Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009583.1 Hibiscus syriacus cultivar Beakdansim tig00116960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1341443
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:927910 original size:542 final size:542
Alignment explanation
Indices: 927204--928291 Score: 1960
Period size: 542 Copynumber: 2.0 Consensus size: 542
927194 ACATTTCTAG
* *
927204 GTTTGTGCCTCTAGGTTATTTAATTTCATAACTTGACACTTTAGGATAGATAGAGCCTTAATTTA
1 GTTTGTGCCTCTAGGTTATTTAATTTCATAACTTGACACTTTAGGATAGAGAGAGACTTAATTTA
*
927269 CTCTTAGTTTAATTAGGATTAATAAAAATTTGTTTGATTGCATTTTATTTTAAAATTTAAGGCAA
66 CTCTTAGTTTAATTAGGATTAAAAAAAATTTGTTTGATTGCATTTTATTTTAAAATTTAAGGCAA
* *
927334 TGTTCACTTATTAGGGATTCGATAGTACATCTCCTGCAAGTATGTTGAGGGGGTGACTACTAGTG
131 TGTTCACTTATTAGGGATTCGATAGTACATCTCCTGCAAGTATGTTAAGGGGATGACTACTAGTG
*
927399 ATTCCCGAAATAGGTCAACATCCTTTTGAAGATCGCATCATGATTTCTAAAATTAAGGCAATATC
196 ATTCCCGAAATAGGTCAACATCCTTTTGAAGATCGCATCATGATTTCTAAAATTAAGGAAATATC
927464 TGGTTATTAGGTACAATAGTTGATCTCCCGCATTTATGCTAGGGGTGAATGCTATTAGCATTAAT
261 TGGTTATTAGGTACAATAGTTGATCTCCCGCATTTATGCTAGGGGTGAATGCTATTAGCATTAAT
* *
927529 AAACGAATACCCTTTTCAACTTTGCGTGCGTAATGATTTTTAAATTAAATAAAGTTCTAACTTAA
326 AAACGAATACCCTTTTCAACTTTGCGTCCGTAATGATTTTTAAATTAAATAAAGTTCTAACTCAA
* * *
927594 AAATTTTTATTTTAAATATAGGGTAATCAACTAGGTACCAATTTTTGGTCACTTGTGGGGGTGCT
391 AAATTTTTATTCTAAATACAGGGTAATCAACTAGGTACCAATTTTTGGGCACTTGTGGGGGTGCT
*
927659 AATCCTTCCCCACGTGTAACCGACTCCCAAACCTGATTTATGGATTTTTGCATACCCTGAAACTT
456 AATCCTTCCCCACGTGTAACCGACTCCCAAACCTAATTTATGGATTTTTGCATACCCTGAAACTT
*
927724 GGTATTTTGATAAAAATAAAAT
521 GATATTTTGATAAAAATAAAAT
927746 GTTTGTGCCTCTAGGTTATTTAATTTCATAACTTGACACTTTAGGATAGAGAGAGACTTAATTTA
1 GTTTGTGCCTCTAGGTTATTTAATTTCATAACTTGACACTTTAGGATAGAGAGAGACTTAATTTA
927811 CTCTTAGTTTAATTAGGATTAAAAAAAATTTGTTTGATTGCATTTTATTTTAAAATTTAAGGCAA
66 CTCTTAGTTTAATTAGGATTAAAAAAAATTTGTTTGATTGCATTTTATTTTAAAATTTAAGGCAA
*
927876 TGTTCACTTATTAGGGATTCGATAGTATATCTCCTGCAAGTATGTTAAGGGGATGACTACTAGTG
131 TGTTCACTTATTAGGGATTCGATAGTACATCTCCTGCAAGTATGTTAAGGGGATGACTACTAGTG
927941 ATTCCCGAAATAGGTCAACATCCTTTTGAAGATCGCATCATGATTTCTAAAATTAAGGAAATATC
196 ATTCCCGAAATAGGTCAACATCCTTTTGAAGATCGCATCATGATTTCTAAAATTAAGGAAATATC
* * *
928006 TGGTTATTGGGTACAATAGTTGATCTCCCTCATTTATGCTAGGGGTGAATGCTATTGGCATTAAT
261 TGGTTATTAGGTACAATAGTTGATCTCCCGCATTTATGCTAGGGGTGAATGCTATTAGCATTAAT
*
928071 AAACGAATACCCTTTTCAACTTTGCGTCCGTAATGATTTTTAAATTAGATAAAGTTCTAACTCAA
326 AAACGAATACCCTTTTCAACTTTGCGTCCGTAATGATTTTTAAATTAAATAAAGTTCTAACTCAA
* *
928136 AATTTTTTATTCTAAATACAGGGTAATCAACTAGGTACCAATTTTTGGGCGCTTGTGGGGGTGCT
391 AAATTTTTATTCTAAATACAGGGTAATCAACTAGGTACCAATTTTTGGGCACTTGTGGGGGTGCT
* * *
928201 AATCCTTCCCCACGTGTAACCGACTCTCGAACCTAATTTCTGGATTTTTGCATACCCTGAAACTT
456 AATCCTTCCCCACGTGTAACCGACTCCCAAACCTAATTTATGGATTTTTGCATACCCTGAAACTT
*
928266 GATATTTTGATAAAGATAAAAT
521 GATATTTTGATAAAAATAAAAT
928288 GTTT
1 GTTT
928292 TATTAAAATC
Statistics
Matches: 522, Mismatches: 24, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
542 522 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.37
Consensus pattern (542 bp):
GTTTGTGCCTCTAGGTTATTTAATTTCATAACTTGACACTTTAGGATAGAGAGAGACTTAATTTA
CTCTTAGTTTAATTAGGATTAAAAAAAATTTGTTTGATTGCATTTTATTTTAAAATTTAAGGCAA
TGTTCACTTATTAGGGATTCGATAGTACATCTCCTGCAAGTATGTTAAGGGGATGACTACTAGTG
ATTCCCGAAATAGGTCAACATCCTTTTGAAGATCGCATCATGATTTCTAAAATTAAGGAAATATC
TGGTTATTAGGTACAATAGTTGATCTCCCGCATTTATGCTAGGGGTGAATGCTATTAGCATTAAT
AAACGAATACCCTTTTCAACTTTGCGTCCGTAATGATTTTTAAATTAAATAAAGTTCTAACTCAA
AAATTTTTATTCTAAATACAGGGTAATCAACTAGGTACCAATTTTTGGGCACTTGTGGGGGTGCT
AATCCTTCCCCACGTGTAACCGACTCCCAAACCTAATTTATGGATTTTTGCATACCCTGAAACTT
GATATTTTGATAAAAATAAAAT
Found at i:930792 original size:10 final size:9
Alignment explanation
Indices: 930757--930855 Score: 81
Period size: 10 Copynumber: 10.3 Consensus size: 9
930747 GCTGCTGGAA
*
930757 ACCGGTTTA
1 ACCGGTTTG
*
930766 ACCGGTTTTCA
1 ACCGG-TTT-G
930777 ACCGGTTCTG
1 ACCGGTT-TG
930787 ACCGGTTTG
1 ACCGGTTTG
*
930796 ACCGGTTTCA
1 ACCGGTTT-G
*
930806 ACCGGTTCG
1 ACCGGTTTG
930815 AACCGGTTTG
1 -ACCGGTTTG
* *
930825 ATCGGTCTG
1 ACCGGTTTG
930834 AACCGGTTTG
1 -ACCGGTTTG
*
930844 ACCGGTCTG
1 ACCGGTTTG
930853 ACC
1 ACC
930856 CGACCCGACC
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
9 33 0.45
10 34 0.46
11 7 0.09
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:930801 original size:19 final size:19
Alignment explanation
Indices: 930758--930855 Score: 78
Period size: 19 Copynumber: 5.1 Consensus size: 19
930748 CTGCTGGAAA
* * *
930758 CCGGTTTAACCGGTTTTCAA
1 CCGGTTTGACCGGTTCT-GA
930778 CCGGTTCTGACCGGTT-TGA
1 CCGGTT-TGACCGGTTCTGA
*
930797 CCGGTTTCAACCGGTTC-GAA
1 CCGGTTT-GACCGGTTCTG-A
*
930817 CCGGTTTGATCGG-TCTGAA
1 CCGGTTTGACCGGTTCTG-A
930836 CCGGTTTGACCGG-TCTGA
1 CCGGTTTGACCGGTTCTGA
930854 CC
1 CC
930856 CGACCCGACC
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.09
19 38 0.57
20 15 0.22
21 8 0.12
ACGTcount: A:0.15, C:0.28, G:0.28, T:0.30
Consensus pattern (19 bp):
CCGGTTTGACCGGTTCTGA
Found at i:930819 original size:29 final size:28
Alignment explanation
Indices: 930757--930855 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 28
930747 GCTGCTGGAA
*
930757 ACCGGTTTAACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTTC-G
930787 ACCGGTTTGACCGGTTTCAACCGGTTCG
1 ACCGGTTTGACCGGTTTCAACCGGTTCG
* * * *
930815 AACCGGTTTGATCGGTCTGAACCGGTTTG
1 -ACCGGTTTGACCGGTTTCAACCGGTTCG
*
930844 ACCGGTCTGACC
1 ACCGGTTTGACC
930856 CGACCCGACC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
28 11 0.18
29 37 0.61
30 13 0.21
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTCG
Found at i:930878 original size:22 final size:22
Alignment explanation
Indices: 930852--930894 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
930842 TGACCGGTCT
930852 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
930874 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
930895 GTTGACTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:933111 original size:9 final size:9
Alignment explanation
Indices: 933097--933130 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
933087 CAACCACCAC
933097 CGTCATCGT
1 CGTCATCGT
933106 CGTCATCGT
1 CGTCATCGT
933115 CGTCATCGT
1 CGTCATCGT
*
933124 CATCATC
1 CGTCATC
933131 ATCATCATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.15, C:0.35, G:0.18, T:0.32
Consensus pattern (9 bp):
CGTCATCGT
Found at i:934896 original size:81 final size:78
Alignment explanation
Indices: 934730--934898 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 78
934720 TGAGCGTTTG
* *** *
934730 ATCGAGTCGATTAAAAAAATTGAGTTATTCGAGTTGGTTAGTCCTATTTTATAACTAAAATTTAA
1 ATCGAGTCGATTAAAAAAATTGAATTATTCGAGTTGACGAGTCCTATTTTATAACTAAAACTTAA
934795 TTTGAAATTTTTT
66 TTTGAAATTTTTT
* * * * * *
934808 GTTGAGTCGATTCAAAAATATTTTGAATTATTCGAGTTGACGAGTTCTATTTTGTAACTCAAACT
1 ATCGAGTCGATT-AAAAA-A-ATTGAATTATTCGAGTTGACGAGTCCTATTTTATAACTAAAACT
*
934873 TAATTTG-GATTTTTT
63 TAATTTGAAATTTTTT
934888 AATCGAGTCGA
1 -ATCGAGTCGA
934899 GTTTACAAAA
Statistics
Matches: 73, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
78 10 0.14
79 5 0.07
80 8 0.11
81 50 0.68
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (78 bp):
ATCGAGTCGATTAAAAAAATTGAATTATTCGAGTTGACGAGTCCTATTTTATAACTAAAACTTAA
TTTGAAATTTTTT
Found at i:935422 original size:13 final size:13
Alignment explanation
Indices: 935404--935428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
935394 AAGTAACTTG
935404 GAATTTTTTTTTA
1 GAATTTTTTTTTA
935417 GAATTTTTTTTT
1 GAATTTTTTTTT
935429 CATCATAGAT
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:0.00, G:0.08, T:0.72
Consensus pattern (13 bp):
GAATTTTTTTTTA
Found at i:935930 original size:17 final size:18
Alignment explanation
Indices: 935908--935941 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
935898 GAGGTAATTT
935908 TTTATTA-TTTAAATTAG
1 TTTATTATTTTAAATTAG
935925 TTTATTATTTTAAATTA
1 TTTATTATTTTAAATTA
935942 TTAGTTTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTATTTTAAATTAG
Found at i:936024 original size:21 final size:21
Alignment explanation
Indices: 936000--936039 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
935990 GTTAATTAGT
936000 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
936021 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
936040 CATACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:936103 original size:38 final size:42
Alignment explanation
Indices: 936049--936161 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 42
936039 TCATACATAA
*
936049 ATAAAAAATTATTTAATTAGTTTGTT-TTA-TAGTTA-TATAT
1 ATAAAAAA-TATTTAATTAGTTTGTTGTTAGTAGTAAGTATAT
*
936089 -TAAAAAATAATTAATTAGTTTGTTTGTTAGTAGTAAGTTATAT
1 ATAAAAAATATTTAATTAGTTTG-TTGTTAGTAGTAAG-TATAT
936132 ATAAAAAATATTTAATTAGTTTG-TGTTAGT
1 ATAAAAAATATTTAATTAGTTTGTTGTTAGT
936162 TAAATAGTTA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
38 14 0.22
39 9 0.14
40 3 0.05
41 5 0.08
42 7 0.11
43 5 0.08
44 21 0.33
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (42 bp):
ATAAAAAATATTTAATTAGTTTGTTGTTAGTAGTAAGTATAT
Found at i:936148 original size:44 final size:48
Alignment explanation
Indices: 936079--936202 Score: 150
Period size: 44 Copynumber: 2.6 Consensus size: 48
936069 TTTGTTTTAT
* *
936079 AGTTATATATTAAAAAATAATTAATTAGTTTGT-TT-GTT-AGTAG-TA
1 AGTTATATA-TAAAAAATATTTAATTAGTTTGTGTTAGTTAAATAGTTA
936124 AGTTATATATAAAAAATATTTAATTAGTTTGTGTTAGTTAAATAGTTA
1 AGTTATATATAAAAAATATTTAATTAGTTTGTGTTAGTTAAATAGTTA
**
936172 AGTTATATTATAATTAATAGTTT-ATTAGTTT
1 AGTTATA-TATAAAAAATA-TTTAATTAGTTT
936203 AAGTTATATA
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
44 22 0.32
45 11 0.16
46 3 0.04
47 4 0.06
48 9 0.13
49 17 0.25
50 3 0.04
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (48 bp):
AGTTATATATAAAAAATATTTAATTAGTTTGTGTTAGTTAAATAGTTA
Found at i:936186 original size:82 final size:80
Alignment explanation
Indices: 936049--936231 Score: 185
Period size: 80 Copynumber: 2.3 Consensus size: 80
936039 TCATACATAA
* * * *
936049 ATAAAAAATTATTTAATTAGTTTGTTTTATAGTTATATATTAAAAAATAATTAATTAGTTTGTTT
1 ATAAAAAA-TATTTAATTAGTTTGTTGTATAGTTAAATATTAAAAAATAATTAATTA-ATAGTTT
*
936114 GTTAGTAGTAAGTTATAT
