Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 6 of 161
Found at i:1749959 original size:20 final size:20
Alignment explanation
Indices: 1749934--1749974 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1749924 ATTGGACTTT
*
1749934 TTGTATTACTTTTATGAAAA
1 TTGTATTACTTGTATGAAAA
* *
1749954 TTGTATTGCTTGTATGGAAA
1 TTGTATTACTTGTATGAAAA
1749974 T
1 T
1749975 AGCATTGCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.17, T:0.49
Consensus pattern (20 bp):
TTGTATTACTTGTATGAAAA
Found at i:1750031 original size:42 final size:42
Alignment explanation
Indices: 1749976--1750057 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 42
1749966 TATGGAAATA
*
1749976 GCATTGCTTATGTATCAAAATTTG-AATAATATAACTTAGTG
1 GCATTACTTATGTATCAAAATTTGAAATAATATAACTTAGTG
1750017 GCATTACTTGATGTATCAAAATTTGAAAATAATATAACTTA
1 GCATTACTT-ATGTATCAAAATTTG-AAATAATATAACTTA
1750058 ATGAATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
41 8 0.22
42 15 0.41
44 14 0.38
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (42 bp):
GCATTACTTATGTATCAAAATTTGAAATAATATAACTTAGTG
Found at i:1756194 original size:50 final size:50
Alignment explanation
Indices: 1756035--1756325 Score: 268
Period size: 50 Copynumber: 5.9 Consensus size: 50
1756025 GATAATAACA
* * * * * *
1756035 TGCCAAAGCCATGTCCCATATATGGTCTTACATGGGA--TGTTTTCT-GTAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCG--G
* * * * ** * *
1756084 TGCCAATGCCATATCCCAGATATGGTTTTACATGGGAGTTCTCATATC-G
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * * ** *
1756133 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCT-TTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT-ATCTCGG
* *
1756183 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * *
1756233 TGTCAACGCCATGTCCCAGACATGGTCTTACTTGGGACCTCTTATCTGGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
* * *
1756283 TACCAACGCCATGTCCCAGACCTGGTCTTACATGAGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1756326 TACCCAAATG
Statistics
Matches: 198, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 67 0.34
50 124 0.63
51 6 0.03
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.30
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
Found at i:1760117 original size:40 final size:40
Alignment explanation
Indices: 1760019--1760321 Score: 380
Period size: 40 Copynumber: 7.6 Consensus size: 40
1760009 TCCTCGTTCA
* * * ** *
1760019 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
1760058 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1760098 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1760138 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
1760178 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
1760218 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
1760258 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
1760298 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
1760322 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:1776061 original size:27 final size:27
Alignment explanation
Indices: 1776030--1776207 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1776020 TAAATTGTAC
1776030 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
1776057 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1776083 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
1776111 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
1776139 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1776166 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
1776193 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1776208 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:1776144 original size:82 final size:81
Alignment explanation
Indices: 1776031--1776186 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1776021 AAATTGTACA
* *
1776031 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
1776095 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
1776112 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
1776177 TGCGAGTTGA
65 TGCGAATTGA
1776187 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:1776198 original size:82 final size:81
Alignment explanation
Indices: 1776027--1776207 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
1776017 GATTAAATTG
* *
1776027 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
1776092 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
1776108 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
1776172 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
1776190 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
1776208 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:1784124 original size:27 final size:27
Alignment explanation
Indices: 1784093--1784270 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1784083 TAAATTGTAC
1784093 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
1784120 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1784146 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
1784174 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
1784202 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1784229 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
1784256 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1784271 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:1784207 original size:82 final size:81
Alignment explanation
Indices: 1784094--1784249 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1784084 AAATTGTACA
* *
1784094 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
1784158 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
1784175 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
1784240 TGCGAGTTGA
65 TGCGAATTGA
1784250 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:1784261 original size:82 final size:81
Alignment explanation
Indices: 1784090--1784270 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
1784080 GATTAAATTG
* *
1784090 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
1784155 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
1784171 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
1784235 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
1784253 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
1784271 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:1786733 original size:27 final size:27
Alignment explanation
Indices: 1786694--1787105 Score: 457
Period size: 27 Copynumber: 15.3 Consensus size: 27
1786684 AGAGGTCAAT
*
1786694 AAATGACCGAAATACCCCCATAGAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
1786721 AAATGACCAAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
1786748 AAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
1786775 AAATGACAGAAATACCCCTGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * * * *
1786802 AAATAACCAAAATACCCTCGTAGGTTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
1786829 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
1786856 AAATGACCAAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* * *
1786883 AAATGACTGAAATACCCTCGTAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* **
1786910 AAATGACCGAAATA-CCTCAGTAGACTA
1 AAATGACCGAAATACCCCCA-TAGGGTA
* *
1786937 AAATGACTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** *
1786964 AAATGATTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
1786991 AAATGATCGAAACACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** **
1787018 AAATGATTGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
1787045 AAATGATTGAAATACCCCCGTACGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
1787072 AAATGACCGAAATACTCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
1787099 AAATGAC
1 AAATGAC
1787106 TGTTATACCT
Statistics
Matches: 332, Mismatches: 51, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 4 0.01
27 323 0.97
28 5 0.02
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:1787459 original size:28 final size:28
Alignment explanation
Indices: 1787423--1787480 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
1787413 TGCATTATTG
* *
1787423 CACTGTTACTGTATTGGGCTAAGGCCCA
1 CACTATTACTGTATCGGGCTAAGGCCCA
1787451 CACTATTACTGTATCGGGCTAAGGCCCA
1 CACTATTACTGTATCGGGCTAAGGCCCA
1787479 CA
1 CA
1787481 TTGTACTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (28 bp):
CACTATTACTGTATCGGGCTAAGGCCCA
Found at i:1804013 original size:40 final size:40
Alignment explanation
Indices: 1803930--1804192 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
1803920 TTGAATGCTG
* * * * * *
1803930 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
1803970 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
1804010 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1804050 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
1804090 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
1804130 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
1804169 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1804193 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:1804212 original size:79 final size:80
Alignment explanation
Indices: 1803969--1804227 Score: 265
Period size: 80 Copynumber: 3.3 Consensus size: 80
1803959 AAGTGAATAT
* * * * * *
1803969 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
1804033 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* *
1804049 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
1804114 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
1804129 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
1804193 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
1804208 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
1804228 TACGTGATTT
Statistics
Matches: 158, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
78 14 0.09
79 49 0.31
80 95 0.60
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:1811965 original size:40 final size:40
Alignment explanation
Indices: 1811882--1812104 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
1811872 TTGAATGCTG
* * * * * *
1811882 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
1811922 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
1811962 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
1812002 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
1812042 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
1812081 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
1812105 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:1812124 original size:79 final size:80
Alignment explanation
Indices: 1811957--1812139 Score: 235
Period size: 79 Copynumber: 2.3 Consensus size: 80
1811947 GTGCGAGATA
* *
1811957 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
1812022 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
1812037 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
1812101 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
1812116 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
1812140 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:1814521 original size:11 final size:11
