Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 161 of 328
Found at i:47094247 original size:48 final size:46
Alignment explanation
Indices: 47094173--47094300 Score: 150
Period size: 48 Copynumber: 2.7 Consensus size: 46
47094163 TAAAACCTTA
* * *
47094173 AACCCCTAAACCTTAAACCCCTAAAAAATCATAGACACTAGTCTTTAT
1 AACCCCTAAACCTTAAACCCCAAAAAAATCATAAACACTAATC--TAT
* * *
47094221 AACCCCTAAACCCCTAAA-CCCAAAAAAACCCTAAACACTAATCTAT
1 AACCCCTAAA-CCTTAAACCCCAAAAAAATCATAAACACTAATCTAT
*
47094267 AACCCCTAAACCTTAAATCCCAAAAAACATCATA
1 AACCCCTAAACCTTAAACCCCAAAAAA-ATCATA
47094301 TGGATGTTGA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 6 0.09
46 22 0.32
47 4 0.06
48 30 0.44
49 6 0.09
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.20
Consensus pattern (46 bp):
AACCCCTAAACCTTAAACCCCAAAAAAATCATAAACACTAATCTAT
Found at i:47094894 original size:19 final size:20
Alignment explanation
Indices: 47094847--47094894 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
47094837 ATATTAGATT
47094847 TAAA-AAAAACATTGATAAA
1 TAAATAAAAACATTGATAAA
47094866 TAAATAAAAACATTGAT-AA
1 TAAATAAAAACATTGATAAA
47094885 TAAATAAAAA
1 TAAATAAAAA
47094895 TAAAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.69, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
TAAATAAAAACATTGATAAA
Found at i:47094897 original size:6 final size:6
Alignment explanation
Indices: 47094881--47094914 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
47094871 AAAAACATTG
47094881 ATAATAA ATAAAA ATAAAA TATAAAA ATAAAA AT
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA AT
47094915 GTATAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
ATAAAA
Found at i:47094904 original size:13 final size:13
Alignment explanation
Indices: 47094888--47094912 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47094878 TTGATAATAA
47094888 ATAAAAATAAAAT
1 ATAAAAATAAAAT
47094901 ATAAAAATAAAA
1 ATAAAAATAAAA
47094913 ATGTATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:47094924 original size:15 final size:14
Alignment explanation
Indices: 47094888--47094929 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
47094878 TTGATAATAA
47094888 ATAAAAAT-AAAAT
1 ATAAAAATAAAAAT
47094901 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
* *
47094915 GTATAAAATAGAAAT
1 ATA-AAAATAAAAAT
47094930 TAGTGCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 8 0.32
14 7 0.28
15 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
ATAAAAATAAAAAT
Found at i:47095148 original size:6 final size:6
Alignment explanation
Indices: 47095136--47095184 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
47095126 ACCCATACGA
* * * *
47095136 TCCCTT CCCCTT CCCCTA CCCCTT TCCCTT TCCCTT TCCCTT TCCCTT
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT
47095184 T
1 T
47095185 GGTTTTGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.02, C:0.55, G:0.00, T:0.43
Consensus pattern (6 bp):
TCCCTT
Found at i:47097624 original size:13 final size:13
Alignment explanation
Indices: 47097581--47097624 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
47097571 GTTTATCTAC
*
47097581 AATATTTAAATTT
1 AATATTTAAAATT
*
47097594 AAAATTTAAAATT
1 AATATTTAAAATT
*
47097607 TATATTTAAAATT
1 AATATTTAAAATT
47097620 AATAT
1 AATAT
47097625 AATTTAATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATATTTAAAATT
Found at i:47097652 original size:13 final size:13
Alignment explanation
Indices: 47097642--47097666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47097632 TTCTTTTACA
47097642 TAATATATTTAAC
1 TAATATATTTAAC
47097655 TAATATATTTAA
1 TAATATATTTAA
47097667 TTATTTTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
TAATATATTTAAC
Found at i:47100454 original size:20 final size:20
Alignment explanation
Indices: 47100425--47100472 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
47100415 TTATTATTTA
47100425 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTG-TTCTAATAT
* *
47100445 TTTTATTTTTGTTTTAATAT
1 TTTTAGTTTTGTTCTAATAT
47100465 TTTTAGTT
1 TTTTAGTT
47100473 ACAATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.21, C:0.02, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTAGTTTTGTTCTAATAT
Found at i:47100865 original size:43 final size:43
Alignment explanation
Indices: 47100616--47100841 Score: 364
Period size: 43 Copynumber: 5.3 Consensus size: 43
47100606 TTTAAATTTA
* **
47100616 ATGACTTTTAGCGGCGTTT-TTGGGAAAAGAGCCGCTAAAAATC
1 ATGACTTTTAGCGGCGTTTGTT-GGAAAAGCGCCGCTAAAGGTC
* * *
47100659 ATGACCTTTAGCGCCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTC
47100702 ATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTC
1 ATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTC
*
47100745 ATGACTTTTAGCGACGTTTGTTGGAAAAGCGCCGCTAAAGGTC
1 ATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTC
*
47100788 ATGACTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC
1 ATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTC
47100831 ATGACTTTTAG
1 ATGACTTTTAG
47100842 TGGTGTTTTT
Statistics
Matches: 170, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
43 169 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
ATGACTTTTAGCGGCGTTTGTTGGAAAAGCGCCGCTAAAGGTC
Found at i:47101839 original size:92 final size:90
Alignment explanation
Indices: 47101719--47101896 Score: 257
Period size: 92 Copynumber: 2.0 Consensus size: 90
47101709 ATAAATTCCC
* *
47101719 TAAAAATATTTCAAGAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCTTTT
1 TAAAAATATTTCAAAAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCATTT
47101784 AATTGTTTAGCTAAATCCACTTTCT
66 AATTGTTTAGCTAAATCCACTTTCT
* * ** *
47101809 TAAAAATATTTCAAAAAAAAGCTATTTTAAATGAAACAAACATATATTTGGCTTTTTCTTTTCAT
1 TAAAAATATTTC--AAAAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCAT
* *
47101874 TTAATTGTTTAGTTAAATTCACT
64 TTAATTGTTTAGCTAAATCCACT
47101897 AAACAAAATA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
90 12 0.16
92 65 0.84
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.42
Consensus pattern (90 bp):
TAAAAATATTTCAAAAAAGCTATTTTAAACGAAACAAACATACATTTGAATTTTTCTTGTCATTT
AATTGTTTAGCTAAATCCACTTTCT
Found at i:47109076 original size:20 final size:20
Alignment explanation
Indices: 47109051--47109109 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
47109041 TATCAGTATA
47109051 TGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
47109071 TGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
*
47109091 CGGCACAAAGCCATCAATA
1 TGGCACAAAGCCATCAATA
47109110 TCACAGTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.41, C:0.27, G:0.19, T:0.14
Consensus pattern (20 bp):
TGGCACAAAGCCATCAATAG
Found at i:47109437 original size:27 final size:27
Alignment explanation
Indices: 47109397--47109461 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
47109387 GGGTAAAATA
*
47109397 GTCATTTTATCCTATAGGAGTATTTTG
1 GTCATTTTACCCTATAGGAGTATTTTG
* *
47109424 GTCAGTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGAGTATTTTG
47109451 GTCATTTTACC
1 GTCATTTTACC
47109462 TGCCTTAAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.20, C:0.15, G:0.20, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGAGTATTTTG
Found at i:47112964 original size:20 final size:20
Alignment explanation
Indices: 47112935--47113032 Score: 90
Period size: 20 Copynumber: 4.9 Consensus size: 20
47112925 ATCAATATAT
*
47112935 GGCACAAAGCCA-CGAGTAGC
1 GGCACAAAGCCATC-AGTAGA
* *
47112955 GGCTCAAAGCTATCAGTAGA
1 GGCACAAAGCCATCAGTAGA
* *
47112975 GGCACAAAGCCATCAATAGT
1 GGCACAAAGCCATCAGTAGA
* * *
47112995 GGCACAAAGACATCAATAGC
1 GGCACAAAGCCATCAGTAGA
* *
47113015 GACACAAAGCCATAAGTA
1 GGCACAAAGCCATCAGTA
47113033 TCGCAACAAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
20 63 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.12
Consensus pattern (20 bp):
GGCACAAAGCCATCAGTAGA
Found at i:47113003 original size:40 final size:41
Alignment explanation
Indices: 47112925--47113027 Score: 104
Period size: 40 Copynumber: 2.5 Consensus size: 41
47112915 AGCTGCCAGT
* * *
47112925 ATCAATATATGGCACAAAGCCA-CGAGTAGCGGCTCAAAG-C
1 ATCAATAGA-GGCACAAAGCCATCGAATAGCGGCACAAAGAC
* *
47112965 TATCAGTAGAGGCACAAAGCCATC-AATAGTGGCACAAAGAC
1 -ATCAATAGAGGCACAAAGCCATCGAATAGCGGCACAAAGAC
* *
47113006 ATCAATAGCGACACAAAGCCAT
1 ATCAATAGAGGCACAAAGCCAT
47113028 AAGTATCGCA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
40 43 0.83
41 9 0.17
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (41 bp):
ATCAATAGAGGCACAAAGCCATCGAATAGCGGCACAAAGAC
Found at i:47120027 original size:22 final size:22
Alignment explanation
Indices: 47120000--47120066 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
47119990 TCTCCGATTA
47120000 TTAGCACATTAATGCTCT-TCGT
1 TTAGCACATTAATGCTCTCT-GT
**
47120022 TTAGCACATTTGTGCTCTCTGT
1 TTAGCACATTAATGCTCTCTGT
* * * *
47120044 ATAGCATATTAATGATCCCTGT
1 TTAGCACATTAATGCTCTCTGT
47120066 T
1 T
47120067 CATTACTTCA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.15, T:0.42
Consensus pattern (22 bp):
TTAGCACATTAATGCTCTCTGT
Found at i:47123902 original size:43 final size:42
Alignment explanation
Indices: 47123849--47124019 Score: 159
Period size: 43 Copynumber: 4.0 Consensus size: 42
47123839 ATAGGATCCG
*
47123849 ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATT
1 ATATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATT
* * *
47123891 A-ACTTATGATTTACGTGTAAGACCATGTCTGGGAC-TTCGACATC
1 ATA-TT-TGATTT-CGTGTAAGACCACGTCTGGGACATT-GGCATT
* * * *
47123935 ATATTTGATTTTGTGTAAGACC-CTGTCTGGAACAGTGGCATCG
1 ATATTTGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCAT-T
* * **
47123978 ATATTTGATTACATGTAAGACCACGTCTGGGATGTTGGCATT
1 ATATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATT
47124020 GTATGATCTT
Statistics
