Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 190 of 425
Found at i:57632770 original size:40 final size:40
Alignment explanation
Indices: 57632608--57632775 Score: 153
Period size: 40 Copynumber: 4.2 Consensus size: 40
57632598 TGAATGATAC
* * * *
57632608 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
57632648 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
** * * ** *
57632688 CCGGGCTAAGACCCGAAGGCGTTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
** * *
57632728 CCGGATTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
57632768 CC-GGCTAA
1 CCGGGCTAA
57632776 ATTCCGAAGA
Statistics
Matches: 100, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
39 7 0.07
40 89 0.89
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:57639986 original size:47 final size:47
Alignment explanation
Indices: 57639914--57640165 Score: 362
Period size: 47 Copynumber: 5.3 Consensus size: 47
57639904 CCCTTCGGGA
* * * * * * *
57639914 CTTATCACATTTATACACTTCCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
57639961 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57640008 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57640055 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
57640104 CTTATCACATATATACACTCAT-ACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
57640151 CTTATCACATATATA
1 CTTATCACATATATA
57640166 TATCTCATAC
Statistics
Matches: 190, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
47 143 0.75
48 1 0.01
49 46 0.24
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57639992 original size:25 final size:25
Alignment explanation
Indices: 57639964--57640042 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
57639954 ACTCGGCCCT
*
57639964 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
57639989 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
57640011 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
57640036 ATCACAT
1 ATCACAT
57640043 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:57640111 original size:96 final size:95
Alignment explanation
Indices: 57639914--57640165 Score: 366
Period size: 96 Copynumber: 2.7 Consensus size: 95
57639904 CCCTTCGGGA
* * * * * * *
57639914 CTTATCACATTTATACA-CTTCCACATCCATCACGTTGGCCACTCGGCCCTATCACATATAT-AC
1 CTTATCACATATATACACCTT-CACATTCATCACATCGGCCATTAGGCCTTATCACATATATAAC
* *
57639977 ACTTTCACATTCATCACATTGGCCATTCGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
57640008 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-AC
57640073 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
*
57640104 CTTATCACATATATACACTCAT-ACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 CTTATCACATATATACAC-CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
57640166 TATCTCATAC
Statistics
Matches: 144, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
94 50 0.35
95 3 0.02
96 89 0.62
97 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.31
Consensus pattern (95 bp):
CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57644476 original size:28 final size:28
Alignment explanation
Indices: 57644392--57644476 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
57644382 ATGCCTGTTG
* *
57644392 ATTCATTAGATATTTTGCACACTAAGTGCC
1 ATTC-TTA-ATATTTCGCACACTAAGTGTC
* *
57644422 ATTCTCAATATCTCGCACACTAAGTGTC
1 ATTCTTAATATTTCGCACACTAAGTGTC
57644450 ATTCTTAATATTTCGCACACTAAGTGT
1 ATTCTTAATATTTCGCACACTAAGTGT
57644477 TATATTTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 43 0.88
29 2 0.04
30 4 0.08
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (28 bp):
ATTCTTAATATTTCGCACACTAAGTGTC
Found at i:57644953 original size:27 final size:30
Alignment explanation
Indices: 57644913--57644967 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
57644903 AGCTAGCCAA
*
57644913 ATTTTCCATATA-TT-AC-TTTCAACCCAT
1 ATTTTCAATATATTTCACATTTCAACCCAT
*
57644940 ATTTTCAATTTATTTCACATTTCAACCC
1 ATTTTCAATATATTTCACATTTCAACCC
57644968 CTCAATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 10 0.43
28 2 0.09
29 2 0.09
30 9 0.39
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.45
Consensus pattern (30 bp):
ATTTTCAATATATTTCACATTTCAACCCAT
Found at i:57645787 original size:19 final size:19
Alignment explanation
Indices: 57645749--57645789 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
57645739 TGATTTTCTT
57645749 TCACTAGCCTCATCAATTTC
1 TCACTAGCCTCA-CAATTTC
57645769 TCACATAGCCTCA-AATTTC
1 TCAC-TAGCCTCACAATTTC
57645788 TC
1 TC
57645790 TACTTTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 4 0.20
21 8 0.40
ACGTcount: A:0.27, C:0.34, G:0.05, T:0.34
Consensus pattern (19 bp):
TCACTAGCCTCACAATTTC
Found at i:57647738 original size:40 final size:40
Alignment explanation
Indices: 57647683--57647860 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
57647673 TGAATGATAC
* *
57647683 CCGGGTTAA-ATCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGA-CCCGAAGGCAATTGTGCTAGTGATTATAT
* *
57647723 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGTTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * *
57647763 CCGGGTTAAGACCCGAAGGCAATTGTGCAAGTTACTAAAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
57647803 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGT-AGTTATAT
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGA-TTATAT
57647843 CC-GGTTAA-ATCCCGAAGG
1 CCGGGTTAAGA-CCCGAAGG
57647861 TACGTGACTC
Statistics
Matches: 118, Mismatches: 13, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
38 1 0.01
39 18 0.15
40 93 0.79
41 6 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:57647816 original size:80 final size:80
Alignment explanation
Indices: 57647683--57647860 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
57647673 TGAATGATAC
* * * *
57647683 CCGGGTTAAATCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGTTAAATCCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT-
*
57647747 GTGCGAGTTGTTATAT
65 GTGCGAGTAGTTATAT
* * *
57647763 CCGGGTTAAGA-CCCGAAGGCAATTGTGCAAGTTACTAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGTTAA-ATCCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATT
**
57647827 GTGCTTGTAGTTATAT
65 GTGCGAGTAGTTATAT
57647843 CC-GGTTAAATCCCGAAGG
1 CCGGGTTAAATCCCGAAGG
57647861 TACGTGACTC
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 14 0.16
80 66 0.78
81 4 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (80 bp):
CCGGGTTAAATCCCGAAGGCAATTATGCAAGTGACTAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTAGTTATAT
Found at i:57654442 original size:16 final size:16
Alignment explanation
Indices: 57654409--57654443 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
57654399 GACCGGTAGG
**
57654409 AAGACGAAAAGCTGAA
1 AAGACGAAAAGCCAAA
57654425 AAGACGAAAAGCCAAA
1 AAGACGAAAAGCCAAA
57654441 AAG
1 AAG
57654444 TGAGTTGTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.14, G:0.23, T:0.03
Consensus pattern (16 bp):
AAGACGAAAAGCCAAA
Found at i:57655193 original size:34 final size:32
Alignment explanation
Indices: 57655115--57655196 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 32
57655105 CTTTGTTTAC
57655115 ATACTGTACTGAAATGGGCTCAGGCCCAGACT
1 ATACTGTACTGAAATGGGCTCAGGCCCAGACT
* * *
57655147 ACTTCTGCTACTGAAATGGGCTTAGGTCCAGACT
1 A-TACTG-TACTGAAATGGGCTCAGGCCCAGACT
57655181 GATACTGTTACTGAAA
1 -ATACTG-TACTGAAA
57655197 AAGGGGCTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 1 0.02
33 4 0.10
34 36 0.86
35 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (32 bp):
ATACTGTACTGAAATGGGCTCAGGCCCAGACT
Found at i:57661018 original size:40 final size:40
Alignment explanation
Indices: 57660933--57661083 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
57660923 AATTGAATGA
* * *
57660933 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
57660973 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
57661014 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
57661053 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57661084 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:57661097 original size:40 final size:40
Alignment explanation
Indices: 57660969--57661099 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
57660959 TATGCTGGAA
* * *
57660969 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
57661009 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
57661049 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
57661089 ATTATATCCGG
1 ATTATATCCGG
57661100 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:57674143 original size:40 final size:39
Alignment explanation
Indices: 57674098--57674191 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
57674088 CTCGGTATCA
*
57674098 CACACTTAGTGCCTCA-TATAGCCAAAGCTATTCCAACTCG
1 CACACTTAGTGCCT-ATTATAGCCAAAGCTATTCCAA-ACG
* **
57674138 CACACTTAGTG-CTATTTATAGCCAAAGCTGTTTGAAACG
1 CACACTTAGTGCCTA-TTATAGCCAAAGCTATTCCAAACG
57674177 CACACTTAGTGCCTA
1 CACACTTAGTGCCTA
57674192 ACATAGTCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.02
39 15 0.32
40 31 0.66
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (39 bp):
CACACTTAGTGCCTATTATAGCCAAAGCTATTCCAAACG
Found at i:57679360 original size:61 final size:61
Alignment explanation
Indices: 57679265--57679385 Score: 224
Period size: 61 Copynumber: 2.0 Consensus size: 61
57679255 GCGTAAAGTG
*
57679265 TAAAAGTTGTGTTCTATAAGCTAAAGGTGTCAAATAGCTATAGAACTTAAAAGTTAAGGTC
1 TAAAAGTTGTGTTCTATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAAGTTAAGGTC
*
57679326 TAAAAGTTGTGTTCTATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAATTTAAGGT
1 TAAAAGTTGTGTTCTATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAAGTTAAGGT
57679386 TCTTAAGTGG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.31
Consensus pattern (61 bp):
TAAAAGTTGTGTTCTATAAGCTAAAGGCGTCAAATAGCTATAGAACTTAAAAGTTAAGGTC
Found at i:57681398 original size:28 final size:28
Alignment explanation
Indices: 57681366--57681464 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
57681356 GCAATAAGCC
*
57681366 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
57681394 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
57681422 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
57681451 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57681465 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:57689082 original size:28 final size:28
Alignment explanation
Indices: 57689050--57689148 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
