414 TGATTTGAAC
62344424 ATGATATGT
1 ATGATATGT
62344433 ATGATATGT
1 ATGATATGT
*
62344442 ATGATATGCGC
1 ATGATAT--GT
62344453 ATGATATGT
1 ATGATATGT
62344462 ATGATATG
1 ATGATATG
62344470 CACATGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 25 0.76
11 8 0.24
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (9 bp):
ATGATATGT
Found at i:62344436 original size:29 final size:29
Alignment explanation
Indices: 62344404--62344469 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
62344394 TTTGATATAC
*
62344404 ATGAT-TGATATGATTTGAACATGATATGT
1 ATGATATG-TATGATATGAACATGATATGT
**
62344433 ATGATATGTATGATATGCGCATGATATGT
1 ATGATATGTATGATATGAACATGATATGT
62344462 ATGATATG
1 ATGATATG
62344470 CACATGATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 31 0.94
30 2 0.06
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (29 bp):
ATGATATGTATGATATGAACATGATATGT
Found at i:62344444 original size:4 final size:5
Alignment explanation
Indices: 62344404--62344469 Score: 50
Period size: 5 Copynumber: 13.6 Consensus size: 5
62344394 TTTGATATAC
* * **
62344404 ATGAT -TGAT ATGAT TTGAAC ATGAT ATG-T ATGAT ATG-T ATGAT ATGCGC
1 ATGAT ATGAT ATGAT ATG-AT ATGAT ATGAT ATGAT ATGAT ATGAT ATG-AT
62344453 ATGAT ATG-T ATGAT ATG
1 ATGAT ATGAT ATGAT ATG
62344470 CACATGATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
4 16 0.34
5 25 0.53
6 6 0.13
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (5 bp):
ATGAT
Found at i:62344456 original size:20 final size:20
Alignment explanation
Indices: 62344433--62344477 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
62344423 CATGATATGT
*
62344433 ATGATATGTATGATATGCGC
1 ATGATATGTATGATATGCAC
62344453 ATGATATGTATGATATGCAC
1 ATGATATGTATGATATGCAC
62344473 ATGAT
1 ATGAT
62344478 GTATTCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (20 bp):
ATGATATGTATGATATGCAC
Found at i:62344598 original size:25 final size:26
Alignment explanation
Indices: 62344527--62344623 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
62344517 GAGGAAGTGC
*
62344527 AAAAGGGCTTATGTCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
62344553 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
62344579 AAAAGGGCTT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
62344604 AAACGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
62344624 ATTAAAGAGG
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 33 0.49
26 35 0.51
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:62344606 original size:51 final size:51
Alignment explanation
Indices: 62344527--62344623 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
62344517 GAGGAAGTGC
* *
62344527 AAAAGGGCTTATGTCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTT-TGCCCCAGTTTATTG
*
62344579 AAAAGGGCTT-TGCCCCAGTTTACTGAAACGGGCTTTGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTT
62344624 ATTAAAGAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 10 0.24
51 22 0.52
52 10 0.24
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTACTGAAAAGGGCTTTGCCCCAGTTTATTG
Found at i:62345109 original size:17 final size:17
Alignment explanation
Indices: 62345083--62345126 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
62345073 TTGAATAGGT
*
62345083 GTTTGGTTTTCATTAAA
1 GTTTGCTTTTCATTAAA
62345100 GTTTGCTTTTCATTAAA
1 GTTTGCTTTTCATTAAA
62345117 GTTTGCTTTT
1 GTTTGCTTTT
62345127 TTTATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.18, C:0.09, G:0.16, T:0.57
Consensus pattern (17 bp):
GTTTGCTTTTCATTAAA
Found at i:62348427 original size:40 final size:40
Alignment explanation
Indices: 62348333--62348477 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
62348323 TACTCGAATG
* *
62348333 ATATTCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
62348374 ACATTCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
62348414 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
62348454 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
62348478 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:62365375 original size:78 final size:76
Alignment explanation
Indices: 62365293--62365445 Score: 191
Period size: 76 Copynumber: 2.0 Consensus size: 76
62365283 CGAAGCCTTT
* * * *
62365293 GTGCGAGATACTAAATCCGGTTAAGTCCCGAA-GCATTCGTGCGAGTTATTAAATCCGGGTTAAG
1 GTGCGAGATACTAAATCCGGGTAAGTCCCGAAGGCATT-GT--GAGTTACTAAAACCGGGCTAAG
62365357 TCCCGAAGGCATTC
63 TCCCGAAGGCATTC
* ** * *
62365371 GTGCGAGTTGTTAAATCCGGGTATGTCCCGAAGGCATTGTGAGTTACTAAAACCGGGCTATGTCC
1 GTGCGAGATACTAAATCCGGGTAAGTCCCGAAGGCATTGTGAGTTACTAAAACCGGGCTAAGTCC
62365436 CGAAGGCATT