Matches: 102, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 24 0.24
43 47 0.46
44 29 0.28
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
ATATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATT
Found at i:47123974 original size:86 final size:85
Alignment explanation
Indices: 47123849--47124009 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 85
47123839 ATAGGATCCG
* * * *
47123849 ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT-TA-ACTTATGATTTACGTGTAAG
1 ATATGTGATTTCGTGTAAGACCACGTCTGGAACAGTGGCATCGATA-TT-TGA-TTACATGTAAG
*
47123912 ACCATGTCTGGGACTTCGACATC
63 ACCACGTCTGGGACTTCGACATC
* *
47123935 ATATTTGATTTTGTGTAAGACC-CTGTCTGGAACAGTGGCATCGATATTTGATTACATGTAAGAC
1 ATATGTGATTTCGTGTAAGACCAC-GTCTGGAACAGTGGCATCGATATTTGATTACATGTAAGAC
47123999 CACGTCTGGGA
65 CACGTCTGGGA
47124010 TGTTGGCATT
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 23 0.35
86 38 0.58
87 3 0.05
88 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (85 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGAACAGTGGCATCGATATTTGATTACATGTAAGACC
ACGTCTGGGACTTCGACATC
Found at i:47127368 original size:93 final size:92
Alignment explanation
Indices: 47127251--47127419 Score: 241
Period size: 92 Copynumber: 1.8 Consensus size: 92
47127241 ACATCGAGGC
* ** * * *
47127251 CGATGCCATGTCCCAGACAAGTCTTACACTGGCTCTTGTTTATC-TGTGTCGATGTCATGTCCCA
1 CGATGCCATGTCCCAGACAAGTCTTACACTAG-T-TTGCATATCTTGAGCCAATGTCATGTCCCA
47127315 GACAGGTCTTACACTGACACACCTCAAGT
64 GACAGGTCTTACACTGACACACCTCAAGT
*
47127344 CGATGCCATGTCCCAGACAGGTCTTACACTAGTTTGCATATCTTGAGCCAATGTCATGTCCCAGA
1 CGATGCCATGTCCCAGACAAGTCTTACACTAGTTTGCATATCTTGAGCCAATGTCATGTCCCAGA
*
47127409 TAGGTCTTACA
66 CAGGTCTTACA
47127420 TAGGCTCTCA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
91 7 0.10
92 30 0.45
93 30 0.45
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACAAGTCTTACACTAGTTTGCATATCTTGAGCCAATGTCATGTCCCAGA
CAGGTCTTACACTGACACACCTCAAGT
Found at i:47127454 original size:141 final size:142
Alignment explanation
Indices: 47127198--47127470 Score: 340
Period size: 141 Copynumber: 1.9 Consensus size: 142
47127188 TCTCACATCT
* *
47127198 AAGTCGATGCCATGTCCTAGACAGGTCGTACACTAACTTTCATACATCGAGGCCGATGCCATGTC
1 AAGTCGATGCCATGTCCCAGACAGGTCGTACACTAACTTTCATACATCGAGGCCAATGCCATGTC
** * ** *
47127263 CCAGACAAGTCTTACACTGGCTCTTGTTTATCTGTGTCGATGTCATGTCCCAGACAGGTCTTACA
66 CCAGACAAGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCCCAGACAGGTCTTACA
47127328 CTGACACACCTC
131 CTGACACACCTC
* * * *
47127340 AAGTCGATGCCATGTCCCAGACAGGTCTTACACT-AGTTTGCATATC-TTGA-GCCAATGTCATG
1 AAGTCGATGCCATGTCCCAGACAGGTCGTACACTAACTTT-CATA-CATCGAGGCCAATGCCATG
* * *
47127402 TCCCAGATAGGTCTTACA-TAGGCTCTCATCTATCAATG-CTATTGCCATGTCCCAGACAGGTCT
64 TCCCAGACAAGTCTTACACT-GGCTCTCATCTATCAATGTCGA-TGCCATGTCCCAGACAGGTCT
47127465 TACACT
127 TACACT
47127471 AGCACGCACA
Statistics
Matches: 112, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
140 3 0.03
141 69 0.62
142 39 0.35
143 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (142 bp):
AAGTCGATGCCATGTCCCAGACAGGTCGTACACTAACTTTCATACATCGAGGCCAATGCCATGTC
CCAGACAAGTCTTACACTGGCTCTCATCTATCAATGTCGATGCCATGTCCCAGACAGGTCTTACA
CTGACACACCTC
Found at i:47131051 original size:21 final size:21
Alignment explanation
Indices: 47131021--47131075 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
47131011 AGCAGCGGTG
47131021 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGTTACTGTA
*
47131042 GCGGTAAGATTAGTTACTGTA
1 GCGGTGAGATTAGTTACTGTA
47131063 GCGGTGAGATTAG
1 GCGGTGAGATTAG
47131076 AAACAATGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.35, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGTTACTGTA
Found at i:47134117 original size:49 final size:47
Alignment explanation
Indices: 47134012--47134229 Score: 169
Period size: 49 Copynumber: 4.6 Consensus size: 47
47134002 AGGGTACGAT
* * * * *
47134012 GTCGACGCCATGTTCCAAACATGGCCTTACGCTGGCTCTCACATCTAA
1 GTCGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCGCATCTAA
* *
47134060 GTCGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCGCTTATCTAT
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCGC--ATCTAA
* * *
47134109 GTCGATGCCATGTCCCAAACA-GTACTTACACTGACACAC-C-TC-AA
1 GTCGATGCCATGTCCCAAACAGGT-CTTACACTGGCTCTCGCATCTAA
* * * * * *
47134153 GCCGATGCCATGTCCCAGACAAGTCTTACACTAGCT-T-GTATATCTTGAG
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCG--CATC-T-AA
*
47134202 GCCGATGCCATGTCCCAAACAGGTCTTA
1 GTCGATGCCATGTCCCAAACAGGTCTTA
47134230 TGCTAGCATG
Statistics
Matches: 137, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
44 29 0.21
45 4 0.03
46 2 0.01
47 17 0.12
48 21 0.15
49 64 0.47
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCGCATCTAA
Found at i:47141299 original size:17 final size:17
Alignment explanation
Indices: 47141273--47141308 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
47141263 TCAATCACAC
*
47141273 AAAAATGAAAAAAAAAG
1 AAAAAAGAAAAAAAAAG
*
47141290 AAAAAAGAAAAAAGAAG
1 AAAAAAGAAAAAAAAAG
47141307 AA
1 AA
47141309 TAAGATAGCA
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:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (17 bp):
AAAAAAGAAAAAAAAAG
Found at i:47160623 original size:47 final size:49
Alignment explanation
Indices: 47160509--47160687 Score: 223
Period size: 47 Copynumber: 3.8 Consensus size: 49
47160499 TGTAACCCGC
* * *
47160509 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGG--GC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
47160555 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-C-AGTTCACAT
* *
47160605 -C-TTA-TGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
*
47160649 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
47160688 TTCAACCATC
Statistics
Matches: 115, Mismatches: 7, Indels: 19
0.82 0.05 0.13
Matches are distributed among these distances:
43 3 0.03
44 5 0.04
45 1 0.01
46 36 0.31
47 59 0.51
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (49 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCAGTTCACAT
Found at i:47160676 original size:94 final size:93
Alignment explanation
Indices: 47160516--47160687 Score: 281
Period size: 94 Copynumber: 1.8 Consensus size: 93
47160506 CGCCCATAAG
* * *
47160516 TGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGAACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCA
47160581 ACGAGTTCGGATGCCTAGTTACATCTTA
66 ACGAGTTCGGATGCCTAGTTACATCTTA
* * *
47160609 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTCACATCCATAAGTGAACTCAGACTCAACTC
1 TGAACTCGAACTCAACTCAACGAGCTCGGAC-GTTCACATCCATAAGTGAACTCAGACTCAACTC
47160674 AACGAGTTCGGATG
65 AACGAGTTCGGATG
47160688 TTCAACCATC
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
93 28 0.39
94 44 0.61
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGAACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTTA
Found at i:47161141 original size:30 final size:30
Alignment explanation
Indices: 47161107--47161166 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47161097 CCTTAATACG
47161107 AACTTTGGCAAAATTAC-CATTTTGCCCCTA
1 AACTTTGGCAAAATTACAC-TTTTGCCCCTA
* * *
47161137 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
47161167 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:47169330 original size:39 final size:39
Alignment explanation
Indices: 47169277--47169400 Score: 176
Period size: 39 Copynumber: 3.2 Consensus size: 39
47169267 TATGAGATTG
*
47169277 AAAATATCCAGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * *
47169316 AAAATATCCGGACATAAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
* * **
47169355 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
47169394 AAAATAT
1 AAAATAT
47169401 ACGGGTTAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
Found at i:47169418 original size:78 final size:77
Alignment explanation
Indices: 47169276--47169422 Score: 197
Period size: 78 Copynumber: 1.9 Consensus size: 77
47169266 GTATGAGATT
* *
47169276 GAAAATATCCAGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATAAGATCCGCA
1 GAAAATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
47169341 GGCTATATGCTA
66 GGCTATATGCTA
* * * * **
47169353 GAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGGAAAAATATACGG-GTTAAAGACCCG
1 GAAA-ATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACCCG
47169417 CAGGCT
64 CAGGCT
47169423 TACGATAGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 5 0.08
78 55 0.92
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (77 bp):
GAAAATATCCAGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGACATAAGACCCGCA
GGCTATATGCTA
Found at i:47177209 original size:39 final size:38
Alignment explanation
Indices: 47177164--47177291 Score: 157
Period size: 39 Copynumber: 3.3 Consensus size: 38
47177154 TATGAGATTG
*
47177164 AAAATATCCAGACATGAGGTCCGCAGGCTATATGATGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATG-TGGA
* *
47177203 AAAATATCCGGACATGAGATCCGCAGGCTATATGCGAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGTG-GA
* * * **
47177242 AATATATCTGGACTTGAGGTCCGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATG-TGGA
47177281 AAAATATCCGG
1 AAAATATCCGG
47177292 GTTAAAGACC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 73 0.97
40 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.21
Consensus pattern (38 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGTGGA
Found at i:47181058 original size:28 final size:28
Alignment explanation
Indices: 47181018--47181075 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
47181008 AGCCCCAGTG
47181018 TTAGTGCAGCCCGAATCCGGTAAAGAGT
1 TTAGTGCAGCCCGAATCCGGTAAAGAGT
47181046 TTAGTGCAGCCCGAATCCGGTAAAGAGT
1 TTAGTGCAGCCCGAATCCGGTAAAGAGT
47181074 TT
1 TT
47181076 GTCATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (28 bp):
