Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
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: 6025995
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 28
Found at i:1694403 original size:90 final size:90
Alignment explanation
Indices: 1694260--1694988 Score: 1098
Period size: 90 Copynumber: 8.2 Consensus size: 90
1694250 TCAAAAGATT
* *
1694260 TTTTAAGAAACTAAGCCTTCGGGGGTTTCTTGATTTATAAGTCCTTCGAGCCATCCATAAGACCT
1 TTTT-AGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCT
* *
1694325 TTAGTGCAGGATGTTTTCAAGTGAGA
65 TCAGTGCAGGATGTTTTCAAATGAGA
*
1694351 TTTTAGAAACTAAGCCTTCGAGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
*
1694416 CAGTGCATGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* * *
1694441 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTCTAGGTCCTTCGAGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
1694506 CAGTGCAGGATGTTTTC--A--A-A
66 CAGTGCAGGATGTTTTCAAATGAGA
* *
1694526 ---T-GAAACTAAGCCTTCAGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAAACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
* * *
1694587 CAGTGCTGAATATTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* *
1694612 TTTTAGAAACTAAGCCTTCGGGAGTTTCTTGATTTGTAAGTCCTTCGGGCCATCTATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
*
1694677 CAGTGTAGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
1694702 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
*
1694767 CAATGCAGGATGTTTTCAAATGAGA
66 CAGTGCAGGATGTTTTCAAATGAGA
* * *
1694792 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTAACTTATAAGTCCTTCGGGCCATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
* ** *
1694857 CAATGTTGGATGTTTTCAAATGAAA
66 CAGTGCAGGATGTTTTCAAATGAGA
* ** *
1694882 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCTTTCTAGACATCCATAAGACCTT
1 TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
* * *
1694947 CAGTGCAAGATGTTTTCGAATGAGT
66 CAGTGCAGGATGTTTTCAAATGAGA
1694972 TTTTAGAAACTAAGCCT
1 TTTTAGAAACTAAGCCT
1694989 GATTTTCAGG
Statistics
Matches: 578, Mismatches: 51, Indels: 19
0.89 0.08 0.03
Matches are distributed among these distances:
81 69 0.12
82 1 0.00
83 1 0.00
85 2 0.00
86 2 0.00
88 1 0.00
89 1 0.00
90 497 0.86
91 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (90 bp):
TTTTAGAAACTAAGCCTTCGGGGGTTTCTTGATTTGTAAGTCCTTCGGGCCATCCATAAGACCTT
CAGTGCAGGATGTTTTCAAATGAGA
Found at i:1695063 original size:37 final size:36
Alignment explanation
Indices: 1695022--1695099 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
1695012 TTATAAAAAT
* *
1695022 AACAAATTTTGTCTCACTTGGGATAATTTTTACTCAA
1 AACAAATTTTGTCTCACTTGAGATAATTTCT-CTCAA
* ** *
1695059 AACAAGTTTTGTCTCTTTTGAGATAGTTTCTCTCAA
1 AACAAATTTTGTCTCACTTGAGATAATTTCTCTCAA
1695095 AACAA
1 AACAA
1695100 TAAAGTCTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
36 10 0.29
37 25 0.71
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (36 bp):
AACAAATTTTGTCTCACTTGAGATAATTTCTCTCAA
Found at i:1695178 original size:36 final size:37
Alignment explanation
Indices: 1695115--1695201 Score: 115
Period size: 36 Copynumber: 2.4 Consensus size: 37
1695105 TCTGAGTCTG
*
1695115 TTTCTCTTGAAAAAAAGTTTTATCTCTCTTGAGACAA
1 TTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACAA
* * *
1695152 TTTC-CTTTGAAACAAA-TTTTGTCTCTCTTGAGATAG
1 TTTCTC-TTGAAACAAAGTTTTATCTCTCTTGAGACAA
1695188 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
1695202 CAAAATCTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
36 30 0.68
37 14 0.32
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (37 bp):
TTTCTCTTGAAACAAAGTTTTATCTCTCTTGAGACAA
Found at i:1695238 original size:103 final size:103
Alignment explanation
Indices: 1695058--1695253 Score: 229
Period size: 103 Copynumber: 1.9 Consensus size: 103
1695048 TTTTTACTCA
* * * *
1695058 AAACAAGTTTTGTCTCTTTTGAGATAGTTTCTCTCAAAACAATAAAGTCTGAGTCTGTTTCTCTT
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTCAAAACAATAAAGTCTGAGTCGGTTTCCCTT
*
1695123 GAAAAAAAGTTTTATCTCTCTTGAGACAATTTCCTTTG
66 GAAAAAAAGTTTTATCTCTCCTGAGACAATTTCCTTTG
** *
1695161 AAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACA-AAA-TCTTTGCGAT-GGTTTC
1 AAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTCAAAACA-ATAAAGTC--TGAG-TCGGTTTC
* * *
1695223 CCTTG-AAACATGTTTTGTCTCTCCTGAGACA
62 CCTTGAAAAAAAGTTTTATCTCTCCTGAGACA
1695254 GTTCTCTTGA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
102 2 0.03
103 62 0.79
104 13 0.17
105 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (103 bp):
AAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTCAAAACAATAAAGTCTGAGTCGGTTTCCCTT
GAAAAAAAGTTTTATCTCTCCTGAGACAATTTCCTTTG
Found at i:1695308 original size:65 final size:67
Alignment explanation
Indices: 1695152--1695322 Score: 193
Period size: 65 Copynumber: 2.6 Consensus size: 67
1695142 CTTGAGACAA
* * * * *
1695152 TTTCCTTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACACAAAATCTTTGCGAT
1 TTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAGTTTCTCTTGAAACACAAAACCTTTGAGAT
1695217 GG
66 GG
** * *
1695219 TTTCCCTTGAAACATGTTTTGTCTCTCCTGAGACAG-TTCTCTTGAAGCAC-CAACCTTTGAGAT
1 TTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAGTTTCTCTTGAAACACAAAACCTTTGAGAT
*
1695282 TG
66 GG
* * * * *
1695284 TTTCCCTTGGAACAAATTTCGTCTCGCTTGTGACAGTTT
1 TTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAGTTT
1695323 TCCCCTGAAA
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
65 40 0.47
66 15 0.17
67 31 0.36
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (67 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCCTGAGACAGTTTCTCTTGAAACACAAAACCTTTGAGAT
GG
Found at i:1695788 original size:91 final size:91
Alignment explanation
Indices: 1695633--1696805 Score: 1862
Period size: 91 Copynumber: 12.9 Consensus size: 91
1695623 TATAAACATA
* ** *
1695633 TCAACATTGCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAATGAGAAGATGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
* *
1695698 AAGAGAAGAACTTGCTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
1695724 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
* *
1695789 ATGAGAAGAAATTGTTCAACCTTGGA
66 ATGAGAAGAACTTGTTCAACCTTGGC
* *
1695815 TCAACATTTCAAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
1695880 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * * * *
1695906 TCAGCATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCGTCCAATGATGGAGAATAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
* * *
1695971 ATGAGAAGAACTTATTCATCCTTGGA
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
1695997 TCAACATTTCCAGTGGAGAGTTTATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTTATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
*
1696062 ATGAGAAGAACTTGTTCAACATTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
1696088 TCAGCATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGCGAGAATAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
1696153 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * * * *
1696179 TCAACATTTCCAGTGGAGAGTTTATAATGAAAAGAACTCATCTAACGAGGGGGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
*
1696244 ATGAGAAGAACTTGTTCAACCTTGGA
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
1696270 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAAAACTCGTCCAATAAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
*
1696335 ATGAGAAGAACTTGTTCAACATTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
*
1696361 TCAGCATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
*
1696426 ATGAGAAGAACTTGTTCAACCTTGGA
66 ATGAGAAGAACTTGTTCAACCTTGGC
*
1696452 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
*
1696517 ATGAGAAGAACTTGTTCAATCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
1696543 TCAACATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATCAAATGAGGGAGAAGAAGTTTATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
1696608 ATGAGAAGAACTTGTTCAACCTTGGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* * *
1696634 TCAACATTTCTAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATT
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
* *
1696699 ATGAGAAGAATTTGTTCAACCTTAGC
66 ATGAGAAGAACTTGTTCAACCTTGGC
* ** * * *
1696725 TCAATATTTCCAACGAAGAGTTCATAATGAGAAGAACTCATTC-ATGAAGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
1696789 ATGAGAAGAACTTGTTC
66 ATGAGAAGAACTTGTTC
1696806 CTTCTGGCTC
Statistics
Matches: 990, Mismatches: 92, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
90 34 0.03
91 956 0.97
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.25
Consensus pattern (91 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTGGC
Found at i:1696351 original size:20 final size:19
Alignment explanation
Indices: 1696289--1696352 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
1696279 CCAGTGGAGA
*
1696289 GTTCATAATGAGAAAAACT
1 GTTCATAATGAGAAGAACT
* *
1696308 CGTCCAATAAGGGAGAAGAA--
1 -GTTC-ATAA-TGAGAAGAACT
1696328 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
1696348 GTTCA
1 GTTCA
1696353 ACATTGGCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
17 8 0.24
18 4 0.12
19 3 0.09
20 8 0.24
21 4 0.12
22 7 0.21
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:1697266 original size:133 final size:133
Alignment explanation
Indices: 1696816--1697275 Score: 514
Period size: 133 Copynumber: 3.5 Consensus size: 133
1696806 CTTCTGGCTC
* * * * ** ** * *
1696816 ATCCATCACATAAGGAGTTTGATCAGTATCAACTTTTTGCTCGATTGTATCACAGAATGAGGTAG
1 ATCCATCGCAGAAAGAGTTGGATCAACATCAACTTTCAGCTCGATTCTATCACAGAAGGAGGTAG
** * ** * * *
1696881 ATCAACACTGACATCTCGTTCGATTTCATCACAGAATAAGGTGGATTGACGTTTTCA-TTTCACT
66 ATCAACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCACT
1696945 CAA
131 CAA
* * * *
1696948 ATCCATCGCAGAATGAGTTGGATCAACATCAACTTTTAGCTATG-TTTTATCACAGAAGGAGGTA
1 ATCCATCGCAGAAAGAGTTGGATCAACATCAACTTTCAGCT-CGATTCTATCACAGAAGGAGGTA
* * **
1697012 GATCAACACCAACATCTTGTTCGATTCCATCACAGAAGGAGGTGGATCGATATTTTTATTTTCGT
65 GATCAACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCAC
1697077 TCAA
130 TCAA
* * * *
1697081 ATCCATCGCAGAAATAGTTGGATCAGCGTCAACTTTCAGC-CAGATACTATCACAGAAGGAGGTA
1 ATCCATCGCAGAAAGAGTTGGATCAACATCAACTTTCAGCTC-GATTCTATCACAGAAGGAGGTA
* *
1697145 GATCAGGC-CCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCAACATTTTTATTTTCA
65 GATCA-ACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCA
1697209 CTCAA
129 CTCAA
** * * * * *
1697214 ATCCATCATAGAAGGAGTTGGAACAACATCAACTTTCAACTCGATTCCATCACAGAATGAGG
1 ATCCATCGCAGAAAGAGTTGGATCAACATCAACTTTCAGCTCGATTCTATCACAGAAGGAGG
1697276 AGTTGTATCG
Statistics
Matches: 275, Mismatches: 47, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
132 101 0.37
133 172 0.63
134 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (133 bp):
ATCCATCGCAGAAAGAGTTGGATCAACATCAACTTTCAGCTCGATTCTATCACAGAAGGAGGTAG
ATCAACACCAACATCTCGTTCGATTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCACT
CAA
Found at i:1697279 original size:47 final size:47
Alignment explanation
Indices: 1697226--1697322 Score: 115
Period size: 47 Copynumber: 2.1 Consensus size: 47
1697216 CCATCATAGA
1697226 AGGAGTTGGAACAACATCAAC-TTTCAACTCGATTCCATCACAGAATG
1 AGGAGTTGGAACAACATCAACATTTC-ACTCGATTCCATCACAGAATG
* * ** * * *
1697273 AGGAGTTGTATCGGCGTCAACATTTCGCTCGATTCTATCACAGAATG
1 AGGAGTTGGAACAACATCAACATTTCACTCGATTCCATCACAGAATG
1697320 AGG
1 AGG
1697323 GAGATCAGCA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 38 0.90
48 4 0.10
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (47 bp):
AGGAGTTGGAACAACATCAACATTTCACTCGATTCCATCACAGAATG
Found at i:1703524 original size:6 final size:6
Alignment explanation
Indices: 1703513--1703548 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1703503 TAACACCTCG
* *
1703513 TGCATT TGCATT TACATT TGCATT TGTATT TGCATT
1 TGCATT TGCATT TGCATT TGCATT TGCATT TGCATT
1703549 CTTATTTTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (6 bp):
TGCATT
Found at i:1705335 original size:13 final size:13
Alignment explanation
Indices: 1705319--1705350 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
1705309 CACCTTTTGT
1705319 ATTTGCATTTTAC
1 ATTTGCATTTTAC
1705332 ATTTGCA-TTTAC
1 ATTTGCATTTTAC
1705344 A-TTGCAT
1 ATTTGCAT
1705351 GTATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 6 0.33
13 7 0.39
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (13 bp):
ATTTGCATTTTAC
Found at i:1709396 original size:36 final size:36
Alignment explanation
Indices: 1709339--1709502 Score: 197
Period size: 36 Copynumber: 4.5 Consensus size: 36
1709329 TGAGATTGGG
*
1709339 GCAAGTCAACCTTAAGCCTTCACCGAAGAATAGTGAA
1 GCAA-TCAATCTTAAGCCTTCACCGAAGAATAGTGAA
* ***
1709376 GTAATCAATCTTAAGCCTTCACCGAAGAGCGGTGAA
1 GCAATCAATCTTAAGCCTTCACCGAAGAATAGTGAA
* *
1709412 GCAATC-ATCTTAAGCCTTCACCGAATAGTAGTGAA
1 GCAATCAATCTTAAGCCTTCACCGAAGAATAGTGAA
* * *
1709447 GTAAATCAACCTTTAGCCTTCACCGAAGAATAGTGAA
1 G-CAATCAATCTTAAGCCTTCACCGAAGAATAGTGAA
1709484 GCAATC-ATCTATAAGCCTT
1 GCAATCAATCT-TAAGCCTT
1709503 TAGAGCAAGA
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
35 30 0.28
36 48 0.45
37 29 0.27
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (36 bp):
GCAATCAATCTTAAGCCTTCACCGAAGAATAGTGAA
Found at i:1709485 original size:72 final size:71
Alignment explanation
Indices: 1709349--1709502 Score: 227
Period size: 72 Copynumber: 2.1 Consensus size: 71
1709339 GCAAGTCAAC
* * *
1709349 CTTAAGCCTTCACCGAAGAATAGTGAAGTAATCAATCTTAAGCCTTCACCGAAGAGCGGTGAAGC
1 CTTAAGCCTTCACCGAAGAATAGTGAAGTAATCAACCTTAAGCCTTCACCGAAGAACAGTGAAGC
1709414 AATCAT
66 AATCAT
* * * *
1709420 CTTAAGCCTTCACCGAATAGTAGTGAAGTAAATCAACCTTTAGCCTTCACCGAAGAATAGTGAAG
1 CTTAAGCCTTCACCGAAGAATAGTGAAGT-AATCAACCTTAAGCCTTCACCGAAGAACAGTGAAG
1709485 CAATCAT
65 CAATCAT
1709492 CTATAAGCCTT
1 CT-TAAGCCTT
1709503 TAGAGCAAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
71 27 0.36
72 39 0.53
73 8 0.11
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (71 bp):
CTTAAGCCTTCACCGAAGAATAGTGAAGTAATCAACCTTAAGCCTTCACCGAAGAACAGTGAAGC
AATCAT
Found at i:1709878 original size:214 final size:215
Alignment explanation
Indices: 1709488--1709934 Score: 752
Period size: 214 Copynumber: 2.1 Consensus size: 215
1709478 AGTGAAGCAA
*
1709488 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTTGGGTAGG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
1709553 ATGTTTTCACATGAATTTGAGAATGAAAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAAC
66 ATGTTTTCACATGAATTTGAAAATG--AAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAAC
* *
1709618 TAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCATTCGGGCCATCAGTAAGTCTTTCGAG
129 GAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCATTCGGGCCATCAGTAAATCTTTCGAG
* *
1709683 CATGATGCTTAAATCCTTCGGG
194 CATGATGATTAAATCCATCGGG
* * * *
1709705 TCATCTGTAAGCCTTTAGGGCAAGATGATAAGTCCTTCGTGCCATCCATAAAACCTTCGGGTATG
1 TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
*
1709770 ATGTTTTCACATGAATTTGAAAATG-AAAAGTGATGTTTTAAGAAGATGAAATTTTTGAAAACGA
66 ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGA
*
1709834 AGAATGCGATTTTCAAAATTTCACAATTTATCAGTCATTCGGGCCATCAGTAAATCTTTCGAGCA
131 AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCATTCGGGCCATCAGTAAATCTTTCGAGCA
1709899 TGATGATTAAATCCATCGGG
196 TGATGATTAAATCCATCGGG
1709919 TCATCTATAAGACCTT
1 TCATCTATAAG-CCTT
1709935 CGGGTATGAT
Statistics
Matches: 216, Mismatches: 13, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
214 128 0.59
215 4 0.02
217 84 0.39
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (215 bp):
TCATCTATAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGG
ATGTTTTCACATGAATTTGAAAATGAAAAAATGATGTTTTAAGAAGATGAAATTTTTGAAAACGA
AGAATGCGATTTTCAAAATTTCACAATTTATAAGTCATTCGGGCCATCAGTAAATCTTTCGAGCA
TGATGATTAAATCCATCGGG
Found at i:1710452 original size:41 final size:41
Alignment explanation
Indices: 1710395--1710478 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
1710385 GATTTGGAAA
1710395 TCGACACAATTTGAAATTCAATCCCAAATACAAGTTAAGCG
1 TCGACACAATTTGAAATTCAATCCCAAATACAAGTTAAGCG
1710436 TCGACACAATTTGAAATTCAATCCCAAATACAAGTTAAGCG
1 TCGACACAATTTGAAATTCAATCCCAAATACAAGTTAAGCG
1710477 TC
1 TC
1710479 TAAAGTCCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (41 bp):
TCGACACAATTTGAAATTCAATCCCAAATACAAGTTAAGCG
Found at i:1712933 original size:29 final size:29
Alignment explanation
Indices: 1712890--1712957 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
1712880 GATAAAAACA
* *
1712890 CCTAAATTTTGAAAATTACACTTTTGGTC
1 CCTAAACTTTGAAAATTACACTTTTAGTC
* *
1712919 TCTAAACTTTGAAAATTACTCTTTTAGTC
1 CCTAAACTTTGAAAATTACACTTTTAGTC
1712948 CCTAAACTTT
1 CCTAAACTTT
1712958 TTAAAACTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (29 bp):
CCTAAACTTTGAAAATTACACTTTTAGTC
Found at i:1712984 original size:31 final size:29
Alignment explanation
Indices: 1712890--1712999 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 29
1712880 GATAAAAACA
* *
1712890 CCTAAA-TTTTGAAAA-TTACACTTTTGGTC
1 CCTAAACTTTT-AAAATTTATAC-TTTAGTC
* *
1712919 TCTAAACTTTGAAAA-TTACT-CTTTTAGTC
1 CCTAAACTTTTAAAATTTA-TAC-TTTAGTC
1712948 CCTAAACTTTTTAAAACTTTATACTTTAG-C
1 CCTAAAC-TTTTAAAA-TTTATACTTTAGTC
1712978 CACTAAACTTTTAAAATTTATA
1 C-CTAAACTTTTAAAATTTATA
1713000 TTTTGGTCAC
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
29 32 0.47
30 20 0.29
31 12 0.18
32 4 0.06
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (29 bp):
CCTAAACTTTTAAAATTTATACTTTAGTC
Found at i:1712992 original size:30 final size:30
Alignment explanation
Indices: 1712941--1712999 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
1712931 AAATTACTCT
1712941 TTTAGTCCCTAAACTTTTTAAAACTTTATAC
1 TTTAGTCCCTAAACTTTTTAAAA-TTTATAC
1712972 TTTAG-CCACTAAAC-TTTTAAAATTTATA
1 TTTAGTCC-CTAAACTTTTTAAAATTTATA
1713000 TTTTGGTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 6 0.22
30 10 0.37
31 11 0.41
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.44
Consensus pattern (30 bp):
TTTAGTCCCTAAACTTTTTAAAATTTATAC
Found at i:1713010 original size:29 final size:29
Alignment explanation
Indices: 1712911--1713012 Score: 98
Period size: 29 Copynumber: 3.4 Consensus size: 29
1712901 AAAATTACAC
* * * *
1712911 TTTTGGTCTCTAAACTTTGAAAA-TTACTC
1 TTTTAGTCACTAAACTTTTAAAATTTA-TA
*
1712940 TTTTAGTCCCTAAACTTTTTAAAACTTTATA
1 TTTTAGTCACTAAAC-TTTTAAAA-TTTATA
* *
1712971 CTTTAGCCACTAAACTTTTAAAATTTATA
1 TTTTAGTCACTAAACTTTTAAAATTTATA
*
1713000 TTTTGGTCACTAA
1 TTTTAGTCACTAA
1713013 CTAAAATTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 29 0.48
30 15 0.25
31 13 0.22
32 3 0.05
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.45
Consensus pattern (29 bp):
TTTTAGTCACTAAACTTTTAAAATTTATA
Found at i:1717407 original size:32 final size:32
Alignment explanation
Indices: 1717361--1717444 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
1717351 AGCCAATAGA
* * *
1717361 TTTATCAAACTATTATAAAATAGTAATTACAT
1 TTTATCAAATTATTATAAAATAATAATTAAAT
** *
1717393 TTTATTGAATTATTATAAAATAATCATTAAAT
1 TTTATCAAATTATTATAAAATAATAATTAAAT
*
1717425 TTTATCAAATTATTACAAAA
1 TTTATCAAATTATTATAAAA
1717445 GTTTCACTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (32 bp):
TTTATCAAATTATTATAAAATAATAATTAAAT
Found at i:1717824 original size:31 final size:31
Alignment explanation
Indices: 1717786--1717912 Score: 193
Period size: 31 Copynumber: 4.1 Consensus size: 31
1717776 ATTATAAATT
1717786 CTATATATTAAAATTGTTGTAATAACATAGA
1 CTATATATTAAAATTGTTGTAATAACATAGA
*