64 ATTAGT-GTAAGTTATAT
*** *
936132 ATAAAAAATATTTAATTAGTTTG-TGT-TAGTTAAATAGTTAAGTTATATTATAATTAATAGTTT
1 ATAAAAAATATTTAATTAGTTTGTTGTATAGTTAAATA-TTAAAAAATAAT-TAATTAATAGTTT
*
936195 ATTAGTTTAAGTTATAT
64 ATTAGTGTAAGTTATAT
*
936212 A-AAAGAATAGTTT-ATTAGTT
1 ATAAAAAATA-TTTAATTAGTT
936232 GATTAAGGGC
Statistics
Matches: 86, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
79 14 0.16
80 23 0.27
81 20 0.23
82 21 0.24
83 8 0.09
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.48
Consensus pattern (80 bp):
ATAAAAAATATTTAATTAGTTTGTTGTATAGTTAAATATTAAAAAATAATTAATTAATAGTTTAT
TAGTGTAAGTTATAT
Found at i:936223 original size:30 final size:32
Alignment explanation
Indices: 936169--936231 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
936159 AGTTAAATAG
**
936169 TTAAGTTATATTATAATTAATAGTTTATTAGT
1 TTAAGTTATATTATAAAGAATAGTTTATTAGT
936201 TTAAGTTATA-TA-AAAGAATAGTTTATTAGT
1 TTAAGTTATATTATAAAGAATAGTTTATTAGT
936231 T
1 T
936232 GATTAAGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 17 0.59
31 2 0.07
32 10 0.34
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (32 bp):
TTAAGTTATATTATAAAGAATAGTTTATTAGT
Found at i:937842 original size:24 final size:24
Alignment explanation
Indices: 937800--937852 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 24
937790 TTGATTGATT
*
937800 ATTTATTAATATTACTAA-TAATG
1 ATTTAATAATATTACTAACTAATG
*
937823 ATTTAATAATTATTATTAATCTAATG
1 ATTTAATAA-TATTACTAA-CTAATG
937849 ATTT
1 ATTT
937853 GATATTTAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.32
24 8 0.32
26 9 0.36
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (24 bp):
ATTTAATAATATTACTAACTAATG
Found at i:938023 original size:20 final size:21
Alignment explanation
Indices: 938000--938041 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
937990 TTTATTTTTT
938000 TTAAAT-ATCAAACAAATTTG
1 TTAAATAATCAAACAAATTTG
* *
938020 TTAATTAATCAATCAAATTTG
1 TTAAATAATCAAACAAATTTG
938041 T
1 T
938042 CAGGTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (21 bp):
TTAAATAATCAAACAAATTTG
Found at i:938718 original size:28 final size:30
Alignment explanation
Indices: 938670--938732 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
938660 TTTTTTTATA
938670 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
938700 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
938728 TAATA
1 TAATA
938733 ATTTATACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 26 0.79
29 1 0.03
30 6 0.18
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:938739 original size:28 final size:28
Alignment explanation
Indices: 938674--938739 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
938664 TTTATATAAT
938674 ATAATATATAACTTAAACTAACAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
938702 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
938730 ATAATTTATA
1 ATAATATATA
938740 CTAACAAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
27 2 0.06
28 31 0.89
29 2 0.06
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:938742 original size:21 final size:21
Alignment explanation
Indices: 938709--938757 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
938699 CTAATATAAT
938709 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
938730 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
938751 ATTAACT
1 A-TAACT
938758 AAATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:939121 original size:36 final size:36
Alignment explanation
Indices: 939081--939154 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
939071 GCAGACGCAC
939081 CAGCGGCAGGGGAATCACGCATGCATAAGGGAGAAA
1 CAGCGGCAGGGGAATCACGCATGCATAAGGGAGAAA
*
939117 CAGCGGCAGGGGAATCACGCATGCATAAGGGAGCAA
1 CAGCGGCAGGGGAATCACGCATGCATAAGGGAGAAA
939153 CA
1 CA
939155 ACAGCAATCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.22, G:0.35, T:0.08
Consensus pattern (36 bp):
CAGCGGCAGGGGAATCACGCATGCATAAGGGAGAAA
Found at i:939231 original size:28 final size:29
Alignment explanation
Indices: 939200--939264 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
939190 TCGTCGGGAC
939200 TGCATGGCGACAT-ATAGGTCGCGGGGCG
1 TGCATGGCGACATGATAGGTCGCGGGGCG
* * * *
939228 TGCATGGAGACCTGGTAGGTCGCTGGGCG
1 TGCATGGCGACATGATAGGTCGCGGGGCG
939257 TGCATGGC
1 TGCATGGC
939265 TACCTAACCC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.15, C:0.22, G:0.43, T:0.20
Consensus pattern (29 bp):
TGCATGGCGACATGATAGGTCGCGGGGCG
Found at i:939322 original size:41 final size:41
Alignment explanation
Indices: 939258--939350 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 41
939248 CGCTGGGCGT
* * * * *
939258 GCATGGCTACCTAACCCATCTCACCACAGCTCGTGGGGATG
1 GCATGGCGACCTAACCCAGCTCACCACAGCTCGCGAGGACG
*
939299 GTATGGCGACCT-ACACCAGCTCACCACAGCTCGCGAGGACG
1 GCATGGCGACCTAAC-CCAGCTCACCACAGCTCGCGAGGACG
939340 GCATGGCGACC
1 GCATGGCGACC
939351 CACGTTGGGA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 2 0.05
41 42 0.95
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.15
Consensus pattern (41 bp):
GCATGGCGACCTAACCCAGCTCACCACAGCTCGCGAGGACG
Found at i:939658 original size:118 final size:118
Alignment explanation
Indices: 939450--939681 Score: 385
Period size: 118 Copynumber: 2.0 Consensus size: 118
939440 GTTGATTTTG
*
939450 CCTAGATAACATGAATGACGACTTAAAGCGGTTGCGGCCGCAATAAACAACAAAATCAAGAAAAT
1 CCTAGATAACATGAATGACGACTTAAAGCGGTTGCGGCCGCAATAAACAACAAAATCAACAAAAT
* *
939515 AAAAAAATTGATTTGAATTGAGTTATGATTTTGTTTGGTTTGAGTTTTTTCAT
66 AAAAAAATTGATCTGAATTGAGTTATGATTTTGTTTGGTTCGAGTTTTTTCAT
* *
939568 CCTAGATAACATGAATGAC-AGCTTAAAGCGGTTGCGGTCGCAATAAACAACGAAATCAACAAAA
1 CCTAGATAACATGAATGACGA-CTTAAAGCGGTTGCGGCCGCAATAAACAACAAAATCAACAAAA
* *
939632 TTAAAAAATTGGTCTGAATTGAGTTATGATTTTGTTTGGTTCGAGTTTTT
65 TAAAAAAATTGATCTGAATTGAGTTATGATTTTGTTTGGTTCGAGTTTTT
939682 CATTTTGTGA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
117 1 0.01
118 105 0.99
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (118 bp):
CCTAGATAACATGAATGACGACTTAAAGCGGTTGCGGCCGCAATAAACAACAAAATCAACAAAAT
AAAAAAATTGATCTGAATTGAGTTATGATTTTGTTTGGTTCGAGTTTTTTCAT
Found at i:948295 original size:53 final size:53
Alignment explanation
Indices: 948237--948346 Score: 193
Period size: 53 Copynumber: 2.1 Consensus size: 53
948227 TTTTAATCTG
948237 GAATGAATATAAGATAATATCTATTCAAAGATAACTCTCAACCATTTAACATT
1 GAATGAATATAAGATAATATCTATTCAAAGATAACTCTCAACCATTTAACATT
* **
948290 GAATGAATATAAGCTAATATCTATTCAAAGATAACTCTCATTCATTTAACATT
1 GAATGAATATAAGATAATATCTATTCAAAGATAACTCTCAACCATTTAACATT
948343 GAAT
1 GAAT
948347 ACACATTCCT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.34
Consensus pattern (53 bp):
GAATGAATATAAGATAATATCTATTCAAAGATAACTCTCAACCATTTAACATT
Found at i:950671 original size:30 final size:30
Alignment explanation
Indices: 950637--950697 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
950627 CTATGGAGAA
* *
950637 ATTTATTCTTTATAAAAAAAATTAAAAACC
1 ATTTATTATTTATAAAAAAAAGTAAAAACC
*
950667 ATTTATTATTTATAAAAAGAAGTAAAAACC
1 ATTTATTATTTATAAAAAAAAGTAAAAACC
950697 A
1 A
950698 ACTTACTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.34
Consensus pattern (30 bp):
ATTTATTATTTATAAAAAAAAGTAAAAACC
Found at i:957436 original size:2 final size:2
Alignment explanation
Indices: 957429--957454 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
957419 TTATCCTTTC
957429 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
957455 CCCTTGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:969652 original size:59 final size:58
Alignment explanation
Indices: 969447--969669 Score: 239
Period size: 58 Copynumber: 3.9 Consensus size: 58
969437 AACATGATAT
* * * * *
969447 TTTCAAAAGAATTTTT-GAAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATGA
1 TTTCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATGA
* *
969504 TTTTC-AATGAATTTCTAAAAGAAGCTAAACCTAATTTTTAGGGGTTTCTTGATG-T--
1 -TTTCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATGA
* ** *
969559 TTTCAAATGAA--TTT-AAAGAAACTAAGGTTGATTTTTAGGGGTTTCTTGATGATGA
1 TTTCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATGA
* *
969614 TTTCCAAAT-AATTTTTTAAAAGAAGTTAAGCCTAATTTTTAGGGGTTTTTTGATGA
1 TTT-CAAATGAA-TTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGA
969670 CAACTAAACA
Statistics
Matches: 136, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
52 32 0.24
53 3 0.02
54 4 0.03
55 11 0.08
56 5 0.04
57 10 0.07
58 39 0.29
59 32 0.24
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (58 bp):
TTTCAAATGAATTTTTAAAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGATGA
Found at i:969779 original size:41 final size:41
Alignment explanation
Indices: 969723--969828 Score: 115
Period size: 41 Copynumber: 2.6 Consensus size: 41
969713 AAGGTTTCTT
* * *
969723 GATGAGTAAGTCCTTC-GGCCATCAATAAGTCTTTTGAGCAT
1 GATG-GTAAATCCTTCAGGCCATCAATAAGTCTTTCGAGCAA
* * * *
969764 GATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAA
1 GATG-GTAAATCCTTCAGGCCATCAATAAGTCTTTCGAGCAA
*
969806 GATGGTAAGTCCTTCAGGCCATC
1 GATGGTAAATCCTTCAGGCCATC
969829 CTTAAGACCT
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 28 0.53
42 25 0.47
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (41 bp):
GATGGTAAATCCTTCAGGCCATCAATAAGTCTTTCGAGCAA
Found at i:970081 original size:293 final size:291
Alignment explanation
Indices: 969554--970376 Score: 1109
Period size: 293 Copynumber: 2.8 Consensus size: 291
969544 GGGGTTTCTT
* * * * *
969554 GATGTTTTCAAATGAATTTAAAGAAACTAAGGTTGATTTTTAGGGGTTTCTTGATGATGATTTCC
1 GATGTTTTCAAATGAGTTT-TAGAAACTAAGCTTGATTTTAAGGGGTTTCTTGATGATTATTTCC
* * ** *
969619 AAATAATTTTTTAAAAGAAGTTAAGCCTAATTTTTAGGGGTTTTTTGATGACAA-CTAAACACAA
65 AAATAA-TTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACCGAAA-ACAA
* * * *
969683 AATATTTTAAGAAACTAAGCTTGATTTTCAAAGGTTTCTTGATGAGTAAGTCCTTCGGCCATCAA
128 AAGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAAGTCATTCGGCCATCAA
* *
969748 TAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGGTA
193 TAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATA
*
969813 AGTCCTTCAGGCCATCCTTAAGACCTTCGGGCAA
258 AGTCCTTCAGGCCATCCATAAGACCTTCGGGCAA
* *
969847 GATGTTTTCAAATGAGTGTTTAGAAACTAAGCCTGATTTTAAGGGGTTTCCTGATGATTATTTCC
1 GATGTTTTCAAATGAGT-TTTAGAAACTAAGCTTGATTTTAAGGGGTTTCTTGATGATTATTTCC
* **
