Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 128 of 318
Found at i:39133449 original size:16 final size:16
Alignment explanation
Indices: 39133417--39133450 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
39133407 TACACAAATC
*
39133417 AAAGAATTATTAGAAA
1 AAAGAATTAATAGAAA
39133433 AAAG-ATTAATAGAAA
1 AAAGAATTAATAGAAA
39133448 AAA
1 AAA
39133451 CTAATAACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.21
Consensus pattern (16 bp):
AAAGAATTAATAGAAA
Found at i:39135193 original size:31 final size:31
Alignment explanation
Indices: 39135150--39135264 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
39135140 TTAGTCTTGA
*
39135150 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
39135180 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
39135211 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
39135242 CATATCATTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
39135265 ACTGTAAACG
Statistics
Matches: 82, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
30 5 0.06
31 77 0.94
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:39135518 original size:25 final size:25
Alignment explanation
Indices: 39135485--39135554 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
39135475 CTCTTTTAAT
*
39135485 AACTCGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
39135510 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
39135535 AACTGGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
39135555 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 38 0.90
26 4 0.10
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:39136689 original size:27 final size:27
Alignment explanation
Indices: 39136461--39136696 Score: 192
Period size: 27 Copynumber: 8.7 Consensus size: 27
39136451 TTCATCCTAC
* * * *
39136461 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
** ** *
39136488 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
39136515 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
* **
39136543 CAAGGGTATTTCT-ATAATTTTTTAAA-T
1 -AAGGGTATTT-TGGTAATTTTACAAACT
*
39136570 CAAGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* *
39136598 AAGGGTATTTTGGTAATTTCACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
39136625 AATGGTATTTCGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
39136652 -AGGTGTATTTTGGTAATTTTACAAACT
1 AAGG-GTATTTTGGTAATTTTACAAACT
*
39136679 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
39136697 CTATCCTACA
Statistics
Matches: 172, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 137 0.80
28 17 0.10
29 15 0.09
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:39136762 original size:27 final size:27
Alignment explanation
Indices: 39136728--39136924 Score: 225
Period size: 27 Copynumber: 7.3 Consensus size: 27
39136718 GTCATTTCAC
* *
39136728 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
39136755 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* *
39136782 AATCTAGAGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
39136809 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* ** *
39136836 AATTGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * * * *
39136863 AATCAAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
39136890 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
39136917 AATCGAGG
1 AATCGAGG
39136925 ACATTTCAGT
Statistics
Matches: 144, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:39136843 original size:81 final size:81
Alignment explanation
Indices: 39136728--39136924 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
39136718 GTCATTTCAC
* * * * ** *
39136728 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTAAATCTAGAGTA
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTTGTAAATCAAGAGTA
* * *
39136793 AAATGGTAATTCTGTA
66 AAACGATAATTCTATA
* *
39136809 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTTGTAAATCAAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTTGTAAATCAAGAGTA
39136874 AAACGATAATTCTATA
66 AAACGATAATTCTATA
* *
39136890 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATTGAGG
39136925 ACATTTCAGT
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 102 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTTGTAAATCAAGAGTA
AAACGATAATTCTATA
Found at i:39136935 original size:81 final size:81
Alignment explanation
Indices: 39136771--39136945 Score: 224
Period size: 81 Copynumber: 2.2 Consensus size: 81
39136761 GGGTAAAATG
* * * * *
39136771 GTAATTTTGTAAATCTAGAGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTTTGTAAATCAAGAGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
* **
39136836 AATTGAGGGTAAAACA
66 AATCGAGGACAAAACA
* *
39136852 GTAATTTTGTAAATCAAGGGTGAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
1 GTAATTTTGTAAATCAAGAGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
***
39136917 AATCGAGGACATTTCA
66 AATCGAGGACAAAACA
*
39136933 GTAATTTGGTAAA
1 GTAATTTTGTAAA
39136946 CTAAAGTATT
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (81 bp):
GTAATTTTGTAAATCAAGAGTAAAACGATAATTCTATAAATCGAGGGTAAAATGGTAATTCTACA
AATCGAGGACAAAACA
Found at i:39140299 original size:15 final size:15
Alignment explanation
Indices: 39140279--39140310 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39140269 GTACAAACAA
39140279 AAAGATGATAAATGC
1 AAAGATGATAAATGC
*
39140294 AAAGATGCTAAATGC
1 AAAGATGATAAATGC
39140309 AA
1 AA
39140311 GGATATGTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (15 bp):
AAAGATGATAAATGC
Found at i:39141698 original size:31 final size:31
Alignment explanation
Indices: 39141660--39141723 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
39141650 CCTTTTCATA
39141660 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
39141691 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
39141722 TT
1 TT
39141724 ACTGTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:39141966 original size:24 final size:24
Alignment explanation
Indices: 39141915--39142057 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
39141905 GCTTTATCAT
*
39141915 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
39141940 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
39141964 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
39141987 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
39142011 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
39142035 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
39142058 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:39141994 original size:47 final size:48
Alignment explanation
Indices: 39141915--39142056 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
39141905 GCTTTATCAT
* *
39141915 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
39141964 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
39142011 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
39142057 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:39142015 original size:71 final size:72
Alignment explanation
Indices: 39141914--39142057 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
39141904 TGCTTTATCA
*
39141914 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
39141979 GCCCTTT
66 GCCCTTT
* * **
39141986 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
39142049 AGCCCTTT
65 AGCCCTTT
39142057 T
1 T
39142058 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:39142133 original size:20 final size:20
Alignment explanation
Indices: 39142108--39142167 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
39142098 TATGATTACC
39142108 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
39142128 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
39142148 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
39142168 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:39142138 original size:11 final size:11
Alignment explanation
Indices: 39142108--39142162 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
39142098 TATGATTACC
39142108 TCATGTGCATA
1 TCATGTGCATA
*
39142119 TCA--TACATA
1 TCATGTGCATA
39142128 TCATGTGCATA
1 TCATGTGCATA
* *
39142139 TCA--TACATT
1 TCATGTGCATA
39142148 TCATGTGCATA
1 TCATGTGCATA
39142159 TCAT
1 TCAT
39142163 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:39142242 original size:25 final size:25
Alignment explanation
Indices: 39142210--39142257 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
39142200 ATACATAAAC
* *
39142210 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
39142235 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
39142258 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:39147487 original size:40 final size:38
Alignment explanation
Indices: 39147300--39147480 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 38
39147290 CGAATGATAT
* * *
39147300 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCT-AGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
39147340 CCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGTTACTAAT
1 CCGGGCT-AG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39147379 CCGGGCTAAG-CCCGAAGGCA-TGGTGCGAGTTACTAAA
1 CCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39147416 TCCGGGTTAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 -CCGGGCTAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
39147456 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTA-GTCCCGAAGGCATTTG
39147481 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
37 17 0.14
38 24 0.20
39 31 0.25
40 42 0.34
41 8 0.07
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (38 bp):
CCGGGCTAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39147493 original size:40 final size:39
Alignment explanation
Indices: 39147417--39147499 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 39
39147407 GTTACTAAAT
* ** *