Alignment explanation
Indices: 1814486--1814522 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1814476 AAGAGAGAAT
1814486 GATGCTTGATG
1 GATGCTTGATG
*
1814497 GAGGCTTGATG
1 GATGCTTGATG
*
1814508 GATGCTTGAAG
1 GATGCTTGATG
1814519 GATG
1 GATG
1814523 ATGAATGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.22, C:0.08, G:0.41, T:0.30
Consensus pattern (11 bp):
GATGCTTGATG
Found at i:1815400 original size:24 final size:23
Alignment explanation
Indices: 1815372--1815428 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
1815362 AAAGTCAAGA
1815372 GAAAATGAACAAGAGAAA-AAGAAT
1 GAAAATGAACAAGA-AAAGAA-AAT
*
1815396 GAAAAAGAACAAGAAAAGGAAAAT
1 GAAAATGAACAAGAAAA-GAAAAT
1815420 GAAAATGAA
1 GAAAATGAA
1815429 AAAAATTTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 24 0.83
25 2 0.07
ACGTcount: A:0.68, C:0.04, G:0.21, T:0.07
Consensus pattern (23 bp):
GAAAATGAACAAGAAAAGAAAAT
Found at i:1817919 original size:30 final size:30
Alignment explanation
Indices: 1817879--1817943 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
1817869 ACTATAGGGG
*
1817879 TCACACGGCCATGTGGCCAGGCCGTGTGAC
1 TCACAAGGCCATGTGGCCAGGCCGTGTGAC
*
1817909 TCACAAGGCCATGTGGCTAGGCCGTGTGAC
1 TCACAAGGCCATGTGGCCAGGCCGTGTGAC
1817939 TCACA
1 TCACA
1817944 CGAGTAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.20, C:0.31, G:0.31, T:0.18
Consensus pattern (30 bp):
TCACAAGGCCATGTGGCCAGGCCGTGTGAC
Found at i:1819100 original size:75 final size:76
Alignment explanation
Indices: 1818989--1819173 Score: 205
Period size: 75 Copynumber: 2.5 Consensus size: 76
1818979 CCACAGAGTA
* * *
1818989 GTTTGCGCCCAGCGCTAGTCGGGT-TAGCTGACGATATTGAAAGTGAGCCCAACTCTAGTTGGAT
1 GTTTGCACCCAGCGCTAGTCGGGTATAGCTGACGATATTGAAAGTGAGCCCAACTATAGTTGGAC
1819053 AAACAAACAAT
66 AAACAAACAAT
* * * * * * *
1819064 GTTTGCACCCAACGCTAGTCGGATATATC-GATGATATTGAATGTGAGCCTAGCTATAGTTGGAC
1 GTTTGCACCCAGCGCTAGTCGGGTATAGCTGACGATATTGAAAGTGAGCCCAACTATAGTTGGAC
* **
1819128 AAACCAACGGT
66 AAACAAACAAT
* * *
1819139 ATTTGCACCTAGCGCTAGTCGGGTATA-CCGACGAT
1 GTTTGCACCCAGCGCTAGTCGGGTATAGCTGACGAT
1819174 TGTGTGTCCA
Statistics
Matches: 90, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
74 1 0.01
75 86 0.96
76 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (76 bp):
GTTTGCACCCAGCGCTAGTCGGGTATAGCTGACGATATTGAAAGTGAGCCCAACTATAGTTGGAC
AAACAAACAAT
Found at i:1825111 original size:19 final size:19
Alignment explanation
Indices: 1825060--1825115 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
1825050 AATCTTCAAG
*
1825060 GATATGCAATCTTAGATAT
1 GATATGCAATCTTGGATAT
1825079 GATACATGCAATCTTGGATAT
1 GAT--ATGCAATCTTGGATAT
*
1825100 GATATACAATCTTGGA
1 GATATGCAATCTTGGA
1825116 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
GATATGCAATCTTGGATAT
Found at i:1832967 original size:88 final size:88
Alignment explanation
Indices: 1832816--1834211 Score: 1976
Period size: 88 Copynumber: 15.9 Consensus size: 88
1832806 GGTTTGCAGC
* * * * * *
1832816 GGAGCAGGTTGAAAATAACAGATCTTGTCTTCCTGTA-CTGACGGCGAAACAGATCGAAGATACC
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGAAGATACC
* *
1832880 AGCCTTGCCTCCCTAGGTTGTAGC
65 AGCCTTGCCTCCCTGGGTTGTAGT
* * * * *
1832904 GAAGCAGGTTGAAGGTAGCAGATCTTGTCTTCTTGCATCGACAGCGAAGAAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
1832969 GCCTTGCCTCCCTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
*
1832992 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCAACAGCGAAGCAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
* *
1833057 GCCTTACCTCCCTAGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * * * *
1833080 GAAGCAGGTTGAAGATAACAGATCTTGTCTTCCTACATCGACAGTGAAGCAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
* *
1833145 GTCTTGCCTCCCTAGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * *
1833168 GGAGCAGGTTGAAGGTAGAAGATCTTGCCTTCCTGCATCGACAGCGAAACAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
** *
1833233 ATCTTGCCTCCTTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * * *
1833256 GGAGCAGGTTGAAGATAGTAGATCTTGCCTTCTTGCATCGATAGTGAAGCAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
*
1833321 GCCTTGCCTCCCTGGGTTATAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* *
1833344 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGATAGCGAAGAAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
1833409 GCCTTGCCTCCCTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* *
1833432 GGAGCAGGTTGAAGGTAGCAGATCTTTCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
* *
1833497 GCCTTGTCGCCCTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * * *
1833520 GGAGCAGGTTGAAGATAGCAGATCTTGTCTTCCTACATCGACAGCGAAGAAGATCAAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
*
1833585 GCCTTGCCTCCTTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* *
1833608 GGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
*
1833673 GCCTTGCCTCCCTAGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* *
1833696 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAAATCGAACATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
1833761 GCCTTGCCTCCCTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * * * * *
1833784 GGAGCAAGTTGAAGATAGAAGATCTTGCCTTCTTGTA-CTGACAGTGAAGCAGATCGAAGATACT
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGAAGATACC
*
1833848 AGCCTTGCCTCCCTGGGTCGTAGT
65 AGCCTTGCCTCCCTGGGTTGTAGT
* * * *
1833872 GGAGTAGGTTGAAGATAGTAGATCTTGCCTTCCTGCATCGATAGCGAAGCAGATCGAAGATACTA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
1833937 GCCTTGCCTCCCTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * * * *
1833960 GGAGTAGGTTGAAGATAGCAGATCTTGGCTTCCTGTACCGACAGTGAAGCAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
* **
1834025 ACCTTGCCTCCCTGGGTCCTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * ** * *
1834048 ---GCAGGTTGAAGATAGTAGATCTTGGCTTCCTATACCGACAGTGAAGCAGATCGAAGATACCA
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
*
1834110 GCCTTGCCACCCTGGGTTGTAGT
66 GCCTTGCCTCCCTGGGTTGTAGT
* * * * * *
1834133 GGAGCAGGTTAAAGATAGCAGATCTTGCCTTCTTGTA-CTGACAGTGAAGCAGATCAAAGATACT
1 GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGCGAAGCAGATCGAAGATACC
*
1834197 AGCCTTGCCTACCTG
65 AGCCTTGCCTCCCTG
1834212 TATTTGCGTG
Statistics
Matches: 1177, Mismatches: 124, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
85 78 0.07
87 2 0.00
88 1095 0.93
89 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (88 bp):
GGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCA
GCCTTGCCTCCCTGGGTTGTAGT
Found at i:1834267 original size:44 final size:44
Alignment explanation
Indices: 1834143--1834693 Score: 481
Period size: 44 Copynumber: 12.5 Consensus size: 44
1834133 GGAGCAGGTT
* * * * *
1834143 AAAGATAGCAGATCTTGCCTTCTTGTACTGACAGTGAAGCAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATC
* * * * *
1834188 AAAGATA-CTAG-CCTTGCCTACCTGTATTTGCGTGAAGTAGATC
1 AAAGATAGC-AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* * * *
1834231 AAATATACCAGATCTTGTCATCATGTATTGGCGTGAATTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* * * *
1834275 GAAGATAGCAGATCTTATGTTCCCATACTGA-TGGC--GAAGTAGATC
1 AAAGATAGCAGATCTTGTCTT--CAT-GT-ATTGGCGTGAAGTAGATC
* * *
1834320 GAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* * *
1834364 AAAGATAGCAGATCTTGTCTTCATCTATTGGTGTGAAGTAAATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* *
1834408 AAAGATACCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* * **
1834452 GAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC-T-AAGTAGATC
1 AAAGATAGCAGATCTTGTCTT--CAT-GTATTGGCGTGAAGTAGATC
* *
1834497 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* *** * * *
1834541 AAAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
* * *
1834586 GAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATC
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
** * * * * * *
1834628 GCAGAAAGCAGATCTTGTCTTCATGTGTCGGCATGAAATAGATG
1 AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
* *
1834672 AAAGGTAGCAGATTTTGTCTTC
1 AAAGATAGCAGATCTTGTCTTC
1834694 CCATACTGGT
Statistics
Matches: 412, Mismatches: 76, Indels: 37
0.78 0.14 0.07
Matches are distributed among these distances:
41 1 0.00
42 47 0.11
43 26 0.06
44 220 0.53
45 101 0.25
46 7 0.02
47 9 0.02
48 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.30
Consensus pattern (44 bp):
AAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
Found at i:1834333 original size:89 final size:89
Alignment explanation
Indices: 1834221--1834649 Score: 596
Period size: 89 Copynumber: 4.9 Consensus size: 89
1834211 GTATTTGCGT
* * * * * *
1834221 GAAGTAGATCAAATATACCAGATCTTGTCATCATGTATTGGCGTGAATTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* * *
1834286 ATCTTATGTTCCCATACTGATGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* *
1834310 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* * *
1834375 ATCTTGTCTTCATC-TATTGGT-GT
66 ATCTTGTCTTC-CCATACTGGTGGC
* * * * *
1834398 GAAGTAAATCAAAGATACCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1834463 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * *
1834487 TAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1834552 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * *
1834576 GAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGCAGAAAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1834639 ATCTTGTCTTC
66 ATCTTGTCTTC
1834650 ATGTGTCGGC
Statistics
Matches: 299, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
87 29 0.10
88 76 0.25
89 193 0.65
90 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCCCATACTGGTGGC
Found at i:1834418 original size:177 final size:178
Alignment explanation
Indices: 1834219--1834649 Score: 636
Period size: 177 Copynumber: 2.4 Consensus size: 178
1834209 CTGTATTTGC
* * *
1834219 GTGAAGTAGATCAAATATACCAGATCTTGTCATCATGTATTGGCGTGAATTAGATCGAAGATAGC
1 GTGAAGTAGATCAAAGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
*
1834284 AGATCTTATGTTCCCATACTGATGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
66 AGATCTTATCTTCCCATACTGATGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
1834349 AGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATC-TATTGGT-
131 AGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC-CCATACTGGTG
* *
1834396 GTGAAGTAAATCAAAGATACCAGATCTTGTCTTCATGTATTGACGTGAAGTAGATCGAAGATAGC
1 GTGAAGTAGATCAAAGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
* * *
1834461 AGATCTTGTCTTCCCATACTGGTGGCTAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
66 AGATCTTATCTTCCCATACTGATGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
1834526 GGCGTGAAGTAGATCAAAGATAGTAGATCTTGTCTTCCCATACTGGTG
131 AGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTG
* * * ** * *
1834574 GCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGC--GAAGTAGATCGCAGAAAGC
1 GTGAAGTAGATCAAAGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
*
1834637 AGATCTTGTCTTC
66 AGATCTTATCTTC
1834650 ATGTGTCGGC
Statistics