969912 AAATAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGATAACCGAAAATGAAA
65 AAATAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACCGAAAACAAAA
*
969977 GATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAAGTCATTCGGACCATCAGT
130 GATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAAGTCATTCGG-CCATCAAT
*
970042 AAGTCTTTTGAGTATGATGCTTAAATCCATT-GGGTCATCTATAAGTCTTTCAAGCAAGATGATA
194 AAGTCTTTTGAGCATGATGCTTAAATCC-TTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATA
* * * *
970106 AGTCTTTCGGGCGATCCATAAGACCTTCGGGCAG
258 AGTCCTTCAGGCCATCCATAAGACCTTCGGGCAA
*
970140 GATGTTTTCAAATGAGTTTTCAGAAACTAAGCTTGATTTTCAA-GGGTTTCTTGATGATTATCTC
1 GATGTTTTCAAATGAGTTTT-AGAAACTAAGCTTGATTTT-AAGGGGTTTCTTGATGATTATTTC
* * ** *
970204 CAAAGAATTTTTAAAGGAAGCAAAGCCTAATTTTTAATGGTTCCTTGATGACAACTGAAAACAAA
64 CAAATAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACCGAAAACAAA
* ** * *
970269 AGATTTTAAGAAACAAAGCTTGATTTTCAAGGGTTTCTTGATGCGTAAGTTC-TTCGG-GATCTA
129 AGATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAAG-TCATTCGGCCATCAA
* * * * * * *
970332 TAAGTCTTTCGAACAAGATG-ATAATTCCTTCGGGCCATCCATAAG
193 TAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAG
970377 ACCTTCAGGC
Statistics
Matches: 469, Mismatches: 53, Indels: 19
0.87 0.10 0.04
Matches are distributed among these distances:
289 2 0.00
290 18 0.04
291 19 0.04
292 101 0.22
293 321 0.68
294 8 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (291 bp):
GATGTTTTCAAATGAGTTTTAGAAACTAAGCTTGATTTTAAGGGGTTTCTTGATGATTATTTCCA
AATAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGGTTCCTTGATGACAACCGAAAACAAAAG
ATTTTAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTGATAAGTAAGTCATTCGGCCATCAATAA
GTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGT
CCTTCAGGCCATCCATAAGACCTTCGGGCAA
Found at i:970672 original size:91 final size:91
Alignment explanation
Indices: 970504--970673 Score: 200
Period size: 92 Copynumber: 1.9 Consensus size: 91
970494 ACGCCTTATA
* *
970504 TGAGGGACCAACATTCCCAGTAAAGAATCCATGAGAATAACTTATTCAACCTTGGCTCGATTCAC
1 TGAGGGACCAAAATTCCCAGTAAAGAATCCATGAGAATAACTTATT-AACCTTGGCTCAATTCAC
*
970569 GGCATTTTGAATCAACAACACCTCACT
65 GGCATTTCGAATCAACAACACCTCACT
* * * * * ** *
970596 TGAGGGACCAAAATTTCTAGTAGAGAATTCATAGAGAATAACTTGTT-TTCTTTGCTCAATTCAC
1 TGAGGGACCAAAATTCCCAGTAAAGAATCCAT-GAGAATAACTTATTAACCTTGGCTCAATTCAC
970660 GAG-ATTTCGAATCA
65 G-GCATTTCGAATCA
970674 GTGATGCCTC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
91 24 0.37
92 28 0.43
93 13 0.20
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (91 bp):
TGAGGGACCAAAATTCCCAGTAAAGAATCCATGAGAATAACTTATTAACCTTGGCTCAATTCACG
GCATTTCGAATCAACAACACCTCACT
Found at i:971948 original size:22 final size:20
Alignment explanation
Indices: 971920--971973 Score: 72
Period size: 22 Copynumber: 2.6 Consensus size: 20
971910 CTGTTTTGTT
*
971920 TTATTTTAATTTAGTTACTG
1 TTATTTTAATTTAGCTACTG
*
971940 TTAGTTTTTTATTTAGCTACTG
1 TTA--TTTTAATTTAGCTACTG
971962 TTATTTTAATTT
1 TTATTTTAATTT
971974 TTCCATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 11 0.38
22 18 0.62
ACGTcount: A:0.22, C:0.06, G:0.09, T:0.63
Consensus pattern (20 bp):
TTATTTTAATTTAGCTACTG
Found at i:972130 original size:12 final size:13
Alignment explanation
Indices: 972084--972138 Score: 50
Period size: 12 Copynumber: 4.7 Consensus size: 13
972074 TTTAGGTTTA
972084 TTTTATTTTATT-
1 TTTTATTTTATTG
972096 TTTTATTTTA-TG
1 TTTTATTTTATTG
* *
972108 -ATT-GTTT-TTG
1 TTTTATTTTATTG
972118 TTTT-TTTTATTG
1 TTTTATTTTATTG
972130 TTTTATTTT
1 TTTTATTTT
972139 TTAAATTAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
10 5 0.15
11 8 0.24
12 17 0.50
13 4 0.12
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (13 bp):
TTTTATTTTATTG
Found at i:972139 original size:17 final size:17
Alignment explanation
Indices: 972080--972140 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
972070 ATATTTTAGG
972080 TTTATTTTATTTTATT-T
1 TTTATTTT-TTTTATTGT
* *
972097 TTTA-TTTTATGATTGTT
1 TTTATTTTTTTTATTG-T
*
972114 TTTGTTTTTTTTATTGT
1 TTTATTTTTTTTATTGT
972131 TTTATTTTTT
1 TTTATTTTTT
972141 AAATTAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 5 0.14
16 3 0.09
17 18 0.51
18 9 0.26
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (17 bp):
TTTATTTTTTTTATTGT
Found at i:981030 original size:18 final size:18
Alignment explanation
Indices: 981007--981041 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
980997 CAATGACTTA
981007 AAACCCTAAACCTGACCT
1 AAACCCTAAACCTGACCT
981025 AAACCCTAAACCTGACC
1 AAACCCTAAACCTGACC
981042 CAACCCAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.40, G:0.06, T:0.14
Consensus pattern (18 bp):
AAACCCTAAACCTGACCT
Found at i:984007 original size:21 final size:21
Alignment explanation
Indices: 983963--984007 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
983953 GATTTCTGGG
* * *
983963 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
983984 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
984005 CAA
1 CAA
984008 ACGAACATGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:984975 original size:30 final size:30
Alignment explanation
Indices: 984941--985158 Score: 386
Period size: 30 Copynumber: 7.3 Consensus size: 30
984931 GGTTCTTCGG
*
984941 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
984971 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
985001 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
985031 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
*
985061 GACCTCTAGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
985091 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* *
985121 GACCTCTGGACAGTTA-CG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
985149 GACCTCTGGA
1 GACCTCTGGA
985159 TAGGTCCTTC
Statistics
Matches: 183, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
28 18 0.10
29 2 0.01
30 163 0.89
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:985435 original size:2 final size:2
Alignment explanation
Indices: 985428--985473 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
985418 GATATGTATG
985428 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
985469 TA TA T
1 TA TA T
985474 GAAGGTGCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:987612 original size:107 final size:107
Alignment explanation
Indices: 987426--987630 Score: 410
Period size: 107 Copynumber: 1.9 Consensus size: 107
987416 GTTAATAGAA
987426 GAATATATTGCTTGTCGTGTACAATCTGTCAAGATCGGGCTTGTAAATAGTAAGAAAGGACTAAG
1 GAATATATTGCTTGTCGTGTACAATCTGTCAAGATCGGGCTTGTAAATAGTAAGAAAGGACTAAG
987491 AAAATTGAGAGATTTAAGAGAAGAAAAACTTTGTGAACATAG
66 AAAATTGAGAGATTTAAGAGAAGAAAAACTTTGTGAACATAG
987533 GAATATATTGCTTGTCGTGTACAATCTGTCAAGATCGGGCTTGTAAATAGTAAGAAAGGACTAAG
1 GAATATATTGCTTGTCGTGTACAATCTGTCAAGATCGGGCTTGTAAATAGTAAGAAAGGACTAAG
987598 AAAATTGAGAGATTTAAGAGAAGAAAAACTTTG
66 AAAATTGAGAGATTTAAGAGAAGAAAAACTTTG
987631 ATATTTCATT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.27
Consensus pattern (107 bp):
GAATATATTGCTTGTCGTGTACAATCTGTCAAGATCGGGCTTGTAAATAGTAAGAAAGGACTAAG
AAAATTGAGAGATTTAAGAGAAGAAAAACTTTGTGAACATAG
Found at i:990589 original size:53 final size:54
Alignment explanation
Indices: 990453--990624 Score: 274
Period size: 54 Copynumber: 3.2 Consensus size: 54
990443 ATAAGTTCTT
* *
990453 TGGGGTGCACACATAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACG
* * *
990507 TGGGTTGCACACTTAGTTCTGATACGGTCGTTCATAAACATATTATGAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACG
* *
990561 T-GGTTGTACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACG
990614 TGGGTTGCACA
1 TGGGTTGCACA
990625 GTTGCCGATA
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 48 0.45
54 58 0.55
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGGTCGTTCATAAACATATTATGAATTACG
Found at i:996703 original size:20 final size:20
Alignment explanation
Indices: 996678--996716 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
996668 TATAGGTCCA
*
996678 TGTTCATATGGTATTGATAT
1 TGTTCATATAGTATTGATAT
*
996698 TGTTCATATATTATTGATA
1 TGTTCATATAGTATTGATA
996717 CTCTTAGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (20 bp):
TGTTCATATAGTATTGATAT
Found at i:998489 original size:22 final size:22
Alignment explanation
Indices: 998461--998506 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
998451 ATTTAAGGCT
998461 GAACTCTTAATTTAAGACGCTA
1 GAACTCTTAATTTAAGACGCTA
998483 GAACTCTTAATTTAAGACGCTA
1 GAACTCTTAATTTAAGACGCTA
998505 GA
1 GA
998507 GTAATTAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.30
Consensus pattern (22 bp):
GAACTCTTAATTTAAGACGCTA
Found at i:998595 original size:3 final size:3
Alignment explanation
Indices: 998587--998658 Score: 137
Period size: 3 Copynumber: 24.3 Consensus size: 3
998577 TCTACAAAAA
998587 TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
998634 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
998659 TAAGTTATAT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 66 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:1004551 original size:30 final size:30
Alignment explanation
Indices: 1004515--1004614 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 30
1004505 GGGTGTTACA
* *
1004515 ATTTTAGTCCTTTAACTTTCTATTTTTATT
1 ATTTTAGTCCTTTAAATTTATATTTTTATT
* * * *
1004545 ATTTTAGTCATTTAAGTTTATGCTTTTTGTT
1 ATTTTAGTCCTTTAAATTTAT-ATTTTTATT
* * * * *
1004576 GTTTTAGTCCTATAAATTTTTGTTATTATT
1 ATTTTAGTCCTTTAAATTTATATTTTTATT
1004606 A-TTTAGTCC
1 ATTTTAGTCC
1004615 CTTATTTTAT
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
29 8 0.15
30 24 0.44
31 23 0.42
ACGTcount: A:0.21, C:0.10, G:0.09, T:0.60
Consensus pattern (30 bp):
ATTTTAGTCCTTTAAATTTATATTTTTATT
Found at i:1004734 original size:4 final size:4
Alignment explanation
Indices: 1004725--1004750 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1004715 TTATAATTTC
1004725 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
1004751 AAAAATTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1009567 original size:4 final size:4
Alignment explanation
Indices: 1009558--1010164 Score: 755
Period size: 4 Copynumber: 151.5 Consensus size: 4
1009548 TCACAGATCA
* * * * *