39147417 CCGGGTTAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 CCGGGCTAGTCCCGAAGGCATTTGAACGAGTAGCTATAA
*
39147456 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTA-GTCCCGAAGGCATTTGAACGAGTAGCTATAA
39147496 CCGG
1 CCGG
39147500 TTAAACTCCG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 7 0.18
40 31 0.82
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGGGCTAGTCCCGAAGGCATTTGAACGAGTAGCTATAA
Found at i:39150144 original size:80 final size:80
Alignment explanation
Indices: 39150060--39150208 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
39150050 TATGGTAACC
* * * *
39150060 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
39150124 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
39150140 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
39150205 CCGG
66 CCGG
39150209 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:39150150 original size:40 final size:38
Alignment explanation
Indices: 39150101--39150208 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
39150091 ATCACGATTT
*
39150101 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
39150141 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
39150181 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
39150209 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:39158123 original size:14 final size:14
Alignment explanation
Indices: 39158104--39158131 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39158094 CATGAGGTGG
39158104 ATTGGTGTGCATGT
1 ATTGGTGTGCATGT
39158118 ATTGGTGTGCATGT
1 ATTGGTGTGCATGT
39158132 GGATTGATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.36, T:0.43
Consensus pattern (14 bp):
ATTGGTGTGCATGT
Found at i:39158783 original size:40 final size:41
Alignment explanation
Indices: 39158683--39158799 Score: 123
Period size: 40 Copynumber: 2.9 Consensus size: 41
39158673 TTATTAATCC
** * *
39158683 CGGGCTAAG-CCCGAAGGCATGGGTGCGAGTTACTA-AATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAATA
* *
39158722 CGGGTTAGGTCCCGAAGGCATTTGTGCGAGTTGCTATAA-A
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAATA
* ** *
39158762 CGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
39158800 TCCGGTTAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 7 0.11
40 56 0.86
41 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (41 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAATA
Found at i:39162017 original size:15 final size:15
Alignment explanation
Indices: 39161997--39162026 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
39161987 GAGTCTTAAG
*
39161997 AAAACAGAATTAGAA
1 AAAACAGAAATAGAA
39162012 AAAACAGAAATAGAA
1 AAAACAGAAATAGAA
39162027 TTTTTAAGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAACAGAAATAGAA
Found at i:39165721 original size:16 final size:16
Alignment explanation
Indices: 39165700--39165730 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39165690 ACCAGCAAAA
*
39165700 GCCAAAATGCCGAAAT
1 GCCAAAATACCGAAAT
39165716 GCCAAAATACCGAAA
1 GCCAAAATACCGAAA
39165731 AGCTGAAAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.26, G:0.16, T:0.10
Consensus pattern (16 bp):
GCCAAAATACCGAAAT
Found at i:39178672 original size:6 final size:6
Alignment explanation
Indices: 39178654--39178760 Score: 60
Period size: 6 Copynumber: 17.3 Consensus size: 6
39178644 AAGAAACATT
* * *
39178654 ATCAGA A-CTAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* * * *
39178703 ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGTTA A-CAAA ATCAAA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG--A ATCAGA ATCAGA
39178753 ATCAGA AT
1 ATCAGA AT
39178761 GTGAATGCAA
Statistics
Matches: 78, Mismatches: 12, Indels: 22
0.70 0.11 0.20
Matches are distributed among these distances:
5 6 0.08
6 61 0.78
7 8 0.10
8 3 0.04
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:39178691 original size:25 final size:25
Alignment explanation
Indices: 39178663--39178732 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
39178653 TATCAGAACT
* *
39178663 AGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
39178688 AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
39178713 AGAATCAAAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
39178733 TATCAGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:39178725 original size:31 final size:31
Alignment explanation
Indices: 39178690--39178760 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
39178680 TAGGTGACAG
*
39178690 AATCAGAATCAGTATCAGGTAACAGAATCAA
1 AATCAGAATCAGTATCAGGTAACAAAATCAA
*
39178721 AATCAGAATCAGTATCAGTTAACAAAATCAA
1 AATCAGAATCAGTATCAGGTAACAAAATCAA
39178752 AATCAGAAT
1 AATCAGAAT
39178761 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.51, C:0.15, G:0.13, T:0.21
Consensus pattern (31 bp):
AATCAGAATCAGTATCAGGTAACAAAATCAA
Found at i:39179220 original size:27 final size:27
Alignment explanation
Indices: 39179163--39179492 Score: 473
Period size: 27 Copynumber: 12.3 Consensus size: 27
39179153 GGGGCAAAAT
* * * *
39179163 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39179189 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39179216 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39179243 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39179270 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39179297 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
** *
39179324 AATAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39179351 GGTAATTTTACCCTCCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
39179378 GATAATTCTACCCTATAGGGGCATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39179405 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
39179432 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
39179459 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
39179486 GGTAATT
1 GGTAATT
39179493 TCACAAATTA
Statistics
Matches: 270, Mismatches: 33, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 14 0.05
27 256 0.95
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:39179505 original size:27 final size:27
Alignment explanation
Indices: 39179474--39179633 Score: 126
Period size: 27 Copynumber: 5.9 Consensus size: 27
39179464 TTCTACCCTA
*
39179474 CAAGGGTATTTCGGTAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * * ***
39179501 TAAGGTTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** *
39179528 CAAGGGTATTTTAGTAATTTTGCAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
*
39179554 CTGAGGGTATTTCGGTAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* * * *
39179582 CGAGGATATTTGGGTAATTTTATAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** *
39179609 CGGGGGTACTTT-GGAAATTTTACAA
1 CAAGGGTA-TTTCGGTAATTTTACAA
39179634 CTGGGGGTAT
Statistics
Matches: 105, Mismatches: 25, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 100 0.95
28 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:39179535 original size:81 final size:81
Alignment explanation
Indices: 39179450--39179604 Score: 195
Period size: 81 Copynumber: 1.9 Consensus size: 81
39179440 TACCCTACAG
** * * *
39179450 GGGTATTTCAGTAATTCTACCCTAC-AAGGGTATTTCGGTAATTTCACAAATTAAGGTTATTTTG
1 GGGTATTTCAGTAATT-TACCAAACTAAGGGTATTTCGGTAATTTCACAAATCAAGGATATTTGG
39179514 GTAATTTTATTGATCAA
65 GTAATTTTATTGATCAA
* ** * * *
39179531 GGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGG
1 GGGTATTTCAGTAATTTACCAAACTAAGGGTATTTCGGTAATTTCACAAATCAAGGATATTTGGG
39179596 TAATTTTAT
66 TAATTTTAT
39179605 AAATCGGGGG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
80 4 0.06
81 58 0.94
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTACCAAACTAAGGGTATTTCGGTAATTTCACAAATCAAGGATATTTGGG
TAATTTTATTGATCAA
Found at i:39179616 original size:81 final size:80
Alignment explanation
Indices: 39179476--39179654 Score: 214
Period size: 81 Copynumber: 2.2 Consensus size: 80
39179466 CTACCCTACA
* * * ** *
39179476 AGGGTATTTCGGTAATTTCACAAATTAAGGTTATTTTGGTAATTTTATTGATCAAGGGTATTTTA
1 AGGGTATTTCGGTAATTTCACAAATCAAGGATATTTGGGTAATTTTATAAATCAAGGGTACTTTA
* *
39179541 GTAATTTTGCAAACTG
66 GAAATTTTAC-AACTG
* * ** *
39179557 AGGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTG
1 AGGGTATTTCGGTAATTTCACAAATCAAGGATATTTGGGTAATTTTATAAATCAAGGGTACTTTA
39179622 GAAATTTTACAACTG
66 GAAATTTTACAACTG
* *
39179637 GGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
39179655 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 21 0.25
81 62 0.75
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTCACAAATCAAGGATATTTGGGTAATTTTATAAATCAAGGGTACTTTA
GAAATTTTACAACTG
Found at i:39190211 original size:40 final size:40
Alignment explanation
Indices: 39190134--39190351 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
39190124 AAACCAAGTA
* *
39190134 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
39190173 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39190213 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39190253 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** * * *
39190293 CCTTCGGGGCTTAG-CCTAAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
39190333 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39190352 TTATCATCCG
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
39 18 0.11
40 140 0.88
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39192586 original size:8 final size:8
Alignment explanation
Indices: 39192573--39192607 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
39192563 GTAAAAGCCG
39192573 AAATGCCA
1 AAATGCCA
*
39192581 AAATGCCG
1 AAATGCCA
*
39192589 AAATGTCA
1 AAATGCCA
39192597 AAATGCCA
1 AAATGCCA
39192605 AAA
1 AAA
39192608 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.14
Consensus pattern (8 bp):
AAATGCCA
Found at i:39192590 original size:16 final size:16
Alignment explanation