Matches: 230, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
176 31 0.13
177 162 0.70
178 37 0.16
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (178 bp):
GTGAAGTAGATCAAAGATACCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGC
AGATCTTATCTTCCCATACTGATGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
AGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTG
Found at i:1835111 original size:40 final size:41
Alignment explanation
Indices: 1835066--1835162 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
1835056 ATCTTCAAGG
1835066 ATATGCAATCTTAGATATCATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATCATATGCAATCTTGAGATATGAT
* *
1835106 ATATGCAATCTTGGATATGATATGCAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATCATATGCAATCTT-G-AGATATGAT
* *
1835149 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
1835163 GATTTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 29 0.59
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATCATATGCAATCTTGAGATATGAT
Found at i:1835139 original size:19 final size:19
Alignment explanation
Indices: 1835065--1835136 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
1835055 AATCTTCAAG
1835065 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
1835084 CATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
1835103 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
1835124 GATATGCAATCTT
1 GATATGCAATCTT
1835137 GGAAGATATG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 30 0.62
21 18 0.38
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:1840876 original size:28 final size:28
Alignment explanation
Indices: 1840839--1841034 Score: 254
Period size: 28 Copynumber: 7.0 Consensus size: 28
1840829 TAGTATAGTA
*
1840839 TGGGTCTTAGCCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
*
1840867 TAGGCCTTAGCCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
* *
1840895 TGGGCATTAGCCCAATACAG-AATTAGTG
1 TGGGCCTTAGCCCAATACAGTAA-CAGTG
*
1840923 TGGGCCTTAGCCCAATATAG-AATCAGTG
1 TGGGCCTTAGCCCAATACAGTAA-CAGTG
* *
1840951 TGGGCCTTATCCGAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
* *
1840979 TGGACCTTAGCCCAATACAG-AATCAATG
1 TGGGCCTTAGCCCAATACAGTAA-CAGTG
*
1841007 TTGGCCTTAGCCCAATACAGTAACAGTG
1 TGGGCCTTAGCCCAATACAGTAACAGTG
1841035 CAGTGCAATA
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
27 4 0.03
28 138 0.95
29 4 0.03
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTAACAGTG
Found at i:1840950 original size:84 final size:84
Alignment explanation
Indices: 1840834--1841034 Score: 287
Period size: 84 Copynumber: 2.4 Consensus size: 84
1840824 AGTGATAGTA
* * *
1840834 TAGTATGGGTCTTAGCCCAATACAGTAACAGTGTAGGCCTTAGCCCAATACAGTAACAGTGTGGG
1 TAGTGTGGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTTAGCCCAATACAGTAACAGTGTGGA
1840899 CATTAGCCCAATACAGAAT
66 CATTAGCCCAATACAGAAT
* * * *
1840918 TAGTGTGGGCCTTAGCCCAATATAG-AATCAGTGTGGGCCTTATCCGAATACAGTAACAGTGTGG
1 TAGTGTGGGCCTTAGCCCAATACAGTAA-CAGTGTAGGCCTTAGCCCAATACAGTAACAGTGTGG
*
1840982 ACCTTAGCCCAATACAGAAT
65 ACATTAGCCCAATACAGAAT
* * *
1841002 CAATGTTGGCCTTAGCCCAATACAGTAACAGTG
1 TAGTGTGGGCCTTAGCCCAATACAGTAACAGTG
1841035 CAGTGCAATA
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
83 2 0.02
84 99 0.96
85 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (84 bp):
TAGTGTGGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTTAGCCCAATACAGTAACAGTGTGGA
CATTAGCCCAATACAGAAT
Found at i:1841171 original size:26 final size:26
Alignment explanation
Indices: 1841123--1841196 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
1841113 AATATCGCAA
** * *
1841123 CAAAGCTGTCAGTAATAGCATTGCAG
1 CAAAGCTACCAGTAACAGTATTGCAG
*
1841149 -AAGAGCTACCAGTATCAGTATTGCAG
1 CAA-AGCTACCAGTAACAGTATTGCAG
* *
1841175 CAAAGCTGCTAGTAACAGTATT
1 CAAAGCTACCAGTAACAGTATT
1841197 TGTGGCAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 2 0.05
26 34 0.89
27 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (26 bp):
CAAAGCTACCAGTAACAGTATTGCAG
Found at i:1841448 original size:27 final size:27
Alignment explanation
Indices: 1841418--1842047 Score: 675
Period size: 27 Copynumber: 23.5 Consensus size: 27
1841408 TTATCTACTA
** *
1841418 GGGGTATAACAGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1841445 GGGGTATTTC-GATCATTTTACCCTATA
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
1841472 GGGTTATTT-TGATCATTTTAACCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
1841499 GGGATATTTC-GTAATTTTTCCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
** *
1841525 GGGGTATTTTGGTCATTTTACCTTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
1841552 GGGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
1841579 GGGGTATTTC-GATTATTTTACCCTATA
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * * **
1841606 GAGGTATTACAGTTATTTTACCCTACA
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1841633 GGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
1841660 GAGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
1841687 GAGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
1841714 GGGTTATTTCAGTCATTCTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
1841741 AGGGTATTTCAGTCATTTTATCCTATT
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1841768 GGGGTATTTC-GATCATTTTACCATATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
1841795 AGGGTATTTCGGTTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1841822 GGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* * * *
1841849 AGGGTATTTC-GATCA-TTTATCCTTTT
1 GGGGTATTTCAG-TCATTTTACCCTATG
1841875 GGGGTATTTCAGTCATTTTACCCTAT-
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
1841901 GGGGTATTTCAATCATTTTACCTTAT-
1 GGGGTATTTCAGTCATTTTACCCTATG
* * *
1841927 GAGGTATTTCGGTCATTTTATCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
* *
1841954 GGGGTATTTCAGTCATTCTACCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
**
1841981 GGGGTATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1842008 GGGGTATTTTAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
*
1842035 AGGGTATTTCAGT
1 GGGGTATTTCAGT
1842048 GTAGATATCG
Statistics
Matches: 512, Mismatches: 79, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
26 89 0.17
27 421 0.82
28 2 0.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:1848836 original size:26 final size:26
Alignment explanation
Indices: 1848796--1848869 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
1848786 CTCATCCCTG
*
1848796 TTTTACCCTTAGTAAAATTTT-TATGA
1 TTTTACCCTTGGTAAAATTTTGT-TGA
*
1848822 TTTTATCCTTGGTAAAATTTTGTTGA
1 TTTTACCCTTGGTAAAATTTTGTTGA
* *
1848848 TTTTGCCCATGGTAAAATTTTG
1 TTTTACCCTTGGTAAAATTTTG
1848870 AGAAAATATG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 41 0.98
27 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.50
Consensus pattern (26 bp):
TTTTACCCTTGGTAAAATTTTGTTGA
Found at i:1853250 original size:40 final size:39
Alignment explanation
Indices: 1853152--1853374 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
1853142 TCCTCGTTCA
* * * * *
1853152 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
1853191 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1853230 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
1853270 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
1853310 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
1853351 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
1853375 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:1853374 original size:120 final size:119
Alignment explanation
Indices: 1853152--1853374 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
1853142 TCCTCGTTCA
* * * *
1853152 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
1853217 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
1853271 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
1853335 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
1853375 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:1861107 original size:39 final size:40
Alignment explanation
Indices: 1861062--1861246 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
1861052 GCTCCTCGTT
* * *
1861062 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
1861102 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
1861141 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
1861181 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
1861222 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
1861247 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:1861162 original size:40 final size:39
Alignment explanation
Indices: 1861029--1861246 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
1861019 AAATCACGTA
* * **
1861029 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
1861068 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
1861107 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
1861147 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
1861187 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
1861227 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
1861247 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:1875168 original size:230 final size:230
Alignment explanation
Indices: 1874765--1875227 Score: 926
Period size: 230 Copynumber: 2.0 Consensus size: 230
1874755 TCAAACAATT
1874765 AATCCAATCTCATAAGCACATAAAGGATTACATGAGGTAACAATGTATTTCTACCTTGAAACAGT
1 AATCCAATCTCATAAGCACATAAAGGATTACATGAGGTAACAATGTATTTCTACCTTGAAACAGT
1874830 TTAATCACAATAATCTTGCAAGTTATGTAAGGCTAATGTATCGTTAGATACCGTTGCTAATTTAG
66 TTAATCACAATAATCTTGCAAGTTATGTAAGGCTAATGTATCGTTAGATACCGTTGCTAATTTAG
1874895 TCCTCAACTACCTTAGATGATTAAACATGCACTAATTAAGTACTGTGTCAATTAATTACAATTCA
131 TCCTCAACTACCTTAGATGATTAAACATGCACTAATTAAGTACTGTGTCAATTAATTACAATTCA
1874960 ATCCGTTTAAATAATTAATTCATTAGTTACCTTAC
196 ATCCGTTTAAATAATTAATTCATTAGTTACCTTAC
1874995 AATCCAATCTCATAAGCACATAAAGGATTACATGAGGTAACAATGTATTTCTACCTTGAAACAGT
1 AATCCAATCTCATAAGCACATAAAGGATTACATGAGGTAACAATGTATTTCTACCTTGAAACAGT
1875060 TTAATCACAATAATCTTGCAAGTTATGTAAGGCTAATGTATCGTTAGATACCGTTGCTAATTTAG
66 TTAATCACAATAATCTTGCAAGTTATGTAAGGCTAATGTATCGTTAGATACCGTTGCTAATTTAG
1875125 TCCTCAACTACCTTAGATGATTAAACATGCACTAATTAAGTACTGTGTCAATTAATTACAATTCA
131 TCCTCAACTACCTTAGATGATTAAACATGCACTAATTAAGTACTGTGTCAATTAATTACAATTCA
1875190 ATCCGTTTAAATAATTAATTCATTAGTTACCTTAC
196 ATCCGTTTAAATAATTAATTCATTAGTTACCTTAC
1875225 AAT
1 AAT
1875228 TGTAATGCAA
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
230 233 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (230 bp):
AATCCAATCTCATAAGCACATAAAGGATTACATGAGGTAACAATGTATTTCTACCTTGAAACAGT
TTAATCACAATAATCTTGCAAGTTATGTAAGGCTAATGTATCGTTAGATACCGTTGCTAATTTAG
TCCTCAACTACCTTAGATGATTAAACATGCACTAATTAAGTACTGTGTCAATTAATTACAATTCA
ATCCGTTTAAATAATTAATTCATTAGTTACCTTAC
Found at i:1887633 original size:95 final size:95
Alignment explanation
Indices: 1887481--1887664 Score: 296
Period size: 95 Copynumber: 1.9 Consensus size: 95
1887471 TGTGGGCGGT
* * *
1887481 CGTGTGGTTGGCTGTATGCGAGACATAGCCGTGTATCTGACAAAGGTGCATCCCTGCGCAAGACA
