Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000216.1 Hibiscus syriacus cultivar Beakdansim tig00000384_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: 227886
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:5257 original size:31 final size:30
Alignment explanation
Indices: 5208--5265 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
5198 CTCGAGTATT
5208 GTTGAGTTCAACTCAACTCGAAAAGTTTAAA
1 GTTGAGTTCAACTCAACTC-AAAAGTTTAAA
* * *
5239 GTTGAGTTCAATTTAACTCAAGAGTTT
1 GTTGAGTTCAACTCAACTCAAAAGTTT
5266 GTGAGTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (30 bp):
GTTGAGTTCAACTCAACTCAAAAGTTTAAA
Found at i:7214 original size:63 final size:65
Alignment explanation
Indices: 7113--7236 Score: 189
Period size: 63 Copynumber: 1.9 Consensus size: 65
7103 CGAAGCATTT
* * *
7113 CATGCATCGATGCACTGAGGATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCAGC
1 CATGCATCGATGCACTCAGGATATTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAGC
* *
7178 CATGCATCGATGCACTCTGGCTATT-TG-AAACATCGAATGCACTTGATGCATCGATGCAC
1 CATGCATCGATGCACTCAGGATATTATGAAAACATCGAATGCACTTGATGCATCGATGCAC
7237 TCTTAGTGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
63 31 0.57
64 2 0.04
65 21 0.39
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACTCAGGATATTATGAAAACATCGAATGCACTTGATGCATCGATGCACCAGC
Found at i:14765 original size:14 final size:15
Alignment explanation
Indices: 14740--14768 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14730 TTGTTTTTTA
14740 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
14755 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
14769 AAATGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:15600 original size:65 final size:63
Alignment explanation
Indices: 15470--15628 Score: 178
Period size: 65 Copynumber: 2.5 Consensus size: 63
15460 AATTAAATTG
* * *
15470 AACATCGAATGTATTTCATGCATCGATACACATACCATGCATCGATGCACTAAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCACATA-CATGCATCGATGCACTAAGGATTTTATG-A
* ** *
15535 AACATCGAATGCATTTGATGCATTGATGCACCAGT-CATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCATTTGATGCATCGATGCA-CA-TACATGCATCGATGCACTAAGGAT-TTTATG
15598 A
63 A
* *
15599 AACATTGAATGCACTTGATGCATCGATGCA
1 AACATCGAATGCATTTGATGCATCGATGCA
15629 TTCGTAGTGC
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 28 0.35
65 47 0.58
66 5 0.06
67 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACATACATGCATCGATGCACTAAGGATTTTATGA
Found at i:15627 original size:64 final size:65
Alignment explanation
Indices: 15470--15653 Score: 173
Period size: 65 Copynumber: 2.8 Consensus size: 65
15460 AATTAAATTG
* * * *
15470 AACATCGAATGTATTTCATGCATCGATACA-CA-TACCATGCATCGATGCACTAAGGATTTTATG
1 AACATCGAATGCACTTGATGCATCGATGCACCAGT--CATGCATCGATGCACTAAGGATTTTATG
15533 AA
64 AA
* * ** *
15535 AACATCGAATGCATTTGATGCATTGATGCACCAGTCATGCATCGATGCACTCTGGCTATTT-TG-
1 AACATCGAATGCACTTGATGCATCGATGCACCAGTCATGCATCGATGCACTAAGGAT-TTTATGA
15598 A
65 A
* * *
15599 AACATTGAATGCACTTGATGCATCGATGCATTC-GT-AGTGCACCGATGCACTAAGG
1 AACATCGAATGCACTTGATGCATCGATGCA-CCAGTCA-TGCATCGATGCACTAAGG
15654 GTCCAACGGT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
63 1 0.01
64 45 0.45
65 48 0.48
66 5 0.05
67 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (65 bp):
AACATCGAATGCACTTGATGCATCGATGCACCAGTCATGCATCGATGCACTAAGGATTTTATGAA
Found at i:17848 original size:29 final size:29
Alignment explanation
Indices: 17816--17881 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
17806 AAATAATCGG
17816 ATATCCGAAATTTCGGATTAAATATCCGA
1 ATATCCGAAATTTCGGATTAAATATCCGA
*
17845 ATATCCGAAATTTCGGATTGAATATCCGA
1 ATATCCGAAATTTCGGATTAAATATCCGA
17874 ATATCCGA
1 ATATCCGA
17882 TCCGAATGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.30
Consensus pattern (29 bp):
ATATCCGAAATTTCGGATTAAATATCCGA
Found at i:17888 original size:21 final size:22
Alignment explanation
Indices: 17839--17888 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
17829 CGGATTAAAT
* *
17839 ATCCGAATATCCGAAATTTCGG
1 ATCCGAATATCCGAAATATCCG
*
17861 AT-TGAATATCCG-AATATCCG
1 ATCCGAATATCCGAAATATCCG
17881 ATCCGAAT
1 ATCCGAAT
17889 GTCAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 8 0.35
21 13 0.57
22 2 0.09
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (22 bp):
ATCCGAATATCCGAAATATCCG
Found at i:18074 original size:37 final size:38
Alignment explanation
Indices: 17967--18077 Score: 181
Period size: 38 Copynumber: 2.9 Consensus size: 38
17957 ATCGAGCTAG
17967 TGCAATTGAAAATGGATAGATGGCTTAGTGCAATCCAA
1 TGCAATTGAAAATGGATAGATGGCTTAGTGCAATCCAA
*
18005 TGGAATTGAAAATGGATAGATGGCTTAGTGCAATCCAA
1 TGCAATTGAAAATGGATAGATGGCTTAGTGCAATCCAA
*
18043 TGCAATTG-AAATGGATAGAT-GCTTTAATGCAATCC
1 TGCAATTGAAAATGGATAGATGGC-TTAGTGCAATCC
18078 TATGAAATCT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
36 2 0.03
37 23 0.33
38 44 0.64
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (38 bp):
TGCAATTGAAAATGGATAGATGGCTTAGTGCAATCCAA
Found at i:22481 original size:20 final size:20
Alignment explanation
Indices: 22456--22500 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
22446 ATTTATTAAC
*
22456 AAAAAA-GAAAAGAAAAATAT
1 AAAAAAGGAAAA-AAAAATAG
*
22476 AAAAAAGGACAAAAAAATAG
1 AAAAAAGGAAAAAAAAATAG
22496 AAAAA
1 AAAAA
22501 GTTGCCCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (20 bp):
AAAAAAGGAAAAAAAAATAG
Found at i:22708 original size:19 final size:21
Alignment explanation
Indices: 22659--22706 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
22649 AAGCAATATA
*
22659 AAAAGAGGAGATCACACACAC
1 AAAAGAGAAGATCACACACAC
*
22680 AAAAGAGAAGATCATACACAC
1 AAAAGAGAAGATCACACACAC
22701 AAAAGA
1 AAAAGA
22707 AGGGACCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.58, C:0.19, G:0.17, T:0.06
Consensus pattern (21 bp):
AAAAGAGAAGATCACACACAC
Found at i:26008 original size:22 final size:22
Alignment explanation
Indices: 25983--26028 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
25973 TGTATCGATA
*
25983 CACTACTATAGTACTGCTACAT
1 CACTACTATAGCACTGCTACAT
*
26005 CACTGCTATAGCACTGCTACAT
1 CACTACTATAGCACTGCTACAT
26027 CA
1 CA
26029 TTGATACAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.28
Consensus pattern (22 bp):
CACTACTATAGCACTGCTACAT
Found at i:26011 original size:11 final size:11
Alignment explanation
Indices: 25995--26028 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25985 CTACTATAGT
25995 ACTGCTACATC
1 ACTGCTACATC
* *
26006 ACTGCTATAGC
1 ACTGCTACATC
26017 ACTGCTACATC
1 ACTGCTACATC
26028 A
1 A
26029 TTGATACAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (11 bp):