57689040 GCAATAAGCC
*
57689050 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
57689078 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
57689106 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
57689135 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57689149 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:57690990 original size:43 final size:43
Alignment explanation
Indices: 57690858--57691080 Score: 292
Period size: 43 Copynumber: 5.2 Consensus size: 43
57690848 ATTTGAGACC
*
57690858 CTAAGTGTGCGATA-AATTAAATAG-CTACGGCTAATTAATTGGCA
1 CTAAGTGTGAGATACAATT--ATAGCCT-CGGCTAATTAATTGGCA
*
57690902 CTAAGTGTCCAG-TACAATTATAGCCTC-GCTAATTAATTGGCA
1 CTAAGTGT-GAGATACAATTATAGCCTCGGCTAATTAATTGGCA
57690944 CTAAGTGTGAGATACAATTATAGCCTCGGCTAATTAATTGGCA
1 CTAAGTGTGAGATACAATTATAGCCTCGGCTAATTAATTGGCA
* * *
57690987 CTAAGTGTGTGATGCAATTATAGCTTCGGCTAATTAATTGGCA
1 CTAAGTGTGAGATACAATTATAGCCTCGGCTAATTAATTGGCA
* * * * *
57691030 CTAAGTGTGCGATACAATTATAGCTTCAGCTAATTAATCGACA
1 CTAAGTGTGAGATACAATTATAGCCTCGGCTAATTAATTGGCA
57691073 CTAAGTGT
1 CTAAGTGT
57691081 ATGAGTTAGT
Statistics
Matches: 163, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
41 2 0.01
42 38 0.23
43 106 0.65
44 12 0.07
45 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (43 bp):
CTAAGTGTGAGATACAATTATAGCCTCGGCTAATTAATTGGCA
Found at i:57695982 original size:39 final size:39
Alignment explanation
Indices: 57695928--57696090 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
57695918 TGTGAATGAA
57695928 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
57695967 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
57696006 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * **
57696045 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCGTT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
57696085 TGTGCG
1 TGTGCG
57696091 GGTTACCATA
Statistics
Matches: 115, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 99 0.86
40 16 0.14
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:57700549 original size:43 final size:43
Alignment explanation
Indices: 57700493--57700690 Score: 301
Period size: 43 Copynumber: 4.6 Consensus size: 43
57700483 AGTAGCTACG
57700493 GCTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCA
1 GCTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCA
*
57700536 GCTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCG
1 GCTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCA
* * * *
57700579 GGTAATTAATTGGAACTAAGTGTACGATACAATTATAGCTTC-
1 GCTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCA
*
57700621 GACTAATTAATTGGCACTAAGTGTGCGATACAATTATAG-TTCA
1 G-CTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCA
* *
57700664 GCTAATTAATCGGCACTAAGTCTGCGA
1 GCTAATTAATTGGCACTAAGTGTGCGA
57700691 GTTAGTTGAA
Statistics
Matches: 143, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
42 28 0.20
43 115 0.80
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (43 bp):
GCTAATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCA
Found at i:57701697 original size:34 final size:33
Alignment explanation
Indices: 57701657--57701779 Score: 114
Period size: 34 Copynumber: 3.8 Consensus size: 33
57701647 TCTGTTTGCA
57701657 TACTATTACTGTAAAGGGCTCAGGCCCAGACTAC
1 TACTATTACTG-AAAGGGCTCAGGCCCAGACTAC
* * * * *
57701691 TACTATTACTGCAACGGGTTCAGGCCTAGATTGC
1 TACTATTACTG-AAAGGGCTCAGGCCCAGACTAC
* *
57701725 TACTGTTACTGAAATGGGCTAAGG-CC---CTA-
1 TACTATTACTGAAA-GGGCTCAGGCCCAGACTAC
57701754 -ACTATTACTGAAAGGGCTCAGGCCCA
1 TACTATTACTGAAAGGGCTCAGGCCCA
57701780 AATTGTGCTT
Statistics
Matches: 71, Mismatches: 15, Indels: 11
0.73 0.15 0.11
Matches are distributed among these distances:
27 8 0.11
28 14 0.20
30 1 0.01
33 3 0.04
34 45 0.63
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (33 bp):
TACTATTACTGAAAGGGCTCAGGCCCAGACTAC
Found at i:57710548 original size:25 final size:25
Alignment explanation
Indices: 57710453--57710537 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
57710443 ACAGCTCATA
* * *
57710453 AGAGCATACCGATTTATAGCTTGTA
1 AGAGCATACCAATTTACAGCTTGTG
* *
57710478 AGAGCATAGCAATTTACAGCTCGTG
1 AGAGCATACCAATTTACAGCTTGTG
*
57710503 AGAGCATATCAATTTACAGCTTGTG
1 AGAGCATACCAATTTACAGCTTGTG
*
57710528 TGAGCATACC
1 AGAGCATACC
57710538 GATTCATAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (25 bp):
AGAGCATACCAATTTACAGCTTGTG
Found at i:57710558 original size:50 final size:49
Alignment explanation
Indices: 57710442--57710561 Score: 123
Period size: 50 Copynumber: 2.4 Consensus size: 49
57710432 TGTTTCGACC
* * *
57710442 CACAGCTCATAAGAGCATACCGATTTATAGCTTGTAAGAGCATAGCAATT
1 CACAGCTCAT-AGAGCATACCAATTTACAGCTTGTAAGAGCATACCAATT
* * * ** *
57710492 TACAGCTCGTGAGAGCATATCAATTTACAGCTTGTGTGAGCATACCGATT
1 CACAGCTCAT-AGAGCATACCAATTTACAGCTTGTAAGAGCATACCAATT
*
57710542 CATAGCTCATATGAGCATAC
1 CACAGCTCATA-GAGCATAC
57710562 ATGTAGAGGA
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
49 1 0.02
50 54 0.98
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (49 bp):
CACAGCTCATAGAGCATACCAATTTACAGCTTGTAAGAGCATACCAATT
Found at i:57712688 original size:51 final size:51
Alignment explanation
Indices: 57712520--57712667 Score: 237
Period size: 52 Copynumber: 2.9 Consensus size: 51
57712510 ACTCGTGACC
* *
57712520 CAAGTGTGGTACTATGTGAAGGCCACTTTGAGAAG-AGATAG-TTTGGTCA
1 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
*
57712569 CAAGTATGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTCA
1 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
*
57712621 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTG
1 CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTG
57712668 ACTATAAGGG
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
49 32 0.35
51 17 0.19
52 42 0.46
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.29
Consensus pattern (51 bp):
CAAGTATGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:57712695 original size:51 final size:52
Alignment explanation
Indices: 57712526--57712697 Score: 194
Period size: 52 Copynumber: 3.4 Consensus size: 52
57712516 GACCCAAGTG
* *
57712526 TGGTACTATGTGAAGGCCAC-TT-TG-AGAAGAGATAG-TTTGGTCACAAGTA
1 TGGTACTATGTGAAGGCCACTTTATGAAGAA-AGATAGCTTTGCTCACAAGGA
* *
57712575 TGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGGTCACAAGTA
1 TGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGCTCACAAGGA
* * * *
57712627 TGGTACTATGTGAAGGCCACTTTGTGAAG-AAGGTAGCTTTGACT-ATAAGGG
1 TGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTG-CTCACAAGGA
**
57712678 TGGTACTATGTTCAGGCCAC
1 TGGTACTATGTGAAGGCCAC
57712698 CGAGTATCTG
Statistics
Matches: 110, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
49 20 0.18
50 2 0.02
51 41 0.37
52 47 0.43
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (52 bp):
TGGTACTATGTGAAGGCCACTTTATGAAGAAAGATAGCTTTGCTCACAAGGA
Found at i:57719582 original size:16 final size:18
Alignment explanation
Indices: 57719550--57719582 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
57719540 CTATGAGTGG
57719550 AATTACATGATTGATCTT
1 AATTACATGATTGATCTT
57719568 AATT-CATGA-TGATCT
1 AATTACATGATTGATCT
57719583 GATTTTACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
AATTACATGATTGATCTT
Found at i:57722091 original size:46 final size:47
Alignment explanation
Indices: 57721977--57722293 Score: 154
Period size: 47 Copynumber: 6.8 Consensus size: 47
57721967 GCCACATTAT
* *
57721977 GAGAGCCAGTGTAAGACCATGTCTAGGGCATGGCATCAGCATCCCGAC
1 GAGAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCAGCATACCGAC
* * * * *
57722025 GAGGGCTAGTGTAAGA-CATGTCTAGGACATGCATCAGTATACTG-T
1 GAGAGCCAGTGTAAGACCATGTCTAGGACATGCATCAGCATACCGAC
* * * * * ** *
57722070 GATAGCCAGTGTAAGACCATGTTTGGGACATGGCACCAGCAGAGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTAGGACAT-GCATCAGCATACCGAC
* * * * *
57722118 GAGAGCCAATGTAAGA-CATGTTTGGGACATGCATCGGCCT--CGAC
1 GAGAGCCAGTGTAAGACCATGTCTAGGACATGCATCAGCATACCGAC
* * * *
57722162 AGAGATAACCAGTGTAAGA-CATGTCTGGGACACGCATC-G-ACTA-AGA-
1 -GAG--AGCCAGTGTAAGACCATGTCTAGGACATGCATCAGCA-TACCGAC
* * * * * * *
57722208 GTTGTGCTAGTGTAAGA-CATGTTTGGGACATGCATCAGCAT-GCGTATAT
1 G-AGAGCCAGTGTAAGACCATGTCTAGGACATGCATCAGCATACCG---AC
* *
57722257 GAGAACCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGAGCCAGTGTAAGACCATGTCTAGGACAT-GCATC
57722294 GACAATATAT
Statistics
Matches: 208, Mismatches: 43, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
44 29 0.14
45 20 0.10
46 33 0.16
47 66 0.32
48 41 0.20
49 14 0.07
50 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTAGGACATGCATCAGCATACCGAC
Found at i:57722131 original size:93 final size:93
Alignment explanation
Indices: 57721980--57722152 Score: 222
Period size: 93 Copynumber: 1.9 Consensus size: 93
57721970 ACATTATGAG
* ** * * * *
57721980 AGCCAGTGTAAGACCATGTCTAGGGCATGGCATCAGCATCCCGACGAGGGCTAGTGTAAGACATG
1 AGCCAGTGTAAGACCATGTCTAGGGCATGGCACCAGCAGACAGACGAGAGCCAATGTAAGACATG
57722045 TCTAGGACATGCATCAGTATACTGTGAT
66 TCTAGGACATGCATCAGTATACTGTGAT
* * *
57722073 AGCCAGTGTAAGACCATGT-TTGGGACATGGCACCAGCAGAGAGATGAGAGCCAATGTAAGACAT
1 AGCCAGTGTAAGACCATGTCTAGGG-CATGGCACCAGCAGACAGACGAGAGCCAATGTAAGACAT
* *
57722137 GTTTGGGACATGCATC
65 GTCTAGGACATGCATC
57722153 GGCCTCGACA
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
92 4 0.06
93 63 0.94
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (93 bp):
AGCCAGTGTAAGACCATGTCTAGGGCATGGCACCAGCAGACAGACGAGAGCCAATGTAAGACATG
TCTAGGACATGCATCAGTATACTGTGAT
Found at i:57722178 original size:47 final size:46
Alignment explanation
Indices: 57722070--57722293 Score: 165
Period size: 47 Copynumber: 4.8 Consensus size: 46
57722060 AGTATACTGT
* *
57722070 GATAGCCAGTGTAAGACCATGTTTGGGACATGGCACCAG-C-AGAGAGA
1 GATAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCTCGA-AGA
* * *
57722117 TGAGAGCCAATGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGA
1 -GATAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGA-AGA
* * * *
57722165 GATAACCAGTGTAAGACATGTCTGGGACACGCATC-GACT--AAGA
1 GATAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAAGA
* * * *
57722208 GTTGTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCATGCGTATATGA
1 GAT-AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCT-CG-A-A-GA
*
57722259 GA-A-CCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GATAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATC
57722294 GACAATATAT
Statistics
Matches: 140, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