TTAGTGCAGCCCGAATCCGGTAAAGAGT
Found at i:47185143 original size:39 final size:39
Alignment explanation
Indices: 47185090--47185214 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 39
47185080 TATGAGATTG
* * *
47185090 AAAATATCCAGACATGAGGTTCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
*
47185129 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
* * **
47185168 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTAGA
1 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
47185207 AAAATATC
1 AAAATATC
47185215 TAGGTTAAAG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTAGA
Found at i:47189097 original size:8 final size:8
Alignment explanation
Indices: 47189084--47189113 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
47189074 AAAAAATATT
47189084 TTTTATAA
1 TTTTATAA
47189092 TTTTATAA
1 TTTTATAA
47189100 TTTTTATAA
1 -TTTTATAA
47189109 TTTTA
1 TTTTA
47189114 ATACAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTATAA
Found at i:47189104 original size:9 final size:9
Alignment explanation
Indices: 47189083--47189112 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47189073 AAAAAAATAT
47189083 TTTTTATAA
1 TTTTTATAA
47189092 -TTTTATAA
1 TTTTTATAA
47189100 TTTTTATAA
1 TTTTTATAA
47189109 TTTT
1 TTTT
47189113 AATACAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTATAA
Found at i:47189234 original size:10 final size:10
Alignment explanation
Indices: 47189191--47189266 Score: 50
Period size: 10 Copynumber: 7.6 Consensus size: 10
47189181 GTTTCTTATG
47189191 TTTTATAATT
1 TTTTATAATT
47189201 TTTTA-AATAAT
1 TTTTATAAT--T
* * *
47189212 GTTTACAACT
1 TTTTATAATT
47189222 TTTTATAATT
1 TTTTATAATT
*
47189232 TTTAATAA-T
1 TTTTATAATT
*
47189241 TTTTAAAATAT
1 TTTTATAAT-T
*
47189252 TTTTAT-GTT
1 TTTTATAATT
47189261 TTTTAT
1 TTTTAT
47189267 GCTTTTTTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
9 17 0.33
10 21 0.41
11 11 0.22
12 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTATAATT
Found at i:47189254 original size:29 final size:31
Alignment explanation
Indices: 47189191--47189265 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 31
47189181 GTTTCTTATG
*
47189191 TTTTATAATTTTTTAAATAATGTTTACAACT
1 TTTTATAATTTTTTAAATAATGTTTACAAAT
* *
47189222 TTTTATAA-TTTTT-AATAATTTTTAAAATAT
1 TTTTATAATTTTTTAAATAATGTTTACAA-AT
*
47189252 TTTTAT-GTTTTTTA
1 TTTTATAATTTTTTA
47189266 TGCTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
29 12 0.32
30 17 0.46
31 8 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTTATAATTTTTTAAATAATGTTTACAAAT
Found at i:47189306 original size:28 final size:28
Alignment explanation
Indices: 47189250--47189306 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 28
47189240 TTTTTAAAAT
* *
47189250 ATTTTTATGTTTTTTATGCTTTTTTTCA
1 ATTTTTATGTTTTTTATGATTTTTCTCA
47189278 ATTTTTAT-TTTTTTAAT-ATTTTTACTCA
1 ATTTTTATGTTTTTT-ATGATTTTT-CTCA
47189306 A
1 A
47189307 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.68
Consensus pattern (28 bp):
ATTTTTATGTTTTTTATGATTTTTCTCA
Found at i:47189510 original size:22 final size:21
Alignment explanation
Indices: 47189483--47189523 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
47189473 ACTTAATAGG
*
47189483 TTTTTTATTTATTTATAAGCTT
1 TTTTTTATATATTT-TAAGCTT
47189505 TTTTTTATATATTTTAAGC
1 TTTTTTATATATTTTAAGC
47189524 CTAACAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTTTATATATTTTAAGCTT
Found at i:47189636 original size:15 final size:16
Alignment explanation
Indices: 47189615--47189654 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
47189605 AATCCCTTCA
47189615 AAAATTATA-AAAAAT
1 AAAATTATATAAAAAT
*
47189630 TAAATTA-ATAAAAAT
1 AAAATTATATAAAAAT
47189645 AAAATTATAT
1 AAAATTATAT
47189655 TTTAGCTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 1 0.05
15 18 0.86
16 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATATAAAAAT
Found at i:47193741 original size:44 final size:45
Alignment explanation
Indices: 47193654--47193744 Score: 175
Period size: 44 Copynumber: 2.0 Consensus size: 45
47193644 GCTAATACTC
47193654 AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
1 AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
47193699 AATTTAATAATCTGGAGTTGGCC-TTTTCTAGGTTGAAGAAGGGG
1 AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
47193743 AA
1 AA
47193745 GATGGAGAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 23 0.50
45 23 0.50
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.34
Consensus pattern (45 bp):
AATTTAATAATCTGGAGTTGGCCTTTTTCTAGGTTGAAGAAGGGG
Found at i:47193836 original size:24 final size:24
Alignment explanation
Indices: 47193791--47193843 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
47193781 TTTAAAATAA
*
47193791 ATTTAATTTAATATAATTATTTTT
1 ATTTAATTTAATATAATAATTTTT
47193815 ATTTAATATTAATATAA-AATTTTT
1 ATTTAAT-TTAATATAATAATTTTT
47193839 ATTTA
1 ATTTA
47193844 TTTTTTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
ATTTAATTTAATATAATAATTTTT
Found at i:47195270 original size:2 final size:2
Alignment explanation
Indices: 47195263--47195305 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
47195253 CAATATGTAC
47195263 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
47195305 A
1 A
47195306 CATGAGAATC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47197621 original size:29 final size:29
Alignment explanation
Indices: 47197579--47197637 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
47197569 TTCCCATTTG
47197579 TTTCTCTTGAAAATAGACTCATTCAAGAT
1 TTTCTCTTGAAAATAGACTCATTCAAGAT
*
47197608 TTTCTCTTGAAAATAGACTCATTCAGGAT
1 TTTCTCTTGAAAATAGACTCATTCAAGAT
47197637 T
1 T
47197638 CTAAACATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (29 bp):
TTTCTCTTGAAAATAGACTCATTCAAGAT
Found at i:47200082 original size:31 final size:31
Alignment explanation
Indices: 47200047--47200114 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
47200037 TTAACAGCCC
*
47200047 AGTGACTTAAATAAAAACTTTTGAATAATTT
1 AGTGACTTAAATAAAAACTTTCGAATAATTT
* *
47200078 AGTGACTTAAATGAAAACTTTCGAATAGTTT
1 AGTGACTTAAATAAAAACTTTCGAATAATTT
47200109 AGTGAC
1 AGTGAC
47200115 CAACTTGTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTCGAATAATTT
Found at i:47201128 original size:10 final size:9
Alignment explanation
Indices: 47201103--47201127 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
47201093 GAAATTTGAT
47201103 AAAAAAAGA
1 AAAAAAAGA
47201112 AAAAAAAGA
1 AAAAAAAGA
47201121 AAAAAAA
1 AAAAAAA
47201128 ACACGTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:47203909 original size:5 final size:5
Alignment explanation
Indices: 47203899--47203950 Score: 70
Period size: 5 Copynumber: 10.4 Consensus size: 5
47203889 TGATGTGTAA
* *
47203899 AATAT AATAT AATA- AATAT AATTAA AATAT AATAT AATAT AATAT GATAT
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT
47203949 AA
1 AA
47203951 GCAAATAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 4 0.10
5 33 0.80
6 4 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:47204789 original size:109 final size:108
Alignment explanation
Indices: 47204656--47204854 Score: 346
Period size: 109 Copynumber: 1.8 Consensus size: 108
47204646 GGATTTATTT
47204656 TTATCTATGATAATATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAAAT
1 TTATCTATGATAATATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAAAT
*
47204721 ACTTTTTGGATGTCTTATAATATATATTTGTACGTCAACTTTA
66 ACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
* *
47204764 TTATCTAT-ATTAATTATATTTTATTGATATAAAACAATTGCAGTTTCATTTAATTTGATCATAA
1 TTATCTATGA-TAA-TATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAA
47204828 ATACTTTTTAGATGTCTTATAATATAT
64 ATACTTTTTAGATGTCTTATAATATAT
47204855 GTTCTTTGCT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
107 1 0.01
108 11 0.13
109 74 0.86
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.48
Consensus pattern (108 bp):
TTATCTATGATAATATATTTTATTGATATAAAACAATTGCAATTCCATTTAATTTGATCATAAAT
ACTTTTTAGATGTCTTATAATATATATTTGTACGTCAACTTTA
Found at i:47207658 original size:17 final size:17
Alignment explanation
Indices: 47207630--47207663 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
47207620 AAAAAGAATT
47207630 AATTATTAATTAGATTGA
1 AATTATTAATTA-ATTGA
47207648 AATTA-TAATTAATTGA
1 AATTATTAATTAATTGA
47207664 CATAATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (17 bp):
AATTATTAATTAATTGA
Found at i:47216855 original size:16 final size:18
Alignment explanation
Indices: 47216823--47216855 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47216813 TAACTTGTTT
47216823 ATTAATCTCATTATTCAA
1 ATTAATCTCATTATTCAA
47216841 ATTAATC-CA-TATTCA
1 ATTAATCTCATTATTCA
47216856 TACTTTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (18 bp):
ATTAATCTCATTATTCAA
Found at i:47218757 original size:21 final size:20
Alignment explanation
Indices: 47218729--47218767 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47218719 CAAAACTTGT
47218729 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
47218749 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
47218768 CAAAATACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:47222787 original size:24 final size:24
Alignment explanation
Indices: 47222734--47222779 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
47222724 TCGACAACCC
*
47222734 ACTTTCCGGCTTTTCAACCTTTCG
1 ACTTTTCGGCTTTTCAACCTTTCG
*
47222758 ACTTTTCGGCTTTTCAGCCTTT
1 ACTTTTCGGCTTTTCAACCTTT
47222780 ACAGTTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.11, C:0.30, G:0.13, T:0.46
Consensus pattern (24 bp):
ACTTTTCGGCTTTTCAACCTTTCG
Found at i:47228710 original size:40 final size:39
Alignment explanation
Indices: 47228529--47228680 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
47228519 AATGTTCGAG