ACTGCTACATC
Found at i:26764 original size:31 final size:31
Alignment explanation
Indices: 26720--26780 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
26710 TGAAGGACCT
26720 GTCCATAGATCCCGAAAAATC-TAGGTAATCA
1 GTCCATAGATCCCGAAAAA-CATAGGTAATCA
*
26751 GTCCATATG-TCCCGAAGAACATAGGTAATC
1 GTCCATA-GATCCCGAAAAACATAGGTAATC
26781 TATAACTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 1 0.04
31 25 0.93
32 1 0.04
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (31 bp):
GTCCATAGATCCCGAAAAACATAGGTAATCA
Found at i:26793 original size:37 final size:37
Alignment explanation
Indices: 26751--26852 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
26741 TAGGTAATCA
*
26751 GTCCATATGTCCCGAAGAACATAGGTAATCTATAACT
1 GTCCATATGTCCCGAAGAACATAGGTAATATATAACT
*
26788 GTCCATATGTCCCGAAGAACATAGGTAATATGTAACT
1 GTCCATATGTCCCGAAGAACATAGGTAATATATAACT
* *
26825 GTCCATATGTCCCAAAGAATATAGGTAA
1 GTCCATATGTCCCGAAGAACATAGGTAA
26853 CCCTCGACTC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (37 bp):
GTCCATATGTCCCGAAGAACATAGGTAATATATAACT
Found at i:31950 original size:61 final size:61
Alignment explanation
Indices: 31855--31976 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
31845 TACTCTGTTT
31855 GCCTATCAAACTTTAGTACGGACGTCAACTGGGGCAACTCCGTTTTCTTTAGTTTATGGGA
1 GCCTATCAAACTTTAGTACGGACGTCAACTGGGGCAACTCCGTTTTCTTTAGTTTATGGGA
31916 GCCTATCAAACTTTAGTACGGACGTCAACTGGGGCAACTCCGTTTTCTTTAGTTTATGGGA
1 GCCTATCAAACTTTAGTACGGACGTCAACTGGGGCAACTCCGTTTTCTTTAGTTTATGGGA
31977 TGGAAGCTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (61 bp):
GCCTATCAAACTTTAGTACGGACGTCAACTGGGGCAACTCCGTTTTCTTTAGTTTATGGGA
Found at i:33517 original size:55 final size:54
Alignment explanation
Indices: 33447--33980 Score: 482
Period size: 55 Copynumber: 9.7 Consensus size: 54
33437 CAAAATATTT
* * *
33447 TTCGAGTTCTATACTCCTTGAAACAATAGGGAGTGAACATGTTTGCAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAAC-CGTTTGCAGAAGATTG
* * * *
33502 TTCAAGTT-TAATACTCCCTGAAAGGAATAGGGAACGAACCTGTTTGCAGAAGATTA
1 TTCGAGTTCT-ATACTCCCTGAAA-CAATAGGGAGCGAACC-GTTTGCAGAAGATTG
* * * * *
33558 TTCAAGTTCTATACTCCCT-AAAGCGATAGGGTGCGAACTCGTTTGTAGAAGATTA
1 TTCGAGTTCTATACTCCCTGAAA-CAATAGGGAGCGAAC-CGTTTGCAGAAGATTG
* * * * * ** *
33613 TTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCACAAAAGATTG
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAA-CCGTTTGCAGAAGATTG
* * ** *
33668 TTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCGAACCCATTGACAGAATATTG
1 TTCGAGTTCTATACTCCCTG-AAACAATAGGGAGCGAACCGTTTG-CAGAAGATTG
* * *
33724 TTAGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTGGCAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAA-CCGTTTGCAGAAGATTG
* * * * * **
33779 TTCGAGTTCTATACTCCTTGAAGCAATACGGAGTGAACCCATTTTTAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAA-CCGTTTGCAGAAGATTG
* ** * *
33834 TTCTAGTTCTATACTCCCTGAAGTAATAGGGAGTGAATCCGTTTTCAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAA-CCGTTTGCAGAAGATTG
* * *
33889 TTCGAGTTCTATACTCCCTGAAA-AGTATAGGGAGCAAACTCATTT-TAGAAGATTG
1 TTCGAGTTCTATACTCCCTGAAACA--ATAGGGAGCGAAC-CGTTTGCAGAAGATTG
* * * *
33944 TTTGAGTTCTATACTCCATGAAAGAATAAGGAGCGAA
1 TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAA
33981 AACTGTTTAC
Statistics
Matches: 396, Mismatches: 69, Indels: 29
0.80 0.14 0.06
Matches are distributed among these distances:
54 12 0.03
55 279 0.70
56 104 0.26
57 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (54 bp):
TTCGAGTTCTATACTCCCTGAAACAATAGGGAGCGAACCGTTTGCAGAAGATTG
Found at i:33734 original size:166 final size:164
Alignment explanation
Indices: 33447--33965 Score: 571
Period size: 166 Copynumber: 3.1 Consensus size: 164
33437 CAAAATATTT
* *** *
33447 TTCGAGTTCTATACTCCTTGAAACAATAGGGAGTGAACATGTTTGCAGAAGATTGTTCAAGTTTA
1 TTCGAGTTCTATACTCCTTGAAGCAATAGGGAGTGAACCCATTTACAGAAGATTGTTCAAGTTT-
* * ** *
33512 ATACTCCCTGAAAGGAATAGGGAACGAACCTGTTTGCAGAAGATTATTCA-AGTTCTATACTCCC
65 ATACTCCCTGAAAAGAATAGGGAGCGAACC-CATTGCAGAAGATTGTT-AGAGTTCTATACTCCC
* * *
33576 TAAAGCGATAGGGTGCGAACTCGTTTGTAGAAGATTA
128 TAAAGCAATAGGGAGCGAACTCGTTTGTAGAAGATTG
* * * * * *
33613 TTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCACAAAAGATTGTTCGAGTTAT
1 TTCGAGTTCTATACTCCTTGAAGCAATAGGGAGTGAACCCATTTACAGAAGATTGTTCAAGTT-T
*
33678 ATACTCCCTGAAAAGAATAGGGAGCGAACCCATTGACAGAATATTGTTAGAGTTCTATACTCCCT
65 ATACTCCCTGAAAAGAATAGGGAGCGAACCCATTG-CAGAAGATTGTTAGAGTTCTATACTCCCT
* * * *
33743 GAAGCAATAGGGAGCGAACCCGTTGGCAGAAGATTG
129 AAAGCAATAGGGAGCGAACTCGTTTGTAGAAGATTG
* ** *
33779 TTCGAGTTCTATACTCCTTGAAGCAATACGGAGTGAACCCATTTTTAGAAGATTGTTCTAGTTCT
1 TTCGAGTTCTATACTCCTTGAAGCAATAGGGAGTGAACCCATTTACAGAAGATTGTTCAAGTT-T
* ** * *
33844 ATACTCCCTG--AAGTAATAGGGAGTGAATCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCCC
65 ATACTCCCTGAAAAG-AATAGGGAGCGAA-CCCATTGCAGAAGATTGTTAGAGTTCTATACTCCC
* * *
33907 TGAAAAG-TATAGGGAGCAAACTCATTT-TAGAAGATTG
128 T--AAAGCAATAGGGAGCGAACTCGTTTGTAGAAGATTG
* *
33944 TTTGAGTTCTATACTCCATGAA
1 TTCGAGTTCTATACTCCTTGAA
33966 AGAATAAGGA
Statistics
Matches: 297, Mismatches: 49, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
164 3 0.01
165 72 0.24
166 218 0.73
167 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (164 bp):
TTCGAGTTCTATACTCCTTGAAGCAATAGGGAGTGAACCCATTTACAGAAGATTGTTCAAGTTTA
TACTCCCTGAAAAGAATAGGGAGCGAACCCATTGCAGAAGATTGTTAGAGTTCTATACTCCCTAA
AGCAATAGGGAGCGAACTCGTTTGTAGAAGATTG
Found at i:33830 original size:221 final size:220
Alignment explanation
Indices: 33437--33980 Score: 639
Period size: 221 Copynumber: 2.5 Consensus size: 220
33427 GAATCGTTTT
* * * * * **
33437 CAAAATATTTTTCGAGTTCTATACTCCTTG-AAACAATAGGGAGTGAACATGTTTGCAGAAGATT
1 CAAAAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAAC-TCATTGCAGAAGATT
* * *
33501 GTTCA-AGTT-TAATACTCCCTGAAAGGAATAGGGAACGAACCTGTTTGCAGAAGATTATTCAAG
65 GTT-AGAGTTCT-ATACTCCCTGAAA-GAATAGGGAGCGAACCCGTTGGCAGAAGATTATTCAAG
* * * * *
33564 TTCTATACTCCCTAAAGCGATAGGGTGCGAACTCGTTTGTAGAAGATTATTCGAGTTCTATACTC
127 TTCTATACTCCCTAAAGCAATACGGAGCGAACCCATTTGTAGAAGATTATTCGAGTTCTATACTC
33629 CCTGAAGCT-AGAGGGAGTGAACCCATTCA
192 CCTGAAG-TAAGAGGGAGTGAACCCATTCA
* * *
33658 CAAAAGATTGTTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCGAACCCATTGACAGAATATT
1 CAAAAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACTCATTG-CAGAAGATT
* *
33723 GTTAGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTT
65 GTTAGAGTTCTATACTCCCTGAAAG-AATAGGGAGCGAACCCGTTGGCAGAAGATTATTCAAGTT
* * * * * *
33787 CTATACTCCTTGAAGCAATACGGAGTGAACCCATTTTTAGAAGATTGTTCTAGTTCTATACTCCC