43 5 0.04
44 28 0.20
45 2 0.01
46 8 0.06
47 45 0.32
48 29 0.21
49 14 0.10
50 6 0.04
51 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (46 bp):
GATAGCCAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAAGA
Found at i:57722186 original size:140 final size:141
Alignment explanation
Indices: 57722032--57722294 Score: 331
Period size: 140 Copynumber: 1.9 Consensus size: 141
57722022 GACGAGGGCT
* * *
57722032 AGTGTAAGACATGTCTAGGACATGCATC-AGTATACTG-TGATAGCCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTAGGACACGCATCGACTA-ACAGTTG-T-GCCAGTGTAAGA-CATGTTTG
* *
57722095 GGACATGGCACCAGCA-GAG-AGATGAGAGCCAATGTAAGA-CATGTTTGGGACAT-GCATCGGC
62 GGACAT-GCACCAGCATGAGTAGATGAGAACCAATGTAAGACCATGTCTGGGACATGGCATCGGC
57722156 CTCGACAGAGATAACC
126 CTCGACAGAGATAACC
* * *
57722172 AGTGTAAGACATGTCTGGGACACGCATCGACTAAGAGTTGTGCTAGTGTAAGACATGTTTGGGAC
1 AGTGTAAGACATGTCTAGGACACGCATCGACTAACAGTTGTGCCAGTGTAAGACATGTTTGGGAC
* * * *
57722237 ATGCATCAGCATGCGTATATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCATCG
66 ATGCACCAGCATGAGTAGATGAGAACCAATGTAAGACCATGTCTGGGACATGGCATCG
57722295 ACAATATATC
Statistics
Matches: 105, Mismatches: 12, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
137 8 0.08
138 16 0.15
139 28 0.27
140 42 0.40
141 11 0.10
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTAGGACACGCATCGACTAACAGTTGTGCCAGTGTAAGACATGTTTGGGAC
ATGCACCAGCATGAGTAGATGAGAACCAATGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
CAGAGATAACC
Found at i:57722231 original size:91 final size:94
Alignment explanation
Indices: 57722029--57722296 Score: 252
Period size: 93 Copynumber: 2.9 Consensus size: 94
57722019 CCCGACGAGG
* * * * *
57722029 GCTAGTGTAAGACATGTCTAGGACATGCATCAGTATACTGT-GAT-AG--CCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCATGC-GTACATGAGAACCAGTGTAAGACCAT
* * * * *
57722090 GTTTGGGACATGGCA-CCAGC-AGAGAGATGAGA
65 GTCTGGGACATCGCATCGA-CTA-AGAG-T-TGT
* * * *
57722122 GCCAATGTAAGACATGTTTGGGACATGCATCGGCCT-CG-ACA-GAGATAACCAGTGTAAGA-CA
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCATGCGTACATGAG--AACCAGTGTAAGACCA
57722183 TGTCTGGGACA-CGCATCGACTAAGAGTTGT
64 TGTCTGGGACATCGCATCGACTAAGAGTTGT
*
57722213 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCATGCGTATATGAGAACCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCATGCGTACATGAGAACCAGTGTAAGACCATG
*
57722278 TCTGGGACATGGCATCGAC
66 TCTGGGACATCGCATCGAC
57722297 AATATATCCC
Statistics
Matches: 143, Mismatches: 19, Indels: 25
0.76 0.10 0.13
Matches are distributed among these distances:
91 37 0.26
92 17 0.12
93 52 0.36
94 26 0.18
95 11 0.08
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATCAGCATGCGTACATGAGAACCAGTGTAAGACCATG
TCTGGGACATCGCATCGACTAAGAGTTGT
Found at i:57729614 original size:94 final size:93
Alignment explanation
Indices: 57729460--57729804 Score: 323
Period size: 94 Copynumber: 3.7 Consensus size: 93
57729450 GTGTAAAATG
* * * * * *
57729460 TGTCTAGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGGCATGGCATT
1 TGTCTAGGACATGCATCAGCCATACTATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATT
* *
57729525 GGCATCCAGACGAGGGCTAGTGTAAGACA
66 GGCATCAAGA-GAGTGCTAGTGTAAGACA
* * *
57729554 TGTCTAGGACATGCATCAGCCATACTATGATAGCCAATGTAAGACCATGTCTAGGACATGGCACT
1 TGTCTAGGACATGCATCAGCCATACTATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATT
*
57729619 GGCA-CAGAGATGAGTGCCAGTGTAAGACA
66 GGCATCA-AGA-GAGTGCTAGTGTAAGACA
* * *
57729648 TGTCTGGGACATGCATCGGCC-TCGAC-A-GAGATAG-CAAGTGTAAGA-CATGTCTGGGACA-C
1 TGTCTAGGACATGCATCAGCCAT--ACTATGAG--AGCCAA-TGTAAGACCATGTCTGGGACATG
* * *
57729707 GTATCGGC-T-AAGAGTTGTGCTAGTGTAAGACA
61 GCATTGGCATCAAGAG-AGTGCTAGTGTAAGACA
* * *
57729739 TGTCTGGGACATGCATCAGCACACGTA-TATGAGAACCAGTGTAAGACCATGTCTGGGACATGGC
1 TGTCTAGGACATGCATCAGC-CA--TACTATGAGAGCCAATGTAAGACCATGTCTGGGACATGGC
57729803 AT
63 AT
57729805 CGACAATATA
Statistics
Matches: 206, Mismatches: 28, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
90 1 0.00
91 37 0.18
92 10 0.05
93 26 0.13
94 120 0.58
95 12 0.06
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (93 bp):
TGTCTAGGACATGCATCAGCCATACTATGAGAGCCAATGTAAGACCATGTCTGGGACATGGCATT
GGCATCAAGAGAGTGCTAGTGTAAGACA
Found at i:57729650 original size:47 final size:47
Alignment explanation
Indices: 57729460--57729804 Score: 159
Period size: 47 Copynumber: 7.4 Consensus size: 47
57729450 GTGTAAAATG
* * *
57729460 TGTCTAGGACAT-GCTTCGGC-CACATTATGAGAGCCAGTGTAAGACCA
1 TGTCTAGGACATGGCAT-GGCACACA-GATGAGTGCCAGTGTAAGACCA
* * * * *
57729507 TGTCTGGGGCATGGCATTGGCATC-CAGACGAGGGCTAGTGTAAGA-CA
1 TGTCTAGGACATGGCA-TGGCA-CACAGATGAGTGCCAGTGTAAGACCA
* * * *
57729554 TGTCTAGGACAT-GCATCAGC-CATACTATGA-TAGCCAATGTAAGACCA
1 TGTCTAGGACATGGCAT-GGCACACA-GATGAGT-GCCAGTGTAAGACCA
*
57729601 TGTCTAGGACATGGCACTGGCACAGAGATGAGTGCCAGTGTAAGA-CA
1 TGTCTAGGACATGGCA-TGGCACACAGATGAGTGCCAGTGTAAGACCA
* * *
57729648 TGTCTGGGACAT-GCATCGGCCTCGACAGA-GA-TAGCAAGTGTAAGA-CA
1 TGTCTAGGACATGGCAT-GG-CAC-ACAGATGAGT-GCCAGTGTAAGACCA
* * * * * *
57729695 TGTCTGGGACA-CGTATCGGC-TA-AGA-GTTGTGCTAGTGTAAGA-CA
1 TGTCTAGGACATGGCAT-GGCACACAGATG-AGTGCCAGTGTAAGACCA
* * * **
57729739 TGTCTGGGACAT-GCATCAGCACACGTATATGAGAACCAGTGTAAGACCA
1 TGTCTAGGACATGGCAT-GGCACAC--AGATGAGTGCCAGTGTAAGACCA
*
57729788 TGTCTGGGACATGGCAT
1 TGTCTAGGACATGGCAT
57729805 CGACAATATA
Statistics
Matches: 234, Mismatches: 36, Indels: 53
0.72 0.11 0.16
Matches are distributed among these distances:
43 4 0.02
44 32 0.14
45 5 0.02
46 25 0.11
47 83 0.35
48 57 0.24
49 23 0.10
50 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (47 bp):
TGTCTAGGACATGGCATGGCACACAGATGAGTGCCAGTGTAAGACCA
Found at i:57729805 original size:141 final size:143
Alignment explanation
Indices: 57729460--57729806 Score: 367
Period size: 141 Copynumber: 2.5 Consensus size: 143
57729450 GTGTAAAATG
* * *
57729460 TGTCTAGGACATGCTTCGGC-CACAT-TATGAGAGCCAGTGTAAGACCATGTCTGGGGCATGGCA
1 TGTCTAGGACATGCATCGGCACACGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
* * * * * *
57729523 TTGGCATCCAGACGAGGGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCATACTATGATAGC
66 TCGGCATCCAGACGAGAGCAAGTGTAAGACATGTCTAGGACACGCATCAGCAAGACTATGATAGC
57729588 CAATGTAAGACCA
131 CAATGTAAGACCA
* *
57729601 TGTCTAGGACATGGCA-CTGGCACA-G-AGATGAGTGCCAGTGTAAGA-CATGTCTGGGACAT-G
1 TGTCTAGGACAT-GCATC-GGCACACGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGG
* * * * * *
57729661 CATCGGCCTCGACAGA-GATAGCAAGTGTAAGACATGTCTGGGACACGTATCGGCTAAGAGT-TG
64 CATCGGCATC--CAGACGAGAGCAAGTGTAAGACATGTCTAGGACACGCATCAGC-AAGACTATG
* *
57729724 -T-GCTAGTGTAAGA-CA
126 ATAGCCAATGTAAGACCA
* * *
57729739 TGTCTGGGACATGCATCAGCACACGTATATGAGAACCAGTGTAAGACCATGTCTGGGACATGGCA
1 TGTCTAGGACATGCATCGGCACACGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
57729804 TCG
66 TCG
57729807 ACAATATATC
Statistics
Matches: 170, Mismatches: 24, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
137 8 0.05
138 15 0.09
139 27 0.16
140 24 0.14
141 65 0.38
142 29 0.17
143 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (143 bp):
TGTCTAGGACATGCATCGGCACACGTATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCA
TCGGCATCCAGACGAGAGCAAGTGTAAGACATGTCTAGGACACGCATCAGCAAGACTATGATAGC
CAATGTAAGACCA
Found at i:57733670 original size:40 final size:39
Alignment explanation
Indices: 57733625--57733754 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
57733615 CGGAATACAA
57733625 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* **
57733665 CCGGATAGAATGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * *
57733705 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
57733745 CCGGATATAA
1 CCGGATATAA
57733755 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:57745548 original size:28 final size:28
Alignment explanation
Indices: 57745483--57745583 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
57745473 ATAGTGAATC
*
57745483 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
57745512 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57745540 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
57745570 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57745584 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57747772 original size:40 final size:39
Alignment explanation
Indices: 57747607--57747790 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
57747597 GAAATTGATG
* * *
57747607 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
57747647 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
57747687 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
57747727 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
57747766 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
57747791 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:57747815 original size:80 final size:81
Alignment explanation
Indices: 57747647--57747835 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
57747637 GCTGGAAATT
* * * *
57747647 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
57747712 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
57747728 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
57747791 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
57747807 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
57747836 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:57755881 original size:40 final size:39
Alignment explanation
Indices: 57755716--57755899 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
57755706 AAATTGAATG
* * *
57755716 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
57755756 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
57755796 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
57755836 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
57755875 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
57755900 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:57755924 original size:80 final size:81
Alignment explanation
Indices: 57755756--57755944 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
57755746 GCTGGAAATT
* * * *
57755756 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
57755821 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
57755837 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
57755900 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
57755916 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
57755945 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:57758573 original size:43 final size:44
Alignment explanation