Indices: 39192565--39192603 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
39192555 ATGAACCGGT
39192565 AAAA-GCCGAAATGCC
1 AAAATGCCGAAATGCC
*
39192580 AAAATGCCGAAATGTC
1 AAAATGCCGAAATGCC
39192596 AAAATGCC
1 AAAATGCC
39192604 AAAAGTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (16 bp):
AAAATGCCGAAATGCC
Found at i:39192872 original size:28 final size:29
Alignment explanation
Indices: 39192830--39192906 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 29
39192820 ATGAACGTCA
* *
39192830 TTGGGCCGAACGGGCCATATAAATGTGAT
1 TTGGGCCGAATGGGCCATATAAAGGTGAT
* *
39192859 TTGGGCC-AATGGGCTATATACAGGTGAT
1 TTGGGCCGAATGGGCCATATAAAGGTGAT
* *
39192887 TCGGGCCTAATGGGCCATAT
1 TTGGGCCGAATGGGCCATAT
39192907 GAATACGATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 23 0.56
29 18 0.44
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (29 bp):
TTGGGCCGAATGGGCCATATAAAGGTGAT
Found at i:39196367 original size:29 final size:29
Alignment explanation
Indices: 39196315--39196424 Score: 107
Period size: 29 Copynumber: 3.9 Consensus size: 29
39196305 CATGATTATG
* * * *
39196315 AATGTGA-CTGGGCCGAACGAGCCATGTA
1 AATGTGATCTGGGCCTAATGGGCCATATA
39196343 AATGTGATCTGGGCCTAATGGGCCATATA
1 AATGTGATCTGGGCCTAATGGGCCATATA
* * * *
39196372 CAGGTGATTTGGGCCTAATGGGCCATATG
1 AATGTGATCTGGGCCTAATGGGCCATATA
** *
39196401 AATACGAT-TGGGCTTAATGGGCCA
1 AATGTGATCTGGGCCTAATGGGCCA
39196425 GATATAGGTA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 22 0.32
29 46 0.68
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (29 bp):
AATGTGATCTGGGCCTAATGGGCCATATA
Found at i:39198242 original size:28 final size:28
Alignment explanation
Indices: 39198210--39198308 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
39198200 GCAATAAGCC
*
39198210 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
39198238 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
39198266 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
39198295 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39198309 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:39205925 original size:28 final size:28
Alignment explanation
Indices: 39205893--39205991 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
39205883 GCAATAAGCC
*
39205893 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
39205921 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
39205949 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
39205978 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39205992 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:39213592 original size:28 final size:28
Alignment explanation
Indices: 39213560--39213658 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
39213550 GCAATAAGCC
*
39213560 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
39213588 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
39213616 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
39213645 CGCACACTTAGTGC
1 CGCACACTTAGTGC
39213659 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:39216463 original size:39 final size:36
Alignment explanation
Indices: 39216321--39216456 Score: 188
Period size: 39 Copynumber: 3.7 Consensus size: 36
39216311 GAGATTCGTG
39216321 ATATCCGGGCTAAGCCCGAAGGCAT-TGCGA-TTGT
1 ATATCCGGGCTAAGCCCGAAGGCATGTGCGAGTTGT
39216355 GATATCCGGGCTAAGCCCGAAGGCATGTGCGAGTATG-
1 -ATATCCGGGCTAAGCCCGAAGGCATGTGCGAGT-TGT
39216392 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGT
1 ATATCCGGGCTAAG-CCCGAAGGCA--TGTGCGAGTTGT
*
39216431 ATATCCGGGTTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAG-CCCGAAGGCAT
39216457 TTGTGCGGGT
Statistics
Matches: 92, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
35 25 0.27
36 19 0.21
37 12 0.13
38 4 0.04
39 32 0.35
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (36 bp):
ATATCCGGGCTAAGCCCGAAGGCATGTGCGAGTTGT
Found at i:39216485 original size:31 final size:37
Alignment explanation
Indices: 39216321--39216475 Score: 164
Period size: 39 Copynumber: 4.3 Consensus size: 37
39216311 GAGATTCGTG
* *
39216321 ATATCCGGGCTAAGCCCGAAGGCA--T-TGCGATTGT
1 ATATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTGT
* *
39216355 GATATCCGGGCTAAGCCCGAAGGCA--TGTGCGAGTAT
1 -ATATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTGT
*
39216391 GATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGT
1 -ATATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAG-TGT
39216431 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG-G-GT
1 ATATCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTGT
39216467 -TATCCGGGT
1 ATATCCGGGT
39216476 AGCCGAAGGC
Statistics
Matches: 110, Mismatches: 5, Indels: 10
0.88 0.04 0.08
Matches are distributed among these distances:
35 34 0.31
36 24 0.22
37 10 0.09
38 1 0.01
39 39 0.35
40 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
ATATCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTGT
Found at i:39224379 original size:40 final size:40
Alignment explanation
Indices: 39224283--39224446 Score: 228
Period size: 40 Copynumber: 4.2 Consensus size: 40
39224273 GATGATAACT
* * * *
39224283 GGGCTAAGTCCCGAAGGCATTAGTGCTAGTGACTA-ATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
39224322 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
39224361 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* *
39224401 GGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
39224441 -GGCTAA
1 GGGCTAA
39224447 ATTTGAAGGT
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
38 23 0.20
39 27 0.24
40 64 0.56
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:39242623 original size:15 final size:16
Alignment explanation
Indices: 39242597--39242626 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39242587 ATAAACCCTC
39242597 AGTAAGGTTATGATTG
1 AGTAAGGTTATGATTG
39242613 AGTAA-GTTATGATT
1 AGTAAGGTTATGATT
39242627 ATAAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (16 bp):
AGTAAGGTTATGATTG
Found at i:39247420 original size:12 final size:12
Alignment explanation
Indices: 39247403--39247433 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
39247393 CCGTGTACTG
39247403 CCACACGGCCTA
1 CCACACGGCCTA
*
39247415 CCACACGGGCTA
1 CCACACGGCCTA
39247427 CCACACG
1 CCACACG
39247434 CCTGTGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.48, G:0.19, T:0.06
Consensus pattern (12 bp):
CCACACGGCCTA
Found at i:39249608 original size:21 final size:21
Alignment explanation
Indices: 39249579--39249647 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
39249569 TTCTGCTCTA
*
39249579 CTCTGCCTCCCTCGCTACTGC
1 CTCTGCCTCCCTCGCTGCTGC
*
39249600 CTCTACCTCCCTCGCTGCTGC
1 CTCTGCCTCCCTCGCTGCTGC
* *
39249621 CGCTGCCTCCCTCTCTGCTGC
1 CTCTGCCTCCCTCGCTGCTGC
39249642 CTCTGC
1 CTCTGC
39249648 TCTAAGTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.03, C:0.52, G:0.16, T:0.29
Consensus pattern (21 bp):
CTCTGCCTCCCTCGCTGCTGC
Found at i:39250080 original size:13 final size:14
Alignment explanation
Indices: 39250054--39250082 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39250044 ACTAATGACG
39250054 AATTAAACCATTAT
1 AATTAAACCATTAT
39250068 AATTAAA-CATTAT
1 AATTAAACCATTAT
39250081 AA
1 AA
39250083 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:39255299 original size:43 final size:44
Alignment explanation
Indices: 39255252--39255341 Score: 155
Period size: 43 Copynumber: 2.0 Consensus size: 44
39255242 TTATATAAGG
*
39255252 TATGTATTATGTAAGTTTTGTAAGTTATTATA-TGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGATATTATAGTGATATATATT
39255295 TATGTATTATGTAAGTTTTGTAAGATATTATATGTGATATATATT
1 TATGTATTATGTAAGTTTTGTAAGATATTATA-GTGATATATATT
39255340 TA
1 TA
39255342 ACATTAAGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 31 0.70
45 13 0.30
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.52
Consensus pattern (44 bp):
TATGTATTATGTAAGTTTTGTAAGATATTATAGTGATATATATT
Found at i:39255317 original size:52 final size:54
Alignment explanation
Indices: 39255202--39255318 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 54
39255192 GTAAGTTAAC
*
39255202 TAAGTTTTGTATGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
1 TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
* * * * * * *
39255256 T-A-TTATGTAAGTTTTGTAAGTTATTATATGATATATATTTATGT-A-TTATG
1 TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
39255306 TAAGTTTTGTAAG
1 TAAGTTTTGTAAG
39255319 ATATTATATG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
50 5 0.10
51 2 0.04
52 43 0.83
53 1 0.02
54 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.49
Consensus pattern (54 bp):
TAAGTTTTGTAAGTTATGCAAGTTATGATATGATATAAATTTATATAAGGTATG
Found at i:39258088 original size:181 final size:181
Alignment explanation
Indices: 39257777--39258138 Score: 627
Period size: 181 Copynumber: 2.0 Consensus size: 181
39257767 TCGATTTTCT
* *
39257777 ATAGATAGGATTACAGGGTATTGACTGGAAGGCCGGTGGGAGGGGTGAATCTTAGGGATTTCAAA
1 ATAGATAGGATTACAGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTAGGGATTTCAAA
*
39257842 TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCGGGAATGGGTGATAATACTTTAGGGAT
66 TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
*
39257907 TTAGGATGAGGAAAAATGGGGG-AATAGAACTGGGGAAAAACGGGGAAAATG
131 TTAGGATAAGGAAAAA-GGGGGAAATAGAACTGGGGAAAAACGGGGAAAATG
* * *
39257958 ATAGATGGGATTACGGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTTGGGATTTCAAA
1 ATAGATAGGATTACAGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTAGGGATTTCAAA
*
39258023 TCGGGGAAAATTCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
66 TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
*
39258088 TTAGGATAAGGAAGAAGGGGGAAATAGAACTGGGGAAAAACGGGGAAAATG
131 TTAGGATAAGGAAAAAGGGGGAAATAGAACTGGGGAAAAACGGGGAAAATG
39258139 TTAAGTGTAT
Statistics
Matches: 171, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
180 5 0.03