1 CGTGTGGTTGGCTGTATGCGAGACACAGCCATGTATCTGACAAAGGTGCAGCCCTGCGCAAGACA
*
1887546 CGGCTGTATGGTGATGTGGGTGTGACCGGC
66 CGGCTATATGGTGATGTGGGTGTGACCGGC
* *
1887576 CGTGTGGTTGGCTGTATGCGAGACACAGCCATGTGTCTGACAAAGGTGCAGCCCTGCGTAAGACA
1 CGTGTGGTTGGCTGTATGCGAGACACAGCCATGTATCTGACAAAGGTGCAGCCCTGCGCAAGACA
* *
1887641 CGGCTATGTGGTGGTGTGGGTGTG
66 CGGCTATATGGTGATGTGGGTGTG
1887665 GCCATGTGGG
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 81 1.00
ACGTcount: A:0.18, C:0.20, G:0.37, T:0.24
Consensus pattern (95 bp):
CGTGTGGTTGGCTGTATGCGAGACACAGCCATGTATCTGACAAAGGTGCAGCCCTGCGCAAGACA
CGGCTATATGGTGATGTGGGTGTGACCGGC
Found at i:1897662 original size:27 final size:27
Alignment explanation
Indices: 1897631--1897808 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
1897621 TAAATTGTAC
1897631 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
1897658 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1897684 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
1897712 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
1897740 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
1897767 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
1897794 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
1897809 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:1897745 original size:82 final size:81
Alignment explanation
Indices: 1897632--1897787 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
1897622 AAATTGTACA
* *
1897632 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
1897696 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
1897713 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
1897778 TGCGAGTTGA
65 TGCGAATTGA
1897788 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:1897799 original size:82 final size:81
Alignment explanation
Indices: 1897628--1897808 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
1897618 GATTAAATTG
* *
1897628 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
1897693 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
1897709 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
1897773 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
1897791 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
1897809 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:1900535 original size:7 final size:7
Alignment explanation
Indices: 1900523--1900547 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1900513 TTTTATTGTA
1900523 ATTGGAC
1 ATTGGAC
1900530 ATTGGAC
1 ATTGGAC
1900537 ATTGGAC
1 ATTGGAC
1900544 ATTG
1 ATTG
1900548 TACAGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.32
Consensus pattern (7 bp):
ATTGGAC
Found at i:1906320 original size:107 final size:106
Alignment explanation
Indices: 1906113--1906703 Score: 664
Period size: 107 Copynumber: 5.5 Consensus size: 106
1906103 CCACGTTGGG
* * * * * *
1906113 CCGAAATGCCCCCACAGGGTAAAATGACTGAAATACCCCCATAAGGTAGAATGACCGAAATACCC
1 CCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCC
* ** * *
1906178 TTATAGGGT-AAATGACTAAAATAGCCCCATAAGGTAAAATGA
66 -CATAGGGTAAAATGACCGAAATA-CCCCATAGGGTAGAATGA
* * * * * * * *
1906220 CCGAAATACCCCCATAGGATAGAATAATCGAAATACCCCTATAAGGTAGAATAATCGAAATAACC
1 CCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAAT-ACC
* * * *
1906285 CCATAGGATAAAATGACTGAAATATCCCCATA-GGTAGACTAA
65 CCATAGGGTAAAATGACCGAAATA-CCCCATAGGGTAGAATGA
* * * * *
1906327 TCGAAATAACCCCATAGGATTAAATGACTGAAATATCCCCATAGGGTAAAATGACCGAAATACAC
1 CCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATAC-C
1906392 CCATAGGGTAAAATGACCGAAATACCCCATAGGGTAGAATGA
65 CCATAGGGTAAAATGACCGAAATACCCCATAGGGTAGAATGA
* ** * * *
1906434 CTGAAATACCCTAATAGGGTAAAATGACCGAAATACCCCCACAGGGTAAAATGATCGAAATACCC
1 CCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCC
* * **
1906499 TTATAGGGTAGAATGACCGAAATACCCCCATAGGGTCTAATGA
66 -CATAGGGTAAAATGACCGAAATA-CCCCATAGGGTAGAATGA
* * * * *
1906542 CCGAAATACTCCCGTAGGATAAAATGACCAAAATACCCGCATAGGGTAAAATGACTGAAATACCC
1 CCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCC
* * *
1906607 CATAGGGTAAAATGACCGAAATACCGCTATAGGGTAGGATAA
66 CATAGGGTAAAATGACCGAAATACC-CCATAGGGTAGAATGA
* *
1906649 CCGAAAAACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
1 CCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
1906704 TGTTATACCC
Statistics
Matches: 404, Mismatches: 73, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
106 13 0.03
107 297 0.74
108 94 0.23
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (106 bp):
CCGAAATACCCCCATAGGATAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCC
CATAGGGTAAAATGACCGAAATACCCCATAGGGTAGAATGA
Found at i:1906712 original size:134 final size:134
Alignment explanation
Indices: 1906113--1906714 Score: 667
Period size: 134 Copynumber: 4.5 Consensus size: 134
1906103 CCACGTTGGG
* * * * * *
1906113 CCGAAATGCCCCCACAGGGTAAAATGACTGAAATACCCCCATAAGGTAGAATGACCGAAATACCC
1 CCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCC
* * * * *
1906178 TTATAGGGT-AAATGACTAAAATAGCCCCATAAGGTAAAATGACCGAAATACCCCCATAGGATAG
66 TCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCCATAGGGTAG
1906242 AATAA
130 AATAA
* * * * * * * *
1906247 TCGAAATACCCCTATAAGGTAGAATAATCGAAATAACCCCATAGGATAAAATGACTGAAATATCC
1 CCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATA-CC
* * * * * * *
1906312 C-CATA-GGTAGACT-AATCGAAATAACCCCATAGGATTAAATGACTGAAATATCCCCATAGGGT
65 CTCATAGGGTAAAATGACT-GAAATACCCCCATAGGGTAAAATGACCGAAATA-CCCCATAGGGT
* *
1906374 AAAATGA
128 AGAATAA
* *
1906381 CCGAAATACACCCATAGGGTAAAATGACCGAAATA-CCCCATAGGGTAGAATGACTGAAATACCC
1 CCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCC
* * * * *
1906445 TAATAGGGTAAAATGACCGAAATACCCCCACAGGGTAAAATGATCGAAATACCCTTATAGGGTAG
66 TCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCC-CATAGGGTAG
*
1906510 AATGA
130 AATAA
** * * * **
1906515 CCGAAATACCCCCATAGGGTCTAATGACCGAAATACTCCCGTAGGATAAAATGACCAAAATACCC
1 CCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCC
* *
1906580 GCATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGACCGAAATACCGCTATAGGGTAG
66 TCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACC-CCATAGGGTAG
*
1906644 GATAA
130 AATAA
* **
1906649 CCGAAAAACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGTTATACCC
1 CCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCC
1906714 T
66 T
1906715 TAGGAGATGA
Statistics
Matches: 382, Mismatches: 77, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
132 3 0.01
133 35 0.09
134 295 0.77
135 49 0.13
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.19
Consensus pattern (134 bp):
CCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACTGAAATACCC
TCATAGGGTAAAATGACTGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAGGGTAGA
ATAA
Found at i:1906713 original size:27 final size:27
Alignment explanation
Indices: 1906113--1906703 Score: 641
Period size: 27 Copynumber: 22.0 Consensus size: 27
1906103 CCACGTTGGG
* *
1906113 CCGAAATGCCCCCACAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * *
1906140 CTGAAATACCCCCATAAGGTAGAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
**
1906167 CCGAAATACCCTTATAGGGT-AAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
** * *
1906193 CTAAAATAGCCCCATAAGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * *
1906220 CCGAAATACCCCCATAGGATAGAATAA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * * * *
1906247 TCGAAATACCCCTATAAGGTAGAATAA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * *
1906274 TCGAAATAACCCCATAGGATAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * * * *
1906301 CTGAAATATCCCCATA-GGTAGACTAA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * * *
1906327 TCGAAATAACCCCATAGGATTAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* *
1906354 CTGAAATATCCCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
1906381 CCGAAATACACCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
1906408 CCGAAATA-CCCCATAGGGTAGAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* **
1906434 CTGAAATACCCTAATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
1906461 CCGAAATACCCCCACAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* ** *
1906488 TCGAAATACCCTTATAGGGTAGAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
**
1906515 CCGAAATACCCCCATAGGGTCTAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * *
1906542 CCGAAATACTCCCGTAGGATAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* *
1906569 CCAAAATACCCGCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
1906596 CTGAAATA-CCCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
* * ** *
1906622 CCGAAATACCGCTATAGGGTAGGATAA
1 CCGAAATACCCCCATAGGGTAAAATGA
*
1906649 CCGAAAAACCCCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
1906676 CCGAAATACCCCCATAGGGTAAAATGA
1 CCGAAATACCCCCATAGGGTAAAATGA
1906703 C
1 C
1906704 TGTTATACCC
Statistics
Matches: 458, Mismatches: 102, Indels: 8
0.81 0.18 0.01
Matches are distributed among these distances:
26 85 0.19
27 373 0.81
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
CCGAAATACCCCCATAGGGTAAAATGA
Found at i:1909664 original size:27 final size:27
Alignment explanation
Indices: 1909587--1910073 Score: 503
Period size: 27 Copynumber: 18.1 Consensus size: 27
1909577 TGATATTTGC
* * *
1909587 ACCGAAATACCCTCATAGGGTAAAATA
1 ACCGAAATACCCCCATAAGGTAAAATG
** * * **
1909614 ATTGAAATACCCCTAAAACATAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* *
1909641 ACCAAAATACCCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* * *
1909668 ATCGAAATACCCCTATAAGGTAAAACG
1 ACCGAAATACCCCCATAAGGTAAAATG
* ** *
1909695 ACTGAAATACATCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* * *
1909722 ATCGAAATACCCCCATAGGGTAGAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* * *
1909749 ACTGAAATACCCTCATAAGATAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
1909776 ACCGAAATACCCCCATAAGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
1909803 ACCGAAATACCCCCATAAGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* *
1909830 ACCGAAATACCCCCATAGGGTATAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* * *
1909857 ACTGAAATACCCCC-TACGGTATAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* *
1909883 ACCGAAATACTCCCGT-AGGATAAAATG
1 ACCGAAATACCCCCATAAGG-TAAAATG
* * *
1909910 ACCAAAATACCCGCATAGGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* * *
1909937 ACCAAAATACCCCTTATAAGGTAAATTG
1 ACCGAAATACCCC-CATAAGGTAAAATG
*
1909965 ACCGAAATACCCCTAT-AGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
** * * * *
1909991 ATTGAAATACCCTCTTAAAGTAGAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* *
1910018 ACTGAAATACCCCCACAAGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
* *
1910045 ACCGAAATATCCCCATAGGGTAAAATG
1 ACCGAAATACCCCCATAAGGTAAAATG
1910072 AC
1 AC
1910074 TATTATACCC
Statistics
Matches: 376, Mismatches: 79, Indels: 10
0.81 0.17 0.02
Matches are distributed among these distances:
26 45 0.12
27 306 0.81
28 25 0.07
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.19
Consensus pattern (27 bp):