Indices: 57758488--57758582 Score: 117
Period size: 43 Copynumber: 2.2 Consensus size: 44
57758478 CATTTGGGGC
*
57758488 GTTGGCATCGATTTGTGATTTACGTGTAAGACCCTGTCTGGGAT
1 GTTGGCATCGATATGTGATTTACGTGTAAGACCCTGTCTGGGAT
*
57758532 AG-TGGCATCGATAAT-TGA-TTACGTGTAAGACCAC-GTTTGGGAT
1 -GTTGGCATCGAT-ATGTGATTTACGTGTAAGACC-CTGTCTGGGAT
57758575 GTTGGCAT
1 GTTGGCAT
57758583 TGTATAAGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
42 1 0.02
43 28 0.62
44 14 0.31
45 2 0.04
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (44 bp):
GTTGGCATCGATATGTGATTTACGTGTAAGACCCTGTCTGGGAT
Found at i:57760551 original size:40 final size:40
Alignment explanation
Indices: 57760468--57760620 Score: 143
Period size: 40 Copynumber: 3.8 Consensus size: 40
57760458 TCGAATGATG
* *
57760468 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
57760508 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* **
57760548 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
57760589 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57760621 CGCTATATCC
Statistics
Matches: 94, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
39 2 0.02
40 81 0.86
41 11 0.12
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:57767706 original size:40 final size:40
Alignment explanation
Indices: 57767623--57767734 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 40
57767613 TCGAATGATG
* *
57767623 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
57767663 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
*
57767703 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
57767735 CTATTATAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 53 0.85
41 8 0.13
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:57767748 original size:40 final size:40
Alignment explanation
Indices: 57767623--57767767 Score: 129
Period size: 40 Copynumber: 3.6 Consensus size: 40
57767613 TCGAATGATG
* *
57767623 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACCAAA
* * *
57767663 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGCTACCAAA
* **
57767703 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCA-AA
* *
57767744 -CCGGGCTATGTCCC-AAGGCTTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57767768 AGTGAGTCGC
Statistics
Matches: 87, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
39 10 0.11
40 66 0.76
41 11 0.13
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACCAAA
Found at i:57771650 original size:47 final size:49
Alignment explanation
Indices: 57771533--57771707 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
57771523 AACCCGCCCC
* * * *
57771533 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
57771578 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
57771626 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
57771671 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
57771708 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:57771696 original size:93 final size:92
Alignment explanation
Indices: 57771538--57771707 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
57771528 GCCCCTAAGT
*
57771538 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
57771603 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
57771630 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57771695 CGAGTTCGGATGC
65 CGAGTTCGGATGC
57771708 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57772159 original size:30 final size:30
Alignment explanation
Indices: 57772125--57772184 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57772115 ATTTAATACG
57772125 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
57772155 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
57772185 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:57781120 original size:49 final size:49
Alignment explanation
Indices: 57781018--57781652 Score: 1042
Period size: 49 Copynumber: 13.1 Consensus size: 49
57781008 GTACATAATA
* *
57781018 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTGTAT
* *
57781069 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
57781118 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
57781167 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
57781216 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
*
57781265 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
57781314 ATATA--TGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* * *
57781361 ATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
57781410 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTGTAT
57781461 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
57781510 ATATATGTGATAAGGCC---T-------GTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
* *
57781549 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
57781598 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
57781647 ATATAT
1 ATATAT
57781653 ATGTGGTAAA
Statistics
Matches: 553, Mismatches: 17, Indels: 30
0.92 0.03 0.05
Matches are distributed among these distances:
39 38 0.07
42 1 0.00
46 1 0.00
47 46 0.08
49 376 0.68
50 9 0.02
51 82 0.15
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
Found at i:57781358 original size:145 final size:146
Alignment explanation
Indices: 57781018--57781652 Score: 1033
Period size: 145 Copynumber: 4.4 Consensus size: 146
57781008 GTACATAATA
* *
57781018 ATATAT-GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATATGTGATAA
1 ATATATAGTGATAAGGCCTAATGGCCGACGTGATGAATGTG-AAA-GTGTATATATATGTGATAA
* *
57781082 GGCCTAATGGCCGACGTGATGAATGTGAAAATATATATATATGTGATAAGGCCTAATGGCCGACG
64 GGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATG
57781147 TGATGAATGTGAAAGTGT
129 TGATGAATGTGAAAGTGT
57781165 ATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 ATATATA-GTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAG
*
57781230 GCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
65 GCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGT
57781295 GATGAATGTGAAAGTGT
130 GATGAATGTGAAAGTGT
57781312 ATATATA-TGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 ATATATAGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
* *
57781376 CCTAATGGCTGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTG
66 CCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTG
*
57781441 ATGAATGTGAAAATGTAT
131 ATGAATGTG-AAA-GTGT
57781459 ATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 ATATATA-GTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAG
*
57781524 GCC---T-------GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
65 GCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGT
*
57781579 GATGAATGTGAAAATGT
130 GATGAATGTGAAAGTGT
57781596 ATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATATATA-GTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
57781653 ATGTGGTAAA
Statistics
Matches: 470, Mismatches: 12, Indels: 22
0.93 0.02 0.04
Matches are distributed among these distances:
137 59 0.13
138 3 0.01
139 60 0.13
145 128 0.27
146 4 0.01
147 121 0.26
148 3 0.01
149 92 0.20
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.30
Consensus pattern (146 bp):
ATATATAGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
CCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGT
Found at i:57781543 original size:39 final size:39
Alignment explanation
Indices: 57781489--57781566 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
57781479 AATGGCCGAC
57781489 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
57781528 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
1 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
57781567 AATGGCCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.33
Consensus pattern (39 bp):
GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
Found at i:57781572 original size:88 final size:90
Alignment explanation
Indices: 57781437--57781615 Score: 317
Period size: 88 Copynumber: 2.0 Consensus size: 90
57781427 TAATGGCCGA
57781437 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
*
57781502 AAGTGTATATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
* *
57781527 TGTGATGAATGTG-AAA-GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
57781590 AAATGTATATATATGTGATAAGGCC
66 AAATGTATATATATGTGATAAGGCC
57781615 T
1 T
57781616 AATGGCCGAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
88 70 0.81
89 3 0.03
90 13 0.15
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (90 bp):
TGTGATGAATGTGAAAATGTATATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGA
AAATGTATATATATGTGATAAGGCC
Found at i:57781776 original size:37 final size:36
Alignment explanation
Indices: 57781721--57781807 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
57781711 AACTTGGAAA
*
57781721 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGAGGAGAT
57781759 TATGTCCGGGTACGACCCGATGACTACGTGAGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGAGGAGAT
57781796 TATGTCCGGGTA
1 TATGTCCGGGTA
57781808 AGACTTCGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.89
38 4 0.09
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGAGGAGAT
Found at i:57783581 original size:93 final size:93
Alignment explanation
Indices: 57783422--57783592 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
57783412 GCCCCTAAAT
* * * * *
57783422 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57783487 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
57783515 GAACTCGGACTCAACTAAACGAGTTCGGACATTTGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57783580 CGAGTTCGGATGC
66 CGAGTTCGGATGC
57783593 TCAACCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTAAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:57783582 original size:46 final size:44
Alignment explanation
Indices: 57783421--57783589 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 44
57783411 CGCCCCTAAA
* * * * *
57783421 TGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCGTAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC-T-AG
* *
57783467 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-CTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCT-AG
* *
57783514 CGAACTCGGACTCAACTAAACGAGTTCGGACATTTGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCC-TA-G
57783560 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
57783590 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 1 0.01
46 55 0.54
47 28 0.28