1717817 CTATATATTAAAATT-TTGTAATAACATACA
1 CTATATATTAAAATTGTTGTAATAACATAGA
* * *
1717847 CAATGTATTAAAGTTGTTGTAATAACATAGA
1 CTATATATTAAAATTGTTGTAATAACATAGA
* *
1717878 CTATATATTAAAATTATTGTAATAACATTGA
1 CTATATATTAAAATTGTTGTAATAACATAGA
1717909 CTAT
1 CTAT
1717913 TCGGAATAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
30 26 0.31
31 59 0.69
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (31 bp):
CTATATATTAAAATTGTTGTAATAACATAGA
Found at i:1718204 original size:23 final size:23
Alignment explanation
Indices: 1718178--1718221 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
1718168 ATATCCACCG
1718178 AAAATAAACTTT-AATTTAATAAA
1 AAAATAAA-TTTAAATTTAATAAA
1718201 AAAATAAATTTAAATTTAATA
1 AAAATAAATTTAAATTTAATA
1718222 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAAATTTAAATTTAATAAA
Found at i:1719899 original size:2 final size:2
Alignment explanation
Indices: 1719892--1720076 Score: 105
Period size: 2 Copynumber: 91.5 Consensus size: 2
1719882 CCAATCTACT
1719892 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1719934 TA TCA T- TGA TCA -A TGA TA TA TG TA TA TA TA TGA TG TA TG TA CA
1 TA T-A TA T-A T-A TA T-A TA TA TA TA TA TA TA T-A TA TA TA TA TA
* * * * * *
1719977 TA TG TA TGA TG TA TG TA TA TA TA TA TG TG TA CA TA -A TA -A GTA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
1720019 TA TA TA -A TA TA TA TG TA TA TA AA CTA TA -A AA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
1720060 TA TA CA TA -A GTA TA TA T
1 TA TA TA TA TA -TA TA TA T
1720077 GGATGATGTA
Statistics
Matches: 140, Mismatches: 28, Indels: 30
0.71 0.14 0.15
Matches are distributed among these distances:
1 7 0.05
2 120 0.86
3 13 0.09
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.44
Consensus pattern (2 bp):
TA
Found at i:1719984 original size:19 final size:19
Alignment explanation
Indices: 1719957--1720007 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
1719947 TGATATATGT
1719957 ATATATATGATGTATGTAC
1 ATATATATGATGTATGTAC
* *
1719976 ATATGTATGATGTATGTAT
1 ATATATATGATGTATGTAC
1719995 ATATATATG-TGTA
1 ATATATATGATGTA
1720008 CATAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (19 bp):
ATATATATGATGTATGTAC
Found at i:1720468 original size:2 final size:2
Alignment explanation
Indices: 1720463--1720536 Score: 114
Period size: 2 Copynumber: 37.5 Consensus size: 2
1720453 AAGTATAAAG
*
1720463 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1720505 TA -A GA TA TA TA TA TA TA TA TA TA TA GA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1720537 TAAACTAATG
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1739291 original size:6 final size:6
Alignment explanation
Indices: 1739280--1739304 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1739270 TAAATTCTTG
1739280 GTCAAA GTCAAA GTCAAA GTCAAA G
1 GTCAAA GTCAAA GTCAAA GTCAAA G
1739305 GGTTTGACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (6 bp):
GTCAAA
Found at i:1739510 original size:9 final size:9
Alignment explanation
Indices: 1739496--1739521 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1739486 GGTTTAGACC
1739496 GGTCAAACG
1 GGTCAAACG
1739505 GGTCAAACG
1 GGTCAAACG
1739514 GGTCAAAC
1 GGTCAAAC
1739522 CGGTGTCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.31, T:0.12
Consensus pattern (9 bp):
GGTCAAACG
Found at i:1741001 original size:21 final size:21
Alignment explanation
Indices: 1740975--1741019 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
1740965 TATAATCCCA
1740975 ACAGTGGTAATTTCAGCCCTT
1 ACAGTGGTAATTTCAGCCCTT
*
1740996 ACAGTGTTAATTTCAGCCCTT
1 ACAGTGGTAATTTCAGCCCTT
1741017 ACA
1 ACA
1741020 ATTCAGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (21 bp):
ACAGTGGTAATTTCAGCCCTT
Found at i:1741099 original size:24 final size:24
Alignment explanation
Indices: 1741049--1741101 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1741039 TTCACCCTTA
* ***
1741049 GTTCCTGCTGTTCAACAAGTTTTT
1 GTTCCTACTGTTCAACAAGTCCCT
1741073 GTTCCTACTGTTCAACAAGTCCCT
1 GTTCCTACTGTTCAACAAGTCCCT
1741097 GTTCC
1 GTTCC
1741102 GTAAGTTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.28, G:0.15, T:0.40
Consensus pattern (24 bp):
GTTCCTACTGTTCAACAAGTCCCT
Found at i:1742898 original size:33 final size:33
Alignment explanation
Indices: 1742839--1742901 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
1742829 ATCATCTCCA
*
1742839 TCACAACAATTCATAACATCCCCATCTCATCCG
1 TCACAACAATTCATAACATACCCATCTCATCCG
* **
1742872 TCACAACAATTCATCACATATTCATCTCAT
1 TCACAACAATTCATAACATACCCATCTCAT
1742902 TCTCCAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACAACAATTCATAACATACCCATCTCATCCG
Found at i:1742963 original size:18 final size:19
Alignment explanation
Indices: 1742942--1742982 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1742932 TCTTCTACAC
*
1742942 CATCAACAT-CATCATCTT
1 CATCAACATGAATCATCTT
1742960 CATC-ACATGAATCATCTT
1 CATCAACATGAATCATCTT
1742978 CATCA
1 CATCA
1742983 CAACAATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.34, C:0.32, G:0.02, T:0.32
Consensus pattern (19 bp):
CATCAACATGAATCATCTT
Found at i:1742998 original size:18 final size:18
Alignment explanation
Indices: 1742952--1742999 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
1742942 CATCAACATC
**
1742952 ATCATCTTCATCACATGA
1 ATCATCTTCATCACAACA
1742970 ATCATCTTCATCACAACA
1 ATCATCTTCATCACAACA
1742988 ATTCATC-TCATC
1 A-TCATCTTCATC
1743000 CCCATCTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.33
Consensus pattern (18 bp):
ATCATCTTCATCACAACA
Found at i:1743090 original size:18 final size:18
Alignment explanation
Indices: 1743045--1743083 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
1743035 TCACTACTTT
*
1743045 ATCATCACCACCACCTCC
1 ATCATCACCACCACCACC
1743063 ATCATCACCACCACCACC
1 ATCATCACCACCACCACC
1743081 ATC
1 ATC
1743084 TTTACCATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.54, G:0.00, T:0.15
Consensus pattern (18 bp):
ATCATCACCACCACCACC
Found at i:1745287 original size:23 final size:23
Alignment explanation
Indices: 1745261--1745333 Score: 137
Period size: 23 Copynumber: 3.2 Consensus size: 23
1745251 ATCAAGCACA
1745261 ATAACATATTAGGTAGCGCTTAT
1 ATAACATATTAGGTAGCGCTTAT
1745284 ATAACATATTAGGTAGCGCTTAT
1 ATAACATATTAGGTAGCGCTTAT
*
1745307 ATAACATAATAGGTAGCGCTTAT
1 ATAACATATTAGGTAGCGCTTAT
1745330 ATAA
1 ATAA
1745334 TAAAATAGGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.33
Consensus pattern (23 bp):
ATAACATATTAGGTAGCGCTTAT
Found at i:1745340 original size:23 final size:23
Alignment explanation
Indices: 1745261--1745343 Score: 130
Period size: 23 Copynumber: 3.6 Consensus size: 23
1745251 ATCAAGCACA
*
1745261 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
1745284 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1745307 ATAACATAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1745330 ATAATAAAATAGGT
1 ATAACATAATAGGT
1745344 TAATTACTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1745468 original size:23 final size:23
Alignment explanation
Indices: 1745442--1745491 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1745432 ATCAAGCACA
*
1745442 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
1745465 ATAACGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1745488 ATAA
1 ATAA
1745492 TAAAATAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1745498 original size:23 final size:23
Alignment explanation
Indices: 1745442--1745498 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
1745432 ATCAAGCACA
* *
1745442 ATAACATATTAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
** *
1745465 ATAACGTAATAGGTAGTGCTTAT
1 ATAACAAAATAGGTAGCGCTTAT
*
1745488 ATAATAAAATA
1 ATAACAAAATA
1745499 AGTTAATTAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (23 bp):
ATAACAAAATAGGTAGCGCTTAT
Found at i:1745533 original size:158 final size:158
Alignment explanation
Indices: 1745284--1745795 Score: 889
Period size: 158 Copynumber: 3.2 Consensus size: 158
1745274 TAGCGCTTAT
* *
1745284 ATAACATATTAGGTAGCGCTTATATAACATAATAGGTAGCGCTTATATAATAAAATAGGTTAATT
1 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATT
*
1745349 ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAAACGG
66 ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGG
1745414 TTATTTACTGGAAACATTATCAAGCACA
131 TTATTTACTGGAAACATTATCAAGCACA
*
1745442 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGTGCTTATATAATAAAATAAGTTAATT
1 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATT
1745507 ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGG
66 ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGG
1745572 TTATTTACTGGAAACATTATCAAGCACA
131 TTATTTACTGGAAACATTATCAAGCACA
* * *
1745600 ATAACATATTAGGCATCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATCAGTTAATT
1 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATT
* *
1745665 ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATATTACCAAGGATAACATAACCGA
66 ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGG
* * *
1745730 TTAATTACTGGAAATATTATCAAGCATA
131 TTATTTACTGGAAACATTATCAAGCACA
* * *
1745758 ATAACATATTAGGTAGAGCTTATGTAACGTAATGGGTA
1 ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTA
1745796 ATTACTTACT
Statistics
Matches: 336, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
158 336 1.00
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (158 bp):
ATAACATATTAGGTAGCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAAGTTAATT
ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGG
TTATTTACTGGAAACATTATCAAGCACA
Found at i:1745626 original size:23 final size:23
Alignment explanation
Indices: 1745600--1745649 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1745590 ATCAAGCACA