181 166 0.97
ACGTcount: A:0.33, C:0.07, G:0.37, T:0.23
Consensus pattern (181 bp):
ATAGATAGGATTACAGGGTATTGACTAGAAGGCCGGTGGGAGAGGTGAATCTTAGGGATTTCAAA
TCGGGGAAAAATCGTTAGGGATTTGGGATGTCGAATTCAGGAATGGGTGATAATACTTTAGGGAT
TTAGGATAAGGAAAAAGGGGGAAATAGAACTGGGGAAAAACGGGGAAAATG
Found at i:39258428 original size:116 final size:116
Alignment explanation
Indices: 39258209--39258426 Score: 280
Period size: 116 Copynumber: 1.9 Consensus size: 116
39258199 TAATTTAACA
*
39258209 TTAGCAGCATTTATAACCTAGCACCGCTAAAAACGCACCTATTGCGGCGTTTAACTTCAAAACGC
1 TTAGCAGCATTTATAACCTAGCACCGCTAAAAACGCACCTATTGCGGCGTTTAACTACAAAACGC
* ** *
39258274 CACTAATAATATAACAAAACATTGTCGTTTTTGTTTTAACCGAAATCACCT
66 CACTAACAATATAACAAAACAGCGCCGTTTTTGTTTTAACCGAAATCACCT
* * * *
39258325 TTAGCGGCGTTTATACCCTAGCACCGCTAAAAACGCACCCCTATTGCGGCGTTTTAC-ACAAAAC
1 TTAGCAGCATTTATAACCTAGCACCGCTAAAAACGCA--CCTATTGCGGCGTTTAACTACAAAAC
* *
39258389 GCCACTAACAA-ATCCAATAAAACGGCGCCG-TTTTGTTT
64 GCCACTAACAATAT--AACAAAACAGCGCCGTTTTTGTTT
39258427 AATACATAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
116 36 0.41
117 24 0.28
118 27 0.31
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (116 bp):
TTAGCAGCATTTATAACCTAGCACCGCTAAAAACGCACCTATTGCGGCGTTTAACTACAAAACGC
CACTAACAATATAACAAAACAGCGCCGTTTTTGTTTTAACCGAAATCACCT
Found at i:39258659 original size:27 final size:27
Alignment explanation
Indices: 39258595--39258659 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 27
39258585 CCCAAAAAAA
39258595 TTTAAAA-TTATTTTAAATAATAGTAT
1 TTTAAAATTTATTTTAAATAATAGTAT
* * * *
39258621 TTT-AATTTTTTATTTAAATAAATATTTT
1 TTTAAAATTTAT-TTTAAAT-AATAGTAT
39258649 TTTAAAATTTA
1 TTTAAAATTTA
39258660 ACTAATATTT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.07
26 6 0.21
27 7 0.24
28 9 0.31
29 5 0.17
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TTTAAAATTTATTTTAAATAATAGTAT
Found at i:39258720 original size:16 final size:16
Alignment explanation
Indices: 39258701--39258731 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39258691 AAACCTTGAA
*
39258701 AATTTTTTAAAATTTT
1 AATTCTTTAAAATTTT
39258717 AATTCTTTAAAATTT
1 AATTCTTTAAAATTT
39258732 GAAATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
AATTCTTTAAAATTTT
Found at i:39258742 original size:17 final size:16
Alignment explanation
Indices: 39258700--39258743 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
39258690 GAAACCTTGA
*
39258700 AAATTTTTTAAAATTT
1 AAATTATTTAAAATTT
* *
39258716 TAATTCTTTAAAATTT
1 AAATTATTTAAAATTT
39258732 GAAATTATTTAA
1 -AAATTATTTAA
39258744 TATATAGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
AAATTATTTAAAATTT
Found at i:39258866 original size:14 final size:14
Alignment explanation
Indices: 39258843--39258977 Score: 83
Period size: 14 Copynumber: 9.4 Consensus size: 14
39258833 CACACTAATT
*
39258843 ACCCTAAACCCCTA
1 ACCCTTAACCCCTA
*
39258857 ACCCTTAACCCTTA
1 ACCCTTAACCCCTA
*
39258871 ACCCCTAACCCCTA
1 ACCCTTAACCCCTA
** *
39258885 A-CCTATGTCCCTTA
1 ACCCT-TAACCCCTA
*
39258899 ACCCTAAAACCCCTA
1 ACCCT-TAACCCCTA
* * **
39258914 ACACATAAATCCTA
1 ACCCTTAACCCCTA
*
39258928 AGCCTTAAACCCCATA
1 ACCCTT-AACCCC-TA
* *
39258944 ACCCGTAACCCATA
1 ACCCTTAACCCCTA
*
39258958 ACACTTAACCCCTAA
1 ACCCTTAACCCCT-A
39258973 ACCCT
1 ACCCT
39258978 AAGCCATAAA
Statistics
Matches: 87, Mismatches: 29, Indels: 9
0.70 0.23 0.07
Matches are distributed among these distances:
13 2 0.02
14 53 0.61
15 26 0.30
16 6 0.07
ACGTcount: A:0.35, C:0.43, G:0.02, T:0.20
Consensus pattern (14 bp):
ACCCTTAACCCCTA
Found at i:39258873 original size:21 final size:21
Alignment explanation
Indices: 39258843--39258887 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
39258833 CACACTAATT
*
39258843 ACCCTAAACCCCTAACCCTTA
1 ACCCTAAACCCCTAACCCCTA
*
39258864 ACCCTTAACCCCTAACCCCTA
1 ACCCTAAACCCCTAACCCCTA
39258885 ACC
1 ACC
39258888 TATGTCCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.31, C:0.51, G:0.00, T:0.18
Consensus pattern (21 bp):
ACCCTAAACCCCTAACCCCTA
Found at i:39258903 original size:7 final size:7
Alignment explanation
Indices: 39258844--39258887 Score: 61
Period size: 7 Copynumber: 6.1 Consensus size: 7
39258834 ACACTAATTA
39258844 CCCTAAAC
1 CCCT-AAC
39258852 CCCTAAC
1 CCCTAAC
*
39258859 CCTTAAC
1 CCCTAAC
*
39258866 CCTTAAC
1 CCCTAAC
39258873 CCCTAAC
1 CCCTAAC
39258880 CCCTAAC
1 CCCTAAC
39258887 C
1 C
39258888 TATGTCCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
7 30 0.88
8 4 0.12
ACGTcount: A:0.30, C:0.52, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:39258995 original size:28 final size:29
Alignment explanation
Indices: 39258933--39259001 Score: 74
Period size: 28 Copynumber: 2.4 Consensus size: 29
39258923 TCCTAAGCCT
39258933 TAAACCCC-ATAACCCGTAACCCATAACAC
1 TAAACCCCTA-AACCCGTAACCCATAACAC
* *
39258962 TTAACCCCTAAACCC-TAAGCCATAA-AC
1 TAAACCCCTAAACCCGTAACCCATAACAC
39258989 ATAAA-CCCTAAAC
1 -TAAACCCCTAAAC
39259002 TTCTACCCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
27 10 0.29
28 12 0.34
29 12 0.34
30 1 0.03
ACGTcount: A:0.43, C:0.38, G:0.03, T:0.16
Consensus pattern (29 bp):
TAAACCCCTAAACCCGTAACCCATAACAC
Found at i:39259635 original size:41 final size:41
Alignment explanation
Indices: 39259549--39259882 Score: 260
Period size: 41 Copynumber: 8.1 Consensus size: 41
39259539 GTTATATGAC
* * *
39259549 TTTTAGTGGCGTTTTGACCATAAACACCACTATTGCTCT-TGT
1 TTTTAGTGGCGTTTT-ACCAAAAACGCCACTAATGCTCTGT-T
* *
39259591 TTTTAGCGGCGTTTTACTAAAAACGCCACTAATGCTCTGTT
1 TTTTAGTGGCGTTTTACCAAAAACGCCACTAATGCTCTGTT
* * * * *
39259632 TTTTAGAGCCGTTTTACCAAAAGCACCACTAATGCTCTATT
1 TTTTAGTGGCGTTTTACCAAAAACGCCACTAATGCTCTGTT
* * * * *
39259673 TTTTAGCGGAGTTTTACCAAAAGCGCCGCTAATGCTCTATTT
1 TTTTAGTGGCGTTTTACCAAAAACGCCACTAATGCTCT-GTT
* ** * * *
39259715 TTTTAGTGGCATTTTACCAAAAGTGTCGCTAATGCTCTATT
1 TTTTAGTGGCGTTTTACCAAAAACGCCACTAATGCTCTGTT
* * * *
39259756 TTTTAGTGGCGTTTTACTAAAAGCGCCGCTAATGTTCTG-T
1 TTTTAGTGGCGTTTTACCAAAAACGCCACTAATGCTCTGTT
* * ** ** * *
39259796 TTTTAGCGGTGTTTTAAAAAAAAATACCACTATTGCTCAG-T
1 TTTTAGTGGCGTTTT-ACCAAAAACGCCACTAATGCTCTGTT
**** * *
39259837 TTTTAGTGGCGTTTTTGGTAAAACGCCACTATTGCTCTGTG
1 TTTTAGTGGCGTTTTACCAAAAACGCCACTAATGCTCTGTT
39259878 TTTTA
1 TTTTA
39259883 CAATTTTTGC
Statistics
Matches: 238, Mismatches: 50, Indels: 9
0.80 0.17 0.03
Matches are distributed among these distances:
40 31 0.13
41 157 0.66
42 50 0.21
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (41 bp):
TTTTAGTGGCGTTTTACCAAAAACGCCACTAATGCTCTGTT
Found at i:39259668 original size:82 final size:83
Alignment explanation
Indices: 39259549--39259882 Score: 304
Period size: 83 Copynumber: 4.1 Consensus size: 83
39259539 GTTATATGAC
* *
39259549 TTTTAGTGGCGTTTTGACCATAAA-CACCACTATTGCTCT-TGTTTTTAGCGGCGTTTTACTAAA
1 TTTTAGTGGCGTTTTAACCA-AAAGCACCACTAATGCTCTAT-TTTTTAGCGGCGTTTTACTAAA
39259612 AACGCCACTAATGCTCTGTT
64 AACGCCACTAATGCTCTGTT
* * * * *
39259632 TTTTAGAGCCGTTTT-ACCAAAAGCACCACTAATGCTCTATTTTTTAGCGGAGTTTTACCAAAAG
1 TTTTAGTGGCGTTTTAACCAAAAGCACCACTAATGCTCTATTTTTTAGCGGCGTTTTACTAAAAA
* *
39259696 CGCCGCTAATGCTCTATTT
66 CGCCACTAATGCTCT-GTT
* *** * * *
39259715 TTTTAGTGGCATTTT-ACCAAAAGTGTCGCTAATGCTCTATTTTTTAGTGGCGTTTTACTAAAAG
1 TTTTAGTGGCGTTTTAACCAAAAGCACCACTAATGCTCTATTTTTTAGCGGCGTTTTACTAAAAA
* *
39259779 CGCCGCTAATGTTCTG-T
66 CGCCACTAATGCTCTGTT
* * ** ** * * * **
39259796 TTTTAGCGGTGTTTTAAAAAAAAATACCACTATTGCTC-AGTTTTTAGTGGCGTTTTTGGT-AAA
1 TTTTAGTGGCGTTTTAACCAAAAGCACCACTAATGCTCTATTTTTTAGCGGCG-TTTTACTAAAA
* *
39259859 ACGCCACTATTGCTCTGTG
65 ACGCCACTAATGCTCTGTT
39259878 TTTTA
1 TTTTA
39259883 CAATTTTTGC
Statistics
Matches: 207, Mismatches: 38, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
81 45 0.22
82 78 0.38
83 84 0.41
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.39
Consensus pattern (83 bp):
TTTTAGTGGCGTTTTAACCAAAAGCACCACTAATGCTCTATTTTTTAGCGGCGTTTTACTAAAAA
CGCCACTAATGCTCTGTT
Found at i:39259718 original size:124 final size:122
Alignment explanation
Indices: 39259582--39259811 Score: 289
Period size: 124 Copynumber: 1.9 Consensus size: 122
39259572 ACACCACTAT
* * *
39259582 TGCTCTTGTTTTTAGCGGCGTTTTACTAAAAACGCCACTAATGCTCTGTTTTTTAGAGCCGTTTT
1 TGCTCTTGTTTTTAGCGGCATTTTACCAAAAACGCCACTAATGCTCTATTTTTTAGAGCCGTTTT
*
39259647 ACCAAAAGCACCACTAATGCTCTATTTTTTAGCGGAGTTTTACCAAAAGCGCCGCTAA
66 ACCAAAAGCACCACTAATGCTCT-GTTTTTAGCGGAGTTTTACCAAAAGCGCCGCTAA
* * ** * * * *
39259705 TGCTCTATTTTTTTAGTGGCATTTTACCAAAAGTGTCGCTAATGCTCTATTTTTTAGTGGCGTTT
1 TGCTCT-TGTTTTTAGCGGCATTTTACCAAAAACGCCACTAATGCTCTATTTTTTAGAGCCGTTT
* * * * *
39259770 TACTAAAAGCGCCGCTAATGTTCTGTTTTTAGCGGTGTTTTA
65 TACCAAAAGCACCACTAATGCTCTGTTTTTAGCGGAGTTTTA
39259812 AAAAAAAATA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
123 22 0.25
124 67 0.75
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.40
Consensus pattern (122 bp):
TGCTCTTGTTTTTAGCGGCATTTTACCAAAAACGCCACTAATGCTCTATTTTTTAGAGCCGTTTT
ACCAAAAGCACCACTAATGCTCTGTTTTTAGCGGAGTTTTACCAAAAGCGCCGCTAA
Found at i:39263293 original size:12 final size:12
Alignment explanation
Indices: 39263276--39263307 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
39263266 AGTATAGTTG
39263276 ATATATATAGAT
1 ATATATATAGAT
39263288 ATATATATAGAT
1 ATATATATAGAT
*
39263300 ATACATAT
1 ATATATAT
39263308 TCGGCCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (12 bp):
ATATATATAGAT
Found at i:39263982 original size:29 final size:29
Alignment explanation
Indices: 39263947--39264020 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
39263937 GTTGTGAGAT
* *
39263947 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
39263976 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
39264005 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
39264021 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:39269877 original size:55 final size:54
Alignment explanation
Indices: 39269797--39269954 Score: 158