129 CTATACTCCCTAAAGCAATACGGAGCGAACCCATTTGTAGAAGATTATTCGAGTTCTATACTCCC
* * * **
33852 TGAAGTAATAGGGAGTGAATCCGTTTT
194 TGAAGTAAGAGGGAGTGAACCCATTCA
* * * **
33879 CAGAAGATTGTTCGAGTTCTATACTCCCTGAAAAGTATAGGGAGCAAACTCATTTTAGAAGATTG
1 CAAAAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACTCATTGCAGAAGATTG
* * *
33944 TTTGAGTTCTATACTCCATGAAAGAATAAGGAGCGAA
66 TTAGAGTTCTATACTCCCTGAAAGAATAGGGAGCGAA
33981 AACTGTTTAC
Statistics
Matches: 274, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
220 40 0.15
221 192 0.70
222 41 0.15
223 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (220 bp):
CAAAAGATTGTTCGAGTTCTATACTCCCTGAAAAGAATAGGGAGCGAACTCATTGCAGAAGATTG
TTAGAGTTCTATACTCCCTGAAAGAATAGGGAGCGAACCCGTTGGCAGAAGATTATTCAAGTTCT
ATACTCCCTAAAGCAATACGGAGCGAACCCATTTGTAGAAGATTATTCGAGTTCTATACTCCCTG
AAGTAAGAGGGAGTGAACCCATTCA
Found at i:34053 original size:221 final size:220
Alignment explanation
Indices: 33603--34027 Score: 491
Period size: 221 Copynumber: 1.9 Consensus size: 220
33593 AACTCGTTTG
33603 TAGAAGATTATTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCACAAAAGATTG
1 TAGAAGATTATTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCACAAAAGATTG
* *
33668 TTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCGAACCCATTGACAGAATATTGTTAGAGTTC
66 TTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCAAACCCATTGACAGAAGATTGTTAGAGTTC
* * * * * * *
33733 TATACTCCCTGAAGCAATAGGGAGCGAACCCGTTGGCAGAAGATTGTTCGAGTTCTATACTCCTT
131 TATACTCCATGAAGCAATAAGGAGCGAAACCGTTGACAGAAGATTGTGCAAGTCCTATACTCCTT
** *
33798 GAAGCAATACGGAGTGAACCCATTTT
196 GAAAAAATACGAAGTGAA-CCATTTT
* * * * * ** *
33824 TAGAAGATTGTTCTAGTTCTATACTCCCTGAAG-TAATAGGGAGTGAATCCGTTTTCAGAAGATT
1 TAGAAGATTATTCGAGTTCTATACTCCCTGAAGCT-AGAGGGAGTGAACCCATTCACAAAAGATT
* * * ** *
33888 GTTCGAGTTCTATACTCCCTGAAAAGTATAGGGAGCAAACTCATT-TTAGAAGATTGTTTGAGTT
65 GTTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCAAACCCATTGACAGAAGATTGTTAGAGTT
* * * *
33952 CTATACTCCATGAAAG-AATAAGGAGCGAAAACTGTTTACCGAATACTT-TGCAAGTCCTATACT
130 CTATACTCCATG-AAGCAATAAGGAGCG-AAACCGTTGACAGAAGA-TTGTGCAAGTCCTATACT
34015 -CTCTGAAAAAATA
192 CCT-TGAAAAAATA
34028 GAAAGTAGAC
Statistics
Matches: 170, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
220 39 0.23
221 129 0.76
222 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (220 bp):
TAGAAGATTATTCGAGTTCTATACTCCCTGAAGCTAGAGGGAGTGAACCCATTCACAAAAGATTG
TTCGAGTTATATACTCCCTGAAAAGAATAGGGAGCAAACCCATTGACAGAAGATTGTTAGAGTTC
TATACTCCATGAAGCAATAAGGAGCGAAACCGTTGACAGAAGATTGTGCAAGTCCTATACTCCTT
GAAAAAATACGAAGTGAACCATTTT
Found at i:34233 original size:3 final size:3
Alignment explanation
Indices: 34219--34269 Score: 66
Period size: 3 Copynumber: 16.0 Consensus size: 3
34209 GTTTTAAAAA
*
34219 TAT TAT TTT TAT TAT TAAT TAT TAT TAT TAAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT T-AT TAT TAT TAT TA-T TAT
34267 TAT
1 TAT
34270 CAAAAAAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 34 0.79
4 9 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:34241 original size:16 final size:15
Alignment explanation
Indices: 34220--34269 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
34210 TTTTAAAAAT
34220 ATTATTTTTATTATTA
1 ATTA-TTTTATTATTA
34236 ATTA--TTATTATTA
1 ATTATTTTATTATTA
*
34249 ATTATTATTATTATTT
1 ATTATT-TTATTATTA
34265 ATTAT
1 ATTAT
34270 CAAAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 13 0.43
16 17 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTTTATTATTA
Found at i:34242 original size:10 final size:9
Alignment explanation
Indices: 34219--34269 Score: 66
Period size: 10 Copynumber: 5.3 Consensus size: 9
34209 GTTTTAAAAA
*
34219 TATTATTTT
1 TATTATTAT
34228 TATTATTAAT
1 TATTATT-AT
34238 TATTATTAT
1 TATTATTAT
34247 TAATTATTAT
1 T-ATTATTAT
34257 TATTATTTAT
1 TATTA-TTAT
34267 TAT
1 TAT
34270 CAAAAAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
9 14 0.37
10 24 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTATTAT
Found at i:34245 original size:13 final size:13
Alignment explanation
Indices: 34227--34269 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
34217 AATATTATTT
34227 TTATTATTAATTA
1 TTATTATTAATTA
34240 TTATTATTAATTA
1 TTATTATTAATTA
*
34253 TTATTATTATTTA
1 TTATTATTAATTA
34266 TTAT
1 TTAT
34270 CAAAAAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTATTAATTA
Found at i:34298 original size:17 final size:18
Alignment explanation
Indices: 34267--34300 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34257 TATTATTTAT
*
34267 TATCAAAAAAGAAAAAAA
1 TATCAAAAAACAAAAAAA
34285 TATC-AAAAACAAAAAA
1 TATCAAAAAACAAAAAA
34301 GGACAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (18 bp):
TATCAAAAAACAAAAAAA
Found at i:38321 original size:17 final size:18
Alignment explanation
Indices: 38299--38345 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
38289 TATGGAATTG
*
38299 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
38316 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
38334 GATTCCAATTCC
1 GATTCCAATTCC
38346 CTCATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:50147 original size:24 final size:23
Alignment explanation
Indices: 50103--50147 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
50093 ACTTCGACCG
**
50103 GAAACGAAACCGGATGAGGAATT
1 GAAACGAAACCGGAACAGGAATT
*
50126 GAAACCGAAACCGGAACCGGAA
1 GAAA-CGAAACCGGAACAGGAA
50148 CCGGTGGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 4 0.22
24 14 0.78
ACGTcount: A:0.44, C:0.20, G:0.29, T:0.07
Consensus pattern (23 bp):
GAAACGAAACCGGAACAGGAATT
Found at i:52369 original size:35 final size:35
Alignment explanation
Indices: 52300--52369 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
52290 GAAATAACTG
* * *
52300 TTTCTTTTAGTCTTGAAATTTTGCTAAGTTGAATA
1 TTTCTTTTAGTCTCGAAATTTTGCTAACTAGAATA
* *
52335 TTTCTTTTAGTCTCGCAGTTTTGCTAACTAGAATA
1 TTTCTTTTAGTCTCGAAATTTTGCTAACTAGAATA
52370 ACTCCGCCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.24, C:0.13, G:0.14, T:0.49
Consensus pattern (35 bp):
TTTCTTTTAGTCTCGAAATTTTGCTAACTAGAATA
Found at i:58717 original size:32 final size:32
Alignment explanation
Indices: 58630--58717 Score: 95
Period size: 32 Copynumber: 2.8 Consensus size: 32
58620 TTGGCGTGTT
* * *
58630 ATATGACATATCACTCAAGATGATGACATAAC
1 ATATGTCACATCACCCAAGATGATGACATAAC
* * * *
58662 ATATGTTACGTCACTCAATATGATGACATAAC
1 ATATGTCACATCACCCAAGATGATGACATAAC
* *
58694 ATGTGTCACATGACCCAAGATGAT
1 ATATGTCACATCACCCAAGATGAT
58718 AATATGACAT
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (32 bp):
ATATGTCACATCACCCAAGATGATGACATAAC