* *
1745600 ATAACATATTAGGCATCGCTTAT
1 ATAACATAATAGGCAGCGCTTAT
* *
1745623 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGCAGCGCTTAT
1745646 ATAA
1 ATAA
1745650 TAAAATCAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGCAGCGCTTAT
Found at i:1746052 original size:2 final size:2
Alignment explanation
Indices: 1746045--1746071 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1746035 TAAGTATGGA
1746045 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1746072 ATGTGTGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1747971 original size:17 final size:17
Alignment explanation
Indices: 1747949--1747984 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1747939 CCTCATCATC
*
1747949 CTCCTCCATCTTTTTTT
1 CTCCTCCATCTTTTCTT
*
1747966 CTCCTCTATCTTTTCTT
1 CTCCTCCATCTTTTCTT
1747983 CT
1 CT
1747985 TCATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.36, G:0.00, T:0.58
Consensus pattern (17 bp):
CTCCTCCATCTTTTCTT
Found at i:1748234 original size:66 final size:64
Alignment explanation
Indices: 1748094--1748234 Score: 183
Period size: 66 Copynumber: 2.1 Consensus size: 64
1748084 ACTCCCTTCA
* * *
1748094 CCCCCGTAAGTTCACCCCTCAAATCCACAACTTCCTTCACCACTCCATCAATTTTTCTACCCAT
1 CCCCCTTAACTTCACCCCTCAAATCCACAACTTCCTTCACCACTCCATCAATTTTTCCACCCAT
* * * *
1748158 CACCAACTTAACTTCACCCCTCAACTCCACAACTTCTTTCACCACTCCATCTATTTTTCCACCCA
1 C-CC-CCTTAACTTCACCCCTCAAATCCACAACTTCCTTCACCACTCCATCAATTTTTCCACCCA
1748223 CTT
64 --T
1748226 CCCCCTTAA
1 CCCCCTTAA
1748235 GCCTCTCCAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
64 1 0.02
65 2 0.03
66 58 0.89
67 2 0.03
68 2 0.03
ACGTcount: A:0.25, C:0.45, G:0.01, T:0.29
Consensus pattern (64 bp):
CCCCCTTAACTTCACCCCTCAAATCCACAACTTCCTTCACCACTCCATCAATTTTTCCACCCAT
Found at i:1749667 original size:11 final size:11
Alignment explanation
Indices: 1749651--1749675 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1749641 AAATAAAAAG
1749651 CTATGTTCATT
1 CTATGTTCATT
1749662 CTATGTTCATT
1 CTATGTTCATT
1749673 CTA
1 CTA
1749676 CTTTATTATA
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:0.20, C:0.20, G:0.08, T:0.52
Consensus pattern (11 bp):
CTATGTTCATT
Found at i:1751935 original size:22 final size:23
Alignment explanation
Indices: 1751894--1751939 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1751884 ATAAATTTAT
1751894 TCCTAGGGTTTTGGCCTTTTTTC
1 TCCTAGGGTTTTGGCCTTTTTTC
1751917 TCCTAGGGTTTT-GCCTTTTTTC
1 TCCTAGGGTTTTGGCCTTTTTTC
1751939 T
1 T
1751940 AAGTCGTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.04, C:0.22, G:0.20, T:0.54
Consensus pattern (23 bp):
TCCTAGGGTTTTGGCCTTTTTTC
Found at i:1753399 original size:10 final size:10
Alignment explanation
Indices: 1753386--1753410 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1753376 ATATATAGAT
1753386 ATATACATAC
1 ATATACATAC
1753396 ATATACATAC
1 ATATACATAC
1753406 ATATA
1 ATATA
1753411 TCAGAAAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (10 bp):
ATATACATAC
Found at i:1753888 original size:39 final size:39
Alignment explanation
Indices: 1753805--1753893 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
1753795 AGGACTTGCA
1753805 GTAAGGACTTACCCTGAACACAAAGCAGAGGAGCCTGCG
1 GTAAGGACTTACCCTGAACACAAAGCAGAGGAGCCTGCG
* * * *
1753844 ATAAGGACTTTCCCTGAGCACAAAGCAGAGGAGCCTGTG
1 GTAAGGACTTACCCTGAACACAAAGCAGAGGAGCCTGCG
*
1753883 GTAAGGTCTTA
1 GTAAGGACTTA
1753894 TATGTCATAG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.18
Consensus pattern (39 bp):
GTAAGGACTTACCCTGAACACAAAGCAGAGGAGCCTGCG
Found at i:1756688 original size:44 final size:47
Alignment explanation
Indices: 1756625--1756716 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 47
1756615 ATTTTCTTTT
1756625 CATATTTAAAAAAACGTTAAAAT-ATATAACATAT-ATA-AAAATCA
1 CATATTTAAAAAAACGTTAAAATCATATAACATATAATATAAAATCA
*
1756669 CATATTTAAAACAACGTTAAAATCCATATAACATATAATATAAAATCA
1 CATATTTAAAAAAACGTTAAAAT-CATATAACATATAATATAAAATCA
1756717 GTAATAAGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 22 0.51
46 11 0.26
47 3 0.07
48 7 0.16
ACGTcount: A:0.57, C:0.12, G:0.02, T:0.29
Consensus pattern (47 bp):
CATATTTAAAAAAACGTTAAAATCATATAACATATAATATAAAATCA
Found at i:1756749 original size:2 final size:2
Alignment explanation
Indices: 1756742--1756772 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1756732 CATACAATAA
1756742 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1756773 AATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1756779 original size:2 final size:2
Alignment explanation
Indices: 1756774--1756815 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
1756764 ACACACACAA
*
1756774 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1756816 CATAAAACCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1757028 original size:39 final size:39
Alignment explanation
Indices: 1756938--1757037 Score: 121
Period size: 39 Copynumber: 2.6 Consensus size: 39
1756928 TTTGTACATA
* * *
1756938 AGGA-TCTGCGGTAAAGACTTACCATTAGCACAAAGCAT
1 AGGAGTCTGCGGTAAGGACTTACCATGAGCACAAAGCAG
* * * *
1756976 ATGAGCCTACGGTAAGGACTTACCATGAGCACAAAGTAG
1 AGGAGTCTGCGGTAAGGACTTACCATGAGCACAAAGCAG
*
1757015 AGGAGTCTGCGGTAAGGTCTTAC
1 AGGAGTCTGCGGTAAGGACTTAC
1757038 AAGTCATAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
38 3 0.06
39 47 0.94
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (39 bp):
AGGAGTCTGCGGTAAGGACTTACCATGAGCACAAAGCAG
Found at i:1760835 original size:20 final size:20
Alignment explanation
Indices: 1760810--1760860 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1760800 TCAAAGGCTA
1760810 AACTATATACTTGATTACCT
1 AACTATATACTTGATTACCT
1760830 AACTATATACTTGATTACCT
1 AACTATATACTTGATTACCT
*
1760850 ACCTAT-TACTT
1 AACTATATACTT
1760861 AGTTTTTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (20 bp):
AACTATATACTTGATTACCT
Found at i:1761758 original size:21 final size:21
Alignment explanation
Indices: 1761716--1761758 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
1761706 ACCTACCCTT
**
1761716 AACTTAAAACACTAAATTATA
1 AACTTAAAACACTAAACCATA
* *
1761737 AACTTTAAACCCTAAACCATA
1 AACTTAAAACACTAAACCATA
1761758 A
1 A
1761759 CTCTATTACC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (21 bp):
AACTTAAAACACTAAACCATA
Found at i:1763340 original size:34 final size:35
Alignment explanation
Indices: 1763279--1763350 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 35
1763269 AAAACAGTCC
* * *
1763279 TCAATTTTATTCTAAACCCCAATTTCC-AAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
**
1763313 TCAATTTCATTCTAAACCTTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
1763348 TCA
1 TCA
1763351 TTAAATTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
34 23 0.72
35 9 0.28
ACGTcount: A:0.39, C:0.22, G:0.01, T:0.38
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:1763968 original size:127 final size:123
Alignment explanation
Indices: 1763736--1763989 Score: 364
Period size: 127 Copynumber: 2.0 Consensus size: 123
1763726 TTCAGTCTTT
** * **
1763736 ATTATTTATATAATCAATTTGGTGTTAAATTAATAGAATTTAATAAATTAATCATTTAATTAGGA
1 ATTATTTATATAATCAATTTGGTCCTAAATTAATAAAATTTAATAAATTAATCATTTAACCAGGA
* *
1763801 TCTGACATGTGTTAGCACATAATCATGACACGTGTCATTGGTGACACATGTCACCACCTA
66 TCTGACATGTGTTAACACATAATCATGACACATGTCATTGGTG--ACATGTCACCACCTA
*
1763861 ATTATTATATATTATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAG
1 ATTATT-TATATAATCAATTTGGTCCTAAATT-AATAAAATTTAATAAATTAATCATTTAACCAG
* * * *
1763926 GATCTGACATGTGTTAACACATGATCATGATATATGTTATTGGTGACATGTCACCACCTA
64 GATCTGACATGTGTTAACACATAATCATGACACATGTCATTGGTGACATGTCACCACCTA
1763986 ATTA
1 ATTA
1763990 GAAGAAAATT
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
125 25 0.22
126 22 0.19
127 68 0.59
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.37
Consensus pattern (123 bp):
ATTATTTATATAATCAATTTGGTCCTAAATTAATAAAATTTAATAAATTAATCATTTAACCAGGA
TCTGACATGTGTTAACACATAATCATGACACATGTCATTGGTGACATGTCACCACCTA
Found at i:1764469 original size:16 final size:18
Alignment explanation
Indices: 1764448--1764481 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1764438 ATTTCTTATT
1764448 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
1764464 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
1764482 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:1772457 original size:60 final size:60
Alignment explanation
Indices: 1772379--1772587 Score: 224
Period size: 60 Copynumber: 3.5 Consensus size: 60
1772369 TGGTTTCGGT
*
1772379 TCTAAATCCTTCTTTGGCTTTAATTCCTCCTCATA-TAACATATCCTTACTTAGCAT-CAGC
1 TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGT-ACATATCCTTACTTAGCATCCA-C
* * * * * * *
1772439 TCTGCATCCTTATTTGGCTTTAATTTCTCTTCATAGTACATATCCTTCCTTGGCTTCCAC
1 TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCCTTACTTAGCATCCAC
* * * * *
1772499 TCTACATCCTTCTTTGGCTTTAGTTCCTCCTCATAGTACATATCATTCCTTCGCTTCCAC
1 TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCCTTACTTAGCATCCAC
* ** * *
1772559 TCTAAATCCTTAGTCGGCTTTAAATCCTC
1 TCTACATCCTTCTTTGGCTTTAATTCCTC
1772588 AATATTTATC
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
60 123 0.98
61 3 0.02
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.42
Consensus pattern (60 bp):
TCTACATCCTTCTTTGGCTTTAATTCCTCCTCATAGTACATATCCTTACTTAGCATCCAC
Found at i:1778461 original size:18 final size:17
Alignment explanation
Indices: 1778407--1778455 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1778397 TTGGACCCTT
* *
1778407 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1778425 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1778443 AGTGCATTCGATG
1 AGTGCA-TCGATG
1778456 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1779696 original size:21 final size:21