1009558 ATAC ATAC ATAC ATGC ATAC ATAC ATAC ATGC ATAC ATGC ATAT ATGC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * *
1009606 ATAC ATGC ATGC ATGC ATGC ATAC ATGC ATGC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * *
1009654 ATGC ATGC ATAC ATGC ATGC ATAC ATAC ATGC ATAC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* ** * * *
1009702 ATAT ATAC ATGT ATAT ATAC AATAC ATGC ATAC ATAC ATAC ATGC ATAC
1 ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
1009751 ATGC ATAT ATGC ATAC ATGC ATGC ATGC ATGC ATAC ATGC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * ** *
1009799 ATAC ATGC ATAC ATGC ATAC ATAC ATAT ATAC ATGT ATAT ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1009847 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * **
1009895 ATAC ATGC ATAC ATAC ATAT ATAC ATGT ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1009943 ATAC ATAC ATAT ATAC ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * *
1009991 ATAC ATAC ATAC ATAC ATAC ATGC ATGC ATGC ATAC ATAC ATAT ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* *
1010039 ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1010087 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1010135 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1010165 GCATGATATA
Statistics
Matches: 530, Mismatches: 72, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
4 526 0.99
5 4 0.01
ACGTcount: A:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:1010526 original size:38 final size:37
Alignment explanation
Indices: 1010486--1010570 Score: 100
Period size: 36 Copynumber: 2.3 Consensus size: 37
1010476 TATCTTCTTA
* *
1010486 AAAAACAAAGTGTTATCTCGCTTGAGACAA-TTTCTCT
1 AAAAACAAA-TGTTATCTCACTTAAGACAACTTTCTCT
* *
1010523 AAAAACAAATTTTGTCTCACTTAAGACAACTTTCTCTT
1 AAAAACAAATGTTATCTCACTTAAGACAACTTTCTC-T
*
1010561 TAAAACAAAT
1 AAAAACAAAT
1010571 TATGTCTCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 16 0.39
37 15 0.37
38 10 0.24
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (37 bp):
AAAAACAAATGTTATCTCACTTAAGACAACTTTCTCT
Found at i:1010557 original size:37 final size:37
Alignment explanation
Indices: 1010481--1010588 Score: 119
Period size: 38 Copynumber: 2.9 Consensus size: 37
1010471 GAGATTATCT
* * *
1010481 TCTTAAAAAACAAAGTGTTATCTCGCTTGAGACAATTTC
1 TCTT-AAAAACAAA-TTTTGTCTCACTTGAGACAATTTC
*
1010520 TC-TAAAAACAAATTTTGTCTCACTTAAGACAACTTTC
1 TCTTAAAAACAAATTTTGTCTCACTTGAGACAA-TTTC
* * *
1010557 TCTTTAAAACAAATTATGTCTCTCTTGAGACA
1 TCTTAAAAACAAATTTTGTCTCACTTGAGACA
1010589 TTTTTCCACA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
36 16 0.27
37 15 0.25
38 26 0.44
39 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.35
Consensus pattern (37 bp):
TCTTAAAAACAAATTTTGTCTCACTTGAGACAATTTC
Found at i:1011004 original size:27 final size:27
Alignment explanation
Indices: 1010952--1011004 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
1010942 TTGAAAAATA
* *
1010952 AAAATCTTTGAGTCTGTTTCTATTAAC
1 AAAATCTCTGAGTCTATTTCTATTAAC
1010979 AAAATCATCTGAGTCTATTTCT-TTAA
1 AAAATC-TCTGAGTCTATTTCTATTAA
1011005 AAACAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.43
Consensus pattern (27 bp):
AAAATCTCTGAGTCTATTTCTATTAAC
Found at i:1011215 original size:65 final size:63
Alignment explanation
Indices: 1011101--1011257 Score: 156
Period size: 65 Copynumber: 2.4 Consensus size: 63
1011091 AAGACATAAC
* * * * *
1011101 CCATCTTTGAGTCTGTTTCTTTGGAAACAAAATTTTGTCTCTCATGACAGTTTCTTTTGAATACA
1 CCATCTTTGAGTCGGTTTCCTT-GAAACAAAATTTTGCCTCTCATGACAGCTTCTCTTGAA-ACA
* * *
1011166 CCTATCTTTGAGTC-GTTTCCTTGAAAC-GAATTTTGCCTCTCTTGAGACAGCTTCTCTTGAAGC
1 CC-ATCTTTGAGTCGGTTTCCTTGAAACAAAATTTTGCCTCTCAT--GACAGCTTCTCTTGAAAC
1011229 A
63 A
* *
1011230 TCATTTTTGAGTCGGTTTCTCTTGAAAC
1 CCATCTTTGAGTCGGTTTC-CTTGAAAC
1011258 CATAATCCCT
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
63 23 0.29
64 13 0.17
65 31 0.40
66 11 0.14
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (63 bp):
CCATCTTTGAGTCGGTTTCCTTGAAACAAAATTTTGCCTCTCATGACAGCTTCTCTTGAAACA
Found at i:1011370 original size:43 final size:42
Alignment explanation
Indices: 1011315--1011544 Score: 150
Period size: 43 Copynumber: 5.5 Consensus size: 42
1011305 TCATCCCCCG
*
1011315 ACCAGACCTCCTCATCACGTAGGAGTCATGTCACCCACATATA
1 ACCAGACCTCCTCATCACGTAGGAGTCATGTCACCC-CAGATA
* * ** *
1011358 ACCAG-CCGTCCTCATCACGTAGGAATCGTGT-AATCC--ATCG
1 ACCAGACC-TCCTCATCACGTAGGAGTCATGTCACCCCAGAT-A
* * * *
1011398 ACCAGACCTCCTTATCGCTTAGGAGTCGTGTCACCCCTAGATA
1 ACCAGACCTCCTCATCACGTAGGAGTCATGTCACCCC-AGATA
* * * ** * * *
1011441 ACTAGTCGTCCTCATCACGTAGGAACCATGTCA-TCCA-CTG
1 ACCAGACCTCCTCATCACGTAGGAGTCATGTCACCCCAGATA
** * *
1011481 ACCAGACCTCCTCATTGCGTAGGAGCCATGTCACCTCTAGATA
1 ACCAGACCTCCTCATCACGTAGGAGTCATGTCACC-CCAGATA
*
1011524 ACCAG-CCATCCTCATCGCGTA
1 ACCAGACC-TCCTCATCACGTA
1011545 AGAACAGTGT
Statistics
Matches: 141, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
39 2 0.01
40 52 0.37
41 7 0.05
42 10 0.07
43 68 0.48
44 2 0.01
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (42 bp):
ACCAGACCTCCTCATCACGTAGGAGTCATGTCACCCCAGATA
Found at i:1011433 original size:83 final size:81
Alignment explanation
Indices: 1011313--1011549 Score: 285
Period size: 83 Copynumber: 2.9 Consensus size: 81
1011303 TATCATCCCC
* *
1011313 CGACCAGACCTCCTCATCACGTAGGAGTCATGTCACCCACATATAACCAGCCGTCCTCATCACGT
1 CGACCAGACCTCCTCATCGCGTAGGAGTCATGTCACCC-CAGATAACCAGCCGTCCTCATCACGT
* *
1011378 AGGAATCGTGTAATCCA
65 AGGAACCATGTAATCCA
* * * * *
1011395 TCGACCAGACCTCCTTATCGCTTAGGAGTCGTGTCACCCCTAGATAACTAGTCGTCCTCATCACG
1 -CGACCAGACCTCCTCATCGCGTAGGAGTCATGTCACCCC-AGATAACCAGCCGTCCTCATCACG
*
1011460 TAGGAACCATGTCATCCA
64 TAGGAACCATGTAATCCA
* * * * *
1011478 CTGACCAGACCTCCTCATTGCGTAGGAGCCATGTCACCTCTAGATAACCAGCCATCCTCATCGCG
1 C-GACCAGACCTCCTCATCGCGTAGGAGTCATGTCACC-CCAGATAACCAGCCGTCCTCATCACG
*
1011543 TAAGAAC
64 TAGGAAC
1011550 AGTGTTATCA
Statistics
Matches: 130, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
82 2 0.02
83 127 0.98
84 1 0.01
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.22
Consensus pattern (81 bp):
CGACCAGACCTCCTCATCGCGTAGGAGTCATGTCACCCCAGATAACCAGCCGTCCTCATCACGTA
GGAACCATGTAATCCA
Found at i:1011855 original size:3 final size:3
Alignment explanation
Indices: 1011843--1011880 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1011833 CTACAAAAAC
1011843 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1011881 TAAGTTACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1013362 original size:30 final size:30
Alignment explanation
Indices: 1013328--1013403 Score: 116
Period size: 30 Copynumber: 2.5 Consensus size: 30
1013318 GTTGAGCCCA
*
1013328 TTAACTTTCTATTTTTACTATTTTAGTCCT
1 TTAACTTTCTATTTTTACTATTTTAGTCAT
*
1013358 TTAACTTTCTATTTTTATTATTTTAGTCAT
1 TTAACTTTCTATTTTTACTATTTTAGTCAT
* *
1013388 TTAAGTTTTTATTTTT
1 TTAACTTTCTATTTTT
1013404 GTTGGTTTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.21, C:0.11, G:0.04, T:0.64
Consensus pattern (30 bp):
TTAACTTTCTATTTTTACTATTTTAGTCAT
Found at i:1013413 original size:30 final size:30
Alignment explanation
Indices: 1013328--1013415 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
1013318 GTTGAGCCCA
* * *
1013328 TTAACTTTCTATTTTTACTATTTTAGTCCT
1 TTAACTTTCTATTTTTATTAGTTTAGTCAT
*
1013358 TTAACTTTCTATTTTTATTATTTTAGTCAT
1 TTAACTTTCTATTTTTATTAGTTTAGTCAT
* * * *
1013388 TTAAGTTTTTATTTTTGTTGGTTTAGTC
1 TTAACTTTCTATTTTTATTAGTTTAGTC
1013416 CTATAAATTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.19, C:0.10, G:0.08, T:0.62
Consensus pattern (30 bp):
TTAACTTTCTATTTTTATTAGTTTAGTCAT
Found at i:1013571 original size:4 final size:4
Alignment explanation
Indices: 1013555--1013584 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1013545 TTATAATTTC
*
1013555 ATGT ATTT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1013585 AAAAATTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:1014701 original size:6 final size:6
Alignment explanation
Indices: 1014414--1014700 Score: 529
Period size: 6 Copynumber: 47.8 Consensus size: 6
1014404 GAGAAGGTGT
* * *
1014414 ATGTGT ATGTGT ATGTGT ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1014462 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1014510 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1014558 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1014606 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
1 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC
* *
1014654 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGT ATGTGT ATGTG
1 ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTGC ATGTG
1014701 TTATTGGTAG
Statistics
Matches: 279, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 279 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (6 bp):
ATGTGC
Found at i:1016080 original size:96 final size:95
Alignment explanation
Indices: 1015958--1016177 Score: 232
Period size: 95 Copynumber: 2.3 Consensus size: 95
1015948 ATTGAGGCAA
** * * *
1015958 TATCGATACCATATTAAGGGTATCGATACCA-AGCAAACATCGAATCTAATATTGGTATCGATAC
1 TATCGATACCATGGTAA-AGTATCGATACCATAGC-AACATCGAACCTAATATTGGCATCGATAC
* *
1016022 CGTAAGGGTGTATCGA-TACAATAGTAT-GATAG
64 CGAAAGGGGGTAT-GAGTACAATAGTATAGA-AG
* * *
1016054 TATCGATACCATGGTAATGATATCGATA-CATGGCAACATCGAACCTAATATTGGCATCGATACT
1 TATCGATACCATGGTAAAG-TATCGATACCATAGCAACATCGAACCTAATATTGGCATCGATACC
* *
1016118 GAAAGGGGGTATTAGTACCATAGTATAGAAG
65 GAAAGGGGGTATGAGTACAATAGTATAGAAG
* *
1016149 TATCGCTACCAGGGTAGAAGTATCGATAC
1 TATCGATACCATGGTA-AAGTATCGATAC
1016178 TGAAAGGGGG
Statistics
Matches: 104, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
94 1 0.01
95 74 0.71
96 29 0.28
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (95 bp):
TATCGATACCATGGTAAAGTATCGATACCATAGCAACATCGAACCTAATATTGGCATCGATACCG
AAAGGGGGTATGAGTACAATAGTATAGAAG
Found at i:1016206 original size:61 final size:61
Alignment explanation
Indices: 1016109--1016239 Score: 226
Period size: 61 Copynumber: 2.1 Consensus size: 61
1016099 TAATATTGGC
* * *
1016109 ATCGATACTGAAAGGGGGTATTAGTACCATAGTATAGAAGTATCGCTACCAGGGTAGAAGT
1 ATCGATACTGAAAGGGGGTATTAGTACCACAATATAGAAGTATCGCTACCAGAGTAGAAGT
*
1016170 ATCGATACTGAAAGGGGGTATTAGTACCACAATATAGAAGTATCGGTACCAGAGTAGAAGT