47228529 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
47228568 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
47228607 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
47228646 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
47228681 GGTTACCATA
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:47234231 original size:44 final size:41
Alignment explanation
Indices: 47234183--47234282 Score: 114
Period size: 39 Copynumber: 2.4 Consensus size: 41
47234173 TAGAACGATT
* *
47234183 TCGCACACTTAGTGCCATCTCAATTAACCGAAGCTATCTCAGTA
1 TCGCACACTTAGTGCCA-CTC-ATTAACCAAAGCTAT-TCAGAA
* **
47234227 TCGCACACTTAGTG-C-CTCATTAGCCAAAGCTATTTTGAA
1 TCGCACACTTAGTGCCACTCATTAACCAAAGCTATTCAGAA
47234266 TCGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
47234283 AATACAATTG
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
39 17 0.35
40 14 0.29
41 3 0.06
43 1 0.02
44 14 0.29
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (41 bp):
TCGCACACTTAGTGCCACTCATTAACCAAAGCTATTCAGAA
Found at i:47236265 original size:21 final size:21
Alignment explanation
Indices: 47236241--47236309 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
47236231 CCATGCGACC
47236241 TAGCTACATCATAATGTCTCG
1 TAGCTACATCATAATGTCTCG
* * *
47236262 TAGCT-C-TC-TAGTGCACATCACC
1 TAGCTACATCATAATG----TCTCG
47236284 TAGCTACATCATAATGTCTCG
1 TAGCTACATCATAATGTCTCG
47236305 TAGCT
1 TAGCT
47236310 CTCTTGTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
18 4 0.11
19 2 0.06
20 1 0.03
21 13 0.37
22 8 0.23
23 1 0.03
24 2 0.06
25 4 0.11
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (21 bp):
TAGCTACATCATAATGTCTCG
Found at i:47236286 original size:43 final size:43
Alignment explanation
Indices: 47236238--47236322 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
47236228 CACCCATGCG
*
47236238 ACCTAGCTACATCATAATGTCTCGTAGCTCTCTAGTGCACATC
1 ACCTAGCTACATCATAATGTCTCGTAGCTCTCTAGTACACATC
*
47236281 ACCTAGCTACATCATAATGTCTCGTAGCTCTCTTGTACACAT
1 ACCTAGCTACATCATAATGTCTCGTAGCTCTCTAGTACACAT
47236323 GATGTGCACT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (43 bp):
ACCTAGCTACATCATAATGTCTCGTAGCTCTCTAGTACACATC
Found at i:47236860 original size:30 final size:30
Alignment explanation
Indices: 47236826--47236886 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47236816 TCCTTAACTC
47236826 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47236856 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47236886 A
1 A
47236887 GGCTAGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:47242875 original size:48 final size:48
Alignment explanation
Indices: 47242817--47243224 Score: 717
Period size: 48 Copynumber: 8.4 Consensus size: 48
47242807 ATATACACAC
* *
47242817 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47242865 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47242913 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47242961 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47243009 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* *
47243059 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
47243107 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
47243155 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
*
47243205 TTCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
47243225 ATTCACTACA
Statistics
Matches: 345, Mismatches: 11, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
48 272 0.79
50 73 0.21
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:47243131 original size:146 final size:146
Alignment explanation
Indices: 47242817--47243224 Score: 748
Period size: 146 Copynumber: 2.8 Consensus size: 146
47242807 ATATACACAC
*
47242817 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
47242882 CATTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
47242945 TTTACCACATATACAT
131 TTTACCACATATACAT
*
47242961 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
47243026 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
66 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
*
47243091 TTTACCGCATATACAT
131 TTTACCACATATACAT
* *
47243107 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
47243172 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACAT
66 CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACAT
47243225 ATTCACTACA
Statistics
Matches: 256, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
144 86 0.34
146 170 0.66
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (146 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
CATTAGCCATTCGGCTTTACCACATATATACATTTCTCATACATATTTCACATTAGCCATTCGGC
TTTACCACATATACAT
Found at i:47244245 original size:2 final size:2
Alignment explanation
Indices: 47244238--47244280 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
47244228 TTAATCGTTG
47244238 AT AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT AT
47244280 A
1 A
47244281 CAGCATTAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:47251511 original size:21 final size:20
Alignment explanation
Indices: 47251483--47251521 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
47251473 CAAAACTTGT
47251483 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
47251503 ATAATCTATCATTAAACAT
1 ATAA-CTATCATCAAACAT
47251522 CAAAATGCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:47254681 original size:39 final size:39
Alignment explanation
Indices: 47254627--47254867 Score: 374
Period size: 39 Copynumber: 6.2 Consensus size: 39
47254617 TGTGAATGAA
47254627 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
47254666 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
47254705 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
47254744 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** * * *
47254783 TGTGCGAGCTATGATATCCGGGCTAAACTCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
47254822 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
47254862 TGTGCG
1 TGTGCG
47254868 GGTTACCATA
Statistics
Matches: 184, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
39 168 0.91
40 16 0.09
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:47256911 original size:68 final size:70
Alignment explanation
Indices: 47256839--47257036 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
47256829 ACACCCTGTA
* * * *
47256839 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
47256901 ATAAAT
65 ATAAAT
*
47256907 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
47256972 ATAAAT
65 ATAAAT
*
47256978 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
47257037 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:47256950 original size:41 final size:41
Alignment explanation
Indices: 47256905--47257022 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
47256895 TGAAAGATAA
47256905 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
47256946 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47256976 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47257017 ATGTAG
1 ATGTAG
47257023 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:47256962 original size:71 final size:71
Alignment explanation
Indices: 47256873--47257036 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47256863 GAGATGTATC
47256873 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47256938 AGGACA
66 AGGACA
47256944 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47257009 AGGACA
66 AGGACA
47257015 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
47257037 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:47264451 original size:68 final size:70
Alignment explanation
Indices: 47264379--47264576 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
47264369 ACACCCTGTA
* * * *
47264379 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
47264441 ATAAAT
65 ATAAAT
*
47264447 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
47264512 ATAAAT
65 ATAAAT
*
47264518 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
47264577 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:47264490 original size:41 final size:41
Alignment explanation
Indices: 47264445--47264562 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
47264435 TGAAAGATAA
47264445 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
47264486 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47264516 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
47264557 ATGTAG
1 ATGTAG
47264563 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:47264502 original size:71 final size:71
Alignment explanation
Indices: 47264413--47264576 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
47264403 GAGATGTATC
47264413 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47264478 AGGACA
66 AGGACA
47264484 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
47264549 AGGACA
66 AGGACA
47264555 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
47264577 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:47279446 original size:16 final size:16
Alignment explanation
Indices: 47279400--47279446 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
47279390 CCAAACTTTA
*
47279400 GGCTTTTTGGCATTTC
1 GGCTTTTCGGCATTTC
* *
47279416 AGCTTTTCGACATTTC
1 GGCTTTTCGGCATTTC
*
47279432 GGCTTTTCGGGATTT
1 GGCTTTTCGGCATTT
47279447 ATCGATCTAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (16 bp):
GGCTTTTCGGCATTTC
Found at i:47281777 original size:24 final size:24
Alignment explanation
Indices: 47281747--47281988 Score: 405
Period size: 24 Copynumber: 10.1 Consensus size: 24
47281737 GAATGTGACT
* *
47281747 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
47281771 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
47281795 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