ACCGAAATACCCCCATAAGGTAAAATG
Found at i:1910085 original size:135 final size:133
Alignment explanation
Indices: 1909590--1910073 Score: 574
Period size: 135 Copynumber: 3.6 Consensus size: 133
1909580 TATTTGCACC
* * * * * *
1909590 GAAATACCCTCATAGGGTAAAATAATTGAAATACCCCTAAAACATAAAATGACCAAAATACCCCC
1 GAAATACCC-CATAAGGTAGAATGACTGAAATACCCCCAAAAGATAAAATGACCAAAATACCCCC
* * * *
1909655 ATAGGGTAAAATGATCGAAATACCCCTATAAGGTAAAACGACTGAAATACATCCATAGGGTAAAA
65 ATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATAC-CCCATAGGGTAAAA
*
1909720 TGATC
129 TGATT
* * * *
1909725 GAAATACCCCCATAGGGTAGAATGACTGAAATACCCTCATAAGATAAAATGACCGAAATACCCCC
1 GAAATA-CCCCATAAGGTAGAATGACTGAAATACCCCCAAAAGATAAAATGACCAAAATACCCCC
* * *
1909790 ATAAGGTAAAATGACCGAAATACCCCCATAAGGTAAAATGACCGAAATACCCCCATAGGGTATAA
65 ATAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATA-CCCCATAGGGTAAAA
*
1909855 TGACT
129 TGATT
* * * * * ** * *
1909860 GAAATACCCCCTACGGTATAATGACCGAAATACTCCCGTAGGATAAAATGACCAAAATACCCGCA
1 GAAATACCCCATAAGGTAGAATGACTGAAATACCCCCAAAAGATAAAATGACCAAAATACCCCCA
* *
1909925 TAGGGTAAAATGACCAAAATACCCCTTATAAGGTAAATTGACCGAAATACCCCTATA-GGTAAAA
66 TAGGGTAAAATGACCGAAATACCCC-TATAAGGTAAAATGACCGAAATACCCC-ATAGGGTAAAA
1909989 TGATT
129 TGATT
* * * * * *
1909994 GAAATACCCTCTTAAAGTAGAATGACTGAAATACCCCCACAAGGTAAAATGACCGAAATATCCCC
1 GAAATACCC-CATAAGGTAGAATGACTGAAATACCCCCAAAAGATAAAATGACCAAAATACCCCC
1910059 ATAGGGTAAAATGAC
65 ATAGGGTAAAATGAC
1910074 TATTATACCC
Statistics
Matches: 298, Mismatches: 46, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
134 95 0.32
135 199 0.67
136 4 0.01
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.19
Consensus pattern (133 bp):
GAAATACCCCATAAGGTAGAATGACTGAAATACCCCCAAAAGATAAAATGACCAAAATACCCCCA
TAGGGTAAAATGACCGAAATACCCCTATAAGGTAAAATGACCGAAATACCCCATAGGGTAAAATG
ATT
Found at i:1910140 original size:16 final size:15
Alignment explanation
Indices: 1910119--1910160 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
1910109 CTTTATGTTA
1910119 TCTATGATTGATTTG
1 TCTATGATTGATTTG
1910134 CTCTATGATATG-TTTG
1 -TCTATGAT-TGATTTG
*
1910150 ACTATGATTGA
1 TCTATGATTGA
1910161 GCTTGACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
14 2 0.09
15 7 0.30
16 12 0.52
17 2 0.09
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (15 bp):
TCTATGATTGATTTG
Found at i:1915117 original size:15 final size:15
Alignment explanation
Indices: 1915097--1915127 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1915087 AAAACATTAA
1915097 ATTTATCATTAAACC
1 ATTTATCATTAAACC
1915112 ATTTATCATTAAACC
1 ATTTATCATTAAACC
1915127 A
1 A
1915128 ACGTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.00, T:0.39
Consensus pattern (15 bp):
ATTTATCATTAAACC
Found at i:1919126 original size:16 final size:16
Alignment explanation
Indices: 1919107--1919213 Score: 63
Period size: 16 Copynumber: 6.4 Consensus size: 16
1919097 AAAATGACGA
1919107 AAAATGAAAGTTTTCT
1 AAAATGAAAGTTTTCT
* * *
1919123 AAAAATTAAAGTTTCCA
1 -AAAATGAAAGTTTTCT
** *
1919140 AAAATGAAAAATTACT
1 AAAATGAAAGTTTTCT
* *
1919156 AAAAATAATAAGTTTTCAA
1 -AAAATGA-AAGTTTTC-T
1919175 AAAATAGAAAGTTTT-T
1 AAAAT-GAAAGTTTTCT
* *
1919191 AGGAATGGAAGTTTTCT
1 A-AAATGAAAGTTTTCT
1919208 AAAATG
1 AAAATG
1919214 GAAGCTTTTT
Statistics
Matches: 66, Mismatches: 18, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
16 24 0.36
17 24 0.36
18 17 0.26
19 1 0.02
ACGTcount: A:0.50, C:0.06, G:0.12, T:0.32
Consensus pattern (16 bp):
AAAATGAAAGTTTTCT
Found at i:1919126 original size:17 final size:17
Alignment explanation
Indices: 1919106--1919211 Score: 90
Period size: 17 Copynumber: 6.2 Consensus size: 17
1919096 GAAAATGACG
1919106 AAAAATGAAAGTTTTCT
1 AAAAATGAAAGTTTTCT
* *
1919123 AAAAATTAAAG-TTTCC
1 AAAAATGAAAGTTTTCT
** *
1919139 AAAAATGAAAAATTACT
1 AAAAATGAAAGTTTTCT
* *
1919156 AAAAATAATAAGTTTTCA
1 AAAAATGA-AAGTTTTCT
1919174 AAAAATAGAAAGTTTT-T
1 AAAAAT-GAAAGTTTTCT
** *
1919191 AGGAATGGAAGTTTTCT
1 AAAAATGAAAGTTTTCT
1919208 AAAA
1 AAAA
1919212 TGGAAGCTTT
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
16 21 0.31
17 27 0.40
18 18 0.27
19 1 0.01
ACGTcount: A:0.52, C:0.06, G:0.11, T:0.31
Consensus pattern (17 bp):
AAAAATGAAAGTTTTCT
Found at i:1920979 original size:28 final size:28
Alignment explanation
Indices: 1920914--1921012 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
1920904 CATGAGATTG
* * *
1920914 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
1920943 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
1920971 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
1920999 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
1921013 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:1929021 original size:79 final size:81
Alignment explanation
Indices: 1928885--1929069 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
1928875 TTGAATGATG
*
1928885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1928949 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
1928964 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
1929026 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
1929044 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1929070 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:1929083 original size:40 final size:40
Alignment explanation
Indices: 1928886--1929069 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
1928876 TGAATGATGT
* * * *
1928886 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
1928926 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
1928966 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1929004 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1929045 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
1929070 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:1929091 original size:79 final size:79
Alignment explanation
Indices: 1928938--1929102 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
1928928 GGACTAAGAT
* **
1928938 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
1929003 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
1929017 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
1929080 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
1929096 CCGAAGG
1 CCGAAGG
1929103 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:1934453 original size:86 final size:87
Alignment explanation
Indices: 1934292--1934454 Score: 238
Period size: 86 Copynumber: 1.9 Consensus size: 87
1934282 ATAAGAAGAT
* * *
1934292 TCAATCATATAAGTAGAAATAGTATTTTTTTTATTCTTATTAATAATATTGAGTTTGAACATACT
1 TCAACCATATAAGCAGAAATAGTA--TTTTTTATTCTTATTAATAATATTAAGTTTGAACATACT
* *
1934357 CTCATGCATATATCATTTCCCTAC
64 CTAATACATATATCATTTCCCTAC
* *
1934381 TCAACCATATAAGCAGAAATAGTA-TTTTTATTCTTATTAATAATATTAAGTTTGAACATGCTTT
1 TCAACCATATAAGCAGAAATAGTATTTTTTATTCTTATTAATAATATTAAGTTTGAACATACTCT
1934445 AATACATATA
66 AATACATATA
1934455 CCCTTTTCCC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
86 45 0.67
89 22 0.33
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (87 bp):
TCAACCATATAAGCAGAAATAGTATTTTTTATTCTTATTAATAATATTAAGTTTGAACATACTCT
AATACATATATCATTTCCCTAC
Found at i:1936157 original size:20 final size:20
Alignment explanation
Indices: 1936134--1936176 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1936124 TTAAAAAACG
* **
1936134 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
1936154 TATAACTATTCAAATAATAT
1 TATAACTATTCAAATAATAT
1936174 TAT
1 TAT
1936177 TTGAATAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:1937607 original size:27 final size:26
Alignment explanation
Indices: 1937574--1937688 Score: 81
Period size: 27 Copynumber: 4.3 Consensus size: 26
1937564 TATTAAATAA
*
1937574 TAAAATTAAATAATAGTTAAAAGTTAT
1 TAAAATTAAATAATA-TTAAAAATTAT
* *
1937601 TAAAATTATATTCATATTAAAAATTAT
1 TAAAATTA-AATAATATTAAAAATTAT
* * *
1937628 TTAAATTATATAATACTAAAAAATATAT
1 TAAAATTAAATAATA-TTAAAAAT-TAT
** *
1937656 T--AATTATTTAATATTAAATAATAAT
1 TAAAATTAAATAATATTAAA-AATTAT
*
1937681 TAATATTA
1 TAAAATTA
1937689 TATTTATAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
25 7 0.10
26 18 0.26
27 36 0.51
28 9 0.13
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAAATTAAATAATATTAAAAATTAT
Found at i:1937660 original size:26 final size:26
Alignment explanation
Indices: 1937604--1937684 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
1937594 AAGTTATTAA
* *
1937604 AATTATATTCATATTAAAAATTAT-TT
1 AATTATA-TAATATTAAAAAATATATT
*
1937630 AAATTATATAATACTAAAAAATATATT
1 -AATTATATAATATTAAAAAATATATT
* *
1937657 AATTATTTAATATTAAATAATA-ATT
1 AATTATATAATATTAAAAAATATATT
1937682 AAT
1 AAT
1937685 ATTATATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.13
26 32 0.68
27 9 0.19
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTATATAATATTAAAAAATATATT
Found at i:1937677 original size:18 final size:18
Alignment explanation
Indices: 1937604--1937688 Score: 52
Period size: 17 Copynumber: 4.8 Consensus size: 18
1937594 AAGTTATTAA
*
1937604 AATTATATTCATATTAAA-
1 AATTAT-TTAATATTAAAT
*
1937622 AATTATTTAA-ATTATAT
1 AATTATTTAATATTAAAT
* * * * *
1937639 AA-TACTAAAAAATATATT
1 AATTATTTAATATTA-AAT
1937657 AATTATTTAATATTAAAT
1 AATTATTTAATATTAAAT
*
1937675 AA-TAATTAATATTA
1 AATTATTTAATATTA
1937689 TATTTATAAT
Statistics
Matches: 50, Mismatches: 13, Indels: 9
0.69 0.18 0.12
Matches are distributed among these distances:
16 10 0.20
17 19 0.38
18 13 0.26
19 8 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AATTATTTAATATTAAAT
Found at i:1955112 original size:17 final size:17
Alignment explanation
Indices: 1955073--1955105 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1955063 CATCTCTTCT
1955073 TTGCAAATTTCCTTGTA
1 TTGCAAATTTCCTTGTA
1955090 TTGCAAATTTCCTTGT
1 TTGCAAATTTCCTTGT
1955106 TATGCAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.48
Consensus pattern (17 bp):
TTGCAAATTTCCTTGTA
Found at i:1957859 original size:13 final size:13
Alignment explanation
Indices: 1957836--1957862 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1957826 TCACACGACT
1957836 AAGGCACACGCCC
1 AAGGCACACGCCC
1957849 AAGGCACACGCCC
1 AAGGCACACGCCC
1957862 A
1 A
1957863 TGTCTTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.44, G:0.22, T:0.00
Consensus pattern (13 bp):
AAGGCACACGCCC
Found at i:1963841 original size:40 final size:40
Alignment explanation
Indices: 1963743--1964045 Score: 405
Period size: 40 Copynumber: 7.6 Consensus size: 40
1963733 TCCTCGTTCA
* * * * *
1963743 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
1963782 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1963822 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1963862 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1963902 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
1963942 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
1963982 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
1964022 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
1964046 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:1976746 original size:20 final size:20