Found at i:60855 original size:3 final size:3
Alignment explanation
Indices: 60840--60927 Score: 167
Period size: 3 Copynumber: 29.3 Consensus size: 3
60830 CGGTGAATTC
*
60840 TCT TCT CCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
60888 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
60928 TGATTTCTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:63999 original size:13 final size:13
Alignment explanation
Indices: 63970--64004 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
63960 ATAACTAATA
*
63970 ATATTAAAT-ATT
1 ATATTAAATAAAT
63982 ATATTAAATAAAT
1 ATATTAAATAAAT
63995 ATATTAAATA
1 ATATTAAATA
64005 TATTTATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATATTAAATAAAT
Found at i:67505 original size:33 final size:34
Alignment explanation
Indices: 67444--67543 Score: 139
Period size: 33 Copynumber: 3.0 Consensus size: 34
67434 AAATTTAATG
*
67444 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
67478 TTAAATTT-GAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
67511 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
67544 AACATTTATC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.50
34 28 0.50
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:68152 original size:21 final size:21
Alignment explanation
Indices: 68064--68157 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
68054 TATGGTATAA
*
68064 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
68085 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
68106 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
68127 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
68148 AACCCTGCGG
1 AACCCTGCGG
68158 AGATGACATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:69975 original size:31 final size:33
Alignment explanation
Indices: 69933--70007 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
69923 ATAATTCTAA
* * *
69933 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
69965 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
69996 ATAAAAAATAAT
1 ATAAAAAATAAT
70008 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:69975 original size:34 final size:31
Alignment explanation
Indices: 69930--70018 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
69920 TTAATAATTC
*
69930 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
69964 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
69995 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
70019 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:77223 original size:35 final size:35
Alignment explanation
Indices: 77176--77242 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
77166 ATTTATTGAT
77176 TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTACGA
1 TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTACGA
*
77211 TTAGAGTTTAGAGGCTGATGTTGGGTTAGGTA
1 TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTA
77243 AGATCGGGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.22, C:0.06, G:0.37, T:0.34
Consensus pattern (35 bp):
TTAGAGTCTAGAGGCTGATGTTGGGTTAGGTACGA
Found at i:79204 original size:44 final size:44
Alignment explanation
Indices: 79139--79223 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
79129 GTTGGGAGGG
* *
79139 AGCATAGAGCCACCCCCAGCACTGTAGGCGTGCAGTAGTTATAT
1 AGCATAGAGCCACCCCAAGCACGGTAGGCGTGCAGTAGTTATAT
* * *
79183 AGCATTGAGCCACCTCAAGCACGGTAGGCGTGCAGTTGTTA
1 AGCATAGAGCCACCCCAAGCACGGTAGGCGTGCAGTAGTTA
79224 GATAAATCCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.21
Consensus pattern (44 bp):
AGCATAGAGCCACCCCAAGCACGGTAGGCGTGCAGTAGTTATAT
Found at i:80410 original size:23 final size:24
Alignment explanation
Indices: 80380--80425 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
80370 AGGATAGTAG
*
80380 AAAAATATATATT-TATTTTTTAA
1 AAAAATATATATTAAATTTTTTAA
80403 AAAAATATATATTAAATTTTTTA
1 AAAAATATATATTAAATTTTTTA
80426 TTTTATCTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AAAAATATATATTAAATTTTTTAA
Found at i:81454 original size:2 final size:2
Alignment explanation
Indices: 81449--81499 Score: 79
Period size: 2 Copynumber: 26.0 Consensus size: 2
81439 GTTTGGGATC
81449 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
81491 AT AT -T AT AT
1 AT AT AT AT AT
81500 TTATTATTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.04
2 42 0.91
3 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:83173 original size:30 final size:30
Alignment explanation
Indices: 83139--83213 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
83129 TTTTATTATA
* *
83139 TATTTTTATTATTTTAGT-TACTT-AATTTTC
1 TATTTTTATTATTTTAGTCT--TTAAACTATC
83169 TATTTTTTATTATTTTAGTCTTTAAACTATC
1 TA-TTTTTATTATTTTAGTCTTTAAACTATC
83200 TATTTTTATTATTT
1 TATTTTTATTATTT
83214 AAGTACCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 16 0.40
31 23 0.57
32 1 0.03
ACGTcount: A:0.24, C:0.07, G:0.03, T:0.67
Consensus pattern (30 bp):
TATTTTTATTATTTTAGTCTTTAAACTATC
Found at i:94862 original size:9 final size:9
Alignment explanation
Indices: 94848--94907 Score: 54
Period size: 8 Copynumber: 6.8 Consensus size: 9
94838 TATGCTTGAA
94848 GAAAAAAAT
1 GAAAAAAAT
94857 GAAAAAAAAT
1 G-AAAAAAAT
*
94867 -AAAAAGAAG
1 GAAAAA-AAT
94876 GAAAAAAAT
1 GAAAAAAAT
94885 -AAAAAAA-
1 GAAAAAAAT
*
94892 GAAAGAAAT
1 GAAAAAAAT
*
94901 TAAAAAA
1 GAAAAAA
94908 GAAGAGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
8 18 0.44
9 10 0.24
10 13 0.32
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.08
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:94880 original size:17 final size:17
Alignment explanation
Indices: 94860--94918 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
94850 AAAAAATGAA
94860 AAAAAATAAAAAGAAGG
1 AAAAAATAAAAAGAAGG
94877 AAAAAAATAAAAA-AA-G
1 -AAAAAATAAAAAGAAGG
94893 AAAGAAATTAAAAAAGAAGAG
1 AAA-AAA-T-AAAAAGAAG-G
94914 AAAAA
1 AAAAA
94919 GGAGGGTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
15 3 0.09
16 4 0.11
17 3 0.09
18 17 0.49
19 2 0.06
20 2 0.06
21 4 0.11
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (17 bp):
AAAAAATAAAAAGAAGG
Found at i:94883 original size:20 final size:20
Alignment explanation
Indices: 94857--94899 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
94847 AGAAAAAAAT
* *
94857 GAAAAAAA-ATAAAAAGAAG
1 GAAAAAAATAAAAAAAGAAA
94876 GAAAAAAATAAAAAAAGAAA
1 GAAAAAAATAAAAAAAGAAA
94896 GAAA
1 GAAA
94900 TTAAAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (20 bp):
GAAAAAAATAAAAAAAGAAA
Found at i:94905 original size:35 final size:38
Alignment explanation