1 ATCGATACTGAAAGGGGGTATTAGTACCACAATATAGAAGTATCGCTACCAGAGTAGAAGT
1016231 ATCGATACT
1 ATCGATACT
1016240 TTAAAGCCAT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 66 1.00
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (61 bp):
ATCGATACTGAAAGGGGGTATTAGTACCACAATATAGAAGTATCGCTACCAGAGTAGAAGT
Found at i:1016646 original size:34 final size:34
Alignment explanation
Indices: 1016608--1016740 Score: 122
Period size: 34 Copynumber: 3.6 Consensus size: 34
1016598 CCTTAGCTGA
1016608 AATGCATATGGGTGCATTATCAGCATAAAAGAAT
1 AATGCATATGGGTGCATTATCAGCATAAAAGAAT
* * *
1016642 AATGCATATGGGTGAATTATTAGCATGAAATGATGCCTTAGCT
1 AATGCATATGGGTGCATTATCAGCAT-AAA--A-G----A-AT
*
1016685 GAAATGCATATAGGTGCATTATCAGCATAAAAGAAT
1 --AATGCATATGGGTGCATTATCAGCATAAAAGAAT
*
1016721 AATGCATGTGGGTGCATTAT
1 AATGCATATGGGTGCATTAT
1016741 TGGCATGAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
34 42 0.53
35 3 0.04
36 1 0.01
37 2 0.03
38 1 0.01
41 1 0.01
42 2 0.03
43 1 0.01
44 3 0.04
45 23 0.29
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (34 bp):
AATGCATATGGGTGCATTATCAGCATAAAAGAAT
Found at i:1016685 original size:79 final size:79
Alignment explanation
Indices: 1016554--1016795 Score: 389
Period size: 79 Copynumber: 3.1 Consensus size: 79
1016544 AACAAATGAT
*
1016554 TAAAAGAATAATGCATGTGGGTGCATTATTAGCATGAAAGGATGCCTTAGCTGAAATGCATATGG
1 TAAAAGAATAATGCATGTGGGTGCATTATTAGCATGAAATGATGCCTTAGCTGAAATGCATATGG
1016619 GTGCATTATCAGCA
66 GTGCATTATCAGCA
* * *
1016633 TAAAAGAATAATGCATATGGGTGAATTATTAGCATGAAATGATGCCTTAGCTGAAATGCATATAG
1 TAAAAGAATAATGCATGTGGGTGCATTATTAGCATGAAATGATGCCTTAGCTGAAATGCATATGG
1016698 GTGCATTATCAGCA
66 GTGCATTATCAGCA
* **
1016712 TAAAAGAATAATGCATGTGGGTGCATTATTGGCATGAAATGATGCCAAAG-TCGAAATGCATATG
1 TAAAAGAATAATGCATGTGGGTGCATTATTAGCATGAAATGATGCCTTAGCT-GAAATGCATATG
*
1016776 GGTGCATTATCA-AA
65 GGTGCATTATCAGCA
1016790 TAAAAG
1 TAAAAG
1016796 TATGCTATAA
Statistics
Matches: 151, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
78 8 0.05
79 143 0.95
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (79 bp):
TAAAAGAATAATGCATGTGGGTGCATTATTAGCATGAAATGATGCCTTAGCTGAAATGCATATGG
GTGCATTATCAGCA
Found at i:1022936 original size:20 final size:22
Alignment explanation
Indices: 1022890--1022941 Score: 81
Period size: 22 Copynumber: 2.5 Consensus size: 22
1022880 TCGTAAGGGG
1022890 GTATCGATACCATAGTATAGTA
1 GTATCGATACCATAGTATAGTA
*
1022912 GTATCGATACCATGGTA-AG-A
1 GTATCGATACCATAGTATAGTA
1022932 GTATCGATAC
1 GTATCGATAC
1022942 TAGGCAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 11 0.38
21 2 0.07
22 16 0.55
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (22 bp):
GTATCGATACCATAGTATAGTA
Found at i:1022940 original size:95 final size:94
Alignment explanation
Indices: 1022819--1023035 Score: 262
Period size: 95 Copynumber: 2.3 Consensus size: 94
1022809 TTGAGGCATC
* *
1022819 ATCGATACCATAGTAA-AGGTATCGATACCAAGCAA-ACACGAATCTAATATTGGTATCGATA-T
1 ATCGATACCATGGTAAGA-GTATCGATACCAAGCAATA-ACGAACCTAATATTGGTATCGATACT
* *
1022881 CGTAAGGGGGTATCGATACCATAGTATAGTAGT
64 -G-AAAGGGGTATCGATACCATAGTATAGAAGT
* * * *
1022914 ATCGATACCATGGTAAGAGTATCGATACTAGGCAATATCGAACCTAATATTGGTATTGATACTGA
1 ATCGATACCATGGTAAGAGTATCGATACCAAGCAATAACGAACCTAATATTGGTATCGATACTGA
*
1022979 AAGGGGTATCGATACCATAGTGTAGAAGT
66 AAGGGGTATCGATACCATAGTATAGAAGT
* *
1023008 ATCGGTACCAGGGT-AGAAGTATCGATAC
1 ATCGATACCATGGTAAG-AGTATCGATAC
1023036 TTTGGAGCCA
Statistics
Matches: 107, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
93 2 0.02
94 50 0.47
95 52 0.49
96 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (94 bp):
ATCGATACCATGGTAAGAGTATCGATACCAAGCAATAACGAACCTAATATTGGTATCGATACTGA
AAGGGGTATCGATACCATAGTATAGAAGT
Found at i:1023016 original size:22 final size:20
Alignment explanation
Indices: 1022984--1023035 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
1022974 ACTGAAAGGG
*
1022984 GTATCGATACCATAGTGTAGAA
1 GTATCGATACC--AGGGTAGAA
*
1023006 GTATCGGTACCAGGGTAGAA
1 GTATCGATACCAGGGTAGAA
1023026 GTATCGATAC
1 GTATCGATAC
1023036 TTTGGAGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
22 10 0.37
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (20 bp):
GTATCGATACCAGGGTAGAA
Found at i:1023029 original size:94 final size:95
Alignment explanation
Indices: 1022857--1023036 Score: 258
Period size: 94 Copynumber: 1.9 Consensus size: 95
1022847 CAAGCAAACA
* * *
1022857 CGAATCTAATATTGGTATCGATATCGTAAGGGGGTATCGATACCATAGTATAGTAGTATCGATAC
1 CGAACCTAATATTGGTATCGATATCGTAAAGGGGTATCGATACCATAGTATAGAAGTATCGATAC
*
1022922 CATGGTAAGAGTATCGATACTAGGCAATAT
66 CAGGGTAAGAGTATCGATACTAGGCAATAT
* * *
1022952 CGAACCTAATATTGGTATTGATA-C-TGAAAGGGGTATCGATACCATAGTGTAGAAGTATCGGTA
1 CGAACCTAATATTGGTATCGATATCGT-AAAGGGGTATCGATACCATAGTATAGAAGTATCGATA
1023015 CCAGGGT-AGAAGTATCGATACT
65 CCAGGGTAAG-AGTATCGATACT
1023037 TTGGAGCCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
93 3 0.04
94 52 0.68
95 21 0.28
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (95 bp):
CGAACCTAATATTGGTATCGATATCGTAAAGGGGTATCGATACCATAGTATAGAAGTATCGATAC
CAGGGTAAGAGTATCGATACTAGGCAATAT
Found at i:1023536 original size:79 final size:79
Alignment explanation
Indices: 1023436--1023599 Score: 238
Period size: 79 Copynumber: 2.1 Consensus size: 79
1023426 AACAAATGAT
* * * ** *
1023436 TAAAAAAATAATGCATATGGGTGCATTATTGGCATGAAATGATGCCTTAGCTGAAATGCATATGG
1 TAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCAAAGCTGAAATGAATATGG
*
1023501 GTGCATTATCGACA
66 GTGCATTATCAACA
* * *
1023515 TAAAAGAATATTGCATGTGGGTACATTATTGGCATGAAAGGATGCCAAAGTTGAAATGAATATGG
1 TAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCAAAGCTGAAATGAATATGG
1023580 GTGCATTATCAACA
66 GTGCATTATCAACA
1023594 TAAAAG
1 TAAAAG
1023600 TATGATATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (79 bp):
TAAAAGAATAATGCATATGGGTACATTATTGGCATGAAAGGATGCCAAAGCTGAAATGAATATGG
GTGCATTATCAACA
Found at i:1024912 original size:16 final size:16
Alignment explanation
Indices: 1024888--1024919 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1024878 TTGTTAGAAC
*
1024888 AACTTTGTCATGTAAA
1 AACTCTGTCATGTAAA
1024904 AACTCTGTCATGTAAA
1 AACTCTGTCATGTAAA
1024920 GTATATTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (16 bp):
AACTCTGTCATGTAAA
Found at i:1025443 original size:17 final size:18
Alignment explanation
Indices: 1025421--1025466 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
1025411 TTATAATGAG
1025421 AAATTAATATTTGTTA-T
1 AAATTAATATTTGTTATT
*
1025438 AAATTATTATTT-TTATT
1 AAATTAATATTTGTTATT
1025455 AAA-TAA-ATTTGT
1 AAATTAATATTTGT
1025467 CACAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 4 0.16
16 6 0.24
17 15 0.60
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
AAATTAATATTTGTTATT
Found at i:1025535 original size:28 final size:28
Alignment explanation
Indices: 1025503--1025563 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
1025493 TATGACGAAA
*
1025503 TAAATTTAAAATAACTTTTTACTTTAAT
1 TAAATTTAAAATAACTTTTTACTGTAAT
** * *
1025531 TAAATTTAATTTAATTTTTTACTGTGAT
1 TAAATTTAAAATAACTTTTTACTGTAAT
1025559 TAAAT
1 TAAAT
1025564 AATTTGTTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (28 bp):
TAAATTTAAAATAACTTTTTACTGTAAT
Found at i:1029741 original size:180 final size:175
Alignment explanation
Indices: 1029326--1029752 Score: 443
Period size: 180 Copynumber: 2.4 Consensus size: 175
1029316 ATATATACCA
* * ** *
1029326 TCACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAAT-TGAATAACATTATTTT
1 TCACTATAATTAAAATATATAACTACAAA-ATAATTTGTCACAAAAATCTGAATCTCATTATTTG
* * * ** *
1029390 TTGTGACTATTTTTTGTAATAATTATTAACAATTATAGTTACAAAATTTTTCACTATATAATTTT
65 TTGTGACAATTTTTTGTAACAATAATTAAC-ATTATAGTTACAAAACATGTCACTATATAATTTT
* * *
1029455 TTTGGCGCAAAAAAATATGGACGGAAATCTTTGTGACAATATATTTTT
129 TTTGGCACAAAAAAATATGGAC-GAAATCTTTGTGACAATACATTTTG
* * ** *
1029503 TCACTATAATTAAAACATATAACGACAAAATTTGTTTGTTACTAAAAA-CTTGAATCTCATTATT
1 TCACTATAATTAAAATATATAACTACAAAA-TAATTTGTCAC-AAAAATC-TGAATCTCATTATT
1029567 TGTTGTGACAACTTTTTTGTAACAATAATTATAGC-TTATAGTTACAAAACATGTCACTATATAA
63 TGTTGTGACAA-TTTTTTGTAACAATAATTA-A-CATTATAGTTACAAAACATGTCACTATATAA
* * *
1029631 TTTTGTTTTTGTAC-AAAAAAT-TGGA-GATAATCATTTGTGACTATACATTTTG
125 -TTT-TTTTGGCACAAAAAAATATGGACGA-AATC-TTTGTGACAATACATTTTG
* * * *
1029683 TCACTCTAATTAAAATATATAATTACAAACAAAATTTGTCACAACAAATCTAAATCTCATTATTT
1 TCACTATAATTAAAATATATAACTACAAA-ATAATTTGTCACAA-AAATCTGAATCTCATTATTT
1029748 GTTGT
64 GTTGT
1029753 TATTTGTTGT
Statistics
Matches: 205, Mismatches: 31, Indels: 25
0.79 0.12 0.10
Matches are distributed among these distances:
176 1 0.00
177 33 0.16
178 7 0.03
179 27 0.13
180 117 0.57
181 13 0.06
182 7 0.03
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (175 bp):
TCACTATAATTAAAATATATAACTACAAAATAATTTGTCACAAAAATCTGAATCTCATTATTTGT
TGTGACAATTTTTTGTAACAATAATTAACATTATAGTTACAAAACATGTCACTATATAATTTTTT
TGGCACAAAAAAATATGGACGAAATCTTTGTGACAATACATTTTG
Found at i:1031727 original size:20 final size:20
Alignment explanation
Indices: 1031702--1031765 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
1031692 TGTGATAGTC
1031702 TTGCGATTTTCCATTTCGCG
1 TTGCGATTTTCCATTTCGCG
* ** **
1031722 TTGCGATAGTTGAAAATCGCG
1 TTGCGAT-TTTCCATTTCGCG
*
1031743 TTGCGATTATCCATTTCGCG
1 TTGCGATTTTCCATTTCGCG
1031763 TTG
1 TTG
1031766 TGATAGTGTA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 17 0.53
21 15 0.47
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.39
Consensus pattern (20 bp):
TTGCGATTTTCCATTTCGCG
Found at i:1031747 original size:41 final size:40
Alignment explanation
Indices: 1031702--1031894 Score: 176
Period size: 41 Copynumber: 4.8 Consensus size: 40
1031692 TGTGATAGTC
1031702 TTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCG-CG
1 TTGCGATTTTCCATTTCGCGTTGCGATAG-TGAAAAT-GTCG
* * * * *
1031743 TTGCGATTATCCATTTCGCGTTGTGATAGTGTACAGTGTCA
1 TTGCGATTTTCCATTTCGCGTTGCGATAGTG-AAAATGTCG
* * * * *
1031784 TTGCGATTTTCCATCTCGCATTCCGATAGTGTACATTGTCG
1 TTGCGATTTTCCATTTCGCGTTGCGATAGTG-AAAATGTCG
* * * *
1031825 TTGCGATTTTTCATTTCGCGTTGCGATAGTCTACAGTGTCG
1 TTGCGATTTTCCATTTCGCGTTGCGATAGT-GAAAATGTCG
*
1031866 TTGCGATTTTCCAAATT--CGTTGCGATAGT
1 TTGCGATTTTCC-ATTTCGCGTTGCGATAGT
1031895 CTACAGTAAA
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
40 15 0.12
41 110 0.86