Alignment explanation
Indices: 1779672--1779715 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1779662 GAGCTGGAGG
*
1779672 AGGAGGAGCACGAGAGGAGCT
1 AGGAGGAGCACGAGAGGAACT
* * *
1779693 AGGAGTAGCTCGTGAGGAACT
1 AGGAGGAGCACGAGAGGAACT
1779714 AG
1 AG
1779716 CTCCCAGAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.43, T:0.11
Consensus pattern (21 bp):
AGGAGGAGCACGAGAGGAACT
Found at i:1782258 original size:13 final size:13
Alignment explanation
Indices: 1782240--1782294 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
1782230 TCATAACCCA
*
1782240 ACCCGACCCGTTT
1 ACCCGACCCGTTG
1782253 ACCCGACCCGTTG
1 ACCCGACCCGTTG
* *
1782266 ACCCAACCCATTG
1 ACCCGACCCGTTG
1782279 ACCCGACCCGTTG
1 ACCCGACCCGTTG
1782292 ACC
1 ACC
1782295 GTTGACCCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.16
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:1782307 original size:15 final size:15
Alignment explanation
Indices: 1782271--1782314 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
1782261 CGTTGACCCA
*
1782271 ACCCATTGACC--CG
1 ACCCATTGACCGTTG
*
1782284 ACCCGTTGACCGTTG
1 ACCCATTGACCGTTG
1782299 ACCCATTGACCGTTG
1 ACCCATTGACCGTTG
1782314 A
1 A
1782315 TCGGCGTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 10 0.38
15 16 0.62
ACGTcount: A:0.20, C:0.36, G:0.20, T:0.23
Consensus pattern (15 bp):
ACCCATTGACCGTTG
Found at i:1784856 original size:24 final size:24
Alignment explanation
Indices: 1784762--1784861 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 24
1784752 ATATTTTATC
* *
1784762 TGATTTCTGATTTGAATTCA-GTTT
1 TGATATCTGATCTGAATT-ATGTTT
* * * *
1784786 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTATGTTT
* * * * *
1784810 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTATGTTT
1784834 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTATGTTT
1784858 TGAT
1 TGAT
1784862 TTTTGATATC
Statistics
Matches: 56, Mismatches: 17, Indels: 6
0.71 0.22 0.08
Matches are distributed among these distances:
23 1 0.02
24 54 0.96
25 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (24 bp):
TGATATCTGATCTGAATTATGTTT
Found at i:1785040 original size:2 final size:2
Alignment explanation
Indices: 1785033--1785061 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1785023 GAGATGGGGG
1785033 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
1785062 TTAAAAAGAT
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:1786729 original size:13 final size:13
Alignment explanation
Indices: 1786711--1786776 Score: 60
Period size: 13 Copynumber: 4.7 Consensus size: 13
1786701 ACCCGACCCG
1786711 ACCCGACCCATTT
1 ACCCGACCCATTT
**
1786724 ACCCGACCTGTTT
1 ACCCGACCCATTT
1786737 ACCCGACCCGACCTGTT
1 ACCCGACCC-A--T-TT
*
1786754 GACCCGACCCATTG
1 -ACCCGACCCATTT
1786768 ACCCGACCC
1 ACCCGACCC
1786777 GTTGACTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
13 28 0.65
14 1 0.02
15 1 0.02
16 1 0.02
17 3 0.07
18 9 0.21
ACGTcount: A:0.20, C:0.47, G:0.15, T:0.18
Consensus pattern (13 bp):
ACCCGACCCATTT
Found at i:1786744 original size:31 final size:31
Alignment explanation
Indices: 1786705--1786777 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
1786695 GTCATAACCC
* **
1786705 GACCCGACCCGACCCATTTACCCGACCTGTT
1 GACCCGACCCGACCCATTGACCCGACCCATT
* **
1786736 TACCCGACCCGACCTGTTGACCCGACCCATT
1 GACCCGACCCGACCCATTGACCCGACCCATT
1786767 GACCCGACCCG
1 GACCCGACCCG
1786778 TTGACTGTTG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.19, C:0.47, G:0.18, T:0.16
Consensus pattern (31 bp):
GACCCGACCCGACCCATTGACCCGACCCATT
Found at i:1786745 original size:18 final size:18
Alignment explanation
Indices: 1786724--1786763 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1786714 CGACCCATTT
*
1786724 ACCCGACCTGTTTACCCG
1 ACCCGACCTGTTGACCCG
1786742 ACCCGACCTGTTGACCCG
1 ACCCGACCTGTTGACCCG
1786760 ACCC
1 ACCC
1786764 ATTGACCCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.47, G:0.17, T:0.17
Consensus pattern (18 bp):
ACCCGACCTGTTGACCCG
Found at i:1786781 original size:13 final size:13
Alignment explanation
Indices: 1786741--1786782 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
1786731 CTGTTTACCC
*
1786741 GACCCGACCTGTT
1 GACCCGACCCGTT
*
1786754 GACCCGACCCATT
1 GACCCGACCCGTT
1786767 GACCCGACCCGTT
1 GACCCGACCCGTT
1786780 GAC
1 GAC
1786783 TGTTGACCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.19, C:0.43, G:0.21, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1786796 original size:15 final size:15
Alignment explanation
Indices: 1786759--1786805 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
1786749 CTGTTGACCC
*
1786759 GACCCATTGACC--C
1 GACCCATTGACCGTT
* *
1786772 GACCCGTTGACTGTT
1 GACCCATTGACCGTT
1786787 GACCCATTGACCGTT
1 GACCCATTGACCGTT
1786802 GACC
1 GACC
1786806 GGCGTTGACC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 10 0.37
15 17 0.63
ACGTcount: A:0.19, C:0.36, G:0.21, T:0.23
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:1787691 original size:24 final size:24
Alignment explanation
Indices: 1787645--1787710 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
1787635 GACATCTGAT
* *
1787645 CTGAAATCTGTTCTGATTCCTAAC
1 CTGAATTCTGTTATGATTCCTAAC
* *
1787669 CTGGATTCTGTTATGATAT-CTAAT
1 CTGAATTCTGTTATGAT-TCCTAAC
* *
1787693 CTGAATTATGTTTTGATT
1 CTGAATTCTGTTATGATT
1787711 TTTGATATCT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 1 0.03
24 32 0.94
25 1 0.03
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (24 bp):
CTGAATTCTGTTATGATTCCTAAC
Found at i:1787882 original size:2 final size:2
Alignment explanation
Indices: 1787875--1787910 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1787865 GGGATGGGGG
1787875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1787911 CCTGACCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1787940 original size:13 final size:13
Alignment explanation
Indices: 1787919--1787962 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
1787909 TACCTGACCC
1787919 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
1787932 GACCAGACCCATT
1 GACCCGACCCGTT
1787945 GACCCGACCCGTT
1 GACCCGACCCGTT
1787958 GACCC
1 GACCC
1787963 ATTGACCGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.20, C:0.45, G:0.20, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:1790555 original size:24 final size:24
Alignment explanation
Indices: 1790461--1790560 Score: 94
Period size: 24 Copynumber: 4.2 Consensus size: 24
1790451 ATATTTTATC
* *
1790461 TGATTTCTGATTTGAATTCTGTTT
1 TGATATCTGATCTGAATTCTGTTT
* * *
1790485 TGACATCTGATCTGAAATCTGTTC
1 TGATATCTGATCTGAATTCTGTTT
* * * *
1790509 TGAT-TCCTAACCTGGATTCTGTTA
1 TGATAT-CTGATCTGAATTCTGTTT
*
1790533 TGATATCTGATCTGAATTATGTTT
1 TGATATCTGATCTGAATTCTGTTT
1790557 TGAT
1 TGAT
1790561 TTTTGATATC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 56 0.97
25 1 0.02
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (24 bp):
TGATATCTGATCTGAATTCTGTTT
Found at i:1790733 original size:2 final size:2
Alignment explanation
Indices: 1790726--1790751 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1790716 GGATAGGGGC
1790726 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1790752 GTTTTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1792422 original size:13 final size:13
Alignment explanation
Indices: 1792406--1792463 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
1792396 CCGTTTACCC
*
1792406 GACCTGACCCGTT
1 GACCTGACCCATT
* *
1792419 GACCAGACCTATT
1 GACCTGACCCATT
* *
1792432 GACCCGACCCGTT
1 GACCTGACCCATT
1792445 GACCGTTGACCCATT
1 GACC--TGACCCATT
1792460 GACC
1 GACC
1792464 GTTGACCGGC
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
13 24 0.69
15 11 0.31
ACGTcount: A:0.21, C:0.38, G:0.21, T:0.21
Consensus pattern (13 bp):
GACCTGACCCATT
Found at i:1792427 original size:18 final size:18
Alignment explanation
Indices: 1792383--1792428 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1792373 GTCATAACCC
*
1792383 GACCCGACCCGACCCGTT
1 GACCCGACCTGACCCGTT
*
1792401 TACCCGACCTGACCCGTT
1 GACCCGACCTGACCCGTT
*
1792419 GACCAGACCT
1 GACCCGACCT
1792429 ATTGACCCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.46, G:0.20, T:0.15
Consensus pattern (18 bp):
GACCCGACCTGACCCGTT
Found at i:1792461 original size:15 final size:15
Alignment explanation
Indices: 1792437--1792470 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1792427 CTATTGACCC
*
1792437 GACCCGTTGACCGTT
1 GACCCATTGACCGTT
1792452 GACCCATTGACCGTT
1 GACCCATTGACCGTT
1792467 GACC
1 GACC
1792471 GGCGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:1795055 original size:24 final size:24
Alignment explanation
Indices: 1794949--1795055 Score: 106
Period size: 24 Copynumber: 4.5 Consensus size: 24
1794939 ATATTTTATC
1794949 TGATTTCTGATCTGAATTCTGTTT
1 TGATTTCTGATCTGAATTCTGTTT
** * *
1794973 TGACATCTGATCTGAAATCTGTTC
1 TGATTTCTGATCTGAATTCTGTTT
* * * * *
1794997 TGATTCCTAACCTGGATTCTGTTA
1 TGATTTCTGATCTGAATTCTGTTT
* *
1795021 TGATATCTGATCTGAATTATGTTT
1 TGATTTCTGATCTGAATTCTGTTT
*
1795045 TGATTTTTGAT
1 TGATTTCTGAT
1795056 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (24 bp):
TGATTTCTGATCTGAATTCTGTTT
Found at i:1795221 original size:2 final size:2
Alignment explanation
Indices: 1795214--1795239 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1795204 GGGATAGGGG
1795214 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1795240 CGTTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1801508 original size:64 final size:65
Alignment explanation
Indices: 1801422--1801564 Score: 184
Period size: 65 Copynumber: 2.2 Consensus size: 65
1801412 TGCACTAAGA
* * *
1801422 GTGCATTGATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGGCT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCCACAGTGCATCGATGCATGG-T
1801485 -G
64 AG
* * * *
1801486 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATGGTAG
1801551 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1801565 GGATTGGTGC
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
64 28 0.41
65 38 0.55
66 3 0.04
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATGGTAG
Found at i:1804289 original size:19 final size:18
Alignment explanation
Indices: 1804259--1804303 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
1804249 AATGACAATA
1804259 AATATCTTTGAT-ATCTGT
1 AATATCTTTGATGAT-TGT
1804277 AATATCGTTTGATGATTGT
1 AATATC-TTTGATGATTGT
1804296 ATATATCT
1 A-ATATCT
1804304 CACTACAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.25
19 11 0.46
20 7 0.29
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (18 bp):
AATATCTTTGATGATTGT
Found at i:1809316 original size:24 final size:25
Alignment explanation
Indices: 1809289--1809412 Score: 82
Period size: 24 Copynumber: 5.2 Consensus size: 25
1809279 TATATCAAAA
1809289 ATCAAAAT-ATAAAT-CAGGTCAAGT
1 ATCAAAATCA-AAATCCAGGTCAAGT
*
1809313 ATC-ATATCAAAATCCAGGTCAAGT
1 ATCAAAATCAAAATCCAGGTCAAGT
* * *
1809337 ATC-AGATCAGAATCCAAGTCAAGT
1 ATCAAAATCAAAATCCAGGTCAAGT
* * * *
1809361 ATC-AGATCAGAATCTATGTC-AGAT
1 ATCAAAATCAAAATCCAGGTCAAG-T
* * *
1809385 ATC-AGATCAGAATCCATGTCAAGT
1 ATCAAAATCAAAATCCAGGTCAAGT
1809409 ATCA
1 ATCA
1809413 GATCAGAATT
Statistics
Matches: 88, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
23 9 0.10
24 77 0.88
25 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.25
Consensus pattern (25 bp):
ATCAAAATCAAAATCCAGGTCAAGT
Found at i:1809413 original size:24 final size:24
Alignment explanation
Indices: 1809306--1809421 Score: 171
Period size: 24 Copynumber: 4.8 Consensus size: 24
1809296 TATAAATCAG
* * *
1809306 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
1809330 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
*
1809354 GTCAAGTATCAGATCAGAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
1809378 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
1809402 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
1809422 TCAAATCGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
23 2 0.02
24 80 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:1809437 original size:48 final size:48
Alignment explanation
Indices: 1809337--1809439 Score: 138
Period size: 48 Copynumber: 2.1 Consensus size: 48
1809327 CAGGTCAAGT
** *
1809337 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTATGTCAGAT
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
*
1809385 ATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAT-TCAAATC-GAAA
1 ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCT-AAATCAG-AA
1809433 ATCAGAT
1 ATCAGAT
1809440 AAAATATTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
47 2 0.04
48 47 0.96
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.24
Consensus pattern (48 bp):
ATCAGATCAGAATCCAAGTCAAGTATCAGATCAGAATCTAAATCAGAA
Found at i:1811928 original size:31 final size:31
Alignment explanation
Indices: 1811891--1811949 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1811881 CAACGGTCAA
1811891 CGGGTCGGGTCGAGTCAACGGGTTGGGTAAT
1 CGGGTCGGGTCGAGTCAACGGGTTGGGTAAT
*
1811922 CGGGTCGGGTCGAGTCAACTGGTTGGGT
1 CGGGTCGGGTCGAGTCAACGGGTTGGGT
1811950 CGGGTCAACG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.14, C:0.17, G:0.46, T:0.24
Consensus pattern (31 bp):
CGGGTCGGGTCGAGTCAACGGGTTGGGTAAT
Found at i:1811970 original size:18 final size:18
Alignment explanation
Indices: 1811885--1811972 Score: 89
Period size: 18 Copynumber: 5.2 Consensus size: 18
1811875 GCCGGTCAAC
1811885 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1811903 AGTCAACGGGT----T-G
1 GGTCAACGGGTCGGGTCG
1811916 GGT-AATCGGGTCGGGTCG
1 GGTCAA-CGGGTCGGGTCG
* * *
1811934 AGTCAACTGGTTGGGTCG
1 GGTCAACGGGTCGGGTCG
1811952 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
1811970 GGT
1 GGT
1811973 TGTGACCGGT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
12 2 0.04
13 8 0.15
14 1 0.02
17 1 0.02
18 41 0.75
19 2 0.04
ACGTcount: A:0.14, C:0.18, G:0.47, T:0.22
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1813863 original size:3 final size:3
Alignment explanation
Indices: 1813855--1813879 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1813845 GAATTATTTT
1813855 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1813880 GGTTAGTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1824255 original size:15 final size:16
Alignment explanation
Indices: 1824229--1824258 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1824219 AATAGTATCG
1824229 TTGTTAATGCAATTGC
1 TTGTTAATGCAATTGC
1824245 TTGTTAA-GCAATTG
1 TTGTTAATGCAATTG
1824259 ATTTTCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (16 bp):
TTGTTAATGCAATTGC
Found at i:1825632 original size:23 final size:22
Alignment explanation
Indices: 1825606--1825673 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
1825596 CACCACAGCT
*
1825606 CGTATAATTGCACCGAAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
* *
1825628 ACGTAGAATTGCACCGGAGTACC
1 -CGTAGAATTGCACCGAAGTGCC
*
1825651 GCGTAGAATTGCACCGTAGTGCC
1 -CGTAGAATTGCACCGAAGTGCC
1825674 GTATAATAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (22 bp):
CGTAGAATTGCACCGAAGTGCC
Found at i:1825861 original size:103 final size:103
Alignment explanation
Indices: 1825690--1825902 Score: 390
Period size: 103 Copynumber: 2.1 Consensus size: 103
1825680 TAATGTCCAT
* * *
1825690 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATTAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1825755 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1825793 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1825858 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1825896 AAGGACC
1 AAGGACC
1825903 GCGTAGACCC
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1830721 original size:23 final size:23
Alignment explanation
Indices: 1830695--1830763 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1830685 CACCACAGCT
*
1830695 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1830718 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1830741 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1830764 TATAATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1830975 original size:100 final size:100
Alignment explanation
Indices: 1830768--1830984 Score: 341
Period size: 100 Copynumber: 2.2 Consensus size: 100
1830758 GTGCCATATA
** *
1830768 ATATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATAGGGATCAAGTATGGTG
1 ATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCA-ATACATATAAGGATCAAGTATGGTG
1830833 TCTCACCAGACTTCACACATGTTCCAAAGAATACAT
65 TCTCACCAGACTTCACACATGTTCCAAAGAATACAT
1830869 ATATGTCCCGAAGGACCACATATCATTCCTTAAGAATC-ATACATATGCCAAGGATC-AGTAT-G
1 ATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCAATACATAT---AAGGATCAAGTATGG
*
1830931 TGTCTCACTAGACTTCACACATGTTCCAAAGAATACAT
63 TGTCTCACCAGACTTCACACATGTTCCAAAGAATACAT
1830969 ATATGTCCCGAAGGAC
1 ATATGTCCCGAAGGAC
1830985 GCGTAGACCT
Statistics
Matches: 109, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
99 8 0.07
100 54 0.50
101 41 0.38
102 6 0.06
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (100 bp):
ATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCAATACATATAAGGATCAAGTATGGTGT
CTCACCAGACTTCACACATGTTCCAAAGAATACAT
Found at i:1835658 original size:23 final size:23
Alignment explanation
Indices: 1835627--1835695 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1835617 TCACACAGCT
*
1835627 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1835650 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1835673 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1835696 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1835875 original size:99 final size:97
Alignment explanation
Indices: 1835718--1835913 Score: 322
Period size: 99 Copynumber: 2.0 Consensus size: 97
1835708 ATAAGGACCA
* * *
1835718 CATATCATTCCTTAAGAATCATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACAC
1 CATATCATTCCTTAAGAATCATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACAA
1835783 ATGTTCCAAAGAATACATATATGTCCGAAGGAC
66 ATGTTCCAAAGAATACATATA-GTCCGAAGGAC
*
1835816 CATATCATTCCTTAAG-ATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCAC
1 CATATCATTCCTTAAGAATC--ATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCAC
1835880 AAATGTTCCAAAGAATACATATAGTCCGAAGGAC
64 AAATGTTCCAAAGAATACATATAGTCCGAAGGAC
1835914 GCGTAGACCC
Statistics
Matches: 92, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
97 3 0.03
98 27 0.29
99 62 0.67
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (97 bp):
CATATCATTCCTTAAGAATCATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACAA
ATGTTCCAAAGAATACATATAGTCCGAAGGAC
Found at i:1837206 original size:21 final size:22
Alignment explanation
Indices: 1837165--1837206 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1837155 ATTTTCCTTA
1837165 GGGGGAATCGATTCCCTCCTGT
1 GGGGGAATCGATTCCCTCCTGT
* *
1837187 GGGGGTATCGGTTCCC-CCTG
1 GGGGGAATCGATTCCCTCCTG
1837207 ACATTCTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.10, C:0.29, G:0.36, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGATTCCCTCCTGT
Found at i:1840804 original size:23 final size:23
Alignment explanation
Indices: 1840778--1840846 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1840768 CACCACAGCT
*
1840778 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1840801 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1840824 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1840847 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1841033 original size:103 final size:103