Indices: 94849--94918 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 38
94839 ATGCTTGAAG
94849 AAAAAAATGAAAAAAAAT-AAAAAGAAG-GAAAAAAAT
1 AAAAAAATGAAAAAAAATAAAAAAGAAGAGAAAAAAAT
* *
94885 AAAAAAA-GAAAGAAATTAAAAAAGAAGAGAAAAA
1 AAAAAAATGAAAAAAAATAAAAAAGAAGAGAAAAA
94919 GGAGGGTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
35 8 0.27
36 16 0.53
37 6 0.20
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (38 bp):
AAAAAAATGAAAAAAAATAAAAAAGAAGAGAAAAAAAT
Found at i:95987 original size:91 final size:92
Alignment explanation
Indices: 95886--96059 Score: 244
Period size: 91 Copynumber: 1.9 Consensus size: 92
95876 AAGGAGGTGG
* *
95886 ATCAACATTTTCAATGGAGAGTTCATAATGAGAACAATTCATCC-A-ATGAAGAAGAAAAAGTTC
1 ATCAACATTTTCAATAGAGAGTTCATAATGAGAACAACTCATCCGACA-GAAGAAGAAAAAGTTC
95949 ACAATGAGAAGAACTTGTTTGACTTTGC
65 ACAATGAGAAGAACTTGTTTGACTTTGC
* * * * *
95977 ATCAATATTTTCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCA
1 ATCAACATTTTCAATAGAGAGTTCATAATGAGAACAACTCATCCGACAGAAGAAGAAAAAGTTCA
* *
96042 TAATGAGAAGAGCTTGTT
66 CAATGAGAAGAACTTGTT
96060 CGACCTATCA
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
91 40 0.56
92 31 0.43
93 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.26
Consensus pattern (92 bp):
ATCAACATTTTCAATAGAGAGTTCATAATGAGAACAACTCATCCGACAGAAGAAGAAAAAGTTCA
CAATGAGAAGAACTTGTTTGACTTTGC
Found at i:96164 original size:136 final size:136
Alignment explanation
Indices: 95983--96558 Score: 976
Period size: 136 Copynumber: 4.2 Consensus size: 136
95973 TTGCATCAAT
* * *
95983 ATTTTCAATAGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGA
1 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
* * *
96048 GAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTTGAATCAGTGATAACTCGCTTGAGGG
66 GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGATACCTCGCTTGAGGG
96113 ATTGAC
131 ATTGAC
96119 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
1 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
* *
96184 GAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGATGCCTCGCTTGAGGG
66 GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGATACCTCGCTTGAGGG
96249 ATTGAC
131 ATTGAC
96255 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
1 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
* *
96320 GAAGAGCCTGTTCGACCTATCACTCGATTCACGGCATTTCGAATCAGTGATACCTCGCTTGAGGG
66 GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGATACCTCGCTTGAGGG
*
96385 ATTGAT
131 ATTGAC
96391 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
1 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
* * * **
96456 GAAGAGCTTGTTTGACCTATCACTTGATTCACGACATTTCGAATCAGTGACACCTCGCTTGAGAA
66 GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGATACCTCGCTTGAGGG
96521 ATTGAC
131 ATTGAC
* *
96527 ATTT-CTA-GAAGAGTTCATAATGAGAAGAACTC
1 ATTTCCAATGGAGAGTTCATAATGAGAAGAACTC
96559 GTCTTAATGG
Statistics
Matches: 419, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
134 24 0.06
135 2 0.00
136 393 0.94
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (136 bp):
ATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGATAGAGGGAGAAGAAGTTCATAATGA
GAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTCGAATCAGTGATACCTCGCTTGAGGG
ATTGAC
Found at i:96870 original size:10 final size:10
Alignment explanation
Indices: 96838--96898 Score: 54
Period size: 10 Copynumber: 5.8 Consensus size: 10
96828 TGGGATCTAA
96838 TATATATATAT
1 TATAT-TATAT
*
96849 ATATATCATAT
1 -TATATTATAT
96860 TATATTATAT
1 TATATTATAT
96870 T-TATTATTATT
1 TATATTA-TA-T
96881 TATTATTATAT
1 TA-TATTATAT
96892 T-TATTAT
1 TATATTAT
96899 TAATAAGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
9 11 0.26
10 12 0.28
11 8 0.19
12 7 0.16
13 5 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
TATATTATAT
Found at i:96877 original size:12 final size:12
Alignment explanation
Indices: 96862--96900 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
96852 TATCATATTA
96862 TATTATATTTAT
1 TATTATATTTAT
96874 TA-T-TATTTAT
1 TATTATATTTAT
96884 TATTATATTTAT
1 TATTATATTTAT
96896 TATTA
1 TATTA
96901 ATAAGTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.36
11 2 0.08
12 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:96890 original size:22 final size:22
Alignment explanation
Indices: 96862--96926 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
96852 TATCATATTA
* * *
96862 TATTATATTTATTATTATTTAT
1 TATTATATTTATTATTAATAAG
96884 TATTATATTTATTATTAATAAG
1 TATTATATTTATTATTAATAAG
96906 TATTAT-TGTTATTATTAATAA
1 TATTATAT-TTATTATTAATAA
96927 TAATGCTACA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (22 bp):
TATTATATTTATTATTAATAAG
Found at i:96909 original size:25 final size:25
Alignment explanation
Indices: 96862--96929 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
96852 TATCATATTA
*
96862 TATTATATTTATTATT-AT--TTAT
1 TATTATATTTATTATTAATAAGTAT
96884 TATTATATTTATTATTAATAAGTAT
1 TATTATATTTATTATTAATAAGTAT
* *
96909 TATTGT-TATTATTAATAATAA
1 TATTATAT-TTATTATTAATAA
96930 TGCTACATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
22 16 0.41
23 2 0.05
24 1 0.03
25 20 0.51
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (25 bp):
TATTATATTTATTATTAATAAGTAT
Found at i:98593 original size:32 final size:31
Alignment explanation
Indices: 98531--98603 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
98521 TTATTATATA
* *
98531 TTTTTATTATTTTAGTTACTTAATTTTCTATT
1 TTTTTATTATTTTAGTTA-TTAACTATCTATT
98563 TTTTTATTATTTTAGTCT-TTAAACTATCTATT
1 TTTTTATTATTTTAGT-TATT-AACTATCTATT
98595 TTTATTATT
1 TTT-TTATT
98604 TAAGTACCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 2 0.06
32 28 0.78
33 6 0.17
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (31 bp):
TTTTTATTATTTTAGTTATTAACTATCTATT
Found at i:99120 original size:18 final size:18
Alignment explanation
Indices: 99097--99138 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
99087 TAAGAAATAA
*
99097 TTAAAAATGACG-TGGTTT
1 TTAAAAATGACGCT-CTTT
99115 TT-AAAATGACGCTCTTT
1 TTAAAAATGACGCTCTTT
99132 TTAAAAA
1 TTAAAAA
99139 ACGGTTACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
TTAAAAATGACGCTCTTT
Found at i:99641 original size:27 final size:27
Alignment explanation
Indices: 99611--99671 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
99601 TCAATAAATA
*
99611 CTCGACTCGAATGGATTTGATCCCGAG
1 CTCGACTCGAATGGATTTGAGCCCGAG
99638 CTCGACTCGAATGGATTTGAGCCCGAG
1 CTCGACTCGAATGGATTTGAGCCCGAG
99665 CTCGACT
1 CTCGACT
99672 TGAGCTCTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.25
Consensus pattern (27 bp):
CTCGACTCGAATGGATTTGAGCCCGAG