Period size: 55 Copynumber: 2.9 Consensus size: 54
39269787 ATGTGGTATA
* *
39269797 CTTTCCGTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGAC
1 CTTTCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGAC
* * * ** * * ***
39269849 CTTTGCCTTATAGTAACTCATCAGTGCCATGTCTTGACACAGCCTGACATGATTTC
1 CTTT-CCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGAC
* *
39269905 CTTTCCTTATAGAACTTATCAATGCCATGCATTGGCATGGTCTTACATGA
1 CTTTCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
39269955 TATCTTTATC
Statistics
Matches: 81, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
52 4 0.05
53 5 0.06
54 30 0.37
55 37 0.46
56 5 0.06
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (54 bp):
CTTTCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGAC
Found at i:39276548 original size:98 final size:97
Alignment explanation
Indices: 39276379--39276556 Score: 266
Period size: 98 Copynumber: 1.8 Consensus size: 97
39276369 AACTTACCAT
* * * *
39276379 TGCCATGTCTTAACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCCTAACACGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
39276444 GCATGGTCTTACATGGGACCTTTACTCATCAA
66 GCATGGTCTTACATGGGACCTTTACTCATCAA
* * * * *
39276476 TGCCATGTCCTGACACGGTCTTACATGATTTCCTTGCCTTTTAGAACTTATCAATGCCATGCCTT
1 TGCCATGTCCTAACACGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTT
39276541 GGCATGGTCTTACATG
65 GGCATGGTCTTACATG
39276557 ATATCCTTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
97 35 0.49
98 36 0.51
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (97 bp):
TGCCATGTCCTAACACGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACCTTTACTCATCAA
Found at i:39278027 original size:46 final size:45
Alignment explanation
Indices: 39277856--39278025 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
39277846 TGTAAGCCGC
* * * *
39277856 CCATAAGTGAACTCAAACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCT-TGGCATTCGCAT
* *
39277902 CCATAAGTGAACTCAGACTCAACTCAATGAGCTTGG-ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGCATTCGC-A--T
* *** * *
39277948 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTTGG-CATTCGCAT
*
39277995 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
39278026 TTCGGATGCC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.59
47 30 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGCATTCGCAT
Found at i:39278050 original size:46 final size:45
Alignment explanation
Indices: 39277957--39278042 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
39277947 TACATCTCTC
* * * **
39277957 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCCCAAACATAAGT
39278003 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCCCAAACAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCCCAAACAT
39278043 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 8 0.23
46 27 0.77
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCCCAAACATAAGT
Found at i:39279420 original size:46 final size:47
Alignment explanation
Indices: 39279328--39279430 Score: 154
Period size: 46 Copynumber: 2.2 Consensus size: 47
39279318 GGATATTACA
* *
39279328 CCTTATCTTACCAAATGCCATGTTCCAAACATGGTCTTAAACGGTAT
1 CCTTGTCTTACCAAATGCCATGTTCCAAACATGCTCTTAAACGGTAT
* *
39279375 CCTTGTCTTACCAAATGCCATGTT-CAAACATGCTCTTACATGGTAT
1 CCTTGTCTTACCAAATGCCATGTTCCAAACATGCTCTTAAACGGTAT
*
39279421 CATTGTCTTA
1 CCTTGTCTTA
39279431 GTTCCAATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 28 0.55
47 23 0.45
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (47 bp):
CCTTGTCTTACCAAATGCCATGTTCCAAACATGCTCTTAAACGGTAT
Found at i:39279639 original size:44 final size:44
Alignment explanation
Indices: 39279560--39279643 Score: 109
Period size: 44 Copynumber: 1.9 Consensus size: 44
39279550 TCCTTAACCG
*
39279560 TCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTTCCC
1 TCAATTCCTCCTTAAATGCCATGTTATCAACATGGACTTTTCCC
* *
39279604 TCAATTCTTCCTTAATTGCCATCG-TA-CAACGATGGACTTT
1 TCAATTCCTCCTTAAATGCCAT-GTTATCAAC-ATGGACTTT
39279644 GAGATATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 3 0.09
44 31 0.89
45 1 0.03
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGTTATCAACATGGACTTTTCCC
Found at i:39281089 original size:25 final size:25
Alignment explanation
Indices: 39281061--39281130 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
39281051 CTCTTTAAAT
*
39281061 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
39281086 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
39281111 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
39281131 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:39282005 original size:27 final size:27
Alignment explanation
Indices: 39281940--39282023 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
39281930 AGGCATATTC
* * *
39281940 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACCCTACAGGGGCT-TTACG
39281967 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
* **
39281994 GTCACTTTACCCTATAGAAGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
39282021 GTC
1 GTC
39282024 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:39282115 original size:27 final size:27
Alignment explanation
Indices: 39282085--39282192 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 27
39282075 GTAAATCTAC
39282085 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
39282112 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* * *
39282138 AGAAAGTCAATGGTATTTTTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
** *
39282168 AAATTAGGGGTATTT-TAGTAATTTT
1 AAACCAAGGGTATTTCTA-TAATTTT
39282193 ACAAATTGAG
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.04
27 38 0.55
28 7 0.10
29 20 0.29
30 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.16, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:39282198 original size:27 final size:27
Alignment explanation
Indices: 39282149--39282304 Score: 120
Period size: 27 Copynumber: 5.8 Consensus size: 27
39282139 GAAAGTCAAT
** *
39282149 GGTATTTTTA-TAATTTTGTAAATTAGG
1 GGTA-TTTTAGTAATTTTACAAACTAGG
*
39282176 GGTATTTTAGTAATTTTACAAA-TTGAG
1 GGTATTTTAGTAATTTTACAAACTAG-G
* * * * *
39282203 GGTATTTCAATAATTTCACAAACCAGT
1 GGTATTTTAGTAATTTTACAAACTAGG
*
39282230 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTAGTAATTTTACAAACTAGG
* * **
39282257 GGTATTTTGGTAATTCTACCCTAC-AGG
1 GGTATTTTAGTAATTTTA-CAAACTAGG
* *
39282284 GGTATTTCAGTAATTTCACAA
1 GGTATTTTAGTAATTTTACAA
39282305 TTGAGGGTAA
Statistics
Matches: 101, Mismatches: 24, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
26 8 0.08
27 89 0.88
28 4 0.04
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTACAAACTAGG
Found at i:39282377 original size:54 final size:54
Alignment explanation
Indices: 39282303--39282475 Score: 249
Period size: 54 Copynumber: 3.2 Consensus size: 54
39282293 GTAATTTCAC
*
39282303 AATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATTCTGTA
* * *
39282357 AATTGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAATGATAATTTTGTA
1 AATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATTCTGTA
* * * *
39282411 AATCT-AGGGTAAAACGATAATTCTGTAAATCAAGGATAAAACGGTAATTCTGTA
1 AAT-TGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATTCTGTA
*
39282465 AATCGAGGGTA
1 AATTGAGGGTA
39282476 CTTTGGTAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 104 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (54 bp):
AATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATTCTGTA
Found at i:39282486 original size:27 final size:27
Alignment explanation
Indices: 39282307--39282475 Score: 221
Period size: 27 Copynumber: 6.3 Consensus size: 27
39282297 TTTCACAATT
*
39282307 GAGGGTAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* *
39282334 GAGGGTAAAATGATAATTCTGTAAATT
1 GAGGGTAAAATGGTAATTCTGTAAATC
*
39282361 GGGGGTAAAATGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
39282388 AAGGGTAAAATGATAATTTTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
39282415 TAGGGTAAAACGATAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
* * *
39282442 AAGGATAAAACGGTAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTGTAAATC
39282469 GAGGGTA
1 GAGGGTA
39282476 CTTTGGTAAT
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTGTAAATC
Found at i:39282486 original size:81 final size:81
Alignment explanation
Indices: 39282308--39282502 Score: 237
Period size: 81 Copynumber: 2.4 Consensus size: 81
39282298 TTCACAATTG
* * * *** * *
39282308 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTCTGTAAATTGGGGGTAAAATG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGATAAAACG
39282373 GTAATTCTGTAAATCA
66 GTAATTCTGTAAATCA
* *
39282389 AGGGTAAAATGATAATTTTGTAAATCTAGGGTAAAACGATAATTCTGTAAATCAAGGATAAAACG
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGATAAAACG
*
39282454 GTAATTCTGTAAATCG
66 GTAATTCTGTAAATCA
*** ** *
39282470 AGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
39282503 TTTTAATAAT
Statistics
Matches: 95, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (81 bp):
AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAATCAAGGATAAAACG
GTAATTCTGTAAATCA
Found at i:39293165 original size:30 final size:30
Alignment explanation
Indices: 39293131--39293227 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
39293121 TAAACTAAAA
*
39293131 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
39293161 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
*
39293191 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
39293220 ATGAGCTA
1 -TGAGCTA
39293228 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:39309527 original size:27 final size:26
Alignment explanation
Indices: 39309491--39309755 Score: 212
Period size: 27 Copynumber: 9.8 Consensus size: 26
39309481 AGACCTCGAT
**
39309491 TTGTAAAATTATCGAAATACCCTTGGA
1 TTGTAAAATTA-CGAAATACCCTCAGA