47281819 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
47281843 ATAGTGAATCGCACACATAGTG-C
1 ATAGTAAATCGCACACATAGTGCC
*
47281866 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
47281890 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
47281914 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
47281938 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
47281962 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
47281986 ATA
1 ATA
47281989 TGGTCTTTGC
Statistics
Matches: 211, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
23 23 0.11
24 188 0.89
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:47281964 original size:119 final size:119
Alignment explanation
Indices: 47281753--47281984 Score: 428
Period size: 119 Copynumber: 1.9 Consensus size: 119
47281743 GACTATAGCA
*
47281753 AATCGCACACATAGTGCTATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 AATCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
*
47281818 CATAGTGAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGCATAGTG
66 CATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCATAGTG
* *
47281872 AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTGAATCGCACACATAGTGC
1 AATCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
47281937 CATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
66 CATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
47281985 CATATGGTCT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 109 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (119 bp):
AATCGCACACATAGTGCCATAGCAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
CATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCATAGTG
Found at i:47288894 original size:40 final size:39
Alignment explanation
Indices: 47288817--47288999 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
47288807 TCGAATGATG
* *
47288817 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
47288856 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
47288896 TCCGGGCTAAGCCCGAAGGCA-TGGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
47288934 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
47288975 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
47289000 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
38 24 0.19
39 28 0.23
40 63 0.51
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47288956 original size:78 final size:79
Alignment explanation
Indices: 47288817--47288996 Score: 222
Period size: 78 Copynumber: 2.3 Consensus size: 79
47288807 TCGAATGATG
* * *
47288817 TCCGGGCTAAGTCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
47288882 TGCGAGTTACTA-A
66 TGCGAGTTACTATA
* * * **
47288895 TTCCGGGCTAAGCCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 -TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
47288958 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTATA
* *
47288974 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCAT
47288997 TTGAACGAGT
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 51 0.58
79 36 0.41
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATA
Found at i:47297103 original size:78 final size:80
Alignment explanation
Indices: 47296968--47297148 Score: 235
Period size: 78 Copynumber: 2.3 Consensus size: 80
47296958 TCGAATGATG
* *
47296968 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
47297033 GTGCGAGTTACTA-A
66 GTGCGAGTTACTATA
* * * **
47297047 TTCCGGGCTAAG-CCCGAAGGCATGGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCAT
47297109 TTGTGCGAGTTACTATA
64 TTGTGCGAGTTACTATA
* *
47297126 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
47297149 TTGAACGAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 7
0.85 0.09 0.07
Matches are distributed among these distances:
77 1 0.01
78 51 0.57
79 26 0.29
80 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATA
Found at i:47297158 original size:40 final size:39
Alignment explanation
Indices: 47296969--47297151 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
47296959 CGAATGATGT
* *
47296969 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
47297008 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
47297049 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTATTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47297086 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47297127 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47297152 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
38 23 0.19
39 19 0.16
40 70 0.57
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47299741 original size:46 final size:45
Alignment explanation
Indices: 47299674--47299843 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
47299664 AACCCGCCCC
* *
47299674 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTT-GCATCCA
*
47299720 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G--T-GTTGCATCCA
* * *
47299768 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GTGTTGCATCCA
47299813 TAAGTGAACTCGGACTCAACTCAACGAGTTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC
47299844 AGATGCTCAA
Statistics
Matches: 106, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 3 0.03
46 57 0.54
47 29 0.27
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGTGTTGCATCCA
Found at i:47299787 original size:93 final size:93
Alignment explanation
Indices: 47299679--47299849 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
47299669 GCCCCTAAGT
* ***
47299679 GAACTCGGACTCAACTCAATGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
47299744 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCAGATGCCTAGTTACATCTCAC
* *
47299772 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47299837 CGAGTTCAGATGC
66 CGAGTTCAGATGC
47299850 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:47300306 original size:30 final size:30
Alignment explanation
Indices: 47300272--47300331 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47300262 ATTTAATACG
47300272 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
47300302 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
47300332 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:47307338 original size:46 final size:45
Alignment explanation
Indices: 47307195--47307321 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 45
47307185 AACCCGCCCC
* *
47307195 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTGCATCCA
47307240 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGTTGCATCCA
47307286 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
47307322 CTCAACCATC
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
44 2 0.03
45 32 0.42
46 42 0.55
47 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTGCATCCA
Found at i:47308955 original size:50 final size:49
Alignment explanation
Indices: 47308857--47309272 Score: 362
Period size: 50 Copynumber: 8.4 Consensus size: 49
47308847 CCGACACAAA
* * * * * *
47308857 GTCCGAGACTTGGTCTTACACTGGCTCAT-AC-ATCAAAGTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGACTC-TCACTATCGAGGCCGATGCCAT
* *
47308905 GTCCTAGACATGGTCTTACATTGACTCTCACGTATCGAGGCCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGACTCTCAC-TATCGAGGCCGATGCCAT
* * *
47308955 GTCCCAGACATGGTCTTACACT-AGCTCTCACATATTGAAGTCGATGCCAT
1 GTCCCAGACATGGTCTTACACTGA-CTCTCAC-TATCGAGGCCGATGCCAT
* * *
47309005 GTCCTAGACATGGTCTTACACT-AGCTCTCATCTATCGATGCTGATGCCAT
1 GTCCCAGACATGGTCTTACACTGA-CTCTCA-CTATCGAGGCCGATGCCAT
* * * * *
47309055 GTCCCAGACATGGTCTTACACTGACACACACATGTCGGGGCCAATGCCAT
1 GTCCCAGACATGGTCTTACACTGACTCTCAC-TATCGAGGCCGATGCCAT
* * * * * *
47309105 GTCCCTGACATGGTCTTACACAGGCTCTCA-TAAT-GTGGCTGACGCCAT
1 GTCCCAGACATGGTCTTACACTGACTCTCACT-ATCGAGGCCGATGCCAT
* * * * *
47309153 GTCCCAGACATGGTCTTACACTGACACACACATGTCGGGGCCAATGCCAT
1 GTCCCAGACATGGTCTTACACTGACTCTCAC-TATCGAGGCCGATGCCAT
* * * * * *
47309203 GTCCCTGACATGGTCTTACACAGGCTCTCA-TAAT-GTGGCTGACGCCAT
1 GTCCCAGACATGGTCTTACACTGACTCTCACT-ATCGAGGCCGATGCCAT
47309251 GTCCCAGACATGGTCTTACACT
1 GTCCCAGACATGGTCTTACACT
47309273 AGCACACATA
Statistics
Matches: 298, Mismatches: 58, Indels: 24
0.78 0.15 0.06
Matches are distributed among these distances:
47 1 0.00
48 92 0.31
49 5 0.02
50 198 0.66
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (49 bp):
GTCCCAGACATGGTCTTACACTGACTCTCACTATCGAGGCCGATGCCAT
Found at i:47309181 original size:98 final size:99
Alignment explanation
Indices: 47308898--47309280 Score: 478
Period size: 98 Copynumber: 3.9 Consensus size: 99
47308888 ATCAAAGTCG
** * * * *
47308898 ATGCCATGTCCTAGACATGGTCTTACATTGACTCTCACGT-ATCGAGGCCGATGCCATGTCCCAG
1 ATGCCATGTCCTAGACATGGTCTTACACAGGCTCTCA--TAATCGTGGCTGACGCCATGTCCCAG
* * * * ** * *
47308962 ACATGGTCTTACACTAGCTCTCACATATTGAAGTCG
64 ACATGGTCTTACACTAGCACACACATGTCGGGGCCA
* *
47308998 ATGCCATGTCCTAGACATGGTCTTACACTA-GCTCTCATCTATCGAT-GCTGATGCCATGTCCCA
1 ATGCCATGTCCTAGACATGGTCTTACAC-AGGCTCTCAT-AATCG-TGGCTGACGCCATGTCCCA
47309061 GACATGGTCTTACACT-GACACACACATGTCGGGGCCA
63 GACATGGTCTTACACTAG-CACACACATGTCGGGGCCA
47309098 ATGCCATGTCCCT-GACATGGTCTTACACAGGCTCTCATAAT-GTGGCTGACGCCATGTCCCAGA
1 ATGCCATGT-CCTAGACATGGTCTTACACAGGCTCTCATAATCGTGGCTGACGCCATGTCCCAGA
47309161 CATGGTCTTACACT-GACACACACATGTCGGGGCCA
65 CATGGTCTTACACTAG-CACACACATGTCGGGGCCA
47309196 ATGCCATGTCCCT-GACATGGTCTTACACAGGCTCTCATAAT-GTGGCTGACGCCATGTCCCAGA
1 ATGCCATGT-CCTAGACATGGTCTTACACAGGCTCTCATAATCGTGGCTGACGCCATGTCCCAGA
47309259 CATGGTCTTACACTAGCACACA
65 CATGGTCTTACACTAGCACACA
47309281 TATCACCCAA
Statistics
Matches: 259, Mismatches: 15, Indels: 20
0.88 0.05 0.07
Matches are distributed among these distances:
97 1 0.00
98 138 0.53
99 5 0.02
100 112 0.43
101 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.26
Consensus pattern (99 bp):