Found at i:100730 original size:2 final size:2
Alignment explanation
Indices: 100723--100756 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
100713 TCTAACTGTA
100723 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100757 TTCATATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:101769 original size:2 final size:2
Alignment explanation
Indices: 101762--101794 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
101752 CAAACAATAC
101762 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101795 AATACAAACG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:103600 original size:36 final size:37
Alignment explanation
Indices: 103538--103908 Score: 209
Period size: 36 Copynumber: 10.7 Consensus size: 37
103528 TAGTTTCAAC
* *
103538 AAAAACAATCTCCAGTGAGATAAAA-TTTGTTTTTAG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
* *
103574 AAAAACAATCTCAATTGATG-TGAAATTTTGTTTTAAG
1 AAAAACAATCTCAAGTGA-GATAAAATTTTGTTTTAAG
* ** * *
103611 AAAAATAATCTCAA---AG-T----TTGAGTTTCATG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
* ** ** * * *
103640 AGAAACTGTCTCAAACGAGA-CAATTTTTT---TAAG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
* *
103673 AACAACAATCTCAAGTGAGATGAAATTTTGTTTTAAG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
* * *
103710 AAAAAAAAACTCAAGTGAGATGAAATTTTGTTTTAAG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
* * * *
103747 AACAACAATATCAAATGAGAT--AATTTTTTTTTAAG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
* ** * *
103782 AAAAACATTCTCAA---AG-T----TTGAGTTTCATG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
* ** **
103811 AGAAACTGTCTCAAGTGAGACGAAA-TTTGTTTTAAG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
*
103847 AACAACAATCTCAAGTGAGATAAAA-TTTGTTTTAAG
1 AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
*
103883 AAAAACAATCTCAAGAGAGATAAAAT
1 AAAAACAATCTCAAGTGAGATAAAAT
103909 CTTAAGTGCA
Statistics
Matches: 252, Mismatches: 60, Indels: 45
0.71 0.17 0.13
Matches are distributed among these distances:
29 36 0.14
31 1 0.00
32 6 0.02
33 18 0.07
34 7 0.03
35 24 0.10
36 82 0.33
37 78 0.31
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.32
Consensus pattern (37 bp):
AAAAACAATCTCAAGTGAGATAAAATTTTGTTTTAAG
Found at i:103613 original size:37 final size:36
Alignment explanation
Indices: 103510--103624 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
103500 AAAGAAAGTG
* * * * * *
103510 TCTCGAGTGAGACAAACTTAGTTTCAACAAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
* *
103546 TCTCCAGTGAGATAAAATTTGTTTTTAGAAAAACAA
1 TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
* * *
103582 TCTCAATTGATG-TGAAATTTTGTTTTAAGAAAAATAA
1 TCTCAAGTGA-GAT-AAAATTTGTTTTAAGAAAAACAA
103619 TCTCAA
1 TCTCAA
103625 AGTTTGAGTT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
36 38 0.58
37 27 0.42
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (36 bp):
TCTCAAGTGAGATAAAATTTGTTTTAAGAAAAACAA
Found at i:103708 original size:37 final size:36
Alignment explanation
Indices: 103666--103906 Score: 221
Period size: 37 Copynumber: 6.9 Consensus size: 36
103656 GAGACAATTT
*
103666 TTTTAAGAACAACAATCTCAAGTGAGATGAAATTTTG
1 TTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTTG
* *
103703 TTTTAAGAAAAAAAAACTCAAGTGAGATGAAATTTTG
1 TTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTTG
* * * *
103740 TTTTAAGAACAACAATATCAAATGAGAT-AATTTTT
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTG
* **
103775 TTTTAAGAAAAACATTCTCAA---AG-T---TTGAG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTG
* * * ** *
103804 TTTCATGAGAAACTGTCTCAAGTGAGACGAAA-TTTG
1 TTTTAAGAAAAACAATCTCAAGTGAGA-TAAATTTTG
* *
103840 TTTTAAGAACAACAATCTCAAGTGAGATAAAATTTG
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTG
*
103876 TTTTAAGAAAAACAATCTCAAGAGAGATAAA
1 TTTTAAGAAAAACAATCTCAAGTGAGATAAA
103907 ATCTTAAGTG
Statistics
Matches: 163, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
29 18 0.11
31 1 0.01
32 4 0.02
35 27 0.17
36 56 0.34
37 57 0.35
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (36 bp):
TTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTG
Found at i:104226 original size:59 final size:58
Alignment explanation
Indices: 104093--104209 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 58
104083 AATTTTAAGG
* * *
104093 GAAAATATCTCAAGTGAGATGATTTTTTTGTTTCAAGAGAAACTGTATCGAGTGAGAC
1 GAAAATATCTCAAGGGAGATGATTTTTTTGTTTCAAGAGAAAATGTATCGAGCGAGAC
*
104151 GAAAATATCTCAAGGGAGATGAATTTTTTTGTTTCAAGAGAAAATGTCTCGAGCGAGAC
1 GAAAATATCTCAAGGGAGATG-ATTTTTTTGTTTCAAGAGAAAATGTATCGAGCGAGAC
104210 TTCAAATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 20 0.37
59 34 0.63
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (58 bp):
GAAAATATCTCAAGGGAGATGATTTTTTTGTTTCAAGAGAAAATGTATCGAGCGAGAC
Found at i:104283 original size:132 final size:131
Alignment explanation
Indices: 104046--104285 Score: 320
Period size: 132 Copynumber: 1.8 Consensus size: 131
104036 GCGAAATAAA
* * * *
104046 TTTTGTTTCAAATGAAACTGTCTCGAGTGAGACAAAAAATTTTAAGGGAAAATATCTCAAGTGAG
1 TTTTGTTTCAAATGAAAATGTCTCGAGCGAGACAAAAAATTTTAAGGGAAAATACCTCAAGGGAG
* ** * *
104111 ATGATTTTTTTGTTTCAAGAGAAACTGTATCGAGTGAGACGAAAATATCTCAAGGGAGATGAATT
66 ATAAAATTTTTGTTTCAAGAGAAACTGTATCGAATCAGACGAAAATATCTCAAGGGAGATGAATT
104176 T
131 T
***
104177 TTTTGTTTCAAGA-GAAAATGTCTCGAGCGAGACTTCAAATTTTCAAGGGAAAATACCTCAAGGG
1 TTTTGTTTCAA-ATGAAAATGTCTCGAGCGAGACAAAAAATTTT-AAGGGAAAATACCTCAAGGG
* * *
104241 AGATAAAATTTTTGTTTCAAGAGAAATTTTCTCGAATCAGACGAA
64 AGATAAAATTTTTGTTTCAAGAGAAACTGTATCGAATCAGACGAA
104286 TTTTGTTTTA
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
131 36 0.39
132 56 0.61
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (131 bp):
TTTTGTTTCAAATGAAAATGTCTCGAGCGAGACAAAAAATTTTAAGGGAAAATACCTCAAGGGAG
ATAAAATTTTTGTTTCAAGAGAAACTGTATCGAATCAGACGAAAATATCTCAAGGGAGATGAATT
T
Found at i:104342 original size:18 final size:19
Alignment explanation
Indices: 104319--104354 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
104309 AAAGAGAGAC
104319 AAAATTT-TGTTTAAAGAT
1 AAAATTTATGTTTAAAGAT
104337 AAAATTTATGTTTAAAGA
1 AAAATTTATGTTTAAAGA
104355 GAAACAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (19 bp):
AAAATTTATGTTTAAAGAT
Found at i:105622 original size:24 final size:24
Alignment explanation
Indices: 105582--105645 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
105572 TTTTTTTCAA
*
105582 TTATTTAATT-TTATTTTCTATTTA-
1 TTATTT-ATTCTT-TTTTTTATTTAG
* *
105606 TTCTTTATTCTTTTTTTTCTTTAG
1 TTATTTATTCTTTTTTTTATTTAG
*
105630 TTATTTTTTCTTTTTT