Alignment explanation
Indices: 1840862--1841074 Score: 399
Period size: 103 Copynumber: 2.1 Consensus size: 103
1840852 TAATGTCCAT
* *
1840862 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1840927 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1840965 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1841030 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1841068 AAGGACC
1 AAGGACC
1841075 GCGTAGACCC
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1845724 original size:23 final size:23
Alignment explanation
Indices: 1845698--1845766 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1845688 CACCACAGCT
*
1845698 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
1845721 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
1845744 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
1845767 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:1845957 original size:96 final size:98
Alignment explanation
Indices: 1845793--1845986 Score: 347
Period size: 96 Copynumber: 2.0 Consensus size: 98
1845783 AGGACCACAT
* *
1845793 ATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTTCACACA
1 ATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACA
1845858 TGTTCCAAAGAATAC-TATA-GTCCCGAAGGAC
66 TGTTCCAAAGAATACATATATGTCCCGAAGGAC
*
1845889 ATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGACTTCACACA
1 ATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACA
1845954 TGTTCCAAAGAATACATATATGTCCCGAAGGAC
66 TGTTCCAAAGAATACATATATGTCCCGAAGGAC
1845987 CGCGTAGACC
Statistics
Matches: 93, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
96 77 0.83
97 4 0.04
98 12 0.13
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (98 bp):
ATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCAGACTTCACACA
TGTTCCAAAGAATACATATATGTCCCGAAGGAC
Found at i:1849490 original size:8 final size:8
Alignment explanation
Indices: 1849456--1849493 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1849446 GGAAGAATAT
1849456 GAAGAAAA
1 GAAGAAAA
*
1849464 GAAGGACAA
1 GAA-GAAAA
1849473 GAAG-AAA
1 GAAGAAAA
1849480 GAAGAAAA
1 GAAGAAAA
1849488 GAAGAA
1 GAAGAA
1849494 GGAGGTAGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (8 bp):
GAAGAAAA
Found at i:1851464 original size:20 final size:20
Alignment explanation
Indices: 1851428--1851466 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1851418 AATTGAATTT
*
1851428 ATTCAAAGTTTTCAAAAATA
1 ATTCAAAGTCTTCAAAAATA
1851448 ATTCAAAGTCCTT-AAAAAT
1 ATTCAAAGT-CTTCAAAAAT
1851467 GGATTTGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (20 bp):
ATTCAAAGTCTTCAAAAATA
Found at i:1854241 original size:16 final size:16
Alignment explanation
Indices: 1854213--1854253 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
1854203 AACGCAAATC
*
1854213 AATT-TTTTATCTTTTA
1 AATTATTTTATC-TTAA
1854229 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1854244 AATTATTTTA
1 AATTATTTTA
1854254 AAAGGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 12 0.55
16 6 0.27
17 4 0.18
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1854947 original size:24 final size:22
Alignment explanation
Indices: 1854919--1854964 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1854909 ATTCGAGTAC
1854919 CCTATTAGTAGTACCAAATTTCTG
1 CCTATT-GTA-TACCAAATTTCTG
* *
1854943 CCTATTTTATACTAAATTTCTG
1 CCTATTGTATACCAAATTTCTG
1854965 TCTGTAGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 2 0.10
24 6 0.30
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (22 bp):
CCTATTGTATACCAAATTTCTG
Found at i:1859328 original size:21 final size:21
Alignment explanation
Indices: 1859304--1859363 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
1859294 GTCGAGGGAT
*
1859304 TATCAGTGGTCCTTCGGGACA
1 TATCAGTGGTCATTCGGGACA
1859325 TATCAGTGGTCATTCGGGAC-
1 TATCAGTGGTCATTCGGGACA
*
1859345 -AT-AGTGGTAATTCGGGACA
1 TATCAGTGGTCATTCGGGACA
1859364 AATATTCAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.42
19 2 0.06
21 19 0.53
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (21 bp):
TATCAGTGGTCATTCGGGACA
Found at i:1864520 original size:41 final size:42
Alignment explanation
Indices: 1864439--1864525 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 42
1864429 GGGCTATCAA
* *
1864439 TAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTG
1 TAAGTCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATCTG
*
1864481 TAAGTCTTTCGAGCAAGATG-ATAACTCCTTCGGGTCATCTG
1 TAAGTCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATCTG
1864522 TAAG
1 TAAG
1864526 ACCTTCGGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 23 0.55
42 19 0.45
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (42 bp):
TAAGTCTTTCGAGCAAGATGCATAAATCCTTCGGGTCATCTG
Found at i:1865053 original size:251 final size:250
Alignment explanation
Indices: 1864299--1865330 Score: 1375
Period size: 251 Copynumber: 4.1 Consensus size: 250
1864289 TAAGTTGTTT
* * ** * *
1864299 TGAAAACGAGAAAGCGATTACCATTGCTTCTTATTTAATCTTTT-ATGAAAATGAAATTTTTGAA
1 TGAAAATGAGAAAGTGATTACCAAAGTTTCTCATTTAATCTTTTCA-GAAAATGAAATTTTTGAA
* *
1864363 AAGTAAGAAAGCGATAACCAAAGTTTCTTACCCCAGTAAACTATTTCCAAAATTTGTAAGTCCTT
65 AAGTAAGAAAGCGATTACCAAAGTTTCTTA-CCCAGTAAATTATTTCCAAAATTTGTAAGTCCTT
* * *
1864428 CGGGCTATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
129 CGGGCCATCAATAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGA
* * * *
1864493 GCAAGATGATAACTCCTTCGGGTCATCTGTAAGACCTTCGGGTAGGATGTTTTTACA
194 GCAAGATGATAAGTCATTCGGGTCATCCGTAAGACCTTCGGGTAGGATGTTTTCACA
* * *
1864550 TGAAAATGAGAAAGTAATTACCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAATTCTTGAAA
1 TGAAAATGAGAAAGTGATTACCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAA
* *
1864615 AGTAAGAAAGCGATTTCCAAAGTTTCTTA-CCAGTAAATTGTTTCCAAAATTTGTAAGTCCTTCG
66 AGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
* * * * *
1864679 GGCCATCAATAAGTTTTTCAAGCATGATGCTTAAATCATTTGGGTCATCTATAAGTCTTTCGAGC
131 GGCCATCAATAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGC
* ** * * *
1864744 AAGATGATAAATCATTCAAGCCATCCATAAGACCTCCGGGTAGGATGTTTTCACA
196 AAGATGATAAGTCATTCGGGTCATCCGTAAGACCTTCGGGTAGGATGTTTTCACA
* * * *
1864799 TGAAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTCCAGAAATTGAAATTTTTGAAA
1 TGAAAATGAGAAAGTGATTACCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAA
* * *
1864864 AGTAATAAAGCGATTACCAAAGTTTCTTACCCAGTAAATTATTTTCTAAAATTTGCAAGTCCTTC
66 AGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAATTA-TTTCCAAAATTTGTAAGTCCTTC
* * * ** * *
1864929 GAGCCATCAGTAAATCTTTTGAGCATGATGATTAAATCCTTCGGGTCATATGTAAGTCTTTTGAG
130 GGGCCATCAATAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG
* * * * *
1864994 CAAGATGATAAGTCATTTGGGTCATCCGTAAGACATTTGGGCAGAATGTTTTCACA
195 CAAGATGATAAGTCATTCGGGTCATCCGTAAGACCTTCGGGTAGGATGTTTTCACA
* *
1865050 TGAAAACGAGAAAGTGATTACCAAAGTTTCTCATTTAATCTTTTAAGAAAATGAAATTTTTGAAA
1 TGAAAATGAGAAAGTGATTACCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAA
* * * * * * * *
1865115 TGTAAGAAAGTGATTACCAAAGTTTCTTAACTAGTAAATTATATCCAAAATTTGTAAGGCATTCT
66 AGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
* * * *
1865180 GGCCATGAGTAAGTCTTTCAAGCATGATGATTAAATCCTTCAGGTCATTTGTAAGTCTTTCGAGC
131 GGCCATCAATAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGC
* * * * * ***
1865245 AATATAATAAGTCTTTCGGGTTATCCGTAACACCTTCAAATAGGATGTTTTCACA
196 AAGATGATAAGTCATTCGGGTCATCCGTAAGACCTTCGGGTAGGATGTTTTCACA
1865300 TGAAAATGAGAAAGTGATTACCAAAGTTTCT
1 TGAAAATGAGAAAGTGATTACCAAAGTTTCT
1865331 TACCAGTAAA
Statistics
Matches: 678, Mismatches: 100, Indels: 7
0.86 0.13 0.01
Matches are distributed among these distances:
249 225 0.33
250 157 0.23
251 295 0.44
252 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (250 bp):
TGAAAATGAGAAAGTGATTACCAAAGTTTCTCATTTAATCTTTTCAGAAAATGAAATTTTTGAAA
AGTAAGAAAGCGATTACCAAAGTTTCTTACCCAGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
GGCCATCAATAAGTCTTTCAAGCATGATGATTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGC
AAGATGATAAGTCATTCGGGTCATCCGTAAGACCTTCGGGTAGGATGTTTTCACA
Found at i:1865872 original size:62 final size:62
Alignment explanation
Indices: 1865735--1866111 Score: 404
Period size: 61 Copynumber: 6.2 Consensus size: 62
1865725 TTTGTTATTA
* *
1865735 TTGACTTCCTTGTGAAGAGAAATCAACCTTTGTTATTTCTGACT--CCAGTAGAGTCAATCC
1 TTGACTTCCTTGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTCAATCC
* * * **
1865795 TTAACTTCCTTGTGAAAAGAAGTCAACCTTTATTATTCCTGACTCCCCAGTAGAGTCAATGA
1 TTGACTTCCTTGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTCAATCC
* * * * * *
1865857 TTGGCTTTCTTGTGAAGAGAAGTCAACCTTTGCTATTTTTGACTCCCCAGTAGAGTCAATCT
1 TTGACTTCCTTGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTCAATCC
* ** * * * * * *
1865919 TTGACTTTCTAATGAAGAGAAGTCAACTTTTGTTATTT-TGACTCCTCGGTAGAGTTATTCC
1 TTGACTTCCTTGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTCAATCC
* * * * * * * *
1865980 TTAACTTTCTTATGAAAAGAAGTTAACCTTTATTATTCCTGAC-GCCCAATAGAGTCAATCC
1 TTGACTTCCTTGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTCAATCC
* * * **
1866041 TTGACTTCCTCGTGAAAAGAAGTCAACTTTTGTTATTTCTGACTCCTC-GTAGAGTCAATTT
1 TTGACTTCCTTGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTCAATCC
1866102 TTGACTTCCT
1 TTGACTTCCT
1866112 CATGAAGATG
Statistics
Matches: 260, Mismatches: 53, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
60 39 0.15
61 116 0.45
62 105 0.40
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.37
Consensus pattern (62 bp):
TTGACTTCCTTGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCCCAGTAGAGTCAATCC
Found at i:1866189 original size:90 final size:90