42 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (40 bp):
TTGCGATTTTCCATTTCGCGTTGCGATAGTGAAAATGTCG
Found at i:1031840 original size:82 final size:82
Alignment explanation
Indices: 1031702--1031878 Score: 239
Period size: 82 Copynumber: 2.2 Consensus size: 82
1031692 TGTGATAGTC
* * * *
1031702 TTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTATCCATTTCGCGTTGT
1 TTGCGATTTTCCATCTCGCATTCCGATAGTTGAAAATCGCGTTGCGATTATCCATTTCGCGTTGC
*
1031767 GATAGTGTACAGTGTCA
66 GATAGTCTACAGTGTCA
* * * * *
1031784 TTGCGATTTTCCATCTCGCATTCCGATAG-TGTACATTGTCGTTGCGATTTTTCATTTCGCGTTG
1 TTGCGATTTTCCATCTCGCATTCCGATAGTTGAAAATCG-CGTTGCGATTATCCATTTCGCGTTG
*
1031848 CGATAGTCTACAGTGTCG
65 CGATAGTCTACAGTGTCA
1031866 TTGCGATTTTCCA
1 TTGCGATTTTCCA
1031879 AATTCGTTGC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
81 6 0.07
82 77 0.93
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.40
Consensus pattern (82 bp):
TTGCGATTTTCCATCTCGCATTCCGATAGTTGAAAATCGCGTTGCGATTATCCATTTCGCGTTGC
GATAGTCTACAGTGTCA
Found at i:1031869 original size:21 final size:20
Alignment explanation
Indices: 1031843--1031901 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
1031833 TTTCATTTCG
1031843 CGTTGCGATAGTCTACAGTGT
1 CGTTGCGATAGTCTACAGT-T
** * *
1031864 CGTTGCGATTTTCCA-AATT
1 CGTTGCGATAGTCTACAGTT
1031883 CGTTGCGATAGTCTACAGT
1 CGTTGCGATAGTCTACAGT
1031902 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCTACAGTT
Found at i:1032478 original size:6 final size:6
Alignment explanation
Indices: 1032462--1032517 Score: 105
Period size: 6 Copynumber: 9.5 Consensus size: 6
1032452 TCTAGTCTCG
1032462 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1032509 GGTCGT GGT
1 GGTCGT GGT
1032518 AATACGTGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.10
6 45 0.90
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:1032643 original size:41 final size:41
Alignment explanation
Indices: 1032597--1032782 Score: 345
Period size: 41 Copynumber: 4.5 Consensus size: 41
1032587 TTTTTAATTT
* *
1032597 ACTGTAGACTATCGCAACGCGAGATGGAAAATCGCAATGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
*
1032638 ACTGTACACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1032679 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1032720 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1 ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
1032761 ACTGTAGACTATCGCAACGCGA
1 ACTGTAGACTATCGCAACGCGA
1032783 TTTTCAACTA
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 141 1.00
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (41 bp):
ACTGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGAC
Found at i:1032811 original size:21 final size:21
Alignment explanation
Indices: 1032645--1032807 Score: 92
Period size: 21 Copynumber: 7.9 Consensus size: 21
1032635 GACACTGTAC
1032645 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGGA
* * *
1032666 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGGA
1032685 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGGA
* * *
1032707 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGGA
1032726 GACTATCGCAACGCGAAATGGA
1 -ACTATCGCAACGCGAAATGGA
* * *
1032748 A-AATCGCAA--CGACACTGTA
1 ACTATCGCAACGCGA-AATGGA
** **
1032767 GACTATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGA
1032789 ACTATCGCAACGCGAAATG
1 ACTATCGCAACGCGAAATG
1032808 CAACGCGAAT
Statistics
Matches: 104, Mismatches: 23, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
18 9 0.09
19 12 0.12
20 24 0.23
21 40 0.38
22 10 0.10
23 9 0.09
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGGA
Found at i:1039932 original size:15 final size:15
Alignment explanation
Indices: 1039912--1039942 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1039902 TGTTTGCTTG
1039912 TGTGCTAGGTTTCAA
1 TGTGCTAGGTTTCAA
1039927 TGTGCTAGGTTTCAA
1 TGTGCTAGGTTTCAA
1039942 T
1 T
1039943 TATGTCCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.26, T:0.42
Consensus pattern (15 bp):
TGTGCTAGGTTTCAA
Found at i:1040721 original size:21 final size:21
Alignment explanation
Indices: 1040695--1040758 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
1040685 TTTTGGTGCA
*
1040695 GAGGGAATCGATCCCCCCCAT
1 GAGGGAACCGATCCCCCCCAT
* **
1040716 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATCCCCCCCAT
*
1040737 GAAGGGGAACCGATTCCCCCCA
1 G-A-GGGAACCGATCCCCCCCA
1040759 CAGGGGAATC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 18 0.51
22 1 0.03
23 16 0.46
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCAT
Found at i:1040765 original size:21 final size:21
Alignment explanation
Indices: 1040697--1040778 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 21
1040687 TTGGTGCAGA
*
1040697 GGGAATCGA-TCCCCCC-CATG
1 GGGAACCGATTCCCCCCACA-G
*
1040717 AGGGAACCGATTCCCCCTTTGA-AG
1 -GGGAACCGATTCCCCC---CACAG
1040741 GGGAACCGATTCCCCCCACAG
1 GGGAACCGATTCCCCCCACAG
* *
1040762 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
1040779 TGGAGTTTTG
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
20 1 0.02
21 25 0.50
22 6 0.12
23 16 0.32
24 1 0.02
25 1 0.02
ACGTcount: A:0.23, C:0.38, G:0.24, T:0.15
Consensus pattern (21 bp):
GGGAACCGATTCCCCCCACAG
Found at i:1042754 original size:15 final size:16
Alignment explanation
Indices: 1042714--1042756 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
1042704 TTTTTTCAAC
* *
1042714 ATTTTTGAATTGTTTG
1 ATTTTTGGATTGTTGG
1042730 ATTTTGTGGATTGTTGG
1 ATTTT-TGGATTGTTGG
1042747 A-TTTTGGATT
1 ATTTTTGGATT
1042757 TATTGATGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.16, C:0.00, G:0.26, T:0.58
Consensus pattern (16 bp):
ATTTTTGGATTGTTGG
Found at i:1050578 original size:22 final size:22
Alignment explanation
Indices: 1050544--1050601 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
1050534 ACAAGGAGAG
* * *
1050544 AAAAAA-AATTAAAGATATAGC
1 AAAAAAGAAATAAAGAGATAAC
* *
1050565 AAAAAAGAAATAAAAAGATAAT
1 AAAAAAGAAATAAAGAGATAAC
1050587 AAAAAAGAAA-AAAGA
1 AAAAAAGAAATAAAGA
1050602 AAAAAATAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 10 0.33
22 20 0.67
ACGTcount: A:0.76, C:0.02, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAAAAGAAATAAAGAGATAAC
Found at i:1050587 original size:11 final size:10
Alignment explanation
Indices: 1050566--1050621 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
1050556 AGATATAGCA
1050566 AAAAAGAAAT
1 AAAAAGAAAT
1050576 AAAAAGATAAT
1 AAAAAGA-AAT
*
1050587 AAAAAAGAAAA
1 -AAAAAGAAAT
*
1050598 AAGAAAAAAAT
1 AA-AAAGAAAT
*
1050609 AAAAAAAAAT
1 AAAAAGAAAT
1050619 AAA
1 AAA
1050622 TAAATAATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
10 20 0.50
11 13 0.32
12 7 0.17
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (10 bp):
AAAAAGAAAT
Found at i:1050609 original size:22 final size:22
Alignment explanation
Indices: 1050565--1050621 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1050555 AAGATATAGC
* *
1050565 AAAAAAGAAATAAAAAGATAAT
1 AAAAAAGAAATAAAAAAAAAAT
1050587 AAAAAAGAAA-AAAGAAAAAAAT
1 AAAAAAGAAATAAA-AAAAAAAT
1050609 AAAAAA-AAATAAA
1 AAAAAAGAAATAAA
1050622 TAAATAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (22 bp):
AAAAAAGAAATAAAAAAAAAAT
Found at i:1052177 original size:39 final size:39
Alignment explanation
Indices: 1052126--1052252 Score: 120
Period size: 39 Copynumber: 3.3 Consensus size: 39
1052116 ACAAGTTTCG
1052126 TCTCACTGGAGATAGTTTCCCTTGAAACAAGAAATTTTA
1 TCTCACTGGAGATAGTTTCCCTTGAAACAAGAAATTTTA
** * * **
1052165 TCTCACAT-GAGAT-GATTTTTCTTAAAACCAG---TTTCG
1 TCTCAC-TGGAGATAG-TTTCCCTTGAAACAAGAAATTTTA
* *
1052201 TCTCACTGGAGACAGTTTCCCTTGAAATAAGAAATTTTA
1 TCTCACTGGAGATAGTTTCCCTTGAAACAAGAAATTTTA
*
1052240 TCTCACTAGAGAT
1 TCTCACTGGAGAT
1052253 GATTTTTCTT
Statistics
Matches: 65, Mismatches: 16, Indels: 14
0.68 0.17 0.15
Matches are distributed among these distances:
35 1 0.02
36 24 0.37
37 1 0.02
38 1 0.02
39 37 0.57
40 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (39 bp):
TCTCACTGGAGATAGTTTCCCTTGAAACAAGAAATTTTA
Found at i:1052209 original size:75 final size:72
Alignment explanation
Indices: 1052083--1052538 Score: 504
Period size: 73 Copynumber: 6.2 Consensus size: 72
1052073 CAAAGATCAT
* * * * *
1052083 AAATTTATCTCACTTGCGATTG-TTTTTCTCAAAA-CAAGTTTCGTCTCACTGGAGATAGTTTCC
1 AAATTTATCTCACTCGAGA-TGATTTTTCTTAAAACCAA-CTTCGTCTCACTGGAGACAGTTTCC
1052146 CTTGAAACAA
64 CTTGAAAC-A
**
1052156 GAAATTTTATCTCACAT-GAGATGATTTTTCTTAAAACCAGTTTCGTCTCACTGGAGACAGTTTC
1 -AAA-TTTATCTCAC-TCGAGATGATTTTTCTTAAAACCAACTTCGTCTCACTGGAGACAGTTTC
*
1052220 CCTTGAAATAA
63 CCTTGAAA-CA
* * * *
1052231 GAAATTTTATCTCACTAGAGATGATTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAATTTTC
1 -AAA-TTTATCTCACTCGAGATGATTTTTCTTAAAACCAACTTCGTCTCACTGGAGAC-AGTTTC
*
1052296 CCTCGAAACA
63 CCTTGAAACA
* * * ** *
1052306 AAATGTATCTCACTTGAGATGGTTTTTCTTAAAACCAACTTCGTCTTGCTTGAGACAGTTTTCCC
1 AAATTTATCTCACTCGAGATGATTTTTCTTAAAACCAACTTCGTCTCACTGGAGACAG-TTTCCC
1052371 TTGAAACA
65 TTGAAACA
* * * ** *
1052379 AAATTTATCTTACTCGAGATGATTTTTCTTAAAACCAAATTTGTCTCGTTTGAGACAGTTTCCCT
1 AAATTTATCTCACTCGAGATGATTTTTCTTAAAACCAACTTCGTCTCACTGGAGACAGTTTCCCT
*
1052444 CGAAACA
66 TGAAACA
* * * * *
1052451 AAATCTATCTCACTCGAGATGGTTTTTCCTAAAACCAACTTCGTCTCACTGAAGACAGTTTTCCT
1 AAATTTATCTCACTCGAGATGATTTTTCTTAAAACCAACTTCGTCTCACTGGAGACAGTTTCCCT
1052516 TCGAAACA
66 T-GAAACA
1052524 AAATTTATCTCACTC
1 AAATTTATCTCACTC
1052539 AATAGAGCTT
Statistics
Matches: 333, Mismatches: 40, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
72 68 0.20
73 132 0.40
74 9 0.03
75 109 0.33
76 15 0.05
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (72 bp):
AAATTTATCTCACTCGAGATGATTTTTCTTAAAACCAACTTCGTCTCACTGGAGACAGTTTCCCT
TGAAACA
Found at i:1052420 original size:36 final size:36
Alignment explanation
Indices: 1052083--1052488 Score: 133
Period size: 36 Copynumber: 11.1 Consensus size: 36
1052073 CAAAGATCAT
* *
1052083 AAATTTATCTCACTTGCGATTG-TTTTTCTCAAAA-C
1 AAATTTATCTCACTTGAGA-TGATTTTTCTTAAAACC
* * * ** **
1052118 AAGTTTCGTCTCACTGGAGAT-AGTTTCCCTTGAAACAAG
1 AAATTT-ATCTCACTTGAGATGA-TTTTTCTT-AAA-ACC
*
1052157 AAATTTTATCTCACATGAGATGATTTTTCTTAAAACC
1 AAA-TTTATCTCACTTGAGATGATTTTTCTTAAAACC
* * * * ** **
1052194 -AGTTTCGTCTCACTGGAGA-CAGTTTCCCTTGAAATAAG