66 CGAAGGCATT
62365446 TGAACGAGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
76 31 0.48
78 29 0.45
79 5 0.08
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (76 bp):
GTGCGAGATACTAAATCCGGGTAAGTCCCGAAGGCATTGTGAGTTACTAAAACCGGGCTAAGTCC
CGAAGGCATTC
Found at i:62365399 original size:39 final size:40
Alignment explanation
Indices: 62365229--62365445 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 40
62365219 TTGAATGCTG
* * * * *
62365229 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
62365269 TCCGGACTAAGAT-CCGAA-GCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
62365308 TCC-GGTTAAGTCCCGAA-GCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
62365346 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
62365386 TCCGGG-TATGTCCCGAAGGCATT-GT--GAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
62365422 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
62365446 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
36 14 0.09
37 18 0.12
38 32 0.21
39 41 0.27
40 48 0.31
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:62365465 original size:76 final size:77
Alignment explanation
Indices: 62365303--62365466 Score: 179
Period size: 76 Copynumber: 2.1 Consensus size: 77
62365293 GTGCGAGATA
* * * *
62365303 CTAAATCCGGTTAAGTCCCGAAGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCA
1 CTAAATCCGGGTAAGTCCCGAAGCATTCGT-CGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
** **
62365368 TTCGTGCGAGTTG
65 TTCGAACGAGGAG
* * *
62365381 TTAAATCCGGGTATGTCCCGAAGGCATT-GT-GAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 CTAAATCCGGGTAAGTCCCGAA-GCATTCGTCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA
*
62365444 TTTGAACGAGGAG
65 TTCGAACGAGGAG
*
62365457 CTATATCCGG
1 CTAAATCCGG
62365467 TTAAATCCGA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
76 45 0.63
78 21 0.30
79 5 0.07
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (77 bp):
CTAAATCCGGGTAAGTCCCGAAGCATTCGTCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAG
Found at i:62366438 original size:1 final size:1
Alignment explanation
Indices: 62366434--62366459 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
62366424 ATTATCAAAC
62366434 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
62366460 TAATAGGGGA
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:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:62373127 original size:39 final size:40
Alignment explanation
Indices: 62372923--62373145 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
62372913 TTGAATGCTG
* * * * * *
62372923 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
62372963 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
62373003 TCCGGGTTAAGTTCCGAAGGCATTCATGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
62373043 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
62373083 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
62373122 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
62373146 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 35 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:62373165 original size:79 final size:80
Alignment explanation
Indices: 62372998--62373180 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
62372988 GTGCGAGATA
* * * *
62372998 CTAAATCCGGGTTAAGTTCCGAAGGCATTCATGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
62373063 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * * *
62373078 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
62373142 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
62373157 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
62373181 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.53
80 26 0.31
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:62376668 original size:47 final size:49
Alignment explanation
Indices: 62376592--62376724 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 49
62376582 TGTAACCCGC
62376592 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
62376642 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
62376685 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
62376725 TCAATCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 29 0.40
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:62376740 original size:46 final size:46
Alignment explanation
Indices: 62376595--62376740 Score: 140
Period size: 46 Copynumber: 3.2 Consensus size: 46
62376585 AACCCGCCCA
*
62376595 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTACAT-C