Alignment explanation
Indices: 1976710--1976759 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1976700 ATCATGGTCT
* *
1976710 TTGCTTTCTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
1976730 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
1976750 TTGCTTACTT
1 TTGCTTACTT
1976760 AAATAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.58
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:1977088 original size:50 final size:50
Alignment explanation
Indices: 1977032--1977156 Score: 144
Period size: 50 Copynumber: 2.5 Consensus size: 50
1977022 TATCCCAGAT
* ** *
1977032 ATGGTCTTACATGAGAGTTCTCATATCGGTGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACAGGAGACCTCTCATATCGGTGCCAATGCCATGTCCCAAAC
* * * * *
1977082 ATGGTCTTACGGGGGACCTCTCATCTCGGTGTCAATGCCATGTCCCAGAC
1 ATGGTCTTACAGGAGACCTCTCATATCGGTGCCAATGCCATGTCCCAAAC
*
1977132 ATGGTCTTAC-GTGGGACCTCTCATA
1 ATGGTCTTACAG-GAGACCTCTCATA
1977157 ACCTCAATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 1 0.02
50 63 0.98
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACAGGAGACCTCTCATATCGGTGCCAATGCCATGTCCCAAAC
Found at i:1977187 original size:56 final size:53
Alignment explanation
Indices: 1977061--1977220 Score: 168
Period size: 50 Copynumber: 3.0 Consensus size: 53
1977051 CTCATATCGG
* * * **
1977061 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCAT---CTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAA
*
1977111 TGTCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTC---AA
* * *
1977167 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA--TCTCATCAACCTTAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT-AACCTCAA
1977219 TG
1 TG
1977221 TCATGACATT
Statistics
Matches: 93, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
50 41 0.44
52 4 0.04
53 3 0.03
54 6 0.06
55 5 0.05
56 34 0.37
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (53 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAA
Found at i:1984814 original size:14 final size:14
Alignment explanation
Indices: 1984795--1984834 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
1984785 TTGATTGGCA
1984795 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
1984809 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
1984823 GGAAAATGTTTT
1 GTAAAATGTTTT
1984835 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:1984847 original size:34 final size:35
Alignment explanation
Indices: 1984803--1984869 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
1984793 CAGTAAAATG
* * *
1984803 TTTTCCGTAAAATGA-TTTCTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGACATACTGGAAAATATTTTAC
*
1984837 TTTTCTGTAAAATGACATACTGGAAAATATTTT
1 TTTTCCGTAAAATGACATACTGGAAAATATTTT
1984870 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGACATACTGGAAAATATTTTAC
Found at i:1987996 original size:31 final size:31
Alignment explanation
Indices: 1987910--1988001 Score: 96
Period size: 35 Copynumber: 2.7 Consensus size: 31
1987900 CAATACGTAC
1987910 ATATATTGATCATATGTATTTATAAAGAGTTTTAA
1 ATATATTGATC--ATGTA-TT-TAAAGAGTTTTAA
*
1987945 ATTATAATATGTTTCATGTATTTAAAGAGTTTTAA
1 A-TAT-AT-TG-ATCATGTATTTAAAGAGTTTTAA
1987980 ATATATTGATCATGTA-TTAAAG
1 ATATATTGATCATGTATTTAAAG
1988002 TTACCATGAC
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
30 6 0.12
31 7 0.14
32 2 0.04
33 2 0.04
34 3 0.06
35 15 0.29
36 5 0.10
37 7 0.14
38 2 0.04
39 2 0.04
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.46
Consensus pattern (31 bp):
ATATATTGATCATGTATTTAAAGAGTTTTAA
Found at i:1988115 original size:40 final size:40
Alignment explanation
Indices: 1988060--1988136 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
1988050 AGTTAATAAT
1988060 ATGTTTTTATAAAGTTACCATGACTTAAAATATATTGATC
1 ATGTTTTTATAAAGTTACCATGACTTAAAATATATTGATC
1988100 ATGTTTTTATAAAGTTACCATGACTTAAAATATATTG
1 ATGTTTTTATAAAGTTACCATGACTTAAAATATATTG
1988137 CCCAAAAGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.43
Consensus pattern (40 bp):
ATGTTTTTATAAAGTTACCATGACTTAAAATATATTGATC
Found at i:1993359 original size:30 final size:29
Alignment explanation
Indices: 1993325--1993381 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
1993315 CTTTGACTCG
1993325 AACTTTTGCAAAATTATAATTTTGTCCCTA
1 AACTTTTGCAAAATTATAATTTT-TCCCTA
* * *
1993355 AACTTTTGCATAGTTATACTTTTTCCC
1 AACTTTTGCAAAATTATAATTTTTCCC
1993382 CAAAGCTCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (29 bp):
AACTTTTGCAAAATTATAATTTTTCCCTA
Found at i:2010006 original size:16 final size:16
Alignment explanation
Indices: 2009982--2010019 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
2009972 TGGTTCACTA
*
2009982 TAATGGAATAAAACTG
1 TAATAGAATAAAACTG
*
2009998 TAATAGAATAGAACTG
1 TAATAGAATAAAACTG
2010014 TAATAG
1 TAATAG
2010020 CAATTCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.26
Consensus pattern (16 bp):
TAATAGAATAAAACTG
Found at i:2010226 original size:21 final size:21
Alignment explanation
Indices: 2010202--2010294 Score: 63
Period size: 21 Copynumber: 4.7 Consensus size: 21
2010192 ATTATTAAAT
2010202 ATAATTTAATAATAATAATAA
1 ATAATTTAATAATAATAATAA
** * *
2010223 ATAATTTAACCAT-AT-TTTA
1 ATAATTTAATAATAATAATAA
* *
2010242 ATAAATTT-AT--TATTAA-AT
1 AT-AATTTAATAATAATAATAA
* *
2010260 ATAATTTAACAATAATAATAT
1 ATAATTTAATAATAATAATAA
2010281 ATAATTTAATAATA
1 ATAATTTAATAATA
2010295 TTCTTAATAT
Statistics
Matches: 53, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
17 6 0.11
18 4 0.08
19 5 0.09
20 12 0.23
21 26 0.49
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
ATAATTTAATAATAATAATAA
Found at i:2010252 original size:58 final size:59
Alignment explanation
Indices: 2010189--2010345 Score: 203
Period size: 58 Copynumber: 2.7 Consensus size: 59
2010179 TTTTAATAGG
* *
2010189 ATTATTATTAAATATAATTTAATAATAATAATAAATAATTTAACCATATT-TTAATA-A
1 ATTATTATTAAATATAATTTAATAATAATAATATATAATTTAACAATATTCTTAATATA
* *
2010246 ATTTATTATTAAATATAATTTAACAATAATAATATATAATTTAATAATATTCTTAATATA
1 A-TTATTATTAAATATAATTTAATAATAATAATATATAATTTAACAATATTCTTAATATA
** *
2010306 ACAATTATTAAAATATGAA-TTAATAAAAATAATATATAAT
1 ATTATTATT-AAATAT-AATTTAATAATAATAATATATAAT
2010346 ATTACAAAAA
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
57 1 0.01
58 45 0.52
59 12 0.14
60 27 0.31
61 2 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAATAATAATATATAATTTAACAATATTCTTAATATA
Found at i:2010493 original size:12 final size:12
Alignment explanation
Indices: 2010463--2010497 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
2010453 TATATATTAC
2010463 TTAAAGAATAAT
1 TTAAAGAATAAT
*
2010475 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
2010488 TTAAAGAATA
1 TTAAAGAATA
2010498 TCTTGTCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:2013948 original size:50 final size:51
Alignment explanation
Indices: 2013850--2013957 Score: 114
Period size: 50 Copynumber: 2.2 Consensus size: 51
2013840 AGATGGAAGT
** * * *
2013850 AAGTGGCAGTATATTTTCATATCAGTGATGGTTGGTCTATAAAATGTTA-C
1 AAGTGGCAGTATACCTACATACCAGTGATGGTTGGTCTACAAAATGTTATC
* * *
2013900 AAGTGGCAGTATACCTACATACCAGTGGTGGTTTGTGC-ACAAAGTGTTATC
1 AAGTGGCAGTATACCTACATACCAGTGATGGTTGGT-CTACAAAATGTTATC
2013951 -AGTGGCA
1 AAGTGGCA
2013958 ATTTATCTGC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
50 46 0.96
51 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (51 bp):
AAGTGGCAGTATACCTACATACCAGTGATGGTTGGTCTACAAAATGTTATC
Found at i:2020552 original size:12 final size:12
Alignment explanation
Indices: 2020516--2020565 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
2020506 ATTAGAATCT
*
2020516 TTACTCGCTT-C
1 TTACTTGCTTAC
* *
2020527 TTACTTACTCAC
1 TTACTTGCTTAC
*
2020539 TTACTTGTTTAC
1 TTACTTGCTTAC
2020551 TTACTTGCTTAC
1 TTACTTGCTTAC
2020563 TTA
1 TTA
2020566 AATAACTCAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.50
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:2021322 original size:30 final size:30
Alignment explanation
Indices: 2021288--2021346 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
2021278 TCCTTGACTC
2021288 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
2021318 AAACTTTTGCATAATTACACTTTTTCCCC
1 AAACTTTTGAAAAATTACAATTTTGCCCC
2021347 AAAGCTCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:2023289 original size:24 final size:25
Alignment explanation
Indices: 2023258--2023308 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 25
2023248 GACCTTGTTT
*
2023258 TGTG-TTTTCCTAGTTGATTGAAAG
1 TGTGTTTTTCCTAGTTGATTCAAAG
2023282 TGTGTTTTTTCCTAGTTGATTCAAAG
1 TGTG-TTTTTCCTAGTTGATTCAAAG
2023308 T
1 T
2023309 TTGCAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 4 0.17
26 20 0.83
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.49
Consensus pattern (25 bp):
TGTGTTTTTCCTAGTTGATTCAAAG
Found at i:2025463 original size:12 final size:12
Alignment explanation
Indices: 2025443--2025474 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
2025433 AATTCAACAT
*
2025443 CTAAGCATTCAA
1 CTAAACATTCAA
2025455 CTAAACATTCAA
1 CTAAACATTCAA
2025467 CTAAACAT
1 CTAAACAT
2025475 CAAACACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (12 bp):
CTAAACATTCAA
Found at i:2030314 original size:22 final size:23
Alignment explanation
Indices: 2030289--2030339 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 23
2030279 TTTTTCAATA
2030289 TTTTCATTTAAAAATATTATTTT
1 TTTTCATTTAAAAATATTATTTT
*
2030312 TTTAATTATTTAAAAATATTATTTT
1 TTT--TCATTTAAAAATATTATTTT
2030337 TTT
1 TTT
2030340 ACTTAGCTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 3 0.12
25 22 0.88
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTCATTTAAAAATATTATTTT
Found at i:2035084 original size:42 final size:44
Alignment explanation
Indices: 2035000--2035087 Score: 108
Period size: 42 Copynumber: 2.0 Consensus size: 44
2034990 TTCACATCTC
*
2035000 ATTTCATCATTTCATATCGCATTTCTAATATTAGCCAATTCAAT
1 ATTTCATCATCTCATATCGCATTTCTAATATTAGCCAATTCAAT
* * * * *
2035044 ATTT-ATCATCTCATAT-TCATTTCTCATCTTGGCCATTTCAAT
1 ATTTCATCATCTCATATCGCATTTCTAATATTAGCCAATTCAAT
2035086 AT
1 AT
2035088 CAATCACATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 23 0.61
43 11 0.29
44 4 0.11
ACGTcount: A:0.28, C:0.22, G:0.05, T:0.45
Consensus pattern (44 bp):
ATTTCATCATCTCATATCGCATTTCTAATATTAGCCAATTCAAT
Found at i:2036199 original size:9 final size:9
Alignment explanation
Indices: 2036185--2036217 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2036175 CATTCTCTTC
2036185 TTCTTTTCT
1 TTCTTTTCT
2036194 TTC-TTTCT
1 TTCTTTTCT
*
2036202 TTTTTTTCT
1 TTCTTTTCT
2036211 TTCTTTT
1 TTCTTTT
2036218 TCTAATTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:2036218 original size:13 final size:13
Alignment explanation
Indices: 2036185--2036218 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
2036175 CATTCTCTTC
*
2036185 TTCTTTTCTTTCT
1 TTCTTTTTTTTCT
2036198 TTCTTTTTTTTCT
1 TTCTTTTTTTTCT
2036211 TTCTTTTT
1 TTCTTTTT
2036219 CTAATTTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTCTTTTTTTTCT
Found at i:2037420 original size:18 final size:18
Alignment explanation