ATGCCATGTCCTAGACATGGTCTTACACAGGCTCTCATAATCGTGGCTGACGCCATGTCCCAGAC
ATGGTCTTACACTAGCACACACATGTCGGGGCCA
Found at i:47317665 original size:36 final size:36
Alignment explanation
Indices: 47317625--47317698 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
47317615 AAACACTTTG
47317625 TCGCCAATCTCAAACTCAATGTCTTTTCTTTTCAAA
1 TCGCCAATCTCAAACTCAATGTCTTTTCTTTTCAAA
*
47317661 TCGCCGATCTCAAACTCAATGTCTTTTCTTTTCAAA
1 TCGCCAATCTCAAACTCAATGTCTTTTCTTTTCAAA
47317697 TC
1 TC
47317699 TGCATATGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.26, C:0.28, G:0.07, T:0.39
Consensus pattern (36 bp):
TCGCCAATCTCAAACTCAATGTCTTTTCTTTTCAAA
Found at i:47321833 original size:30 final size:29
Alignment explanation
Indices: 47321778--47321838 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
47321768 ATGAGTTGAA
47321778 AGCTTTGGCACTAAGTGTGCAATTTAAACT
1 AGCTTTGGCACTAAGTGTGCAATTT-AACT
**
47321808 AGCTTTGGCACTAAGTGTGTGATTTAACT
1 AGCTTTGGCACTAAGTGTGCAATTTAACT
47321837 AG
1 AG
47321839 TTTCGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCAATTTAACT
Found at i:47326154 original size:8 final size:8
Alignment explanation
Indices: 47326141--47326167 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
47326131 CCTAACCCTC
47326141 ACATTTTG
1 ACATTTTG
47326149 ACATTTTG
1 ACATTTTG
47326157 ACATTTTG
1 ACATTTTG
47326165 ACA
1 ACA
47326168 CTTTAGTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (8 bp):
ACATTTTG
Found at i:47344104 original size:22 final size:22
Alignment explanation
Indices: 47344078--47344119 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47344068 GTGTCGAAGT
47344078 TGATGTATATTTTCATAATAGA
1 TGATGTATATTTTCATAATAGA
*
47344100 TGATGTATATTTTGATAATA
1 TGATGTATATTTTCATAATA
47344120 TGTGAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (22 bp):
TGATGTATATTTTCATAATAGA
Found at i:47344326 original size:16 final size:15
Alignment explanation
Indices: 47344301--47344331 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
47344291 TTATGATGCG
47344301 TAATTATAATATAAT
1 TAATTATAATATAAT
47344316 TAATATATAATATAAT
1 TAAT-TATAATATAAT
47344332 AAGAGATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTATAATATAAT
Found at i:47350653 original size:22 final size:21
Alignment explanation
Indices: 47350625--47350721 Score: 115
Period size: 22 Copynumber: 4.4 Consensus size: 21
47350615 ATAGATCAGT
47350625 AAAATAAAAATAAATAATATA
1 AAAATAAAAATAAATAATATA
47350646 ACAAATAAAAATAAATAATATA
1 A-AAATAAAAATAAATAATATA
*
47350668 AAAATAATAATAAATAATAATA
1 AAAATAAAAATAAATAAT-ATA
*
47350690 AATAATGAAATAATGAAATAAAAT-
1 AA-AAT-AAA-AAT-AAATAATATA
47350714 AAAATAAA
1 AAAATAAA
47350722 GAAAAGGGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 11
0.83 0.04 0.14
Matches are distributed among these distances:
21 17 0.25
22 29 0.43
23 6 0.09
24 4 0.06
25 5 0.07
26 6 0.09
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.24
Consensus pattern (21 bp):
AAAATAAAAATAAATAATATA
Found at i:47350656 original size:28 final size:30
Alignment explanation
Indices: 47350625--47350703 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 30
47350615 ATAGATCAGT
47350625 AAAATAAA-AATAAATAAT-ATAACAAATA
1 AAAATAAATAATAAATAATAATAACAAATA
* *
47350653 AAAATAAATAATATAAAAATAATAATAAATA
1 AAAATAAATAATA-AATAATAATAACAAATA
*
47350684 ATAATAAATAATGAAATAAT
1 AAAATAAATAAT-AAATAAT
47350704 GAAATAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
28 8 0.19
29 4 0.09
30 5 0.12
31 25 0.58
32 1 0.02
ACGTcount: A:0.72, C:0.01, G:0.01, T:0.25
Consensus pattern (30 bp):
AAAATAAATAATAAATAATAATAACAAATA
Found at i:47350673 original size:43 final size:46
Alignment explanation
Indices: 47350585--47350721 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 46
47350575 ATCTAAGCAT
* *
47350585 ATAAATAATAAAAAATAA-GAAATTAA-GAAAATAGATCAGTAAAATAAAA
1 ATAAATAATAATAAATAATGAAA-TAATG-AAATA-A--AATAAAATAAAA
* *
47350634 ATAAATAAT-ATAACA-AAT-AAA-AAT-AAATAATATAAAAATAATA
1 ATAAATAATAATAA-ATAATGAAATAATGAAATAAAAT-AAAATAAAA
47350677 ATAAATAATAATAAATAATGAAATAATGAAATAAAATAAAATAAA
1 ATAAATAATAATAAATAATGAAATAATGAAATAAAATAAAATAAA
47350722 GAAAAGGGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
42 1 0.01
43 18 0.25
44 8 0.11
45 8 0.11
46 12 0.16
47 8 0.11
48 8 0.11
49 10 0.14
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (46 bp):
ATAAATAATAATAAATAATGAAATAATGAAATAAAATAAAATAAAA
Found at i:47350695 original size:10 final size:10
Alignment explanation
Indices: 47350626--47350695 Score: 77
Period size: 10 Copynumber: 6.7 Consensus size: 10
47350616 TAGATCAGTA
*
47350626 AAATAAAAAT
1 AAATAATAAT
*
47350636 AAATAATATAAC
1 AAAT-A-ATAAT
*
47350648 AAATAAAAAT
1 AAATAATAAT
*
47350658 AAATAATATAA
1 AAATAATA-AT
47350669 AAATAATAAT
1 AAATAATAAT
47350679 AAATAATAAT
1 AAATAATAAT
47350689 AAATAAT
1 AAATAAT
47350696 GAAATAATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
10 32 0.64
11 11 0.22
12 7 0.14
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATAATAAT
Found at i:47356411 original size:39 final size:40
Alignment explanation
Indices: 47356233--47356415 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
47356223 CCGCACCAAG
* * * * * * * *
47356233 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
47356273 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
* *
47356313 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
47356353 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
47356392 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
47356416 CATTCAATTT
Statistics
Matches: 120, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
39 31 0.26
40 87 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:47364419 original size:40 final size:40
Alignment explanation
Indices: 47364345--47364528 Score: 167
Period size: 40 Copynumber: 4.6 Consensus size: 40
47364335 CCGCACCAAG
* * * * * *
47364345 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
47364385 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * *
47364425 GCCTTCGGGTCTTGGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
47364465 GCCTTCGGGTCTTAACCCGGATAT-A-AA-TTTCAGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCA-CA-AA-T
* *
47364505 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
47364529 CATTCAATTT
Statistics
Matches: 116, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
37 3 0.03
38 3 0.03
39 1 0.01
40 109 0.94
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:47369322 original size:99 final size:96
Alignment explanation
Indices: 47369213--47369388 Score: 237
Period size: 96 Copynumber: 1.8 Consensus size: 96
47369203 TACGAGATGT
*
47369213 GTCAGTGTAAGACCATGCCTGGAACATGGCATCGGTACAGATATGTGA-GAGCTAGTGTAAGACC
1 GTCAGTGTAAGACCATGCCTGGAACATGGCATC-G-ACAGA-ATG-GATGAGCCAGTGTAAGACC
47369277 ATGTCTGGGAAATGGCGTCGGCCTCAATTTCGATA
62 ATGTCTGGGAAATGGCGTCGGCCTCAATTTCGATA
* ** * **
47369312 GTCAGTGTAAGATCATGTTTGGGACATGGCATCGACTTAATGGATGAGCCAGTGTAAGACCATGT
1 GTCAGTGTAAGACCATGCCTGGAACATGGCATCGACAGAATGGATGAGCCAGTGTAAGACCATGT
*
47369377 CTGGGACATGGC
66 CTGGGAAATGGC
47369389 ATCAGCATTA
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
95 2 0.03
96 33 0.49
97 3 0.04
98 1 0.01
99 29 0.43
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGCCTGGAACATGGCATCGACAGAATGGATGAGCCAGTGTAAGACCATGT
CTGGGAAATGGCGTCGGCCTCAATTTCGATA
Found at i:47369329 original size:49 final size:47
Alignment explanation
Indices: 47369072--47369391 Score: 189
Period size: 46 Copynumber: 6.8 Consensus size: 47
47369062 TGGGTTGTGG
* * * *
47369072 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG--GCATTGAGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAAT-CGA
* * *
47369118 TGAATGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-C--TCGA
1 TG-A-GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATCGA
* *
47369162 GGTGTAAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGACTACGA--GA
1 --TG--AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CAATCGA
* * * * ** *
47369210 TGTGTCAGTGTAAGACCATGCCTGGAACATGGCATCGGTACAGATATGTGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTCA-AT-CGA
* * * *
47369261 -GAGCTAGTGTAAGACCATGTCTGGGAAATGGCGTCGGCCTCAATTTCGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCAA--TCGA
* * * * *
47369310 T-AGTCAGTGTAAGATCATGTTTGGGACATGGCATCGACTTAATGGA
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATCGA
47369356 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
47369392 AGCATTATAC
Statistics
Matches: 216, Mismatches: 35, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
44 13 0.06
45 12 0.06
46 53 0.25
47 49 0.23
48 24 0.11
49 32 0.15
50 31 0.14
51 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATCGA
Found at i:47375677 original size:46 final size:44
Alignment explanation
Indices: 47375592--47375706 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 44
47375582 GACGAGAGCT
* * * * *
47375592 AGTGTAAGACATGTTTGGGACATACATTTGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTAGACTCAAGATGT--GCC
*
47375638 GGTGTAAGACATGTCTGGGACATGCA-TAGACTGCAAGATGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATTAGACT-CAAGATGTGCC
*
47375682 AGTGTAAGACCATGTCTGAGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
47375707 GCATCAGTAC
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
44 11 0.19
45 18 0.31
46 30 0.51
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTAGACTCAAGATGTGCC
Found at i:47378116 original size:92 final size:91
Alignment explanation
Indices: 47378001--47378168 Score: 291
Period size: 92 Copynumber: 1.8 Consensus size: 91
47377991 GCCCCTAAGT
* * * *
47378001 GAACTCGACTCAACTCAATGAGTTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACT-GGACTCAACTCAAC
47378066 GAGTTCGGATGCCTAGTTACATCTCAC
65 GAGTTCGGATGCCTAGTTACATCTCAC