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A--T-CATCC
* * *** *
62376643 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCATCC
62376687 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAATCATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ATCATCC
62376735 T-AGTGA
1 TAAGTGA
62376741 CATGTCACTT
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.02
46 36 0.44
47 31 0.38
48 8 0.10
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCATCATCC
Found at i:62381258 original size:25 final size:25
Alignment explanation
Indices: 62381230--62381323 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 25
62381220 CTCTTTTAAT
* * *
62381230 AACTGGGGAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
***
62381255 AACTGGGGC-TTTCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
62381279 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
62381304 ACCTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
62381324 AGCACTTCCT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 19 0.33
25 39 0.67
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:62382323 original size:27 final size:27
Alignment explanation
Indices: 62382285--62382721 Score: 368
Period size: 27 Copynumber: 16.1 Consensus size: 27
62382275 TTAGTTTACC
* * *
62382285 AAATTACTAAAATGCCCTCAATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
62382312 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
62382339 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
** *
62382366 AAATTACCAAAATA-CCTTTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
62382393 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
*
62382420 AAATTACCAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
62382447 AAATTACCAAAATACCACT-GATTTGTG
1 AAATTACCAAAATACC-CTCGATTTGTA
** *
62382474 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * **
62382501 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
62382528 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
62382555 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
62382582 AAATTACCGAAATACCCTC-AGTTTGAA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*** *
62382609 AAATTATTGAAATACCGTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
62382636 AAATTATTGAAATACCCTCGACTTGTAA
1 AAATTACCAAAATACCCTCGATTTGT-A
* * **
62382664 AAATTACCAAAGTACCCCCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** *
62382691 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
62382718 AAAT
1 AAAT
62382722 AATTGAAATA
Statistics
Matches: 342, Mismatches: 55, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
26 6 0.02
27 309 0.90
28 27 0.08
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:62382756 original size:27 final size:27
Alignment explanation
Indices: 62382726--62382789 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
62382716 TAAAATAATT
*
62382726 GAAATACCCCTGTAGTGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
62382753 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTATC
62382780 GAAATACCCC
1 GAAATACCCC
62382790 AGTTATATGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTATC
Found at i:62383782 original size:27 final size:27
Alignment explanation
Indices: 62383752--62383932 Score: 290
Period size: 27 Copynumber: 6.7 Consensus size: 27
62383742 AATGGTATTT
* * *
62383752 TACCCCACAAGGGTATCTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
62383779 TACCCTATAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
62383806 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
62383833 TACCCTACAGGGGTATTTCAGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
*
62383860 TACCCTACAGGGGTATTTCGGTAATTT
1 TACCCTACAGGGGTATTTCGGTAATTC
*
62383887 TACCCTATAGGGGTATTTCGGTAATTC
1 TACCCTACAGGGGTATTTCGGTAATTC
62383914 TACCCTACAGGGGTATTTC
1 TACCCTACAGGGGTATTTC
62383933 AATATTTTAC
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (27 bp):
TACCCTACAGGGGTATTTCGGTAATTC
Found at i:62384009 original size:27 final size:26
Alignment explanation
Indices: 62383977--62384116 Score: 163
Period size: 27 Copynumber: 5.2 Consensus size: 26
62383967 CATAAATCGG
62383977 GGGTATTTTGGTAATTTTATAAACCA
1 GGGTATTTTGGTAATTTTATAAACCA
* *
62384003 GGAGTATTTTAGTAATTTTATAAACAA
1 GG-GTATTTTGGTAATTTTATAAACCA
* * *
62384030 GGGGTATTTTCGTAATTTTACTAATCGA
1 -GGGTATTTTGGTAATTTTA-TAAACCA
62384058 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACC-A
* * *
62384085 GGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTATAAA-CCA
62384112 GGGTA
1 GGGTA