Indices: 2037397--2037433 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2037387 AATCTGTAAG
2037397 GGGGAATGATTTTAGGTT
1 GGGGAATGATTTTAGGTT
2037415 GGGGAATGATTTTAGGTT
1 GGGGAATGATTTTAGGTT
2037433 G
1 G
2037434 TATTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (18 bp):
GGGGAATGATTTTAGGTT
Found at i:2050500 original size:19 final size:19
Alignment explanation
Indices: 2050476--2050514 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
2050466 AAATGAAAAT
2050476 ATAGAATTTTGGTCTTCCA
1 ATAGAATTTTGGTCTTCCA
2050495 ATAGAATTTTGGTCTTCCA
1 ATAGAATTTTGGTCTTCCA
2050514 A
1 A
2050515 ATTCCCACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (19 bp):
ATAGAATTTTGGTCTTCCA
Found at i:2054439 original size:24 final size:24
Alignment explanation
Indices: 2054412--2054462 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
2054402 CAGTCTATCT
2054412 TCCCTTCCGCTCATACTCTCAAAA
1 TCCCTTCCGCTCATACTCTCAAAA
* *
2054436 TCCCTTCCTCTCATACTCTCAATA
1 TCCCTTCCGCTCATACTCTCAAAA
2054460 TCC
1 TCC
2054463 ACTTTTATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.43, G:0.02, T:0.33
Consensus pattern (24 bp):
TCCCTTCCGCTCATACTCTCAAAA
Found at i:2056425 original size:10 final size:11
Alignment explanation
Indices: 2056409--2056438 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
2056399 TTAAAAAATT
2056409 ATAAAAAAAAC
1 ATAAAAAAAAC
2056420 ATAAAAAAAAC
1 ATAAAAAAAAC
2056431 ATAAAAAA
1 ATAAAAAA
2056439 GATGATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (11 bp):
ATAAAAAAAAC
Found at i:2064924 original size:2 final size:2
Alignment explanation
Indices: 2064917--2064941 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2064907 CTTTTACCCA
2064917 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2064942 GTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2071132 original size:35 final size:35
Alignment explanation
Indices: 2071077--2071147 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
2071067 TGTGGTTCAG
* *
2071077 AACATTATATATATAAATGGTAAAAAA-ATAATAA
1 AACATTAAATATAAAAATGGTAAAAAATATAATAA
2071111 AACATTAAATATTAAAAATGGTAAAAAATTATAATAA
1 AACATTAAATA-TAAAAATGGTAAAAAA-TATAATAA
2071148 TTCTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 10 0.31
35 15 0.47
37 7 0.22
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.30
Consensus pattern (35 bp):
AACATTAAATATAAAAATGGTAAAAAATATAATAA
Found at i:2071181 original size:18 final size:18
Alignment explanation
Indices: 2071132--2071182 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 18
2071122 TTAAAAATGG
*
2071132 TAAAAAATTATAATAATTC
1 TAAAAAAATATAA-AATTC
2071151 TAAAAAAAT-TAAAATT-
1 TAAAAAAATATAAAATTC
*
2071167 TATAAAAATCATAAAA
1 TAAAAAAAT-ATAAAA
2071183 AAATAAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.29
17 4 0.14
18 8 0.29
19 8 0.29
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAAAAATATAAAATTC
Found at i:2071227 original size:28 final size:28
Alignment explanation
Indices: 2071132--2071230 Score: 75
Period size: 28 Copynumber: 3.6 Consensus size: 28
2071122 TTAAAAATGG
*
2071132 TAAAAAATTA-TAATAATTC-TAAAAAAAT
1 TAAAAAATTATTAA-AAATCAT-AAAAAAT
* *
2071160 T-AAAATTTA-TAAAAATCATAAAAAAA
1 TAAAAAATTATTAAAAATCATAAAAAAT
* *
2071186 TAAAAGAGTT-TTAAAAAT-ATTTAAAAAT
1 TAAAA-AATTATTAAAAATCA-TAAAAAAT
2071214 TAAAAAATTATTAAAAA
1 TAAAAAATTATTAAAAA
2071231 AGAATCTAGG
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
26 11 0.19
27 18 0.31
28 29 0.50
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (28 bp):
TAAAAAATTATTAAAAATCATAAAAAAT
Found at i:2073866 original size:13 final size:13
Alignment explanation
Indices: 2073850--2073878 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2073840 ATAAATGAAG
2073850 TTCATAATTAGTA
1 TTCATAATTAGTA
2073863 TTCATAATTAGTA
1 TTCATAATTAGTA
2073876 TTC
1 TTC
2073879 TAAGTTGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.10, G:0.07, T:0.48
Consensus pattern (13 bp):
TTCATAATTAGTA
Found at i:2077328 original size:10 final size:10
Alignment explanation
Indices: 2077313--2077340 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2077303 GTTCTTTCTA
2077313 TTGTTCTTTG
1 TTGTTCTTTG
2077323 TTGTTCTTTG
1 TTGTTCTTTG
2077333 TTGTTCTT
1 TTGTTCTT
2077341 CTTTTGGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.18, T:0.71
Consensus pattern (10 bp):
TTGTTCTTTG
Found at i:2091093 original size:2 final size:2
Alignment explanation
Indices: 2091086--2091114 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2091076 GTAAGCAACT
2091086 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2091115 TCCAGTGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2100522 original size:82 final size:82
Alignment explanation
Indices: 2100376--2100617 Score: 272
Period size: 82 Copynumber: 2.9 Consensus size: 82
2100366 CATTGAATGT
* * **
2100376 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCAAAAAGGGGTTGCTAATTGCAAATTCC
1 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCGAAAAGGGGTTGCTAAGTGCTGATTCC
2100441 CCGAATCACTTA-TCAAA
66 CCGAATCACTTATTC-AA
2100458 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCGAAAAGGGGTTGCTAAGTGCTGATTCC
1 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCGAAAAGGGGTTGCTAAGTGCTGATTCC
* * * *
2100523 CCAAATTATTTATTCTA
66 CCGAATCACTTATTCAA
* ** ** * * *
2100540 AAGGTAGTTGCTAAGTGCTGATTCCACCGTTTC-CTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 AAGG-GGTTGCTAAGTGCAAATTCC-CCGAATCAC-TGATCG-AAAAGGGGTTGCTAAGTGCTGA
*
2100604 TTCCCCGTATCACT
62 TTCCCCGAATCACT
2100618 GAATATAAGG
Statistics
Matches: 135, Mismatches: 20, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
82 75 0.56
83 20 0.15
84 10 0.07
85 30 0.22
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (82 bp):
AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCGAAAAGGGGTTGCTAAGTGCTGATTCC
CCGAATCACTTATTCAA
Found at i:2100543 original size:41 final size:41
Alignment explanation
Indices: 2100376--2100524 Score: 253
Period size: 41 Copynumber: 3.6 Consensus size: 41
2100366 CATTGAATGT
2100376 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCAAA
* *
2100417 AAGGGGTTGCTAATTGCAAATTCCCCGAATCACTTATCAAA
1 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCAAA
*
2100458 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCGAA
1 AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCAAA
**
2100499 AAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGTTGCTAAGTGCAAATTCCCC
2100525 AAATTATTTA
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAAATTCCCCGAATCACTGATCAAA
Found at i:2100642 original size:41 final size:43
Alignment explanation
Indices: 2100498--2100652 Score: 124
Period size: 42 Copynumber: 3.7 Consensus size: 43
2100488 CACTGATCGA
** ** * * *
2100498 AAAGG-GGTTGCTAAGTGCTGATTCC-CCAAATTATTTATTCT
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATAT
* * * *
2100539 AAAGGTAGTTGCTAAGTGCTGATTCCACCGTTTCCTTGATTGT
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATAT
*
2100582 GAAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCAC-TGAATAT
1 -AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATC-CTTGAATAT
* *
2100624 -AAGGTGGTTGCTAGGTGCTGATTTCACCG
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCG
2100653 AGTAACGGTT
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
40 4 0.04
41 23 0.25
42 33 0.35
43 28 0.30
44 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGAATAT
Found at i:2100652 original size:84 final size:85
Alignment explanation
Indices: 2100498--2100652 Score: 204
Period size: 85 Copynumber: 1.8 Consensus size: 85
2100488 CACTGATCGA
* * * * *
2100498 AAAGGGGTTGCTAAGTGCTGATTCCCCAAATTATTTATTCTAAAGGTAGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCAAATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATT
2100563 CCACCGTTTCCTTGATTGTG
66 CCACCGTTTCCTTGATTGTG
* ** * *
2100583 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATAT-AAGGTGGTTGCTAGGTGCTGATT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCAAATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATT
*
2100647 TCACCG
66 CCACCG
2100653 AGTAACGGTT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
84 26 0.44
85 33 0.56
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (85 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCAAATCACTGAATATAAAGGTAGTTGCTAAGTGCTGATT
CCACCGTTTCCTTGATTGTG
Found at i:2102917 original size:10 final size:11
Alignment explanation
Indices: 2102891--2102915 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2102881 CATAGATAGG
2102891 TTTTAATGAAT
1 TTTTAATGAAT
2102902 TTTTAATGAAT
1 TTTTAATGAAT
2102913 TTT
1 TTT
2102916 AAAGGTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTTAATGAAT
Found at i:2111112 original size:51 final size:51
Alignment explanation
Indices: 2110978--2111164 Score: 236
Period size: 51 Copynumber: 3.7 Consensus size: 51
2110968 AGTGAAAGTC
*
2110978 ATGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-A-TG
1 ATGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTA
* * * * *
2111027 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-
1 AT-GATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTA
* * * *
2111078 TTCGATCACATGTGTAGTACTATGTGCAGACTACTACGTGTATCAGATGGTA
1 AT-GATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTA
*
2111130 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 ATGATCACATGTGTAGTACTATGTGCAGGCTACTA
2111165 TGTGAACTGA
Statistics
Matches: 116, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 73 0.63
52 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (51 bp):
ATGATCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTA
Found at i:2111337 original size:23 final size:22
Alignment explanation
Indices: 2111311--2111354 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
2111301 AATTGACTAA
2111311 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
2111334 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
2111355 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:2114056 original size:127 final size:127
Alignment explanation
Indices: 2113830--2114079 Score: 439
Period size: 127 Copynumber: 2.0 Consensus size: 127
2113820 ACTTCTGTCA
2113830 TTCCAAGTTTTTGGCGCCGTTGTCGGGGACTATTTTAAAAGTCACTATTTGTGAATTTGTTAATT
1 TTCCAAGTTTTTGGCGCCGTTGTCGGGGACTATTTTAAAAGTCACTATTTGTGAATTTGTTAATT
* *
2113895 TTTCATTTTGTTTAAATTTTTTCTGTTCAATTTTAACTTAGCTAATTTTTCAATGTTTGTTG
66 TTGCATTTTGGTTAAATTTTTTCTGTTCAATTTTAACTTAGCTAATTTTTCAATGTTTGTTG
* *
2113957 TTCCAAGTTTTTGGCGCCGTTGTCGGGGAC-AGTTTTAAAAGTCATTATTTGTGAATTTTTTAAT
1 TTCCAAGTTTTTGGCGCCGTTGTCGGGGACTA-TTTTAAAAGTCACTATTTGTGAATTTGTTAAT
*
2114021 TTTGCATTTTGGTTAAATTTTTTCTGTTCAATTTTAACTTAGCTAATTTTTCTATGTTT
65 TTTGCATTTTGGTTAAATTTTTTCTGTTCAATTTTAACTTAGCTAATTTTTCAATGTTT
2114080 TTTTCAAGTG
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
126 1 0.01
127 116 0.99
ACGTcount: A:0.21, C:0.12, G:0.16, T:0.51
Consensus pattern (127 bp):
TTCCAAGTTTTTGGCGCCGTTGTCGGGGACTATTTTAAAAGTCACTATTTGTGAATTTGTTAATT
TTGCATTTTGGTTAAATTTTTTCTGTTCAATTTTAACTTAGCTAATTTTTCAATGTTTGTTG