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (44 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCTAG
Found at i:57784052 original size:30 final size:30
Alignment explanation
Indices: 57784018--57784077 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57784008 ATTTAATACG
57784018 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
57784048 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
57784078 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:57788050 original size:30 final size:30
Alignment explanation
Indices: 57788014--57788144 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
57788004 GACAAGATTG
* * * * *
57788014 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
57788044 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
57788072 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
57788102 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
57788131 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57788145 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:57788105 original size:58 final size:58
Alignment explanation
Indices: 57788014--57788144 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
57788004 GACAAGATTG
* * * * * *
57788014 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
57788072 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
57788131 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57788145 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:57796007 original size:30 final size:30
Alignment explanation
Indices: 57795971--57796101 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
57795961 GACAAGATTG
* * * * *
57795971 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
57796001 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
57796029 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
57796059 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
57796088 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57796102 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:57796062 original size:58 final size:58
Alignment explanation
Indices: 57795971--57796101 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
57795961 GACAAGATTG
* * * * * *
57795971 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
57796029 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
57796088 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
57796102 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:57806151 original size:30 final size:30
Alignment explanation
Indices: 57806115--57806174 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
57806105 ATACGGGTTA
*
57806115 GAAGAAGCCACCTGGGAACTTGAGGAAGCT
1 GAAGAAGCCACCTGGGAACTCGAGGAAGCT
*
57806145 GAAGAAGCCACTTGGGAACTCGAGGAAGCT
1 GAAGAAGCCACCTGGGAACTCGAGGAAGCT
57806175 ATGAGAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.13
Consensus pattern (30 bp):
GAAGAAGCCACCTGGGAACTCGAGGAAGCT
Found at i:57811650 original size:41 final size:40
Alignment explanation
Indices: 57811523--57811667 Score: 195
Period size: 40 Copynumber: 3.6 Consensus size: 40
57811513 CTCGCACAAG
* * * *
57811523 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
57811563 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* *
57811603 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAT
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCAC-AAAT
57811645 -CCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
57811668 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 23 0.25
42 7 0.08
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:57817158 original size:40 final size:39
Alignment explanation
Indices: 57817070--57817208 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 39
57817060 GGACTAGGAT
* * *
57817070 CCGAAGGCATTCGTGCGAGATAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
* * *
57817109 CCGAGGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCGGGTTAAGTC
* * *
57817149 CCAAAGGCATTCGTGCGAGTCACTATAACCGGGCTT-CGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCGGG-TTAAGTC
* *
57817189 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
57817209 CGTTATATCC
Statistics
Matches: 81, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
39 31 0.38
40 46 0.57
41 4 0.05
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCGGGTTAAGTC
Found at i:57823511 original size:15 final size:16
Alignment explanation
Indices: 57823483--57823512 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
57823473 TATTTTGGTT
57823483 TAAATATAATTTTTTA
1 TAAATATAATTTTTTA
57823499 TAAATAT-ATTTTTT
1 TAAATATAATTTTTT
57823513 CTACATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAAATATAATTTTTTA
Found at i:57826806 original size:16 final size:17
Alignment explanation
Indices: 57826782--57826815 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
57826772 AGTCTGCCTT
*
57826782 AAAATGAAAATC-TGAA
1 AAAAAGAAAATCTTGAA
57826798 AAAAAGAAAATCTTGAA
1 AAAAAGAAAATCTTGAA
57826815 A
1 A
57826816 GATGCCAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAAAGAAAATCTTGAA
Found at i:57829267 original size:17 final size:17
Alignment explanation
Indices: 57829247--57829284 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
57829237 TTTTTTAAGG
57829247 TTAGGGTTTTTGGTGAT
1 TTAGGGTTTTTGGTGAT
*
57829264 TTAGGGTTTTTGGTGGT
1 TTAGGGTTTTTGGTGAT
57829281 TTAG
1 TTAG
57829285 AATTTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.11, C:0.00, G:0.37, T:0.53
Consensus pattern (17 bp):
TTAGGGTTTTTGGTGAT
Found at i:57829290 original size:17 final size:17
Alignment explanation
Indices: 57829253--57829291 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
57829243 AAGGTTAGGG
**
57829253 TTTTTGGTGATTTAGGG
1 TTTTTGGTGATTTAGAA
*
57829270 TTTTTGGTGGTTTAGAA
1 TTTTTGGTGATTTAGAA
57829287 TTTTT
1 TTTTT
57829292 AGGGTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.13, C:0.00, G:0.28, T:0.59
Consensus pattern (17 bp):
TTTTTGGTGATTTAGAA
Found at i:57829460 original size:16 final size:16
Alignment explanation
Indices: 57829419--57829457 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
57829409 TTTCTAATTA
57829419 TTTTAG-GG-TTAGGG
1 TTTTAGTGGTTTAGGG
57829433 TTTTAGTGGTTTAGGG
1 TTTTAGTGGTTTAGGG
57829449 TTTTTAGTG
1 -TTTTAGTG
57829458 TTTTTTAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 2 0.09
16 6 0.27
17 8 0.36
ACGTcount: A:0.13, C:0.00, G:0.36, T:0.51
Consensus pattern (16 bp):
TTTTAGTGGTTTAGGG
Found at i:57829710 original size:114 final size:114
Alignment explanation
Indices: 57829441--57829777 Score: 613
Period size: 114 Copynumber: 2.9 Consensus size: 114
57829431 GGTTTTAGTG
* *
57829441 GTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTGAGGGTTAATTAA
1 GTTTAGGGTTTTTAG-GGTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTAAGGGTTAATTAA
57829506 TTAAATTAACTATGAAAATAAGAAAAAAAATCAATTAAATTAGGGCTTGGTA
65 TTAAATTAACTATGAAAAT-A-AAAAAAAATCAATTAAATTAGGGCTTGGTA
*
57829558 GTTTAGGGTTTTTAGGGTTTTTAAGGGAAAAATCAATGAACACTTAGAGTTAAGGGTTAATTAAT
1 GTTTAGGGTTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTAAGGGTTAATTAAT
57829623 TAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGCTTGGTA
66 TAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGCTTGGTA
57829672 GTTTAGGGTTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTAAGGGTTAATTAAT
1 GTTTAGGGTTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTAAGGGTTAATTAAT
57829737 TAAATTAACTATGAAAAT-AAAAAAAATCAATTAAATTAGGG
66 TAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGG
57829778 TATAAGGTTT
Statistics
Matches: 216, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
113 23 0.11
114 112 0.52
115 1 0.00
116 65 0.30
117 15 0.07
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.34
Consensus pattern (114 bp):
GTTTAGGGTTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAGAGTTAAGGGTTAATTAAT
TAAATTAACTATGAAAATAAAAAAAAATCAATTAAATTAGGGCTTGGTA
Found at i:57830057 original size:133 final size:132
Alignment explanation
Indices: 57829830--57830072 Score: 366
Period size: 135 Copynumber: 1.8 Consensus size: 132
57829820 TAGGGTTCTA
* * *
57829830 GTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAATTAATGAACACTTAGAGTCGAGGGTTCAT
1 GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATGAACACTTAGAGTCGAAGGTTAAT
*
57829895 TAATTAAATTAACTATGAAAATAAGAAAAAAAATCAATTAAATTAGGGCTTAGTGGTTTAGGGTT
66 TAATTAAATTAACTATGAAAAT---AAAAAAAATCAATTAAATCAGGGCTTAGTGGTTTAGGGTT
57829960 TTTTG
128 TTTTG
**
57829965 GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATTTA-A-TTAGAGTTC-AAGGTTAA
1 GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATGAACACTTAGAG-TCGAAGGTTAA
*
57830027 TTAATTAAATTAATTATGAAAATAAAAAAAATCAATTAAATCAGGG
65 TTAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATCAGGG
57830073 TTTAAGGTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
130 22 0.22
133 34 0.34
134 3 0.03
135 41 0.41
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (132 bp):
GTGGTTTAGGGTTTTTAGTATTTTTTAAGGGAAAAATTAATGAACACTTAGAGTCGAAGGTTAAT
TAATTAAATTAACTATGAAAATAAAAAAAATCAATTAAATCAGGGCTTAGTGGTTTAGGGTTTTT
TG
Found at i:57830342 original size:126 final size:126
Alignment explanation
Indices: 57830112--57830546 Score: 676
Period size: 126 Copynumber: 3.5 Consensus size: 126
57830102 ATTAACTATT
* *
57830112 AATTACGGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTATAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* *
57830177 GAGAAGATGTTTCTGAACAAATAGTGT-AAAAAAAGCTTCAAGAAAGATGCACTTTCAGAAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACA-CTTCAAGAAAGATGCACTTTCAGCAA
* * **
57830238 AATTACGGGAAAAAGCTCCCACGAGGATACTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* *
57830303 GAGAAGATGTTTCTGAACAATTAGTGTCAAAAACACTTCAAGAAGGATGCACTTTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAAGATGCACTTTCAGCAA
* * * * * *
57830364 AATTATGGAAAAAAGATCTCACGTGGACGCTCTTTTGCTATAGTAATATTTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* *
57830429 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAAGATGCACTTTTAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAAGATGCACTTTCAGCAA
*
57830490 AATTGCGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGA-AAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAA
57830547 GCCTTAGACT
Statistics
Matches: 279, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
125 4 0.01
126 269 0.96
127 6 0.02
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGAAAGATGCACTTTCAGCAA
Found at i:57832286 original size:39 final size:39
Alignment explanation
Indices: 57832223--57832389 Score: 235
Period size: 39 Copynumber: 4.3 Consensus size: 39
57832213 CTGGGGGAAC
** *
57832223 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * * *
57832262 CCGGATATATTTCTAGCATATAGCCTGCGAATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
57832301 CCTGATATTTTTCCAGCATATAGCCTGCAGATCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
57832340 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
57832379 CCAGATATTTT
1 CCGGATATTTT
57832390 CAATCTCATA
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 112 1.00
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:57838977 original size:39 final size:39
Alignment explanation
Indices: 57838924--57839086 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
57838914 TTTAACCCGA
* * *
57838924 ATATTTTTCCAGCATGTAGCCTGCGGACCTCAAGTCCGG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
* * *
57838963 ATATATTTCTAGCATATAGCCTGCGGATCTCATGTCCAG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
*
57839002 ATATTTTTCCAGCATATAGCCTGCGGATCTCATGTCCAG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
57839041 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
1 ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
57839080 ATATTTT
1 ATATTTT
57839087 CAATCTCATA
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (39 bp):
ATATTTTTCCAGCATATAGCCTGCGGACCTCATGTCCAG
Found at i:57842490 original size:21 final size:22
Alignment explanation
Indices: 57842465--57842511 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
57842455 CTTCCGGCGA
* *
57842465 GGATTGTGGTTGCTCTGGT-GG
1 GGATTGTGGTTCCTCCGGTAGG
57842486 GGATTGTGGTTCCTCCGGTAGG
1 GGATTGTGGTTCCTCCGGTAGG
57842508 GGAT
1 GGAT
57842512 CTGGTTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.09, C:0.13, G:0.45, T:0.34
Consensus pattern (22 bp):
GGATTGTGGTTCCTCCGGTAGG
Found at i:57842785 original size:18 final size:18
Alignment explanation
Indices: 57842759--57842801 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57842749 GACTGGAAAA
* *
57842759 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
57842777 AGGATACATACAAGGGCT
1 AGGATACATAAAAGGGCT
57842795 AGGATAC
1 AGGATAC
57842802 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:57843433 original size:7 final size:7
Alignment explanation
Indices: 57843418--57843471 Score: 99
Period size: 7 Copynumber: 7.7 Consensus size: 7
57843408 TTATATAGGT
57843418 AATACTA
1 AATACTA
*
57843425 AATAATA
1 AATACTA
57843432 AATACTA
1 AATACTA
57843439 AATACTA
1 AATACTA
57843446 AATACTA
1 AATACTA
57843453 AATACTA
1 AATACTA
57843460 AATACTA
1 AATACTA
57843467 AATAC
1 AATAC
57843472 GAAACGACTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:57845708 original size:39 final size:39
Alignment explanation
Indices: 57845627--57845789 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
57845617 TATGGTAACC
* *
57845627 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
57845667 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57845706 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57845745 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
57845784 CGCACA
1 CGCACA
57845790 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:57853627 original size:39 final size:39
Alignment explanation
Indices: 57853546--57853708 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
57853536 TATGGTAACC
* *
57853546 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
57853586 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57853625 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
57853664 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
57853703 CGCACA
1 CGCACA
57853709 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:57855683 original size:22 final size:21
Alignment explanation
Indices: 57855651--57855697 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
57855641 ACACAGCTTT
57855651 TTTG-CAAAAATT-AGAGACAA
1 TTTGACAAAAATTGAGAGA-AA
57855671 CTTTGACAAAAATTGAGAGAAA
1 -TTTGACAAAAATTGAGAGAAA
57855693 TTTGA
1 TTTGA
57855698 GAATTTGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTGACAAAAATTGAGAGAAA
Found at i:57856964 original size:14 final size:13
Alignment explanation
Indices: 57856941--57856993 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
57856931 AAGAATTCTC
57856941 AATTTATTAAAAT
1 AATTTATTAAAAT
*
57856954 ATATTTGTTAAAAT
1 A-ATTTATTAAAAT
57856968 AATTTATGTAATAAT
1 AATTTAT-TAA-AAT
*
57856983 AAATT-TTAAAA
1 AATTTATTAAAA
57856994 AAATAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 2 0.06
13 9 0.26
14 16 0.47
15 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (13 bp):
AATTTATTAAAAT
Found at i:57865916 original size:30 final size:31
Alignment explanation
Indices: 57865873--57865931 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
57865863 GACTCATCCA
57865873 TGGAAAATAAAATAA-AGAAA-ATGATAAAAT
1 TGGAAAATAAAATAATA-AAAGATGATAAAAT
* *
57865903 TGGAAAGTGAAATAATAAAAGATGATAAA
1 TGGAAAATAAAATAATAAAAGATGATAAA
57865932 TGATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (31 bp):
TGGAAAATAAAATAATAAAAGATGATAAAAT
Found at i:57867100 original size:23 final size:23
Alignment explanation
Indices: 57867066--57867110 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57867056 CCTATTACAT
57867066 GGCTCTTTGTGAGCT-TCCTGATA
1 GGCTCTTTGTGAG-TATCCTGATA
57867089 GGCT-TTTCGTGAGTATCCTGAT
1 GGCTCTTT-GTGAGTATCCTGAT
57867111 TAAAAGTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (23 bp):
GGCTCTTTGTGAGTATCCTGATA
Found at i:57872716 original size:49 final size:50
Alignment explanation
Indices: 57872634--57872881 Score: 268
Period size: 49 Copynumber: 5.0 Consensus size: 50
57872624 TGATCTATTG
* * *
57872634 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * * * *
57872684 TT-GGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * * * * * **
57872733 CTTCGATCACGTATGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGG
1 -TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
* * * *
57872784 TTAGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCGGATAA
1 TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
*
57872834 TT-GGT-AGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
1 TTAGGTCA-CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
57872882 GCTTTGGCTA
Statistics
Matches: 161, Mismatches: 34, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
48 1 0.01
49 79 0.49
50 46 0.29
51 35 0.22
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
Found at i:57877854 original size:25 final size:25
Alignment explanation
Indices: 57877820--57877897 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 25
57877810 ACGAGCTGTA
*
57877820 AACGGTAAGCTCTTCCTAGCTGAAT
1 AACGGTAAGCTCCTCCTAGCTGAAT
* *
57877845 AACGTTAAGCTCCT-CTGAGTTGAAT
1 AACGGTAAGCTCCTCCT-AGCTGAAT
* *
57877870 AAGGGTAAGCTCCTCATAGCTGAAT
1 AACGGTAAGCTCCTCCTAGCTGAAT
57877895 AAC
1 AAC
57877898 AATAAGTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
24 2 0.05
25 40 0.93
26 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCTAGCTGAAT
Found at i:57881757 original size:49 final size:47
Alignment explanation
Indices: 57881670--57881794 Score: 119
Period size: 49 Copynumber: 2.7 Consensus size: 47
57881660 ATGTGTGTGT
* * * * * *
57881670 CAGTGTAAGACCTGTCTAGGACACGGTATTGGCACAGATAAGTGAGAGC
1 CAGTGTAAGACCTGTTTGGGACAAGGCATCGACACAGAT--GTGAGAGC
*
57881719 CAGTGTAAGACCTGTTTGGGACAAGGCATCGACTCAGATGTGAGAGC
1 CAGTGTAAGACCTGTTTGGGACAAGGCATCGACACAGATGTGAGAGC
* * * *
57881766 TAGTGTAATA--TGTTTGGAACATGGCATCG
1 CAGTGTAAGACCTGTTTGGGACAAGGCATCG
57881795 GTATATTACC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 17 0.26
47 16 0.25
49 32 0.49
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCTGTTTGGGACAAGGCATCGACACAGATGTGAGAGC
Found at i:57883556 original size:9 final size:9
Alignment explanation
Indices: 57883542--57883566 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57883532 CCGAACACTT
57883542 CACCTCCCC
1 CACCTCCCC
57883551 CACCTCCCC
1 CACCTCCCC
57883560 CACCTCC
1 CACCTCC
57883567 TCCGATCCCA
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:0.12, C:0.76, G:0.00, T:0.12
Consensus pattern (9 bp):
CACCTCCCC
Found at i:57889226 original size:49 final size:49
Alignment explanation
Indices: 57889167--57889283 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
57889157 AAGTGAGAGC
*
57889167 CAGTGAAAGACCTGCCTGGAACATGGCATCGGCCTC-AAGATATGCAAG-
1 CAGTGTAAGACCTGCCTGGAACATGGCATCGGCCTCGAAG-TATGCAAGT
* * * *
57889215 CTAGTGTAAGACCTATCC-GGGACATGGCATCGGCCTCGATGTATGTAAGT
1 C-AGTGTAAGACCT-GCCTGGAACATGGCATCGGCCTCGAAGTATGCAAGT
*
57889265 CAGTGTAAGACCTGTCTGG
1 CAGTGTAAGACCTGCCTGG
57889284 GATCGACTTA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
48 2 0.04
49 50 0.88
50 5 0.09
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGCCTGGAACATGGCATCGGCCTCGAAGTATGCAAGT
Found at i:57890453 original size:21 final size:22
Alignment explanation
Indices: 57890413--57890454 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57890403 GTCAAGAAGG
*
57890413 CCACATGGGCGTGTTACCCCTT
1 CCACACGGGCGTGTTACCCCTT
57890435 CCACACGGGCGTG-TACCCCT
1 CCACACGGGCGTGTTACCCCT
57890455 GTTTCAAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.14, C:0.40, G:0.24, T:0.21
Consensus pattern (22 bp):
CCACACGGGCGTGTTACCCCTT
Found at i:57891314 original size:26 final size:26
Alignment explanation
Indices: 57891285--57891397 Score: 67
Period size: 26 Copynumber: 4.5 Consensus size: 26
57891275 CTTATGAGTG
57891285 TCCCGATATATGGCTCTTCGTGAGCT
1 TCCCGATATATGGCTCTTCGTGAGCT
* *
57891311 TCCC-AT-TGATTTGCTCTTTGTGAGCT
1 TCCCGATAT-A-TGGCTCTTCGTGAGCT
** * *
57891337 TCTTGAT-TAATAGCTCTCCG-GAGCT
1 TCCCGATAT-ATGGCTCTTCGTGAGCT
* * * *
57891362 TCTCGATAT-TGGCTC-ACTTGAACT
1 TCCCGATATATGGCTCTTCGTGAGCT
57891386 TCCCGATATATG
1 TCCCGATATATG
57891398 ACTATCTAGA
Statistics
Matches: 67, Mismatches: 14, Indels: 13
0.71 0.15 0.14
Matches are distributed among these distances:
23 1 0.01
24 18 0.27
25 16 0.24
26 28 0.42
27 4 0.06
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (26 bp):
TCCCGATATATGGCTCTTCGTGAGCT
Found at i:57891952 original size:42 final size:42
Alignment explanation
Indices: 57891873--57891952 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
57891863 TGCAGGTTTC
* *
57891873 ACACGACCAAGACACACGCCCGTGTTTTAGGCCGTGTGGCAT
1 ACACGACCAAGACACACGCCCGTGTCTCAGGCCGTGTGGCAT