* * *
39309518 TTGTAAAATTACCAAA-ATCCCCCCGA
1 TTGTAAAATTACGAAATA-CCCTCAGA
*
39309544 TTTGTAAAATTACCGGAATACCCTCAGA
1 -TTGTAAAATTA-CGAAATACCCTCAGA
*
39309572 TTGTAAAATTACTGAAATACCC-CTAGT
1 TTGTAAAATTAC-GAAATACCCTC-AGA
* *
39309599 TTGTAAAATTACTGAAATACCCCCAGT
1 TTGTAAAATTAC-GAAATACCCTCAGA
* *
39309626 TTGTAAAGTTACTGAAATACCCTCAAA
1 TTGTAAAATTAC-GAAATACCCTCAGA
* *
39309653 TTGTAAAATTACCAAAATACCCTCAGT
1 TTGTAAAATTA-CGAAATACCCTCAGA
** * *
39309680 TTGTAAAATTATTAAAATACCCTCGGT
1 TTGTAAAATTA-CGAAATACCCTCAGA
* *
39309707 TTGTAAAATTACCGTAATACCCT-TGTA
1 TTGTAAAATTA-CGAAATACCCTCAG-A
*
39309734 GTGTAAAATTACTGAAATACCC
1 TTGTAAAATTAC-GAAATACCC
39309756 CTGTAGGGTA
Statistics
Matches: 199, Mismatches: 29, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
25 1 0.01
26 13 0.07
27 173 0.87
28 11 0.06
29 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (26 bp):
TTGTAAAATTACGAAATACCCTCAGA
Found at i:39309574 original size:54 final size:54
Alignment explanation
Indices: 39309487--39309756 Score: 283
Period size: 54 Copynumber: 5.0 Consensus size: 54
39309477 CTTAAGACCT
* ** * *
39309487 CGATTTGTAAAATTATCGAAATACCCTTGGATTGTAAAATTACCAAAATCCCCC
1 CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACTAAAATACCCC
* *
39309541 CGATTTGTAAAATTACCGGAATACCCTCAGATTGTAAAATTACTGAAATA-CCC
1 CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACTAAAATACCCC
* * * * * * *
39309594 CTAGTTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAGTTACTGAAATACCCT
1 CGA-TTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACTAAAATACCCC
* * * * * *
39309649 CAAATTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTATTAAAATACCCT
1 CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACTAAAATACCCC
* * * * *
39309703 CGGTTTGTAAAATTACCGTAATACCCT-TGTAGTGTAAAATTACTGAAATACCCC
1 CGATTTGTAAAATTACCGAAATACCCTCAG-ATTGTAAAATTACTAAAATACCCC
39309757 TGTAGGGTAA
Statistics
Matches: 180, Mismatches: 33, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
53 6 0.03
54 170 0.94
55 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (54 bp):
CGATTTGTAAAATTACCGAAATACCCTCAGATTGTAAAATTACTAAAATACCCC
Found at i:39309629 original size:81 final size:81
Alignment explanation
Indices: 39309491--39309757 Score: 308
Period size: 81 Copynumber: 3.3 Consensus size: 81
39309481 AGACCTCGAT
* * * * *
39309491 TTGTAAAATTA-TCGAAATACCCTTGGATTGTAAAATTACCAAAAT-CCCCCCGATTTGTAAAAT
1 TTGTAAAATTACT-GAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCCAG-TTTGTAAAAT
*
39309554 TACCGGAATACCCTCAGA
64 TACCGAAATACCCTCAGA
* *
39309572 TTGTAAAATTACTGAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCCAGTTTGTAAAGTTA
1 TTGTAAAATTACTGAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTA
* *
39309637 CTGAAATACCCTCAAA
66 CCGAAATACCCTCAGA
** * * *
39309653 TTGTAAAATTACCAAAATA-CCCTCAGTTTGTAAAATTATTAAAATACCCTCGGTTTGTAAAATT
1 TTGTAAAATTACTGAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATT
* *
39309717 ACCGTAATACCCT-TGTA
65 ACCGAAATACCCTCAG-A
*
39309734 GTGTAAAATTACTGAAATACCCCT
1 TTGTAAAATTACTGAAATACCCCT
39309758 GTAGGGTAAA
Statistics
Matches: 157, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
80 4 0.03
81 142 0.90
82 11 0.07
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (81 bp):
TTGTAAAATTACTGAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCCAGTTTGTAAAATTA
CCGAAATACCCTCAGA
Found at i:39310577 original size:28 final size:28
Alignment explanation
Indices: 39310537--39310592 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
39310527 CTTATTCTGA
* *
39310537 TACTGTATTGGGCTTAGGCCAACACTGT
1 TACTATATTGGGCTAAGGCCAACACTGT
*
39310565 TACTATATTGGGCTAAGGCCTACACTGT
1 TACTATATTGGGCTAAGGCCAACACTGT
39310593 GCTGTTACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (28 bp):
TACTATATTGGGCTAAGGCCAACACTGT
Found at i:39319098 original size:19 final size:19
Alignment explanation
Indices: 39319074--39319113 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39319064 TGTGTCATCA
39319074 TAAATTCATAGGCATAACT
1 TAAATTCATAGGCATAACT
** *
39319093 TAAATTTTTGGGCATAACT
1 TAAATTCATAGGCATAACT
39319112 TA
1 TA
39319114 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:39322062 original size:10 final size:10
Alignment explanation
Indices: 39322047--39322073 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
39322037 TAAGTTGAAG
39322047 TTGAGCTGAT
1 TTGAGCTGAT
39322057 TTGAGCTGAT
1 TTGAGCTGAT
39322067 TTGAGCT
1 TTGAGCT
39322074 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:39327771 original size:29 final size:29
Alignment explanation
Indices: 39327681--39327840 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
39327671 ACTCGATTTC
* * **
39327681 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
39327710 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
39327738 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
39327768 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
39327797 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
39327826 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
39327841 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:39329164 original size:25 final size:23
Alignment explanation
Indices: 39329129--39329176 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
39329119 ATCCACACTC
39329129 TTTTTTTTTTCATCATTTTCCTT
1 TTTTTTTTTTCATCATTTTCCTT
* *
39329152 TTTTTTTCATTTCTTTATTTTCCTT
1 TTTTTTT--TTTCATCATTTTCCTT
39329177 CCATAATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
25 14 0.67
ACGTcount: A:0.08, C:0.17, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTTTTTTTTCATCATTTTCCTT
Found at i:39332201 original size:10 final size:10
Alignment explanation
Indices: 39332186--39332212 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
39332176 TAAGTTGAAG
39332186 TTGAGCTGAT
1 TTGAGCTGAT
39332196 TTGAGCTGAT
1 TTGAGCTGAT
39332206 TTGAGCT
1 TTGAGCT
39332213 TGAAGGAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.30, T:0.41
Consensus pattern (10 bp):
TTGAGCTGAT
Found at i:39342412 original size:22 final size:22
Alignment explanation
Indices: 39342383--39342515 Score: 169
Period size: 22 Copynumber: 6.0 Consensus size: 22
39342373 GAGTCATGGT
*
39342383 CGGTAAGCTTCT-TCGAGCTGAA
1 CGGTAAGC-TCTATTGAGCTGAA
* *
39342405 CAGTAAGCTTTATTGAGCTGAAA
1 CGGTAAGCTCTATTGAGCTG-AA
*
39342428 CGGTAAGCTCTAATGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
* *
39342450 CAGTAAGCTCTATTAAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
39342472 CGGTAAGCTCTATTGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
* *
39342494 CGGTAAGCTCCAATGAGCTGAA
1 CGGTAAGCTCTATTGAGCTGAA
39342516 ACAATAAGCT
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
21 2 0.02
22 75 0.78
23 19 0.20
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (22 bp):
CGGTAAGCTCTATTGAGCTGAA
Found at i:39342493 original size:67 final size:67
Alignment explanation
Indices: 39342398--39342527 Score: 208
Period size: 67 Copynumber: 1.9 Consensus size: 67
39342388 AGCTTCTTCG
* * *
39342398 AGCTGAACAGTAAGCTTTATTGAGCTGAAACGGTAAGCTCTAATGAGCTG-AACAGTAAGCTCTA
1 AGCTGAACAGTAAGCTCTATTGAGCTG-AACGGTAAGCTCCAATGAGCTGAAACAATAAGCTCTA
39342462 TTA
65 TTA
*
39342465 AGCTGAACGGTAAGCTCTATTGAGCTGAACGGTAAGCTCCAATGAGCTGAAACAATAAGCTCT
1 AGCTGAACAGTAAGCTCTATTGAGCTGAACGGTAAGCTCCAATGAGCTGAAACAATAAGCTCT
39342528 TACGAGCTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 21 0.36
67 37 0.64
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (67 bp):
AGCTGAACAGTAAGCTCTATTGAGCTGAACGGTAAGCTCCAATGAGCTGAAACAATAAGCTCTAT
TA
Found at i:39345433 original size:56 final size:56
Alignment explanation
Indices: 39345336--39345444 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 56
39345326 ACCATGGCAT
* **
39345336 CGATATATGTATACGAGTAAGACCATGTTTTATATGTTGGCATTGATATGTGACTC
1 CGATATATGTATACGAGTAAGACCATGTTGTATATGTTGGCATCAATATGTGACTC
* *
39345392 CGATATATGTATCCGAGTAAGACCCTGTCTAGTATA-G-TGGCATCAATATGTGA
1 CGATATATGTATACGAGTAAGACCATGT-T-GTATATGTTGGCATCAATATGTGA
39345445 TTACATGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
56 40 0.87
57 2 0.04
58 4 0.09
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (56 bp):
CGATATATGTATACGAGTAAGACCATGTTGTATATGTTGGCATCAATATGTGACTC
Found at i:39347016 original size:27 final size:27
Alignment explanation
Indices: 39346994--39347053 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
39346984 AATTTGTATG
39346994 TGAA-ATGGCATATATTGGTTTTGAAT
1 TGAACATGGCATATATTGGTTTTGAAT
*
39347020 TTAACATGGCATATATTGGTTTTGAAT
1 TGAACATGGCATATATTGGTTTTGAAT
*
39347047 TTAACAT
1 TGAACAT
39347054 TTGATCTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
TGAACATGGCATATATTGGTTTTGAAT
Found at i:39355230 original size:94 final size:90
Alignment explanation
Indices: 39355090--39355303 Score: 209
Period size: 94 Copynumber: 2.3 Consensus size: 90
39355080 TATGTGCGCC
* * *
39355090 AGTGTTAGACATGTATGGGACATGCATCGGCCACATAATGAGAGCCAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAATGTAAGA-CATGT-TAG
39355155 G-ACATGGCATCGGCATTGA-GACAAGTACT
64 GAACAT-GCATCGGC--T-ACGACAAGTACT
* * * ** * *
39355184 AGTGTAAGAAATGTCTGGGACATGCATCGGCCTCGA-GATGTTAGCCAATGTCAGACATGTTTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATAATGAGAGCCAATGTAAGACATGTTAGG
* * * *
39355248 AACATGCGTCGGCTACGAGATGTGCT
65 AACATGCATCGGCTACGACAAGTACT
*
39355274 AGTGTAAGACATGTCTGGGACACGCATCGG
1 AGTGTAAGACATGTCTGGGACATGCATCGG
39355304 TACGGTTACA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
89 1 0.01
90 36 0.36
92 10 0.10
93 9 0.09
94 44 0.44
95 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (90 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATAATGAGAGCCAATGTAAGACATGTTAGGA
ACATGCATCGGCTACGACAAGTACT
Found at i:39358347 original size:14 final size:14
Alignment explanation