1 TTATTTATTCTTTTTT
105646 ATTCATTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
23 12 0.36
24 21 0.64
ACGTcount: A:0.14, C:0.08, G:0.02, T:0.77
Consensus pattern (24 bp):
TTATTTATTCTTTTTTTTATTTAG
Found at i:105625 original size:16 final size:16
Alignment explanation
Indices: 105606--105657 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 16
105596 TTTCTATTTA
105606 TTCTTTATTCTTTTTT
1 TTCTTTATTCTTTTTT
*
105622 TTCTTTAGTTATTTTTT
1 TTCTTTA-TTCTTTTTT
*
105639 CTTTTTTATTCATTTTTT
1 -TTCTTTATTC-TTTTTT
105657 T
1 T
105658 GCCTCTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 7 0.23
17 11 0.37
18 12 0.40
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.79
Consensus pattern (16 bp):
TTCTTTATTCTTTTTT
Found at i:108604 original size:14 final size:14
Alignment explanation
Indices: 108587--108614 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
108577 ATATCTAATT
108587 CACATGATTGTTTA
1 CACATGATTGTTTA
108601 CACATGATTGTTTA
1 CACATGATTGTTTA
108615 AAATATTTTC
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (14 bp):
CACATGATTGTTTA
Found at i:110485 original size:17 final size:17
Alignment explanation
Indices: 110463--110500 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
110453 AAGCATGTAA
110463 ATAACCACTAGCATACC
1 ATAACCACTAGCATACC
*
110480 ATAACCACTAGCATACT
1 ATAACCACTAGCATACC
110497 ATAA
1 ATAA
110501 TGGTGACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.29, G:0.05, T:0.21
Consensus pattern (17 bp):
ATAACCACTAGCATACC
Found at i:113958 original size:4 final size:4
Alignment explanation
Indices: 113949--113975 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
113939 TCCCCGCACT
113949 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
113976 TTATTACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:114182 original size:4 final size:4
Alignment explanation
Indices: 114173--114214 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
114163 TTCTTTTCAT
*
114173 TTTA TTTA TTTA TTT- TTTC TTTA CTTTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA --TTTA TTTA TTTA TTTA T
114215 CATGTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
3 3 0.09
4 27 0.79
6 4 0.12
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:114200 original size:25 final size:26
Alignment explanation
Indices: 114161--114212 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
114151 TTTTCTTTTC
*
114161 TTTTCTTTTCATTTTATTTATTTATT
1 TTTTCTTTACATTTTATTTATTTATT
114187 TTTTCTTTAC-TTTTATTTATTTATT
1 TTTTCTTTACATTTTATTTATTTATT
114212 T
1 T
114213 ATCATGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTTCTTTACATTTTATTTATTTATT
Found at i:114258 original size:25 final size:22
Alignment explanation
Indices: 114212--114280 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
114202 TTTATTTATT
* * * *
114212 TATCATGTATATATCATTTTTA
1 TATCATTTTTATATTATATTTA
114234 CTATCATTTTCCTATATTATATTTA
1 -TATCATTTT--TATATTATATTTA
* *
114259 TGTCATTTTTTTATTATATTTA
1 TATCATTTTTATATTATATTTA
114281 GTTATGCTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
22 12 0.32
23 7 0.18
24 8 0.21
25 11 0.29
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.59
Consensus pattern (22 bp):
TATCATTTTTATATTATATTTA
Found at i:115120 original size:19 final size:19
Alignment explanation
Indices: 115096--115143 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
115086 GGAAGAAATT
115096 GTGCATCGATACACTAGGA
1 GTGCATCGATACACTAGGA
*
115115 GTGCATCGATACACTAGGG
1 GTGCATCGATACACTAGGA
115134 GTGCATCGAT
1 GTGCATCGAT
115144 GCATAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (19 bp):
GTGCATCGATACACTAGGA
Found at i:115895 original size:25 final size:25
Alignment explanation
Indices: 115862--115927 Score: 123
Period size: 25 Copynumber: 2.6 Consensus size: 25
115852 CCAAATATAT
*
115862 AAATTCAAACATCCAATCATCCAAC
1 AAATTCAAATATCCAATCATCCAAC
115887 AAATTCAAATATCCAATCATCCAAC
1 AAATTCAAATATCCAATCATCCAAC
115912 AAATTCAAATATCCAA
1 AAATTCAAATATCCAA
115928 AATAAAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (25 bp):
AAATTCAAATATCCAATCATCCAAC
Found at i:121808 original size:22 final size:21
Alignment explanation
Indices: 121766--121805 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121756 AAGACTATTT
121766 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTGAAATA
**
121787 TCATTTTTGTATTTTGAAA
1 TCATTTTTCAATTTTGAAA
121806 ATAAAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTGAAATA
Found at i:128146 original size:95 final size:95
Alignment explanation
Indices: 127968--128230 Score: 314
Period size: 95 Copynumber: 2.7 Consensus size: 95
127958 AGATTATAAT
* * * *
127968 ATTATATATATACAATAAAGCTTGAGCTATCCCTCTAAAGCAATTGGTTAAATGCCCCGTCTTTA
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTA
* * * *
128033 TGGGTAAGATTTAGCTAGCCTGACAAAGGTG
65 TAGATAAGATTCAACTAGCCTGACAAAGGTG
* * *
128064 ATTATAATGTACAATAAAGCTTGAGTTGTCCCTCTACAGCAATTGGTTAAACACCCCGACTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
* **
128129 AGATAATATTCAACTAGCCTGGTAAAGGTG
66 AGATAAGATTCAACTAGCCTGACAAAGGTG
*
128159 ATTCTAATAACTATACAATAATA--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGAC
1 A-T-T-ATAA-TATACAATAA-AGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGAC
*
128222 TTAATAGAT
61 TTTATAGAT
128231 CCAGCTACCC
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
95 76 0.53
96 7 0.05
97 1 0.01
98 50 0.35
99 9 0.06
100 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGACTTTAT
AGATAAGATTCAACTAGCCTGACAAAGGTG
Found at i:129604 original size:36 final size:36
Alignment explanation
Indices: 129555--129671 Score: 180
Period size: 36 Copynumber: 3.2 Consensus size: 36
129545 TAATTTACTC
*
129555 AAAAAAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTT
1 AAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCTCTT
* *
129592 AAAACAAATTTTGTCTCTCTTGAGAAATTTTCTCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
129628 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
*
129664 GAAACAAA
1 AAAACAAA
129672 ATCTTTGAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
36 66 0.90
37 7 0.10
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTT
Found at i:129619 original size:19 final size:19
Alignment explanation
Indices: 129597--129652 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
129587 CTCTTAAAAC
129597 AAATTTTGTCTCTCTTGAG
1 AAATTTTGTCTCTCTTGAG
** *
129616 AAA-TTT-TCTCT-TAAAAC
1 AAATTTTGTCTCTCT-TGAG
129633 AAATTTTGTCTCTCTTGAG
1 AAATTTTGTCTCTCTTGAG
129652 A
1 A
129653 CAGTTTCCCT
Statistics