* * *
57891915 ACACGACTAAGATATACGCCCGTGTCTCA-GCCTGTGTG
1 ACACGACCAAGACACACGCCCGTGTCTCAGGCC-GTGTG
57891953 CTTAATTCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 3 0.09
42 29 0.91
ACGTcount: A:0.24, C:0.30, G:0.25, T:0.21
Consensus pattern (42 bp):
ACACGACCAAGACACACGCCCGTGTCTCAGGCCGTGTGGCAT
Found at i:57902278 original size:40 final size:40
Alignment explanation
Indices: 57902204--57902349 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
57902194 CCGCACCAAG
* * * * * *
57902204 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
57902244 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * * * *
57902284 GCCTTCGGGTCTTAGTCCGAATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
57902324 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
57902350 TTTTCAGCAT
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:57909997 original size:16 final size:15
Alignment explanation
Indices: 57909976--57910009 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
57909966 CCCTTGTCTT
*
57909976 TAGGTTGTGTTTTCAA
1 TAGGTTGTATTTT-AA
57909992 TAGGTTGTATTTTAA
1 TAGGTTGTATTTTAA
57910007 TAG
1 TAG
57910010 CATGGCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.50
Consensus pattern (15 bp):
TAGGTTGTATTTTAA
Found at i:57920638 original size:13 final size:13
Alignment explanation
Indices: 57920620--57920644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57920610 TATTTAAAAA
57920620 TTATTTTCTGTGT
1 TTATTTTCTGTGT
57920633 TTATTTTCTGTG
1 TTATTTTCTGTG
57920645 AAATTATATC
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:0.08, C:0.08, G:0.16, T:0.68
Consensus pattern (13 bp):
TTATTTTCTGTGT
Found at i:57927042 original size:29 final size:28
Alignment explanation
Indices: 57927010--57927083 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
57927000 GATTCAAGCC
* *
57927010 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACAC-TAGTGCCATACAGTACAAACT
* *
57927039 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACAC-TAGTGCCATACAGTACAAACT
57927068 CGCACACTCAGTGCCA
1 CGCACACT-AGTGCCA
57927084 ATCTCGTCAC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.31, C:0.34, G:0.15, T:0.20
Consensus pattern (28 bp):
CGCACACTAGTGCCATACAGTACAAACT
Found at i:57934956 original size:29 final size:29
Alignment explanation
Indices: 57934924--57935058 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
57934914 ATACCCTCCG
** * *
57934924 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
57934953 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
57934982 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
57935011 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
57935040 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
57935059 GATCTCATCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:57934991 original size:58 final size:58
Alignment explanation
Indices: 57934870--57935059 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
57934860 TACTCGATTT
* * * *** *
57934870 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
57934928 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
57934986 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
57935044 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
57935060 ATCTCATCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:57938246 original size:47 final size:47
Alignment explanation
Indices: 57938187--57939186 Score: 1658
Period size: 47 Copynumber: 21.2 Consensus size: 47
57938177 TCGGGACTTA
* * * * *
57938187 TCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
57938234 TCACATATATACACCTTCACATCCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * *
57938281 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * *
57938328 TCACATATATACACATTCACATTCATCACATTGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
57938375 TCACATAAATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * *
57938422 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
57938469 TCACATATATACACTTTCACATTCATCACTCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACA-T--TCA-TCACATCGGCCATTAGGCCTTG
57938520 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
57938567 TCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
57938614 TCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
57938661 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
57938708 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
57938755 TCACATATATACACTTTCACATTCATCAAATCGGCCATTCGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
57938802 TCACATATATACACTTTCACATTCATCACATGGGCCATTAGGCCTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
57938849 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
57938896 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
57938943 TCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* *
57938990 TCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
*
57939037 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
57939084 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
* * *
57939131 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTA
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
57939178 TCACATATA
1 TCACATATA
57939187 CATATCTTGT
Statistics
Matches: 902, Mismatches: 47, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
47 854 0.95
48 4 0.00
50 4 0.00
51 40 0.04
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
Found at i:57938332 original size:22 final size:22
Alignment explanation
Indices: 57938305--57938380 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
57938295 TTTCACATTC
57938305 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * *
57938327 ATCACATATATACACATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
*
57938351 CATCACATTGGCCATTAGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
57938374 ATCACAT
1 ATCACAT
57938381 AAATACACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 18 0.45
23 5 0.12
24 5 0.12
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:57938355 original size:25 final size:25
Alignment explanation
Indices: 57938281--57938358 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
57938271 TTAGGCCTTG
*
57938281 TCACATATATACACTTTCACATTCA
1 TCACATATATACACATTCACATTCA
** * *
57938306 TCACAT-T-GGC-CATTCGGCCTT-A
1 TCACATATATACACATTC-ACATTCA
57938328 TCACATATATACACATTCACATTCA
1 TCACATATATACACATTCACATTCA
57938353 TCACAT
1 TCACAT
57938359 TGGCCATTAG
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.33
Consensus pattern (25 bp):
TCACATATATACACATTCACATTCA
Found at i:57945065 original size:23 final size:23
Alignment explanation
Indices: 57945039--57945087 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
57945029 GATGTCGATT
57945039 AATGTATGAATTGCAGCCCTTTA
1 AATGTATGAATTGCAGCCCTTTA
57945062 AATGTATGAATTGCAGCCCTTTA
1 AATGTATGAATTGCAGCCCTTTA
57945085 AAT
1 AAT
57945088 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (23 bp):
AATGTATGAATTGCAGCCCTTTA
Found at i:57945646 original size:241 final size:241
Alignment explanation
Indices: 57945221--57945898 Score: 1239
Period size: 241 Copynumber: 2.8 Consensus size: 241
57945211 ATGAATTAAT
57945221 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATATAGCTGACCTTCTCTCCAACC
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAAC-A-ATAGCTGACCTTCTCTCCAACC
* **
57945286 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTCACAAGTTGCCTTATATCG
64 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
57945351 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
129 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
* *
57945416 TCAAAATGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
194 TCAAAAAGACTTGAAAAAAGTTCTATCGACCTCATTTACTATTGAATA
* *
57945464 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAATCTG
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* *
57945529 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGGGTTGCTTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
57945594 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
57945659 AAAAAGACTTGAAAAAAGTTCTATCGACCTCATTTAGTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGACCTCATTTACTATTGAATA
57945705 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
57945770 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
57945835 CTGTAAGATATAATGGATCCTCCTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
57945899 ACTATATTCA
Statistics
Matches: 420, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
241 379 0.90
242 1 0.00
243 40 0.10
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGACCTCATTTACTATTGAATA
Found at i:57946041 original size:9 final size:9
Alignment explanation
Indices: 57946018--57946145 Score: 103
Period size: 9 Copynumber: 13.6 Consensus size: 9
57946008 ATTGATCATT
*
57946018 ACTTAAATA
1 ACTTACATA
*
57946027 AATTACATA
1 ACTTACATA
57946036 ACTTACATA
1 ACTTACATA
* *
57946045 ACTCATATA
1 ACTTACATA
57946054 ACTTACATA
1 ACTTACATA
*
57946063 ATTTACATAACA
1 ACTTACAT---A
57946075 ACTTACATA
1 ACTTACATA
* *
57946084 ACTCACATT
1 ACTTACATA
57946093 ACTTACATA
1 ACTTACATA
*
57946102 ATTTACATA
1 ACTTACATA
*
57946111 ACTCACATA
1 ACTTACATA
* *
57946120 ACGTATATAACA
1 AC-T-TA-CATA
57946132 ACTTACATA
1 ACTTACATA
57946141 ACTTA
1 ACTTA
57946146 ACTAATACAT
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
9 75 0.82
10 3 0.03
11 2 0.02
12 12 0.13
ACGTcount: A:0.46, C:0.20, G:0.01, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:57946087 original size:39 final size:39
Alignment explanation
Indices: 57946035--57946112 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
57946025 TAAATTACAT
*
57946035 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
*
57946074 AACTTACATAACTCACATTACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
57946113 TCACATAACG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:57946112 original size:57 final size:57
Alignment explanation
Indices: 57946031--57946143 Score: 154
Period size: 57 Copynumber: 2.0 Consensus size: 57
57946021 TAAATAAATT
* * **
57946031 ACATAACTTACATAACTCATATAACTTACATAATTTACATAACAACTTACATAACTC
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
* * * *
57946088 ACATTACTTACATAATTTACATAACTCACATAACGTATATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACT
57946144 TAACTAATAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTACATAACTC
Found at i:57950995 original size:30 final size:30
Alignment explanation