Indices: 39358325--39358372 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
39358315 ACCTAAACCG
* *
39358325 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
39358339 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
39358353 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
39358367 ACCATT
1 ACCATT
39358373 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:39358775 original size:11 final size:10
Alignment explanation
Indices: 39358728--39358774 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
39358718 TATACAAGTT
39358728 AAAAAAAT-A
1 AAAAAAATCA
39358737 AAAAAAATCGA
1 AAAAAAATC-A
*
39358748 AAAAAAATCG
1 AAAAAAATCA
39358758 AAAAAAATCA
1 AAAAAAATCA
39358768 AAAAAAA
1 AAAAAAA
39358775 AGAAAAAGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 8 0.24
10 16 0.47
11 10 0.29
ACGTcount: A:0.81, C:0.06, G:0.04, T:0.09
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:39369377 original size:5 final size:5
Alignment explanation
Indices: 39369367--39369423 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
39369357 CTCTTGCCTC
*
39369367 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
39369414 TCTTT TCTTT
1 TCTTT TCTTT
39369424 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (5 bp):
TCTTT
Found at i:39369407 original size:15 final size:14
Alignment explanation
Indices: 39369367--39369423 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
39369357 CTCTTGCCTC
*
39369367 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-CT
39369382 TCATTTTCTTTTTCT
1 TC-TTTTCTTTTTCT
39369397 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTTC--T
39369414 TCTTTTCTTT
1 TCTTTTCTTT
39369424 ATTTTCTCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 4 0.11
15 12 0.32
16 14 0.38
17 7 0.19
ACGTcount: A:0.04, C:0.18, G:0.02, T:0.77
Consensus pattern (14 bp):
TCTTTTCTTTTTCT
Found at i:39369433 original size:21 final size:20
Alignment explanation
Indices: 39369365--39369434 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
39369355 GCCTCTTGCC
39369365 TCTCTTTTCTTTTTATTTCATTT
1 TCTCTTTTC-TTTT-TTT-ATTT
**
39369388 TCT-TTTTCTTCTTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
39369408 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
39369428 TCTCTTT
1 TCTCTTT
39369435 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 9 0.23
22 7 0.18
23 3 0.08
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:39370389 original size:14 final size:14
Alignment explanation
Indices: 39370370--39370414 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
39370360 AACTCATCTT
*
39370370 AGTTTAATTAAATG
1 AGTTTAATTTAATG
*
39370384 AGTTT-ATTTGATG
1 AGTTTAATTTAATG
*
39370397 AATTTAATTTAATG
1 AGTTTAATTTAATG
39370411 AGTT
1 AGTT
39370415 GCTTCTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:39371652 original size:11 final size:11
Alignment explanation
Indices: 39371638--39371672 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
39371628 AGTAAGTTTC
39371638 AAAAAAAACG-
1 AAAAAAAACGA
39371648 -AAAAAAACGA
1 AAAAAAAACGA
39371658 AAAAAAAACGA
1 AAAAAAAACGA
39371669 AAAA
1 AAAA
39371673 GAATTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.39
11 14 0.61
ACGTcount: A:0.83, C:0.09, G:0.09, T:0.00
Consensus pattern (11 bp):
AAAAAAAACGA
Found at i:39371672 original size:9 final size:9
Alignment explanation
Indices: 39371639--39371663 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
39371629 GTAAGTTTCA
39371639 AAAAAAACG
1 AAAAAAACG
39371648 AAAAAAACG
1 AAAAAAACG
39371657 AAAAAAA
1 AAAAAAA
39371664 AACGAAAAAG
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:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAACG
Found at i:39373791 original size:10 final size:10
Alignment explanation
Indices: 39373776--39373804 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
39373766 GTTAAGTTGA
39373776 ATTTGAGCTG
1 ATTTGAGCTG
39373786 ATTTGAGCTG
1 ATTTGAGCTG
39373796 ATTTGAGCT
1 ATTTGAGCT
39373805 TGAAGGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (10 bp):
ATTTGAGCTG
Found at i:39374389 original size:18 final size:18
Alignment explanation
Indices: 39374366--39374415 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
39374356 GAAAGACAAA
*
39374366 GAAAAAGAGATTGAGAGT
1 GAAAAAGAGAATGAGAGT
* *
39374384 GAAAAAGAAAATGAGATT
1 GAAAAAGAGAATGAGAGT
39374402 GAAAAAGAGAATGA
1 GAAAAAGAGAATGA
39374416 AAAAGAGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (18 bp):
GAAAAAGAGAATGAGAGT
Found at i:39374392 original size:24 final size:24
Alignment explanation
Indices: 39374363--39374440 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
39374353 AATGAAAGAC
* *
39374363 AAAGAAAAAGAGATTGAGAGTGAA
1 AAAGAAAAAGAGATTGAGAGAGAG
* * *
39374387 AAAGAAAATGAGATTGAAAAAGAG
1 AAAGAAAAAGAGATTGAGAGAGAG
* *
39374411 AATGAAAAAGAGTTTGAGAGAGAG
1 AAAGAAAAAGAGATTGAGAGAGAG
39374435 AAAGAA
1 AAAGAA
39374441 TGTGAACAAG
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (24 bp):
AAAGAAAAAGAGATTGAGAGAGAG
Found at i:39377570 original size:14 final size:14
Alignment explanation
Indices: 39377528--39377572 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
39377518 TTAAAGAAGC
39377528 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
39377542 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
39377555 AACTCATTTAATTA
1 AACTCATTAAATTA
39377569 AACT
1 AACT
39377573 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:39379978 original size:30 final size:30
Alignment explanation
Indices: 39379893--39379989 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
39379883 TAAACTAAAA
* *
39379893 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
39379923 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
39379953 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
39379982 GTGAGCTA
1 -TGAGCTA
39379990 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:39386324 original size:58 final size:58
Alignment explanation
Indices: 39386256--39386440 Score: 146
Period size: 57 Copynumber: 3.2 Consensus size: 58
39386246 TGTTGGTAAT
* *
39386256 CATCCTTTTTCAATTCGATGGCTGAAACCATCCCTTTTCATTAACCGATGGTCCTCAC
1 CATCCCTTTTCAATTCGATGGCTGAAACCATCCCTTTTCATTAATCGATGGTCCTCAC
* * ** * **
39386314 CATCCCTTTTCATAATT-GATAGCCGAAAGTATCCCTTTTCA-TAATCGATAGT-CGAAGC
1 CATCCCTTTTC--AATTCGATGGCTGAAACCATCCCTTTTCATTAATCGATGGTCCTCA-C
* ** * * * * *
39386372 TATCCCTTTTCAATTCGATGG-TCGTCACCATTCCTTTTCGTT-GTTGATGGTCATCAC
1 CATCCCTTTTCAATTCGATGGCT-GAAACCATCCCTTTTCATTAATCGATGGTCCTCAC
39386429 CATCCCTTTTCA
1 CATCCCTTTTCA
39386441 TAATCAATAG
Statistics
Matches: 95, Mismatches: 25, Indels: 15
0.70 0.19 0.11
Matches are distributed among these distances:
56 4 0.04
57 35 0.37
58 32 0.34
59 20 0.21
60 4 0.04
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (58 bp):
CATCCCTTTTCAATTCGATGGCTGAAACCATCCCTTTTCATTAATCGATGGTCCTCAC
Found at i:39386357 original size:29 final size:29
Alignment explanation
Indices: 39386315--39386383 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
39386305 GGTCCTCACC
*
39386315 ATCCCTTTTCATAATTGATAGCCGAAAG-T
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
*
39386344 ATCCCTTTTCATAATCGATAGTCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
39386373 ATCCCTTTTCA
1 ATCCCTTTTCA
39386384 ATTCGATGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 3 0.08
29 34 0.92
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.36
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:39386407 original size:28 final size:29
Alignment explanation
Indices: 39386373--39386440 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
39386363 AGTCGAAGCT
*
39386373 ATCCCTTTTCAAT-TCGATGGTCGTCACC
1 ATCCCTTTTCAATGTCGATGGTCATCACC
* ** *
39386401 ATTCCTTTTCGTTGTTGATGGTCATCACC
1 ATCCCTTTTCAATGTCGATGGTCATCACC
39386430 ATCCCTTTTCA
1 ATCCCTTTTCA
39386441 TAATCAATAG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCAATGTCGATGGTCATCACC
Found at i:39391954 original size:19 final size:19
Alignment explanation
Indices: 39391930--39391981 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
39391920 AAAAAAAATA
39391930 AATAAATCATAATTAAACT
1 AATAAATCATAATTAAACT
39391949 AATAAAT-A-AA-T--A--
1 AATAAATCATAATTAAACT
39391961 AATAAATCATAATTAAACT
1 AATAAATCATAATTAAACT
39391980 AA
1 AA
39391982 GTACAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
12 7 0.27
13 1 0.04
14 3 0.12
15 1 0.04
16 1 0.04
17 3 0.12
18 1 0.04
19 9 0.35
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (19 bp):
AATAAATCATAATTAAACT
Found at i:39395901 original size:42 final size:42
Alignment explanation
Indices: 39395851--39396006 Score: 197
Period size: 42 Copynumber: 3.7 Consensus size: 42
39395841 ACTAATATTA
* *
39395851 CGTGTAAGATCATATCTGAGATATGGCATCAATATGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
* *
39395893 CGTGTAAGACCATATCTGGGATATGACATCAATATGAGGCTT
1 CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
* * * * *
39395935 CGTGTAAGACCATAACTGGGCTATTGGCATCGATACGAGA-TCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCAATATGAGACT-T
*
39395978 CATGTAAGACCATATCTGGGATATGGCAT
1 CGTGTAAGACCATATCTGGGATATGGCAT
39396007 TGGTATGGTA
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 66 0.67
43 32 0.33
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTT
Found at i:39400805 original size:13 final size:13
Alignment explanation
Indices: 39400787--39400811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39400777 ATATAATAGG
39400787 GTCACACGGCCGA
1 GTCACACGGCCGA
39400800 GTCACACGGCCG
1 GTCACACGGCCG
39400812 TGTGCTAGGC
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:0.20, C:0.40, G:0.32, T:0.08
Consensus pattern (13 bp):
GTCACACGGCCGA
Found at i:39403047 original size:40 final size:40
Alignment explanation
Indices: 39402947--39403123 Score: 218
Period size: 40 Copynumber: 4.5 Consensus size: 40