47378093 GAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTGGACTCAACTCAACG
1 GAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTGGACTCAACTCAACG
47378158 AGTTCGGATGC
66 AGTTCGGATGC
47378169 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 26 0.36
92 46 0.64
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (91 bp):
GAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTGGACTCAACTCAACG
AGTTCGGATGCCTAGTTACATCTCAC
Found at i:47378157 original size:45 final size:45
Alignment explanation
Indices: 47377996--47378165 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
47377986 AACCCGCCCC
* * * *
47377996 TAAGTGAACTCGACTCAACTCAATGAGTTTGGGCGTTCGCATCCA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
47378041 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTC-GACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
47378089 TCA-CGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
47378133 TAAGTGAACTGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGACTCAACTCAACGAGTTCGGA
47378166 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 2 0.02
45 38 0.37
46 41 0.39
47 6 0.06
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47378184 original size:45 final size:43
Alignment explanation
Indices: 47378043--47378184 Score: 119
Period size: 45 Copynumber: 3.1 Consensus size: 43
47378033 CGCATCCATA
47378043 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACT-GGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
47378090 CA-CGAACTCGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
47378135 AGTGAACTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
47378180 AGTGA
1 AGTGA
47378185 CATGTCACTT
Statistics
Matches: 76, Mismatches: 11, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
43 9 0.12
44 1 0.01
45 31 0.41
46 24 0.32
47 5 0.07
48 5 0.07
49 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (43 bp):
AGTGAACTGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:47380587 original size:15 final size:15
Alignment explanation
Indices: 47380555--47380625 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
47380545 AGATAACAAG
47380555 GAAA-CCAA-ATAAA
1 GAAATCCAAGATAAA
*
47380568 GAAATCCAAGATAGA
1 GAAATCCAAGATAAA
47380583 GAAATCC-AGAATAAA
1 GAAATCCAAG-ATAAA
47380598 GAAATCC-AGAATAAA
1 GAAATCCAAG-ATAAA
**
47380613 GAAGCCCAAGATA
1 GAAATCCAAGATA
47380626 CGATACTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.08
14 6 0.12
15 38 0.76
16 2 0.04
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.11
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:47384606 original size:39 final size:40
Alignment explanation
Indices: 47384506--47384687 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
47384496 TCGAATGATG
* * *
47384506 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
47384546 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
47384586 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
47384624 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
47384665 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47384688 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:47384651 original size:78 final size:80
Alignment explanation
Indices: 47384506--47384687 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
47384496 TCGAATGATG
* * * *
47384506 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
47384571 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
47384586 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
47384648 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
47384665 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47384688 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:47386945 original size:93 final size:93
Alignment explanation
Indices: 47386828--47386998 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
47386818 GCCCCTAAGT
* *
47386828 GAACTCGGACTCAACTCAATGAGTTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
47386892 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* *
47386921 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47386986 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47386999 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47386995 original size:46 final size:45
Alignment explanation
Indices: 47386823--47386994 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 45
47386813 AACCCGCCCC
* * *
47386823 TAAGTGAACTCGGACTCAACTCAATGAGTTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATTCA
*
47386869 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A-TT-CA
* *
47386915 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATTCA
*
47386962 TAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47386995 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 5 0.05
46 59 0.55
47 30 0.28
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATTCA
Found at i:47387014 original size:46 final size:43
Alignment explanation
Indices: 47386825--47387014 Score: 125
Period size: 46 Copynumber: 4.1 Consensus size: 43
47386815 CCCGCCCCTA
* * * * *
47386825 AGTGAACTCGGACTCAACTCAATGAGTTCAGGCGTTCGCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CA-ACATCT
47386871 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACATCT
* * * *
47386918 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CA-ACATCT
*
47386964 AGTGAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAA-CAT-CT
47387010 AGTGA
1 AGTGA
47387015 CATGTCACTT
Statistics
Matches: 117, Mismatches: 15, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
43 1 0.01
44 11 0.09
45 3 0.03
46 64 0.55
47 32 0.27
48 1 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (43 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACATCT
Found at i:47389416 original size:15 final size:15
Alignment explanation
Indices: 47389384--47389454 Score: 69
Period size: 15 Copynumber: 4.9 Consensus size: 15
47389374 AGATAACAAG
47389384 GAAA-CCAA-ATAAA
1 GAAATCCAAGATAAA
*
47389397 GAAATCCAAGATAGA
1 GAAATCCAAGATAAA
47389412 GAAATCC-AGAATAAA
1 GAAATCCAAG-ATAAA
47389427 GAAATCC-AGAATAAA
1 GAAATCCAAG-ATAAA
**
47389442 GAAGCCCAAGATA
1 GAAATCCAAGATA
47389455 CGATACTATG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.08
14 6 0.12
15 38 0.76
16 2 0.04
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.11
Consensus pattern (15 bp):
GAAATCCAAGATAAA
Found at i:47393432 original size:39 final size:40
Alignment explanation
Indices: 47393332--47393513 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
47393322 TCGAATGATG
* * *
47393332 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
47393372 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
47393412 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
47393450 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
47393491 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47393514 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:47393477 original size:78 final size:80
Alignment explanation
Indices: 47393332--47393513 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
47393322 TCGAATGATG
* * * *
47393332 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
47393397 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
47393412 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
47393474 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
47393491 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47393514 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:47401465 original size:39 final size:40
Alignment explanation
Indices: 47401365--47401546 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
47401355 TCGAATGATG
* * *
47401365 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
47401405 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
47401445 TCCGGGCTAAG-CCCGAAGGCATT-GTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * **
47401483 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
**
47401524 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47401547 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 22 0.19
39 23 0.20
40 63 0.54
41 9 0.08
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:47401510 original size:78 final size:80
Alignment explanation
Indices: 47401365--47401546 Score: 210
Period size: 78 Copynumber: 2.3 Consensus size: 80
47401355 TCGAATGATG
* * * *
47401365 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
47401430 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
47401445 TCCGGGCTAAG-CCCGAAGGCATTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
***
47401507 CGTGCGAGTCGCTATAA
65 CGTGCGAGTTAATA-AA
**
47401524 -CCGGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47401547 TGAGCGAGTC
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 46 0.53
79 29 0.33
80 11 0.13
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:47403750 original size:46 final size:46
Alignment explanation
Indices: 47403683--47403854 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
47403673 AACCCGCCCC
* *
47403683 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* *
47403729 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* * * *
47403777 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
*
47403822 TAAGTGAACTTGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47403855 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 2 0.02
46 59 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:47403795 original size:93 final size:93
Alignment explanation
Indices: 47403688--47403858 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
47403678 GCCCCTAAGT
* * * *
47403688 GAACTCGGACTCAACTCAATGAGTTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47403753 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