62384117 AAATTGCAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.06
27 84 0.86
28 8 0.08
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.41
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTATAAACCA
Found at i:62384019 original size:54 final size:52
Alignment explanation
Indices: 62383961--62384116 Score: 168
Period size: 54 Copynumber: 2.9 Consensus size: 52
62383951 AGTATTTCGA
* * *
62383961 TAATTTCATAAATCGGGGGTATTTTGGTAATTTTATAAACCAGGAGTATTTTAG
1 TAATTTTATAAA-CAGGGGTATTTTAGTAATTTTATAAACCAGG-GTATTTTAG
* * * *
62384015 TAATTTTATAAACAAGGGGTATTTTCGTAATTTTACTAATCGAGGGTATTTTGG
1 TAATTTTATAAAC-AGGGGTATTTTAGTAATTTTA-TAAACCAGGGTATTTTAG
* * *
62384069 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 TAATTTTATAAA-CAGGGGTATTTTAGTAATTTTATAAA-CCAGGGTA
62384117 AAATTGCAAT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
53 4 0.05
54 76 0.86
55 8 0.09
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (52 bp):
TAATTTTATAAACAGGGGTATTTTAGTAATTTTATAAACCAGGGTATTTTAG
Found at i:62384116 original size:81 final size:79
Alignment explanation
Indices: 62383936--62384431 Score: 302
Period size: 81 Copynumber: 6.1 Consensus size: 79
62383926 GTATTTCAAT
* * * *
62383936 ATTTTACAAATTGAGAGTATTTCGATAATTTCATA-AATCGGGGGTATTTTGGTAATTTTATAAA
1 ATTTTATAAATCGAGGGTATTTCG-TAATTT--TACAATCGAGGGTATTTTGGTAATTTTATAAA
*
62384000 CC-AGGAGTATTTTAGTA
63 CCAAGG-GTATTTTGGTA
*
62384017 ATTTTATAAA-CAAGGGGTATTTTCGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTATAAA
1 ATTTTATAAATCGA-GGGTA-TTTCGTAATTTTAC-AATCGAGGGTATTTTGGTAATTTTATAAA
*
62384081 CCAAGGGTATTTTAGTA
63 CCAAGGGTATTTTGGTA
* * * * *** * * *
62384098 ATTTTGTAAATCGAGGGTAAAATT-GCAATTCTGTA-AATTGAGGGTAAAATGATAATTCTGTAA
1 ATTTTATAAATCGAGGGT--ATTTCGTAATT-T-TACAATCGAGGGTATTTTGGTAATTTTATAA
** ****
62384161 ATTAAGGGTAAAACGGTA
62 ACCAAGGGTATTTTGGTA
* ** * * *** * *
62384179 ATTCTATAAATCGAGGGTAAAATGGTAATTCTATA-AATCGAGGCTAAAATGGTAATTCTGTAAA
1 ATTTTATAAATCGAGGGT-ATTTCGTAATT-T-TACAATCGAGGGTATTTTGGTAATTTTATAAA
* * *
62384243 TCGAGGGTACTTTGGTA
63 CCAAGGGTATTTTGGTA
* * * * * *
62384260 ATTTTACAAATTGAGGGCATTTCAGTAATTTTACAATCGACGATATTTCGGTAATTTTATAAACC
1 ATTTTATAAATCGAGGGTATTTC-GTAATTTTACAATCGAGGGTATTTTGGTAATTTTATAAACC
** *
62384325 GGGGGTACTTTGGTA
65 AAGGGTATTTTGGTA
* * * * ** *
62384340 ATTTTACAAGTTGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
1 ATTTTATAAATCGAGGGTATTTC-GTAATTTTAC-AATCGAGGGTATTTTGGTAATTTTATAAAC
* *
62384405 TAAGGGTATTTCGGTA
64 CAAGGGTATTTTGGTA
62384421 ATTTTAGTAAA
1 ATTTTA-TAAA
62384432 CTAAAGTATT
Statistics
Matches: 332, Mismatches: 68, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
79 4 0.01
80 75 0.23
81 235 0.71
82 15 0.05
83 3 0.01
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (79 bp):
ATTTTATAAATCGAGGGTATTTCGTAATTTTACAATCGAGGGTATTTTGGTAATTTTATAAACCA
AGGGTATTTTGGTA
Found at i:62384262 original size:27 final size:27
Alignment explanation
Indices: 62384095--62384251 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
62384085 GGGTATTTTA
* *
62384095 GTAATTTTGTAAATCGAGGGTAAAATT
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
62384122 GCAATTCTGTAAATTGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* ** *
62384149 ATAATTCTGTAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
62384176 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
62384203 GTAATTCTATAAATCGAGGCTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
62384230 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
62384252 CTTTGGTAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 114 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:62384270 original size:27 final size:27
Alignment explanation
Indices: 62384240--62384426 Score: 193
Period size: 27 Copynumber: 7.0 Consensus size: 27
62384230 GTAATTCTGT
62384240 AAATCGAGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCGGTAATTTTAC
* * *
62384267 AAATTGAGGGCATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
* * *
62384294 -AATCGACGATATTTCGGTAATTTTAT
1 AAATCGAGGGTATTTCGGTAATTTTAC
* *
62384320 AAACCGGGGGTACTTT-GGTAATTTTAC
1 AAATCGAGGGTA-TTTCGGTAATTTTAC
* * * *
62384347 AAGTTGAAGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
*
62384374 AAATCGAGGGTATTTCAGTAATTTTAC
1 AAATCGAGGGTATTTCGGTAATTTTAC
*
62384401 AAA-CTAAGGGTATTTCGGTAATTTTA
1 AAATC-GAGGGTATTTCGGTAATTTTA
62384427 GTAAACTAAA
Statistics
Matches: 130, Mismatches: 25, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 27 0.21
27 100 0.77
28 3 0.02
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (27 bp):
AAATCGAGGGTATTTCGGTAATTTTAC
Done.