Found at i:2117413 original size:55 final size:55
Alignment explanation
Indices: 2117354--2117519 Score: 137
Period size: 55 Copynumber: 3.0 Consensus size: 55
2117344 GGCACACAGG
*
2117354 TGTGTAAGGCCATTTCGAGCGTTACACGGCTTGGCACACGGGCTTGTGGCTTGGC
1 TGTGTAAGGCCATTTCGAGAGTTACACGGCTTGGCACACGGGCTTGTGGCTTGGC
* * ** * * * **
2117409 TGTGTGA-CCCAACTCAGAGAGTAACACAGGCATGAGTCACA---GCTTG-GCACACAGG-
1 TGTGTAAGGCCATTTC-GAGAGTTACAC-GGCTTG-G-CACACGGGCTTGTG-GC-TTGGC
*
2117464 TGTGTAAGGCCATTTCGAGTGTTACACGGCTTGGCACACGGGCTTGTGGCTTGGC
1 TGTGTAAGGCCATTTCGAGAGTTACACGGCTTGGCACACGGGCTTGTGGCTTGGC
2117519 T
1 T
2117520 TGGAACACTA
Statistics
Matches: 79, Mismatches: 20, Indels: 24
0.64 0.16 0.20
Matches are distributed among these distances:
52 4 0.05
53 1 0.01
54 13 0.16
55 43 0.54
56 13 0.16
57 1 0.01
58 4 0.05
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.25
Consensus pattern (55 bp):
TGTGTAAGGCCATTTCGAGAGTTACACGGCTTGGCACACGGGCTTGTGGCTTGGC
Found at i:2119046 original size:20 final size:20
Alignment explanation
Indices: 2119023--2119216 Score: 117
Period size: 20 Copynumber: 9.7 Consensus size: 20
2119013 AGGGGCACGC
*
2119023 AAGTGCAATCAGGCGTACCG
1 AAGTGCAATCAGGGGTACCG
* * * * **
2119043 AAGTACAAGCAAGGGCACTT
1 AAGTGCAATCAGGGGTACCG
2119063 AAGTGCAATCAGGGGTACCG
1 AAGTGCAATCAGGGGTACCG
* * *
2119083 AAGTACAAACAGGGGCA-CG
1 AAGTGCAATCAGGGGTACCG
*
2119102 TAAGTGTAATCAGGGGTACCG
1 -AAGTGCAATCAGGGGTACCG
* * *
2119123 AAGTACAAACAGGGGCA-CG
1 AAGTGCAATCAGGGGTACCG
* **
2119142 TAAGTGTAATCAGGGGTTGCG
1 -AAGTGCAATCAGGGGTACCG
* *
2119163 AAGTACAAAT-AGGGGCA-CG
1 AAGTGC-AATCAGGGGTACCG
* *
2119182 TAAGTGTAATTAGGGGTACCG
1 -AAGTGCAATCAGGGGTACCG
* *
2119203 AAGTACAAACAGGG
1 AAGTGCAATCAGGG
2119217 TATAATTTAC
Statistics
Matches: 126, Mismatches: 40, Indels: 16
0.69 0.22 0.09
Matches are distributed among these distances:
19 9 0.07
20 108 0.86
21 9 0.07
ACGTcount: A:0.35, C:0.17, G:0.32, T:0.16
Consensus pattern (20 bp):
AAGTGCAATCAGGGGTACCG
Found at i:2119059 original size:40 final size:40
Alignment explanation
Indices: 2119009--2119216 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
2118999 ACCGAAATTT
* * *
2119009 AAACAGGGGCACGCAAGTGCAATCAGGCGTACCGAAGTAC
1 AAACAGGGGCACGTAAGTGTAATCAGGGGTACCGAAGTAC
* * * *
2119049 AAGCAAGGGCACTTAAGTGCAATCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTAAGTGTAATCAGGGGTACCGAAGTAC
2119089 AAACAGGGGCACGTAAGTGTAATCAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTAAGTGTAATCAGGGGTACCGAAGTAC
**
2119129 AAACAGGGGCACGTAAGTGTAATCAGGGGTTGCGAAGTAC
1 AAACAGGGGCACGTAAGTGTAATCAGGGGTACCGAAGTAC
* *
2119169 AAATAGGGGCACGTAAGTGTAATTAGGGGTACCGAAGTAC
1 AAACAGGGGCACGTAAGTGTAATCAGGGGTACCGAAGTAC
2119209 AAACAGGG
1 AAACAGGG
2119217 TATAATTTAC
Statistics
Matches: 152, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 152 1.00
ACGTcount: A:0.35, C:0.18, G:0.32, T:0.15
Consensus pattern (40 bp):
AAACAGGGGCACGTAAGTGTAATCAGGGGTACCGAAGTAC
Found at i:2122033 original size:27 final size:27
Alignment explanation
Indices: 2122003--2122065 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
2121993 TAGGTCTGAC
*
2122003 TTAAAACATGCATTGATGCTGTCCGAA
1 TTAAAACATGCATTGATGCTGTCCAAA
*
2122030 TTAAAACCTGCATTGATGCTGTCCAAA
1 TTAAAACATGCATTGATGCTGTCCAAA
*
2122057 TTATAACAT
1 TTAAAACAT
2122066 ACTTAATAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (27 bp):
TTAAAACATGCATTGATGCTGTCCAAA
Found at i:2127805 original size:25 final size:25
Alignment explanation
Indices: 2127750--2127806 Score: 82
Period size: 24 Copynumber: 2.3 Consensus size: 25
2127740 ATTTTCCTCC
2127750 TAAA-TTTCAATTTTATTTAATTAT
1 TAAATTTTCAATTTTATTTAATTAT
*
2127774 TTAATTTTCAA-TTTATTTAATTAT
1 TAAATTTTCAATTTTATTTAATTAT
2127798 TAATATTTT
1 TAA-ATTTT
2127807 ATACTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TAAATTTTCAATTTTATTTAATTAT
Found at i:2130055 original size:24 final size:23
Alignment explanation
Indices: 2130025--2130096 Score: 74
Period size: 24 Copynumber: 3.0 Consensus size: 23
2130015 AATTTTCCTC
*
2130025 TTAAATTTTAATTTTATTTAATTA
1 TTAAATTTTAA-TTTATTGAATTA
*
2130049 TTTAATTTTCAATTTATTGAATTA
1 TTAAATTTT-AATTTATTGAATTA
2130073 TTAATATTTT-ATTCTAATTGAATT
1 TTAA-ATTTTAATT-T-ATTGAATT
2130097 TTTCAGAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 3 0.07
24 23 0.56
25 15 0.37
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (23 bp):
TTAAATTTTAATTTATTGAATTA
Found at i:2132978 original size:18 final size:18
Alignment explanation
Indices: 2132955--2133041 Score: 86
Period size: 18 Copynumber: 4.7 Consensus size: 18
2132945 CAAATACCAA
2132955 ATACCAAAATATCTAATG
1 ATACCAAAATATCTAATG
* *
2132973 ATACCAAAATTTCTAATAA
1 ATACCAAAATATCTAAT-G
*
2132992 ATAACCAAAATATGTAAATG
1 AT-ACCAAAATATCT-AATG
*
2133012 ATACC-AAATCTCTAATG
1 ATACCAAAATATCTAATG
*
2133029 TATAACAAAATAT
1 -ATACCAAAATAT
2133042 TTAACAGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
17 4 0.07
18 26 0.47
19 10 0.18
20 12 0.22
21 3 0.05
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.29
Consensus pattern (18 bp):
ATACCAAAATATCTAATG
Found at i:2132999 original size:38 final size:38
Alignment explanation
Indices: 2132953--2133058 Score: 112
Period size: 38 Copynumber: 2.8 Consensus size: 38
2132943 ACCAAATACC
*
2132953 AAAT-ACCAAAATATCT-AATGATACCAAAATTTCTAAT
1 AAATAACCAAAATATCTAAATGATACC-AAATCTCTAAT
*
2132990 AAATAACCAAAATATGTAAATGATACCAAATCTCTAAT
1 AAATAACCAAAATATCTAAATGATACCAAATCTCTAAT
** *
2133028 GTATAA-CAAAATATTTAACA-GAATACCAAAT
1 AAATAACCAAAATATCTAA-ATG-ATACCAAAT
2133059 TTTTTTACTC
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
37 16 0.27
38 35 0.58
39 9 0.15
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.27
Consensus pattern (38 bp):
AAATAACCAAAATATCTAAATGATACCAAATCTCTAAT
Found at i:2147721 original size:40 final size:39
Alignment explanation
Indices: 2147677--2147781 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
2147667 AGTGACCATA
*
2147677 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
2147717 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
2147755 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
2147782 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:2147738 original size:39 final size:40
Alignment explanation
Indices: 2147637--2147781 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
2147627 TTGAATGATG
* *
2147637 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
2147677 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
2147716 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
2147756 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
2147782 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:2147795 original size:40 final size:39
Alignment explanation
Indices: 2147638--2147800 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
2147628 TGAATGATGT
** * * *
2147638 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
2147678 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
2147718 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
2147757 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
2147797 CCGG
1 CCGG
2147801 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:2147800 original size:79 final size:80
Alignment explanation
Indices: 2147637--2147787 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
2147627 TTGAATGATG
*
2147637 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
2147702 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
2147717 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
2147779 TTGAACGAG
64 TTGAACGAG
2147788 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:2159426 original size:9 final size:9
Alignment explanation
Indices: 2159412--2159440 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2159402 TCAAAAAGTG
2159412 AAAATAAGA
1 AAAATAAGA
2159421 AAAATAAGA
1 AAAATAAGA
2159430 AAAATAA-A
1 AAAATAAGA
2159438 AAA
1 AAA
2159441 TATATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (9 bp):
AAAATAAGA
Found at i:2163458 original size:38 final size:39
Alignment explanation
Indices: 2163402--2163488 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 39
2163392 AAGTCTGTAC
* * *
2163402 TTATATCATAATTTGAACATCATTAAT-ATGAGTTTTAA
1 TTATGTCATAATCTGAACATCATTAATAAGGAGTTTTAA
* * *
2163440 TTATGTCATAATCTGAACATCTTTGATAAGGATTTTTAA
1 TTATGTCATAATCTGAACATCATTAATAAGGAGTTTTAA
2163479 TTATGTCATA
1 TTATGTCATA
2163489 GTTTAGGACA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 23 0.55
39 19 0.45
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (39 bp):
TTATGTCATAATCTGAACATCATTAATAAGGAGTTTTAA
Found at i:2163516 original size:39 final size:38
Alignment explanation
Indices: 2163473--2163555 Score: 112
Period size: 39 Copynumber: 2.1 Consensus size: 38
2163463 TGATAAGGAT
* *
2163473 TTTTAATTATGTCATAGTTTAGGACATCTTAAATATATG
1 TTTTAAATATGTCATAGTTTA-GACATCTTAAATACATG
* *
2163512 TTTTAAATATGTCCTAGTTTAGACATCTTTAATACATG
1 TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
2163550 TCTTTA
1 T-TTTA
2163556 GTTCAGACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 16 0.41
39 23 0.59
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (38 bp):
TTTTAAATATGTCATAGTTTAGACATCTTAAATACATG
Found at i:2165822 original size:40 final size:40
Alignment explanation
Indices: 2165791--2166082 Score: 403
Period size: 40 Copynumber: 7.3 Consensus size: 40
2165781 GGACTAAGAT
2165791 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
2165831 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
2165871 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
2165911 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
2165951 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * ** * *
2165991 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCC
* * * * * *
2166031 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
2166070 CCGAAGGCATTTG
1 CCGAAGGCATTTG
2166083 AACGAGGAGC
Statistics
Matches: 234, Mismatches: 14, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
39 32 0.14
40 199 0.85
41 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:2166100 original size:79 final size:80
Alignment explanation
Indices: 2165791--2166115 Score: 229
Period size: 80 Copynumber: 4.1 Consensus size: 80
2165781 GGACTAAGAT
* * * * ** *
2165791 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
2165853 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * * ** *
2165871 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
2165933 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** ** *
2165951 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
2166016 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
2166031 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
2166095 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
2166109 CCGAAGG
1 CCGAAGG
2166116 TACGTGATTT
Statistics
Matches: 217, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
78 14 0.06
79 49 0.23
80 147 0.68
81 7 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Done.