47403781 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47403846 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47403859 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:47403874 original size:46 final size:44
Alignment explanation
Indices: 47403685--47403874 Score: 138
Period size: 46 Copynumber: 4.1 Consensus size: 44
47403675 CCCGCCCCTA
* * * *
47403685 AGTGAACTCGGACTCAACTCAATGAGTTCGGGCGTTTG-CATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTC--G-G-ATGCCAACCATCT
47403731 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
47403778 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
*
47403824 AGTGAACTTGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
47403870 AGTGA
1 AGTGA
47403875 CATGTCACTT
Statistics
Matches: 116, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 11 0.09
45 1 0.01
46 63 0.54
47 31 0.27
48 1 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:47406718 original size:46 final size:47
Alignment explanation
Indices: 47406620--47406933 Score: 288
Period size: 46 Copynumber: 6.6 Consensus size: 47
47406610 ATGGTGAGCT
* *
47406620 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATG-AGTTCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAG--CC
* *
47406668 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCAAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT-AGCC
* *
47406714 AGTGTAAGA-CATGTCTGGGACAT-GCATC-GACTACGAGATGT-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTAGCC
* * *
47406758 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGCGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGATGT---AGCC
* * * ** *
47406808 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATG-TAGCC
* *
47406857 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATTGATG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--GATGTAGCC
*
47406904 AGTGTAAGACCATGTCTGGGACATGACATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
47406934 AGCATTATAC
Statistics
Matches: 223, Mismatches: 28, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 61 0.27
47 46 0.21
48 16 0.07
49 35 0.16
50 33 0.15
51 3 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTAGCC
Found at i:47411386 original size:40 final size:41
Alignment explanation
Indices: 47411342--47411492 Score: 145
Period size: 40 Copynumber: 3.8 Consensus size: 41
47411332 AGCCCAGTTA
47411342 TAGTAACTCGCACAGATGCCTTCGGGA-CTTAACT-CGGATT
1 TAGTAACTCGCACAGATGCCTTCGGGATCTT-ACTCCGGATT
* * *
47411382 TAGTAACTCGCACAAATGACTTC-GGATCTTAGTCCGGATT
1 TAGTAACTCGCACAGATGCCTTCGGGATCTTACTCCGGATT
* * *
47411422 TAGTAACTCACAC-GAATGCCTTC-GGATCTTAGTCCGGATA
1 TAGTAACTCGCACAG-ATGCCTTCGGGATCTTACTCCGGATT
* * *
47411462 TAGTCACTTAGCACA-AAGCCTTCGGGA-CTTA
1 TAGTAAC-TCGCACAGATGCCTTCGGGATCTTA
47411493 GCCCGGACAT
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 5 0.05
40 82 0.87
41 7 0.07
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (41 bp):
TAGTAACTCGCACAGATGCCTTCGGGATCTTACTCCGGATT
Found at i:47411460 original size:80 final size:80
Alignment explanation
Indices: 47411321--47411499 Score: 181
Period size: 80 Copynumber: 2.2 Consensus size: 80
47411311 GTTCAAACGC
* * * *
47411321 CTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAGATGCCTTCGGGACTTAACTCGGATTTAG
1 CTTCGGGACTTAGCCCGGATT-TAGTAACTCACACAGATGCCTTCGGGACTTAACTCGGATATAG
*
47411385 TAAC-TCGCACAAATGA
65 TAACTTAGCACAAA-GA
* *
47411401 CTTC-GGATCTTAGTCCGGATTTAGTAACTCACAC-GAATGCCTTC-GGATCTT-AGTCCGGATA
1 CTTCGGGA-CTTAGCCCGGATTTAGTAACTCACACAG-ATGCCTTCGGGA-CTTAACT-CGGATA
* *
47411462 TAGTCACTTAGCACAAAGC
62 TAGTAACTTAGCACAAAGA
47411481 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
47411500 CATCATTCGA
Statistics
Matches: 82, Mismatches: 10, Indels: 14
0.77 0.09 0.13
Matches are distributed among these distances:
79 9 0.11
80 60 0.73
81 13 0.16
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATTTAGTAACTCACACAGATGCCTTCGGGACTTAACTCGGATATAGT
AACTTAGCACAAAGA
Found at i:47411493 original size:40 final size:39
Alignment explanation
Indices: 47411314--47411499 Score: 144
Period size: 40 Copynumber: 4.6 Consensus size: 39
47411304 GCTACTCGTT
* * * *
47411314 CAAACGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * * *
47411354 CAGATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CA-AAGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * *
47411394 CAAATGACTTC-GGATCTTAGTCCGGATTTAGTAACTCA-CA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATATAGTAACT-AGCA
* * *
47411434 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
47411475 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
47411500 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 16
0.77 0.12 0.10
Matches are distributed among these distances:
39 4 0.03
40 105 0.88
41 10 0.08
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:47423183 original size:24 final size:24
Alignment explanation
Indices: 47423151--47423333 Score: 267
Period size: 24 Copynumber: 7.6 Consensus size: 24
47423141 TATCTCAAAT
*
47423151 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
47423175 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
47423199 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
*
47423223 GCACTAAGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
47423247 GCACTAAGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
* *
47423271 GCACTAAGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* * *
47423295 GCACTACGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
47423319 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
47423334 ACATAATAAG
Statistics
Matches: 152, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 152 1.00
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.33
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:47423346 original size:48 final size:48
Alignment explanation
Indices: 47423151--47423355 Score: 171
Period size: 48 Copynumber: 4.3 Consensus size: 48
47423141 TATCTCAAAT
* * * * * * *
47423151 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGA-TTCACTATG
1 GCACTAAGTGTGCGATTTACTATAGCACTAAGTGTGCGACAT-AATATA
* * * ** * *
47423199 GCACTATGTGTGCGATTCACTATGGCACTAAGTGTGCGATTTACTATG
1 GCACTAAGTGTGCGATTTACTATAGCACTAAGTGTGCGACATAATATA
* ** *
47423247 GCACTAAGTGTGCGATTTACTATGGCACTAAGTGTGCGATTTACTATA
1 GCACTAAGTGTGCGATTTACTATAGCACTAAGTGTGCGACATAATATA
* * * *
47423295 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATA-A
1 GCACTAAGTGTGCGATTTACTATAGCACTAAGTGTGCG-ACATAATATA
*
47423343 GCACTATGTGTGC
1 GCACTAAGTGTGC
47423356 CACATTCGGT
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
48 135 0.95
49 7 0.05
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (48 bp):
GCACTAAGTGTGCGATTTACTATAGCACTAAGTGTGCGACATAATATA
Found at i:47423347 original size:72 final size:72
Alignment explanation
Indices: 47423151--47423355 Score: 227
Period size: 72 Copynumber: 2.8 Consensus size: 72
47423141 TATCTCAAAT
* * *
47423151 GCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGATTCACT-AT-GGCACTATGTGTGCGA
1 GCACTAAGTGTGCGATTTACTATGGCACTATGTGTGCGA-ACA-TAATAGGCACTATGTGTGCGA
*
47423214 TTCACTATG
64 TTCACTATA
* ** * *
47423223 GCACTAAGTGTGCGATTTACTATGGCACTAAGTGTGCG-ATTTACTATGGCACTAAGTGTGCGAT
1 GCACTAAGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-GGCACTATGTGTGCGAT
*
47423287 TTACTATA
65 TCACTATA
* * * * *
47423295 GCACTACGTGTGCGATTTGCTATAGCTCTATGTGTGCGAACATAATAAGCACTATGTGTGC
1 GCACTAAGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGC
47423356 CACATTCGGT
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
69 1 0.01
70 1 0.01
72 102 0.94
73 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (72 bp):
GCACTAAGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAGGCACTATGTGTGCGATT
CACTATA
Found at i:47426507 original size:40 final size:40
Alignment explanation
Indices: 47426470--47426655 Score: 146
Period size: 40 Copynumber: 4.7 Consensus size: 40
47426460 GCTACTCGTT
* *
47426470 CAAATGTCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* * *
47426510 CAGATGCCTTCGGGACTTAACTCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* ** *
47426550 CAAATGCCTTC-GGATCTTAGTCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAACTCGCA
* * ** * * *
47426590 CGAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
47426631 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
47426656 CATCATTCAA
Statistics
Matches: 125, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 110 0.88
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:47438848 original size:29 final size:29
Alignment explanation
Indices: 47438802--47438907 Score: 131
Period size: 29 Copynumber: 3.7 Consensus size: 29
47438792 TGACTGTGAC
* *
47438802 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* * *
47438831 TGGCCCTAATGGGCCATATACAGGTGGTT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
* * *
47438860 TGGGACTAATGGGCCATATACAGGTGGTT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
47438889 TGGGCCTAATGGGCTATAT
1 TGGGCCTAATGGGCCATAT
47438908 GAATATGATT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:47447841 original size:42 final size:42
Alignment explanation
Indices: 47447794--47447876 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
47447784 TCAAACATGG
47447794 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCCA
1 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCCA
47447836 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCC
1 TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCC
47447877 CCAAATTTAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.05, G:0.17, T:0.48
Consensus pattern (42 bp):
TAAGTTGATTTTTGAGAATTAAAAATTTTTAGGTTGTTTCCA
Done.