39402937 CGGATGATAA
* * *
39402947 CCGGGCTAAGTCCCGAAGGCATTAGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
39402987 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39403026 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39403066 CCGAGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39403106 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39403124 TACTTGGTTT
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 48 0.40
40 73 0.60
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39403112 original size:79 final size:79
Alignment explanation
Indices: 39402947--39403123 Score: 216
Period size: 79 Copynumber: 2.2 Consensus size: 79
39402937 CGGATGATAA
* ** * *
39402947 CCGGGCTAAGTCCCGAAGGCATTAGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTGACTAATACCGAGCTAAGCCCGAAGGCATTTGA
*
39403012 GCGAGTTACTATAT
66 GCAAGTTACTATAT
* *
39403026 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGAGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTGACTAAT-ACCGAGCTAAG-CCCGAAGGCATTT
39403090 GAGCAAG-TAGCTATAT
64 GAGCAAGTTA-CTATAT
* *
39403106 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39403124 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.02
79 57 0.67
80 26 0.31
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTAGTGCGAGTGACTAATACCGAGCTAAGCCCGAAGGCATTTGA
GCAAGTTACTATAT
Found at i:39411086 original size:40 final size:40
Alignment explanation
Indices: 39410985--39411240 Score: 379
Period size: 40 Copynumber: 6.6 Consensus size: 40
39410975 CGGATGATAA
* *
39410985 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39411024 TCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39411062 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39411102 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39411142 -CGGGCTAAGTCCCGAAGGCATTTGTAC-AGTGTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-TACTATAT
39411181 --GGGCTAAGTCCCGAA-GCATTTGTGCGAGTTACTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39411217 ACGGGCT-AGTCCCGAAGACATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39411241 AGCAGTAGCT
Statistics
Matches: 202, Mismatches: 7, Indels: 17
0.89 0.03 0.08
Matches are distributed among these distances:
37 48 0.24
38 43 0.21
39 43 0.21
40 68 0.34
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39411191 original size:117 final size:114
Alignment explanation
Indices: 39410984--39411240 Score: 378
Period size: 117 Copynumber: 2.2 Consensus size: 114
39410974 TCGGATGATA
* *
39410984 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCGGGCTAAGCCGAAGGCATTTGTG
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCGGGCTAAGCCGAAGGCATTTGTA
39411049 CGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
66 CGAGTTACTATAT-CGGGCTAAGTCCCGAA-GCATTTGTGCGAGTTACTAT
*
39411100 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCGGGCTAAG--CCGAAGGCATT
39411164 TGTAC-AGTGTACTATAT-GGGCTAAGTCCCGAAGCATTTGTGCGAGTTACTAT
62 TGTACGAGT-TACTATATCGGGCTAAGTCCCGAAGCATTTGTGCGAGTTACTAT
* *
39411216 AACGGGCT-AGTCCCGAAGACATTTG
1 ACCGGGCTAAGTCCCGAAGGCATTTG
39411241 AGCAGTAGCT
Statistics
Matches: 131, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
114 16 0.12
115 6 0.05
116 24 0.18
117 59 0.45
118 3 0.02
119 23 0.18
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (114 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCGGGCTAAGCCGAAGGCATTTGTA
CGAGTTACTATATCGGGCTAAGTCCCGAAGCATTTGTGCGAGTTACTAT
Found at i:39419119 original size:79 final size:79
Alignment explanation
Indices: 39418985--39419264 Score: 415
Period size: 79 Copynumber: 3.6 Consensus size: 79
39418975 CGGATGATAA
* * * *
39418985 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAGCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCGAAGGCATTTG
39419049 TGCGAGTTACTATAT
65 TGCGAGTTACTATAT
39419064 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGT
39419129 GCGAG-TACTATAT
66 GCGAGTTACTATAT
* *
39419142 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTTG
*
39419207 TGCGAGTTACTATAA
65 TGCGAGTTACTATAT
** *
39419222 CCGGGCT-AGTCCCGAAAACATTTGAGCGAG-TAGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
39419265 TTAAATCCCG
Statistics
Matches: 185, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
78 59 0.32
79 111 0.60
80 15 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCGAAGGCATTTGT
GCGAGTTACTATAT
Found at i:39419205 original size:118 final size:119
Alignment explanation
Indices: 39418981--39419278 Score: 444
Period size: 118 Copynumber: 2.5 Consensus size: 119
39418971 TATTCGGATG
* *
39418981 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TCCGGGCTAAGTCCCGAAGGC
*
39419044 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
39419100 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCAT
*
39419164 TTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * * *
39419218 ATAACCGGGCT-AGTCCCGAAAACATTTGAGCGAGTAGCTATATCC-GGTTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGGGCTAAGTCCCGAAGG
39419279 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
117 17 0.10
118 125 0.76
119 22 0.13
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:39419259 original size:39 final size:40
Alignment explanation
Indices: 39418985--39419278 Score: 422
Period size: 39 Copynumber: 7.5 Consensus size: 40
39418975 CGGATGATAA
* *
39418985 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
39419025 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39419064 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39419104 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39419142 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39419182 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
39419222 CCGGGCT-AGTCCCGAAAACATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39419261 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39419279 TACTTGGTTT
Statistics
Matches: 233, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
38 24 0.10
39 107 0.46
40 102 0.44
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39421445 original size:22 final size:20
Alignment explanation
Indices: 39421415--39421460 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
39421405 TGAAATTTTA
39421415 ATTAGTATTATGAGATAAAATT
1 ATTAGTATTATGAGA-AAAA-T
* *
39421437 ATTATTATTATTAGAAAAAT
1 ATTAGTATTATGAGAAAAAT
39421457 ATTA
1 ATTA
39421461 CTGTATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 13 0.59
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (20 bp):
ATTAGTATTATGAGAAAAAT
Found at i:39426861 original size:28 final size:29
Alignment explanation
Indices: 39426830--39426889 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
39426820 AAAGTGATTT
*
39426830 TTGACAAAAATGTCAATT-AGG-GATTAAA
1 TTGACAAAAATGTAAATTGAGGAG-TTAAA
* *
39426858 TTGAGAAAAGTGTAAATTGAGGAGTTAAA
1 TTGACAAAAATGTAAATTGAGGAGTTAAA
39426887 TTG
1 TTG
39426890 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 15 0.56
29 11 0.41
30 1 0.04
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGAGTTAAA
Found at i:39427433 original size:31 final size:31
Alignment explanation
Indices: 39427395--39427457 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
39427385 ATCGATTTCG
39427395 TGTAAGACCTTGTCTGGGATAGTGCCATCGA
1 TGTAAGACCTTGTCTGGGATAGTGCCATCGA
*
39427426 TGTAAGACCTTGTCTGGGATAGTGGCATCGA
1 TGTAAGACCTTGTCTGGGATAGTGCCATCGA
39427457 T
1 T
39427458 TTTTTATTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (31 bp):
TGTAAGACCTTGTCTGGGATAGTGCCATCGA
Found at i:39429310 original size:125 final size:125
Alignment explanation
Indices: 39429088--39429338 Score: 502
Period size: 125 Copynumber: 2.0 Consensus size: 125
39429078 TCATTAACTA
39429088 TGTTCTAGTTCAATTCAGCTGACATCTTGAATCAATAAGAAAATACAATATTAGAGCAGATCAAA
1 TGTTCTAGTTCAATTCAGCTGACATCTTGAATCAATAAGAAAATACAATATTAGAGCAGATCAAA
39429153 ACCATCACACTATCACAGTGTATATGTGGCATGTATATACTAAACTCTACTCCGCTATGT
66 ACCATCACACTATCACAGTGTATATGTGGCATGTATATACTAAACTCTACTCCGCTATGT
39429213 TGTTCTAGTTCAATTCAGCTGACATCTTGAATCAATAAGAAAATACAATATTAGAGCAGATCAAA
1 TGTTCTAGTTCAATTCAGCTGACATCTTGAATCAATAAGAAAATACAATATTAGAGCAGATCAAA
39429278 ACCATCACACTATCACAGTGTATATGTGGCATGTATATACTAAACTCTACTCCGCTATGT
66 ACCATCACACTATCACAGTGTATATGTGGCATGTATATACTAAACTCTACTCCGCTATGT
39429338 T
1 T
39429339 AGTCCTAGAA
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.31
Consensus pattern (125 bp):
TGTTCTAGTTCAATTCAGCTGACATCTTGAATCAATAAGAAAATACAATATTAGAGCAGATCAAA
ACCATCACACTATCACAGTGTATATGTGGCATGTATATACTAAACTCTACTCCGCTATGT
Found at i:39429701 original size:40 final size:40
Alignment explanation
Indices: 39429648--39429927 Score: 242
Period size: 40 Copynumber: 7.0 Consensus size: 40
39429638 ATATTATTTG
* *
39429648 ATTCAGGGTTACCAAAGTACAAACAGGGGCACATAAGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGC
** ** *
39429688 ATTCAAAGGTACCAAAGTACAAACAATGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGC
* * * ** *
39429728 ATTCA-GGGTACCGAAGTACAAACACGAGCACGCATGTCC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGC
* * * *
39429767 ATTTAGGGGTACCAAAGTACAAATAGGGACACGA-GTGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCAC-ATATGTGC
* ** ** **
39429807 TTTCAGGGGTACCAAAGTACAAACAACGAAATGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGC
* *
39429847 ATTTAGGGGTACCAAAGTACAAATAGGGGCACATATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGC
* * * * * *
39429887 ATTTAGGGCTACC-GAGTACAAATAAGGGCACGTATGTGC
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGC
39429926 AT
1 AT
39429928 CCATACATTA
Statistics
Matches: 192, Mismatches: 45, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
39 56 0.29
40 136 0.71
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.20
Consensus pattern (40 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGGCACATATGTGC
Done.