Alignment explanation
Indices: 1866031--1866207 Score: 241
Period size: 90 Copynumber: 2.0 Consensus size: 90
1866021 ACGCCCAATA
* ** *
1866031 GAGTCAATCCTTGACTTCCTCGTGAAAAGAAGTCAACTTTTGTTATTTCTGACTCCTCGTAGAGT
1 GAGTCAATCCTTGACTTCCTCGTGAAAAGAAGTCAACTTTTATTATCCCTAACTCCTCGTAGAGT
1866096 CAATTTTTGACTTCCTCATGAAGAT
66 CAATTTTTGACTTCCTCATGAAGAT
* * *
1866121 GAGTCAATCCTTGACTTCCTCGTGAATAGAAGTTAA-TCTTTATTATCCCTAATTCC-CAGTAGA
1 GAGTCAATCCTTGACTTCCTCGTGAAAAGAAGTCAACT-TTTATTATCCCTAACTCCTC-GTAGA
* *
1866184 TTCAATTTTTGACTTCCTCGTGAA
64 GTCAATTTTTGACTTCCTCATGAA
1866208 AAGAAATCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
89 2 0.03
90 74 0.97
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (90 bp):
GAGTCAATCCTTGACTTCCTCGTGAAAAGAAGTCAACTTTTATTATCCCTAACTCCTCGTAGAGT
CAATTTTTGACTTCCTCATGAAGAT
Found at i:1866473 original size:89 final size:89
Alignment explanation
Indices: 1866218--1866476 Score: 258
Period size: 89 Copynumber: 2.9 Consensus size: 89
1866208 AAGAAATCTA
* * * ** * *
1866218 TATTTCAGATTTGATCTTCACGAAATAGTAGTAAAGCAAATTAATCTCAAGT-TTGATCTCCCCG
1 TATTTCAGATTTGGTCTTCTCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTT-ATCTCCCCG
1866282 GAAG-AGTA-TGGAGCAGATTCTTAT
65 GAAGAAG-AGTGGAGCAGATTCTTAT
* * * * *
1866306 TATGTCAAATTTGGTCTTCTTGAAAAAGTAGCGAATCAAATCAATATCGAGTC-TATTCTCCCCG
1 TATTTCAGATTTGGTCTTCTCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTTA-TCTCCCCG
* * * * *
1866370 GAACAATAGAGGAGCATAGTT-TTCT
65 GAAGAAGAGTGGAGCAGA-TTCTTAT
* * * *
1866395 TATTTCAGATTTGGTCTTCTCGAAAGAGTAACGAAGCAAATCAATCTCGAGTCTTATCTCCCTGA
1 TATTTCAGATTTGGTCTTCTCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTTATCTCCCCGG
1866460 AAGAAGAGTGGAGCAGA
66 AAGAAGAGTGGAGCAGA
1866477 CCCGTCTTCA
Statistics
Matches: 135, Mismatches: 30, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
87 1 0.01
88 53 0.39
89 77 0.57
90 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (89 bp):
TATTTCAGATTTGGTCTTCTCGAAAAAGTAGCGAAGCAAATCAATCTCGAGTCTTATCTCCCCGG
AAGAAGAGTGGAGCAGATTCTTAT
Found at i:1866594 original size:55 final size:54
Alignment explanation
Indices: 1866439--1866599 Score: 232
Period size: 55 Copynumber: 2.9 Consensus size: 54
1866429 AGCAAATCAA
* * *
1866439 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGCAGACCCGTCTTCAAAAGATT
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGTAGA-CCGTTTTCCAAAGATT
* *
1866494 TCTCGAGTCTTATCTCCTTGAAAGAAGAGTGGAGTATACCAGTTTTCCAAAGATT
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGTAGACC-GTTTTCCAAAGATT
* *
1866549 TCTCAAGTCTTATCTCCCTGAAAGAAGACTGGAGTAGACTCGTTTTCCAAA
1 TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGTAGAC-CGTTTTCCAAA
1866600 ATTGATCTGA
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
54 2 0.02
55 92 0.97
56 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (54 bp):
TCTCGAGTCTTATCTCCCTGAAAGAAGAGTGGAGTAGACCGTTTTCCAAAGATT
Found at i:1866692 original size:82 final size:81
Alignment explanation
Indices: 1866551--1866735 Score: 237
Period size: 82 Copynumber: 2.3 Consensus size: 81
1866541 CAAAGATTTC
* * * * * *
1866551 TCAAGTCTTATCTCCCTGAAAGAAGACTGGAGTAGACTCGTTTTCCAAAATTGATCTGACTACCA
1 TCAAGTCTGATCTCCCTGAAAGAAGACTGGAGCAAACTCGTCTTCAAAAATTGACCTGACTACCA
*
1866616 GAAAAAGAGGAACATA
66 GAAAAAGAGGAACAAA
*
1866632 TCAAGTCTGATCTCCACTGAAAGAAGAGTGGAGCAAACAT-GTCTTCAAAAATTGACCTGACTAC
1 TCAAGTCTGATCTCC-CTGAAAGAAGACTGGAGCAAAC-TCGTCTTCAAAAATTGACCTGACTAC
*
1866696 TAGAAAAAGAGGAACAAA
64 CAGAAAAAGAGGAACAAA
* *
1866714 TAAAGTCCGATCTACCCTGAAA
1 TCAAGTCTGATCT-CCCTGAAA
1866736 TAGTAGTGGA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
81 14 0.16
82 73 0.81
83 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.22
Consensus pattern (81 bp):
TCAAGTCTGATCTCCCTGAAAGAAGACTGGAGCAAACTCGTCTTCAAAAATTGACCTGACTACCA
GAAAAAGAGGAACAAA
Found at i:1868491 original size:17 final size:16
Alignment explanation
Indices: 1868462--1868503 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
1868452 CAAACACATC
1868462 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
1868479 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
1868494 AATTATTTTA
1 AATTATTTTA
1868504 AAAGGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:1871918 original size:89 final size:89
Alignment explanation
Indices: 1871769--1871949 Score: 321
Period size: 89 Copynumber: 2.0 Consensus size: 89
1871759 TTGACTTTGT
1871769 TTGTATACGTGACCATTGATGGGTCTAGTCATGATAGATATGGTAAAAAAAACACTTTGATCCTA
1 TTGTATACGTGACCATTGATGGGTCTAGTCATGATAGATATGGTAAAAAAAACACTTTGATCC--
1871834 TATGG-ATACTTGATGAACGAGATTG
64 TATGGAATACTTGATGAACGAGATTG
1871859 TTGTATACGTGACCATTGATGGGT-TAGTCATGATAGATATGGTAAAAAAAACACTTTGATCCTA
1 TTGTATACGTGACCATTGATGGGTCTAGTCATGATAGATATGGTAAAAAAAACACTTTGATCCTA
1871923 TGGATATACTTGATGAACGAGATTG
66 TGGA-ATACTTGATGAACGAGATTG
1871948 TT
1 TT
1871950 ATAGAATACC
Statistics
Matches: 89, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
87 5 0.06
89 60 0.67
90 24 0.27
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (89 bp):
TTGTATACGTGACCATTGATGGGTCTAGTCATGATAGATATGGTAAAAAAAACACTTTGATCCTA
TGGAATACTTGATGAACGAGATTG
Found at i:1874437 original size:23 final size:23
Alignment explanation
Indices: 1874407--1874460 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
1874397 CCTGAAAGAA
1874407 CCATTAAATCATAGTCGAGTGTT
1 CCATTAAATCATAGTCGAGTGTT
1874430 CCATTAAATCATAGTCGAGTGTT
1 CCATTAAATCATAGTCGAGTGTT
1874453 CCA-TAAAT
1 CCATTAAAT
1874461 TGGGCTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (23 bp):
CCATTAAATCATAGTCGAGTGTT
Found at i:1876590 original size:29 final size:29
Alignment explanation
Indices: 1876554--1876621 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1876544 CATTTTACAC
* *
1876554 AAATAGCACCCTTTTTAAACTAATTACCA
1 AAATAGCACCCATTTCAAACTAATTACCA
* * *
1876583 AAATAGCACGCATTTCGAATTAATTACCA
1 AAATAGCACCCATTTCAAACTAATTACCA
*
1876612 GAATAGCACC
1 AAATAGCACC
1876622 AAATCCGAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAACTAATTACCA
Found at i:1876630 original size:29 final size:29
Alignment explanation
Indices: 1876598--1876708 Score: 170
Period size: 29 Copynumber: 3.8 Consensus size: 29
1876588 GCACGCATTT
* *
1876598 CGAATTAATTACCAGAATAGCACCAAATC
1 CGAATTATTTACCAGAATAGCACCAAAAC
1876627 CGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
1876656 CGAATTATTTACCAGAATGGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
1876685 C-AATTTATTTACCAAAATAGCACC
1 CGAA-TTATTTACCAGAATAGCACC
1876709 GATCAACGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
28 2 0.03
29 74 0.97
ACGTcount: A:0.43, C:0.24, G:0.10, T:0.23
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:1877012 original size:17 final size:17
Alignment explanation
Indices: 1876987--1877042 Score: 103
Period size: 17 Copynumber: 3.3 Consensus size: 17
1876977 ACGACGATCA
*
1876987 GAATTCGGACGGCGTCG
1 GAATCCGGACGGCGTCG
1877004 GAATCCGGACGGCGTCG
1 GAATCCGGACGGCGTCG
1877021 GAATCCGGACGGCGTCG
1 GAATCCGGACGGCGTCG
1877038 GAATC
1 GAATC
1877043 GAGGTTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.20, C:0.27, G:0.39, T:0.14
Consensus pattern (17 bp):
GAATCCGGACGGCGTCG
Found at i:1883043 original size:29 final size:29
Alignment explanation
Indices: 1883007--1883074 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
1882997 CATTTTACAC
* *
1883007 AAATAGCACCCTTTTTAAACTAATTACCA
1 AAATAGCACCCATTTCAAACTAATTACCA
* *
1883036 AAATAGCACCCATTTCGAATTAATTACCA
1 AAATAGCACCCATTTCAAACTAATTACCA
*
1883065 GAATAGCACC
1 AAATAGCACC
1883075 AAAACCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.26
Consensus pattern (29 bp):
AAATAGCACCCATTTCAAACTAATTACCA
Found at i:1883085 original size:29 final size:29
Alignment explanation
Indices: 1883053--1883132 Score: 133
Period size: 29 Copynumber: 2.8 Consensus size: 29
1883043 ACCCATTTCG
*
1883053 AATTAATTACCAGAATAGCACCAAAACCA
1 AATTATTTACCAGAATAGCACCAAAACCA
*
1883082 AATTATTTACCAGAATAGCACCAAAACCG
1 AATTATTTACCAGAATAGCACCAAAACCA
*
1883111 AATTATTTACCAAAATAGCACC
1 AATTATTTACCAGAATAGCACC
1883133 GATCAACGGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.47, C:0.24, G:0.07, T:0.21
Consensus pattern (29 bp):
AATTATTTACCAGAATAGCACCAAAACCA
Found at i:1883187 original size:18 final size:18
Alignment explanation
Indices: 1883140--1883227 Score: 135
Period size: 18 Copynumber: 5.0 Consensus size: 18
1883130 ACCGATCAAC
1883140 GGTCAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1883157 GGTTAAC-GGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1883174 GGTCAACGGGTCGGGTTG
1 GGTCAACGGGTCGGGTCG
1883192 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
*
1883210 GGTCAACGGGTTGGGTCG
1 GGTCAACGGGTCGGGTCG
1883228 TGACCGGTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
17 22 0.34
18 43 0.66
ACGTcount: A:0.11, C:0.19, G:0.49, T:0.20
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:1884577 original size:21 final size:21
Alignment explanation
Indices: 1884526--1884579 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
1884516 TTTACCATTA
* *
1884526 CGACCGTCGCGGGCGCTATTG
1 CGACCATCGCGGACGCTATTG
*
1884547 CGATCATCGCGGACGCTATTG
1 CGACCATCGCGGACGCTATTG
* *
1884568 CGGCCTTCGCGG
1 CGACCATCGCGG
1884580 GTAACTCAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.11, C:0.33, G:0.35, T:0.20
Consensus pattern (21 bp):
CGACCATCGCGGACGCTATTG
Found at i:1885335 original size:18 final size:18
Alignment explanation
Indices: 1885314--1885348 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1885304 TGTAGCATTT
1885314 CAATGCTATGGAGCATCC
1 CAATGCTATGGAGCATCC
* *
1885332 CAATGTTGTGGAGCATC
1 CAATGCTATGGAGCATC
1885349 TAATGACTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (18 bp):
CAATGCTATGGAGCATCC
Done.