1 AAATTT-ATCTCACTTGAGATGA-TTTTTCTT-AAA-ACC
*
1052232 AAATTTTATCTCACTAGAGATGATTTTTCTTAAAACC
1 AAA-TTTATCTCACTTGAGATGATTTTTCTTAAAACC
* ** * ** * ** *
1052269 AACTTCGTCTCGCTTGAGACAATTTTCCCTCGAAACA
1 AAATTTATCTCACTTGAGATGATTTT-TCTTAAAACC
* *
1052306 AAATGTATCTCACTTGAGATGGTTTTTCTTAAAACC
1 AAATTTATCTCACTTGAGATGATTTTTCTTAAAACC
* ** ** * * * *
1052342 AACTTCGTCTTGCTTGAGA-CAGTTTTCCCTTGAAACA
1 AAATTTATCTCACTTGAGATGA-TTTT-TCTTAAAACC
* *
1052379 AAATTTATCTTACTCGAGATGATTTTTCTTAAAACC
1 AAATTTATCTCACTTGAGATGATTTTTCTTAAAACC
* ** * ** ** *
1052415 AAATTTGTCTCGTTTGAGA-CAGTTTCCCTCGAAACA
1 AAATTTATCTCACTTGAGATGA-TTTTTCTTAAAACC
* * * *
1052451 AAATCTATCTCACTCGAGATGGTTTTTCCTAAAACC
1 AAATTTATCTCACTTGAGATGATTTTTCTTAAAACC
1052487 AA
1 AA
1052489 CTTCGTCTCA
Statistics
Matches: 250, Mismatches: 100, Indels: 41
0.64 0.26 0.10
Matches are distributed among these distances:
35 11 0.04
36 126 0.50
37 59 0.24
38 9 0.04
39 37 0.15
40 8 0.03
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (36 bp):
AAATTTATCTCACTTGAGATGATTTTTCTTAAAACC
Found at i:1052484 original size:145 final size:144
Alignment explanation
Indices: 1052083--1052538 Score: 535
Period size: 145 Copynumber: 3.1 Consensus size: 144
1052073 CAAAGATCAT
* * * * * * *
1052083 AAATTTATCTCACTTGCGATTG-TTTTTCTCAAAA-CAAGTTTCGTCTCACTGGAGATAGTTTCC
1 AAATTTATCTCACTCGAGA-TGATTTTTCTTAAAACCAA-ATTCGTCTCGCTTGAGACAGTTTCC
* * * ** *
1052146 CTTGAAACAAGAAATTTTATCTCACATGAGATGATTTTTCTTAAAACCAGTTTCGTCTCACTGGA
64 CTCGAAAC-A-AAA-TCTATCTCAC-TGAGATGGTTTTTCTTAAAACCAACTTCGTCTCACTTGA
*
1052211 GACAG-TTTCCCTTGAAATAA
125 GACAGTTTTCCCTTGAAA-CA
* * *
1052231 GAAATTTTATCTCACTAGAGATGATTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAATTTTC
1 -AAA-TTTATCTCACTCGAGATGATTTTTCTTAAAACCAAATTCGTCTCGCTTGAGAC-AGTTTC
* **
1052296 CCTCGAAACAAAATGTATCTCACTTGAGATGGTTTTTCTTAAAACCAACTTCGTCTTGCTTGAGA
63 CCTCGAAACAAAATCTATCTCAC-TGAGATGGTTTTTCTTAAAACCAACTTCGTCTCACTTGAGA
1052361 CAGTTTTCCCTTGAAACA
127 CAGTTTTCCCTTGAAACA
* * *
1052379 AAATTTATCTTACTCGAGATGATTTTTCTTAAAACCAAATTTGTCTCGTTTGAGACAGTTTCCCT
1 AAATTTATCTCACTCGAGATGATTTTTCTTAAAACCAAATTCGTCTCGCTTGAGACAGTTTCCCT
*
1052444 CGAAACAAAATCTATCTCACTCGAGATGGTTTTTCCTAAAACCAACTTCGTCTCAC-TGAAGACA
66 CGAAACAAAATCTATCTCACT-GAGATGGTTTTTCTTAAAACCAACTTCGTCTCACTTG-AGACA
1052508 GTTTT-CCTTCGAAACA
129 GTTTTCCCTT-GAAACA
1052524 AAATTTATCTCACTC
1 AAATTTATCTCACTC
1052539 AATAGAGCTT
Statistics
Matches: 270, Mismatches: 29, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
144 7 0.03
145 88 0.33
146 48 0.18
147 3 0.01
148 48 0.18
149 20 0.07
150 40 0.15
151 16 0.06
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (144 bp):
AAATTTATCTCACTCGAGATGATTTTTCTTAAAACCAAATTCGTCTCGCTTGAGACAGTTTCCCT
CGAAACAAAATCTATCTCACTGAGATGGTTTTTCTTAAAACCAACTTCGTCTCACTTGAGACAGT
TTTCCCTTGAAACA
Found at i:1053067 original size:91 final size:91
Alignment explanation
Indices: 1052957--1053315 Score: 529
Period size: 91 Copynumber: 3.9 Consensus size: 91
1052947 TTGAGGGATT
* * * * * *
1052957 AACAATTCCATTGAAGAGTTCATAAAGAGAATAACTCTTCCAACGAGGGAGAAGAAGCTCATAAT
1 AACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
1053022 GAGAAGAACTTGTTCAACCTTGAATC
66 GAGAAGAACTTGTTCAACCTTGAATC
1053048 AACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
1 AACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
*
1053113 GAGAAGAACTTGTTCAATCTTGAATC
66 GAGAAGAACTTGTTCAACCTTGAATC
* * *
1053139 AACATTTCCAGTGGAGAGTTCATAATGAGAAAAACCCATCCAACGAGGGAGAAGAAGTTCATAAT
1 AACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
* ** *
1053204 GAGAAGAATTTGTTCAACCTTGGCTA
66 GAGAAGAACTTGTTCAACCTTGAATC
* * ** * *
1053230 AACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCGTCTGATGAGGGAGAATAAGTTCATAAT
1 AACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
*
1053295 GAGAATAACTTGTTCAACCTT
66 GAGAAGAACTTGTTCAACCTT
1053316 CGCTAGATTC
Statistics
Matches: 244, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
91 244 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (91 bp):
AACATTTCCAGTGAAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTGAATC
Found at i:1053475 original size:52 final size:52
Alignment explanation
Indices: 1053401--1053524 Score: 194
Period size: 52 Copynumber: 2.4 Consensus size: 52
1053391 AGGGAGAAGA
* *
1053401 AGTTCATAATGAGAAGAACTTGTTCAACCTTAGCTCAGCATTTCCAGTGGAG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCAACATTTCCAGTGGAG
* * *
1053453 AGTTCATAATGAGAAGAACTTGTTCGACCTTGGATCAACATTTCCAGTGGTG
1 AGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCAACATTTCCAGTGGAG
*
1053505 AGTTCATAATGAGAAAAACT
1 AGTTCATAATGAGAAGAACT
1053525 CATCTGACGA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (52 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCTTAGATCAACATTTCCAGTGGAG
Found at i:1054693 original size:24 final size:23
Alignment explanation
Indices: 1054665--1054709 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
1054655 GACCTTTCAT
1054665 TTCTAATTTATTATACTTTTATCA
1 TTCTAATTTATTATA-TTTTATCA
* *
1054689 TTCTATTTTATTTTATTTTAT
1 TTCTAATTTATTATATTTTAT
1054710 TTTAGTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (23 bp):
TTCTAATTTATTATATTTTATCA
Found at i:1054882 original size:27 final size:29
Alignment explanation
Indices: 1054851--1054908 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
1054841 TTTAGTTACT
* *
1054851 TTTTAATT-TTTGA-TTTAGTTACTATTA
1 TTTTAATTGTTTCATTTTAGTCACTATTA
*
1054878 TTTTAATTGTTTCATTTTAGTCACTGTTA
1 TTTTAATTGTTTCATTTTAGTCACTATTA
1054907 TT
1 TT
1054909 ATATTTTATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 8 0.31
28 4 0.15
29 14 0.54
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (29 bp):
TTTTAATTGTTTCATTTTAGTCACTATTA
Found at i:1054981 original size:16 final size:16
Alignment explanation
Indices: 1054953--1054999 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
1054943 TGTGTTGTTG
*
1054953 TTTA-TGTTGTTTATT
1 TTTATTGTTTTTTATT
1054968 TTTATTGTTTTTTATT
1 TTTATTGTTTTTTATT
*
1054984 ATTACTTGTTATTTTA
1 TTTA-TTGTT-TTTTA
1055000 GTTATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 4 0.15
16 13 0.48
17 5 0.19
18 5 0.19
ACGTcount: A:0.17, C:0.02, G:0.09, T:0.72
Consensus pattern (16 bp):
TTTATTGTTTTTTATT
Found at i:1059028 original size:20 final size:20
Alignment explanation
Indices: 1059003--1059044 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1058993 AACCACCCTC
1059003 CATCGGATTGCCATACAGAG
1 CATCGGATTGCCATACAGAG
1059023 CATCGGATTGCCATACAGAG
1 CATCGGATTGCCATACAGAG
1059043 CA
1 CA
1059045 CACACTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (20 bp):
CATCGGATTGCCATACAGAG
Found at i:1061509 original size:29 final size:29
Alignment explanation
Indices: 1061475--1061530 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1061465 GGACTGATAG
* * *
1061475 TTCAGCTCGTCGAAGGGAGACTGAAACTT
1 TTCAGCTCATCAAAGAGAGACTGAAACTT
*
1061504 TTCAGCTCATCAAAGATAGACTGAAAC
1 TTCAGCTCATCAAAGAGAGACTGAAAC
1061531 CTTTGGACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.23
Consensus pattern (29 bp):
TTCAGCTCATCAAAGAGAGACTGAAACTT
Found at i:1067338 original size:29 final size:29
Alignment explanation
Indices: 1067303--1067384 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
1067293 AAACTAAATT
* *
1067303 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
1067332 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
1067361 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1067385 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:1068697 original size:15 final size:15
Alignment explanation
Indices: 1068674--1068703 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1068664 ACGAGGCTGG
1068674 AATTACAACAACAAC
1 AATTACAACAACAAC
*
1068689 AATTCCAACAACAAC
1 AATTACAACAACAAC
1068704 TATGAGAAAG
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:0.57, C:0.30, G:0.00, T:0.13
Consensus pattern (15 bp):
AATTACAACAACAAC
Found at i:1072108 original size:29 final size:29
Alignment explanation
Indices: 1072075--1072152 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
1072065 TAAATTGATT
* *
1072075 TCATTACTTACATCATTTAATTAAAGATG
1 TCATTGCTTACATCATTTAAGTAAAGATG
*
1072104 TCATTGCTTACATCATTTAAGTAATGATG
1 TCATTGCTTACATCATTTAAGTAAAGATG
1072133 TCATTGCTTACATCAATTTA
1 TCATTGCTTACATC-ATTTA
1072153 GTTAGGTGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 40 0.89
30 5 0.11
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.42
Consensus pattern (29 bp):
TCATTGCTTACATCATTTAAGTAAAGATG
Found at i:1077082 original size:16 final size:16
Alignment explanation
Indices: 1077061--1077093 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
1077051 GTAGGACAAC
1077061 TTGATGGAGAAGGATA
1 TTGATGGAGAAGGATA
*
1077077 TTGATGGAGAATGATA
1 TTGATGGAGAAGGATA
1077093 T
1 T
1077094 AGTACAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (16 bp):
TTGATGGAGAAGGATA
Found at i:1085764 original size:60 final size:60
Alignment explanation
Indices: 1085655--1085770 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
1085645 TTGGGTAATA
* *
1085655 ATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAATATTCTATAGTCAAAGAATC
1 ATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAATAGTCTATAGGCAAAGAATC
* * * * *
1085715 ATTTTGTAACTTTTAGTAGTTTG-GGGACTTAACAAAGTAAT-GTCATATAGGCAAAG
1 ATTTTATAACTTTTAATAG-TCGAGGGACTCAACAAAGCAATAGTC-TATAGGCAAAG
1085771 GACTATTTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.04
60 43 0.91
61 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCGAGGGACTCAACAAAGCAATAGTCTATAGGCAAAGAATC
Found at i:1099858 original size:9 final size:8
Alignment explanation
Indices: 1099823--1099886 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
1099813 AAAAATAGAT
*
1099823 AAAATTAT
1 AAAATTAA
1099831 AAAATTAA
1 AAAATTAA
* *
1099839 AATATCAA
1 AAAATTAA
1099847 AAAATTACA
1 AAAATTA-A
*
1099856 AAAAATAA
1 AAAATTAA
1099864 AAAATTATTA
1 AAAATTA--A
*
1099874 AAAAATAA
1 AAAATTAA
1099882 AAAAT
1 AAAAT
1099887 ATTTTTTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
8 30 0.68
9 7 0.16
10 7 0.16
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAATTAA
Found at i:1099873 original size:71 final size:71
Alignment explanation