Indices: 57950924--57951027 Score: 181
Period size: 30 Copynumber: 3.4 Consensus size: 30
57950914 ACGGTTACTG
57950924 GGCCGAAGCCTTTTCATAAATCATATCACT
1 GGCCGAAGCCTTTTCATAAATCATATCACT
*
57950954 GGGCTGAAGCCTTTTCATAAATCATATCACT
1 -GGCCGAAGCCTTTTCATAAATCATATCACT
57950985 GGCCGAAGCCTTTTCATAAATCATATCACT
1 GGCCGAAGCCTTTTCATAAATCATATCACT
*
57951015 GGCTGAAGCCTTT
1 GGCCGAAGCCTTT
57951028 ACTGTAAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 41 0.59
31 29 0.41
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (30 bp):
GGCCGAAGCCTTTTCATAAATCATATCACT
Found at i:57951260 original size:24 final size:25
Alignment explanation
Indices: 57951233--57951292 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
57951223 CTGGAGGCCT
57951233 AGCCTCTTTTAAT-AACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGGGCATA
*
57951257 AGCCCTTTTCAATAAACTGGGGTATA
1 AGCCCTTTT-AATAAACTGGGGCATA
57951283 AGCCCTTTTA
1 AGCCCTTTTA
57951293 GCACTTCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.16
24 7 0.22
25 10 0.31
26 10 0.31
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:57952129 original size:27 final size:27
Alignment explanation
Indices: 57952099--57952163 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
57952089 GGGCATATTC
57952099 GTCATTTTACCATACAAGGGTATTACG
1 GTCATTTTACCATACAAGGGTATTACG
* * * * *
57952126 GTCACTTTACCCTACAGGGGTTTTACT
1 GTCATTTTACCATACAAGGGTATTACG
*
57952153 GTCTTTTTACC
1 GTCATTTTACC
57952164 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGTATTACG
Found at i:57952254 original size:27 final size:27
Alignment explanation
Indices: 57952215--57952267 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
57952205 TGGAAATCTA
57952215 CAAACCAAGGGTATTTC-AGTAATTTTG
1 CAAACCAAGGGTATTTCTA-TAATTTTG
* *
57952242 CAAATCAATGGTATTTCTATAATTTT
1 CAAACCAAGGGTATTTCTATAATTTT
57952268 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.40
Consensus pattern (27 bp):
CAAACCAAGGGTATTTCTATAATTTTG
Found at i:57952285 original size:29 final size:28
Alignment explanation
Indices: 57952215--57952296 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
57952205 TGGAAATCTA
*
57952215 CAAACCAAGGGTATTTC-AGTAA-TTTTG
1 CAAATCAAGGGTATTTCTA-TAATTTTTG
*
57952242 CAAATCAATGGTATTTCTATAATTTTTAG
1 CAAATCAAGGGTATTTCTATAATTTTT-G
* *
57952271 -AAAGTCAAGGGTATTTTTGTAATTTT
1 CAAA-TCAAGGGTATTTCTATAATTTT
57952297 GTTAATCAGG
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
27 18 0.39
28 8 0.17
29 20 0.43
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (28 bp):
CAAATCAAGGGTATTTCTATAATTTTTG
Found at i:57952340 original size:27 final size:25
Alignment explanation
Indices: 57952278--57952404 Score: 101
Period size: 27 Copynumber: 4.8 Consensus size: 25
57952268 TAGAAAGTCA
* ***
57952278 AGGGTATTTTTGTAATTTTGTTAAT
1 AGGGTATTTTGGTAATTTTACAAAT
57952303 CAGGGATATTTTGGTAATTTTACAAATT
1 -AGGG-TATTTTGGTAATTTTACAAA-T
* * * *
57952331 GAGGGCATTTCGGTAATTTCACAAACC
1 -AGGGTATTTTGGTAATTTTACAAA-T
*
57952358 AGTGGTATTTTGGTAAGTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAA-T
57952385 AGGGGTATTTTGGTAATTTT
1 A-GGGTATTTTGGTAATTTT
57952405 GTAAACCAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
26 6 0.07
27 69 0.85
28 6 0.07
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.43
Consensus pattern (25 bp):
AGGGTATTTTGGTAATTTTACAAAT
Found at i:57952410 original size:27 final size:27
Alignment explanation
Indices: 57952304--57952404 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
57952294 TTTGTTAATC
*
57952304 AGGGATATTTTGGTAATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * * *
57952330 TGAGGGCATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
57952358 AGTGGTATTTTGGTAAGTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
57952385 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
57952405 GTAAACCAAA
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:57952411 original size:54 final size:54
Alignment explanation
Indices: 57952278--57952412 Score: 148
Period size: 54 Copynumber: 2.5 Consensus size: 54
57952268 TAGAAAGTCA
* * * * *
57952278 AGGGTATTTTTGTAATTTTGTTAATCAGGGATATTTTGGTAATTTTACAAATTG
1 AGGGTATTTTGGTAATTTTGTAAACCAGGGATATTTTGGTAAGTTTACAAATAG
* * ***
57952332 AGGGCATTTCGGTAATTTCACAAACCAGTGG-TATTTTGGTAAGTTTACAAACTAG
1 AGGGTATTTTGGTAATTTTGTAAACCAG-GGATATTTTGGTAAGTTTACAAA-TAG
57952387 -GGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTGTAAACCA
57952413 AAGGTTTTTT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
54 60 0.94
55 4 0.06
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTGTAAACCAGGGATATTTTGGTAAGTTTACAAATAG
Found at i:57952618 original size:27 final size:27
Alignment explanation
Indices: 57952424--57952607 Score: 278
Period size: 27 Copynumber: 6.8 Consensus size: 27
57952414 AGGTTTTTTA
*
57952424 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
57952451 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
57952478 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** *
57952505 GTAATTCTATAAATTAAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
57952532 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
57952559 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
57952586 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
57952608 CTTTGGTAAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:57952645 original size:81 final size:81
Alignment explanation
Indices: 57952423--57952634 Score: 235
Period size: 81 Copynumber: 2.6 Consensus size: 81
57952413 AAGGTTTTTT
* * * * * ** * * *
57952423 AGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGT
1 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACAAATCGAGGATAAAACAGTAATTCTAT
57952488 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * *
57952504 GGTAATTCTATAAATTAAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTAT
1 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACAAATCGAGGATAAAACAGTAATTCTAT
57952569 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * *** * *
57952585 AGTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGATA
1 AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACAAATCGAGGATA
57952635 TTTTAGTAAT
Statistics
Matches: 110, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 110 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
AGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTACAAATCGAGGATAAAACAGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:57955850 original size:22 final size:23
Alignment explanation
Indices: 57955824--57955866 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
57955814 AGTGGCGCTT
57955824 AAAAGCGCCGCT-AAAGTCTAAA
1 AAAAGCGCCGCTAAAAGTCTAAA
57955846 AAAAGCGCCGCTAAAAGTCTA
1 AAAAGCGCCGCTAAAAGTCTA
57955867 TTTTCCTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.14
Consensus pattern (23 bp):
AAAAGCGCCGCTAAAAGTCTAAA
Found at i:57957239 original size:27 final size:27
Alignment explanation
Indices: 57957202--57957288 Score: 131
Period size: 27 Copynumber: 3.3 Consensus size: 27
57957192 CCCTGTTTAG
57957202 AATA-CCTTGGTTTACAAAATTACCAA
1 AATACCCTTGGTTTACAAAATTACCAA
57957228 AATACCCTTGGTTTACAAAATTACCAA
1 AATACCCTTGGTTTACAAAATTACCAA
* * **
57957255 AATACCCCTAGTTTGTAAAATTACCAA
1 AATACCCTTGGTTTACAAAATTACCAA
57957282 AATACCC
1 AATACCC
57957289 CTGATTTGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
26 4 0.07
27 52 0.93
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (27 bp):
AATACCCTTGGTTTACAAAATTACCAA
Found at i:57957312 original size:27 final size:27
Alignment explanation
Indices: 57957217--57957304 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
57957207 CTTGGTTTAC
* * **
57957217 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTAGTTTGT
57957244 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
57957271 AAAATTACCAAAATACCCCT-GATTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
*
57957298 GAAATTA
1 AAAATTA
57957305 TCGAAATAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:57957336 original size:27 final size:27
Alignment explanation
Indices: 57957300--57957414 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 27
57957290 TGATTTGTGA
* *
57957300 AATTATCGAAATAGCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
57957327 AGTTACCGAAATACCATTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
57957354 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
57957381 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
57957408 AATTACC
1 AATTACC
57957415 ATTTTGCCCC
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:57957358 original size:54 final size:54
Alignment explanation
Indices: 57957299--57957412 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
57957289 CTGATTTGTG
* * *
57957299 AAATTATCGAAATAGCCTTGTAGGGTAGAGTTACCGAAATACCATTGTAGGGTA
1 AAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCATTGTAGGGTA
* * * * *
57957353 GAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTA
1 AAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCATTGTAGGGTA
57957407 AAATTA
1 AAATTA
57957413 CCATTTTGCC
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (54 bp):
AAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCATTGTAGGGTA
Found at i:57959375 original size:6 final size:6
Alignment explanation
Indices: 57959345--57959466 Score: 61
Period size: 6 Copynumber: 19.8 Consensus size: 6
57959335 TACCAGAACT
* * * * * *
57959345 AGAATC AAAATG AGAATC AGTATC AGAATC AG-GTGAC AGAATT TGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * * *
57959394 AGAATC AGAATC AGAATT AG-GTGAC AGAATT AGAATC AAAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
57959443 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
57959467 GTGAATGCAA
Statistics
Matches: 83, Mismatches: 24, Indels: 18
0.66 0.19 0.14
Matches are distributed among these distances:
5 4 0.05
6 68 0.82
7 8 0.10
8 3 0.04
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:57959386 original size:37 final size:37
Alignment explanation
Indices: 57959357--57959444 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
57959347 AATCAAAATG
*
57959357 AGAATCAGTATCAGAATCAGGTGACAGAATTTGAATC
1 AGAATCAGTATCAGAATCAGGTGACAGAATTAGAATC
* *
57959394 AGAATCAGAATCAGAATTAGGTGACAGAATTAGAATC
1 AGAATCAGTATCAGAATCAGGTGACAGAATTAGAATC
*
57959431 AAAATCAGTATCAG
1 AGAATCAGTATCAG
57959445 GTAACAGAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (37 bp):
AGAATCAGTATCAGAATCAGGTGACAGAATTAGAATC
Done.