Indices: 1099738--1099873 Score: 161
Period size: 71 Copynumber: 1.9 Consensus size: 71
1099728 AATATATAAA
* * * * *
1099738 CAAAAAAATTAGAAAATTATTTAAAATTAATAATATTAAATATTACTAAGAATAAAATACTATTA
1 CAAAAAAATTAGAAAATTA-TTAAAATTAATAATATAAAAAATTACAAAAAATAAAAAACTATTA
1099803 TAAGTTT
65 TAAGTTT
*
1099810 CAAAAAAA-TAGATAAAATTA-TAAAATTAA-AATATCAAAAAATTACAAAAAATAAAAAATTAT
1 CAAAAAAATTAG--AAAATTATTAAAATTAATAATAT-AAAAAATTACAAAAAATAAAAAACTAT
1099872 TA
63 TA
1099874 AAAAATAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
70 5 0.09
71 35 0.64
72 8 0.15
73 7 0.13
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (71 bp):
CAAAAAAATTAGAAAATTATTAAAATTAATAATATAAAAAATTACAAAAAATAAAAAACTATTAT
AAGTTT
Found at i:1099889 original size:17 final size:18
Alignment explanation
Indices: 1099834--1099886 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
1099824 AAATTATAAA
*
1099834 ATTAAAATATCAAAAAATT
1 ATTAAAAAAT-AAAAAATT
*
1099853 A-CAAAAAATAAAAAATT
1 ATTAAAAAATAAAAAATT
1099870 ATTAAAAAATAAAAAAT
1 ATTAAAAAATAAAAAAT
1099887 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.30
18 20 0.67
19 1 0.03
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
ATTAAAAAATAAAAAATT
Found at i:1108338 original size:16 final size:16
Alignment explanation
Indices: 1108317--1108353 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
1108307 GCATGTTCAC
1108317 TAGGCAAGTTGATAAT
1 TAGGCAAGTTGATAAT
1108333 TAGGCAAGTTGATAAT
1 TAGGCAAGTTGATAAT
1108349 TAGGC
1 TAGGC
1108354 CATCACCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.30
Consensus pattern (16 bp):
TAGGCAAGTTGATAAT
Found at i:1110612 original size:42 final size:42
Alignment explanation
Indices: 1110531--1110621 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 42
1110521 TATTGACAAC
* * *
1110531 AACTAAACAACTTCTTAAAATAACATAGTATACGCAACTCTA
1 AACTAAACAACTACTTAAAACAACATAGTATACGAAACTCTA
* * * *
1110573 AATTAAACAACTACTTAAAACAACTTAGTGTATGAAACTCTA
1 AACTAAACAACTACTTAAAACAACATAGTATACGAAACTCTA
1110615 AACTAAA
1 AACTAAA
1110622 AAAATATAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.26
Consensus pattern (42 bp):
AACTAAACAACTACTTAAAACAACATAGTATACGAAACTCTA
Found at i:1113740 original size:30 final size:31
Alignment explanation
Indices: 1113684--1113745 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
1113674 CTTTGACTTA
*
1113684 TGGAAGATGATAAGGTTGAGGTGTCTTGGTT
1 TGGAAGATGATAAGATTGAGGTGTCTTGGTT
*
1113715 TGGAAGATGATAAGATT-ATGTGTCTTGGTT
1 TGGAAGATGATAAGATTGAGGTGTCTTGGTT
1113745 T
1 T
1113746 AATGGTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.24, C:0.03, G:0.34, T:0.39
Consensus pattern (31 bp):
TGGAAGATGATAAGATTGAGGTGTCTTGGTT
Found at i:1118980 original size:170 final size:173
Alignment explanation
Indices: 1118698--1119040 Score: 665
Period size: 170 Copynumber: 2.0 Consensus size: 173
1118688 AAAATTTTCG
1118698 AAAAGTCATATTTTATGTTTTCCGACATCCTAAGTCTAAACCCAAAGTTCGTTTTGGCAAATTCA
1 AAAAGTCATATTTTATGTTTTCCGACATCCTAAGTCTAAACCCAAAGTTCGTTTTGGCAAATTCA
1118763 CACCAGTAAGTCGTTTTCAATGTTTTATCTTCGGATTCAAGTTGGTTTTTCGATTAAGTCCAGTT
66 CACCAGTAAGTCGTTTTCAATGTTTTATCTTCGGATTCAAGTTGGTTTTTCGATTAAGTCCAGTT
1118828 TCTGACGTAAA-T-AGTT-CTATGTATCCGAGACATTATGGGA
131 TCTGACGTAAATTCAGTTCCTATGTATCCGAGACATTATGGGA
1118868 AAAAGTCATATTTTATGTTTTCCGACATCCTAAGTCTAAACCCAAAGTTCGTTTTGGCAAATTCA
1 AAAAGTCATATTTTATGTTTTCCGACATCCTAAGTCTAAACCCAAAGTTCGTTTTGGCAAATTCA
1118933 CACCAGTAAGTCGTTTTCAATGTTTTATCTTCGGATTCAAGTTGGTTTTTCGATTAAGTCCAGTT
66 CACCAGTAAGTCGTTTTCAATGTTTTATCTTCGGATTCAAGTTGGTTTTTCGATTAAGTCCAGTT
1118998 TCTGACGTAAATTCAGTTCCTATGTATCCGAGACATTATGGGA
131 TCTGACGTAAATTCAGTTCCTATGTATCCGAGACATTATGGGA
1119041 CGTGGAATTA
Statistics
Matches: 170, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
170 141 0.83
171 1 0.01
172 4 0.02
173 24 0.14
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.38
Consensus pattern (173 bp):
AAAAGTCATATTTTATGTTTTCCGACATCCTAAGTCTAAACCCAAAGTTCGTTTTGGCAAATTCA
CACCAGTAAGTCGTTTTCAATGTTTTATCTTCGGATTCAAGTTGGTTTTTCGATTAAGTCCAGTT
TCTGACGTAAATTCAGTTCCTATGTATCCGAGACATTATGGGA
Found at i:1122388 original size:18 final size:18
Alignment explanation
Indices: 1122353--1122394 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
1122343 TAATTTATCC
*
1122353 ATTTATAATTTCTTTAAA
1 ATTTATAATTTCTATAAA
1122371 ATTTATAATTT-TAATAAA
1 ATTTATAATTTCT-ATAAA
*
1122389 TTTTAT
1 ATTTAT
1122395 GAGTATTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTATAATTTCTATAAA
Found at i:1123202 original size:20 final size:20
Alignment explanation
Indices: 1123177--1123216 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1123167 AGTTCAAGAT
*
1123177 TCGATTACGCATAGTGAATG
1 TCGATTACGCATAGGGAATG
1123197 TCGATTACGCATAGGGAATG
1 TCGATTACGCATAGGGAATG
1123217 ATGAGCACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (20 bp):
TCGATTACGCATAGGGAATG
Found at i:1127991 original size:14 final size:14
Alignment explanation
Indices: 1127973--1128019 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
1127963 TTATGATCCT
*
1127973 TTCATTATTAAGAG
1 TTCATTTTTAAGAG
*
1127987 CTCATTTTTTAAGA-
1 TTCA-TTTTTAAGAG
1128001 TTCATTTTTAAGAG
1 TTCATTTTTAAGAG
1128015 TTCAT
1 TTCAT
1128020 GAGTCGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 9 0.32
14 11 0.39
15 8 0.29
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (14 bp):
TTCATTTTTAAGAG
Found at i:1128656 original size:17 final size:17
Alignment explanation
Indices: 1128636--1128669 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1128626 AACTATACAC
*
1128636 TATATATATTTATAATA
1 TATATATATATATAATA
1128653 TATATATATATATAATA
1 TATATATATATATAATA
1128670 ACATAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATATATATATATAATA
Found at i:1133623 original size:16 final size:16
Alignment explanation
Indices: 1133602--1133634 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1133592 TACTTGTCTT
1133602 GGTAGTTCTGTCTAAG
1 GGTAGTTCTGTCTAAG
1133618 GGTAGTTCTGTCTAAG
1 GGTAGTTCTGTCTAAG
1133634 G
1 G
1133635 AAAGTGGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.12, G:0.33, T:0.36
Consensus pattern (16 bp):
GGTAGTTCTGTCTAAG
Found at i:1138890 original size:3 final size:3
Alignment explanation
Indices: 1138884--1138921 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
1138874 GTGGTTATCT
1138884 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1138922 CTCTTATTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1139288 original size:19 final size:20
Alignment explanation
Indices: 1139239--1139286 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
1139229 CAAATACAAG
* *
1139239 ATAAAT-AAAGTACAAGTTC
1 ATAAATAAAATTACAAGTCC
1139258 ATAAATAAAATTACAAGTCC
1 ATAAATAAAATTACAAGTCC
1139278 ATAATATAA
1 ATAA-ATAA
1139287 TTTAATAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (20 bp):
ATAAATAAAATTACAAGTCC
Found at i:1143170 original size:8 final size:8
Alignment explanation
Indices: 1143159--1143186 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1143149 CATAAAAATC
1143159 AAAAGAGA
1 AAAAGAGA
1143167 AAAAGAGA
1 AAAAGAGA
1143175 AAAAGAGA
1 AAAAGAGA
1143183 AAAA
1 AAAA
1143187 TCAAAATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAAGAGA
Found at i:1143170 original size:30 final size:29
Alignment explanation
Indices: 1143121--1143201 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 29
1143111 AGTCATAGAG
* *
1143121 TAAAAAGTCAAAAAAAAAAACTA-AAAAACA
1 TAAAAA-TCAAAAAGAAAAA-GAGAAAAACA
*
1143151 TAAAAATCAAAAGAGAAAAAGAGAAAAAGA
1 TAAAAATCAAAA-AGAAAAAGAGAAAAACA
*
1143181 GAAAAATCAAAATAGGAAAAA
1 TAAAAATCAAAA-A-GAAAAA
1143202 AAACCCCGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 7 0.16
30 30 0.70
31 6 0.14
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (29 bp):
TAAAAATCAAAAAGAAAAAGAGAAAAACA
Found at i:1144145 original size:19 final size:19
Alignment explanation
Indices: 1144129--1144183 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
1144119 TAATATATGG
1144129 TTTTTGAAAATATATATAA
1 TTTTTGAAAATATATATAA
1144148 TTTTTGAAAATATATATATA
1 TTTTTGAAAATATATATA-A
* *
1144168 GTTTTGAAAACATATA
1 TTTTTGAAAATATATA
1144184 ATATATATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (19 bp):
TTTTTGAAAATATATATAA
Found at i:1144254 original size:19 final size:20
Alignment explanation
Indices: 1144230--1144270 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1144220 AAACATATAT
1144230 AATATA-TATAATTTTTGAA
1 AATATATTATAATTTTTGAA
*
1144249 AATATATTATAGTTTTTGAA
1 AATATATTATAATTTTTGAA
1144269 AA
1 AA
1144271 CATAATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (20 bp):
AATATATTATAATTTTTGAA
Found at i:1147874 original size:22 final size:22
Alignment explanation
Indices: 1147847--1147890 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
1147837 AGTCAAAATC
1147847 AACAAAATACCTTGGATTCCAT
1 AACAAAATACCTTGGATTCCAT
1147869 AACAAAATACCTTGGATTCCAT
1 AACAAAATACCTTGGATTCCAT
1147891 CACTAGGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.09, T:0.27
Consensus pattern (22 bp):
AACAAAATACCTTGGATTCCAT
Found at i:1152336 original size:20 final size:20
Alignment explanation
Indices: 1152268--1152350 Score: 96
Period size: 20 Copynumber: 4.1 Consensus size: 20
1152258 ATCAGATTGT
1152268 CCAGGGGGTACAGATTCCTCC
1 CCAGGGGGTACAGATTCC-CC
* *
1152289 CCAGAGGGTACTGATTCCCC
1 CCAGGGGGTACAGATTCCCC
* * *
1152309 CCATGGGGAACAAATTCCCC
1 CCAGGGGGTACAGATTCCCC
1152329 CCAGGGGGTATC-GATTCCCC
1 CCAGGGGGTA-CAGATTCCCC
1152349 CC
1 CC
1152351 TGTCTAACGG
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
20 34 0.67
21 17 0.33
ACGTcount: A:0.20, C:0.36, G:0.25, T:0.18
Consensus pattern (20 bp):
CCAGGGGGTACAGATTCCCC
Found at i:1152338 original size:40 final size:41
Alignment explanation
Indices: 1152272--1152350 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 41
1152262 GATTGTCCAG
* *
1152272 GGGGTACAGATTCCTCCCCAGAGGGTA-CTGATTCCCCCCAT
1 GGGGAACAAATTCCTCCCCAGAGGGTATC-GATTCCCCCCAT
*
1152313 GGGGAACAAATTCC-CCCCAGGGGGTATCGATTCCCCCC
1 GGGGAACAAATTCCTCCCCAGAGGGTATCGATTCCCCCC
1152351 TGTCTAACGG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 21 0.62
41 13 0.38
ACGTcount: A:0.20, C:0.35, G:0.25, T:0.19
Consensus pattern (41 bp):
GGGGAACAAATTCCTCCCCAGAGGGTATCGATTCCCCCCAT
Done.