Matches: 27, Mismatches: 6, Indels: 8
0.66 0.15 0.20
Matches are distributed among these distances:
16 1 0.04
17 9 0.33
18 6 0.22
19 10 0.37
20 1 0.04
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.45
Consensus pattern (19 bp):
AAATTTTGTCTCTCTTGAG
Found at i:129636 original size:17 final size:17
Alignment explanation
Indices: 129584--129639 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
129574 CTTGAGACAG
129584 TTTCTCTTAAAACAAATT
1 TTTCTCTTAAAACAAA-T
** *
129602 TTGTCTCTCT-TGAGAAAT
1 TT-TCTCT-TAAAACAAAT
129620 TTTCTCTTAAAACAAAT
1 TTTCTCTTAAAACAAAT
129637 TTT
1 TTT
129640 GTCTCTCTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 7
0.69 0.14 0.17
Matches are distributed among these distances:
16 1 0.03
17 13 0.45
18 5 0.17
19 9 0.31
20 1 0.03
ACGTcount: A:0.32, C:0.16, G:0.05, T:0.46
Consensus pattern (17 bp):
TTTCTCTTAAAACAAAT
Found at i:129773 original size:102 final size:102
Alignment explanation
Indices: 129584--129984 Score: 364
Period size: 101 Copynumber: 3.9 Consensus size: 102
129574 CTTGAGACAG
* *
129584 TTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAAATTTTCTCTTAAAACAAATTTTGTCTCTCTT
1 TTTCTCTTAAAACAAATTTCGTCTCCCTTGAGAAATTTTCTCTTAAAACAAATTTTGTCTCTCTT
129649 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
66 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
* * * ** *
129686 TTTC-CTTGAAACTAATTTCGTCTCCCTTGAGACAA-TTTCTTTTGGAACTAAGTTTTGTCTCTC
1 TTTCTCTTAAAACAAATTTCGTCTCCCTTGAGA-AATTTTCTCTTAAAAC-AAATTTTGTCTCTC
* * * *
129749 TTTAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-CAG-
64 TTGAGACAGTTTCCCTTGAAACAAA------ATCT-TTGA-ATCTGT
* * * * * * * * *
129794 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAATCAAATTTTGTCTCTCTT
1 TTTCTCTTAAAACAAATTTCGTCTCCCTTGAGAAATTTTCTCTTAAAACAAATTTTGTCTCTCTT
*
129859 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTAT
66 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
* * * * ** *
129896 TTTC-CTTTAAACAAATTTCGTCTCTCTTG-GTACAGTTTTCTTTTGGAACTAAGTTTTGTCTCT
1 TTTCTCTTAAAACAAATTTCGTCTCCCTTGAG-A-AATTTTCTCTTAAAAC-AAATTTTGTCTCT
**
129959 CTTGAGACAGTTTTTCTTGAAACAAA
63 CTTGAGACAGTTTCCCTTGAAACAAA
129985 TTTTGTCTCT
Statistics
Matches: 244, Mismatches: 38, Indels: 33
0.77 0.12 0.10
Matches are distributed among these distances:
100 2 0.01
101 63 0.26
102 58 0.24
103 36 0.15
108 44 0.18
109 40 0.16
110 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (102 bp):
TTTCTCTTAAAACAAATTTCGTCTCCCTTGAGAAATTTTCTCTTAAAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
Found at i:129783 original size:36 final size:36
Alignment explanation
Indices: 129684--130052 Score: 371
Period size: 36 Copynumber: 10.3 Consensus size: 36
129674 CTTTGAATCT
* * * *
129684 GTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* ** * * *
129720 ATTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
*
129757 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
129793 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
129829 GTTTCCCTTGAATCAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
129865 GTTTCCCTTGAAACAAA------ATCT-TTGA-ATCTA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGA-C-A
* * *
129895 -TTTTCCTTTAAACAAATTTCGTCTCTCTTG-GTACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG-ACA
** * *
129930 GTTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
1 G-TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
**
129968 GTTTTTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * *
130004 ATTTTCCTTGAAACAAAGTTTTGCCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAA-TTTTGTCTCTCTTGAGACA
*
130041 GTTTCTCTTGAA
1 GTTTCCCTTGAA
130053 GCACCAATCT
Statistics
Matches: 277, Mismatches: 39, Indels: 33
0.79 0.11 0.09
Matches are distributed among these distances:
28 1 0.00
29 19 0.07
30 4 0.01
35 4 0.01
36 155 0.56
37 74 0.27
38 19 0.07
39 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:129785 original size:21 final size:21
Alignment explanation
Indices: 129760--129860 Score: 73
Period size: 21 Copynumber: 5.4 Consensus size: 21
129750 TTAGACAGTT
129760 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
129781 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
129798 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
129817 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
*
129834 -C-CTTGAATCAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
129853 TCTCTTGA
1 TCTCTTGA
129861 GACAGTTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 24
0.64 0.10 0.26
Matches are distributed among these distances:
15 13 0.22
16 2 0.03
17 6 0.10
18 8 0.14
19 6 0.10
20 2 0.03
21 22 0.37
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:129839 original size:72 final size:72
Alignment explanation
Indices: 129684--130052 Score: 371
Period size: 73 Copynumber: 5.2 Consensus size: 72
129674 CTTTGAATCT
* * * * * ** * *
129684 GTTTTCCTTGAAACTAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTC
*
129749 TTTAGACA
65 TTGAGACA
*
129757 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
129822 TGAGACA
66 TGAGACA
* *
129829 GTTTCCCTTGAATCAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA------ATCT-T
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
129887 TGA-ATCTA
66 TGAGA-C-A
* * * ** * *
129895 -TTTTCCTTTAAACAAATTTCGTCTCTCTTG-GTACAGTTTTCTTTTGGAACTAAGTTTTGTCTC
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG-ACAG-TTTCCCTTGAAAC-AAATTTTGTCTC
129958 TCTTGAGACA
63 TCTTGAGACA
** * * *
129968 GTTTTTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTTCCTTGAAACAAAGTTTTGCCTCTC
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTTGTCTCTC
130033 TTGAGACA
65 TTGAGACA
*
130041 GTTTCTCTTGAA
1 GTTTCCCTTGAA
130053 GCACCAATCT
Statistics
Matches: 246, Mismatches: 34, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
64 2 0.01
65 35 0.14
66 14 0.06
67 2 0.01
72 73 0.30
73 83 0.34
74 35 0.14
75 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.43
Consensus pattern (72 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
TGAGACA
Found at i:129978 original size:139 final size:138
Alignment explanation
Indices: 129758--130020 Score: 386
Period size: 139 Copynumber: 1.9 Consensus size: 138
129748 CTTTAGACAG
*
129758 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
* *
129823 GAGACAGTTTCCCTTGAATCAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTT
66 GAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTT
129888 GAATCTAT
131 GAATCTAT
* ** * *
129896 TTTC-CTTTAAACAAATTTCGTCTCTCTTG-GTACAGTTTTCTTTTGGAACTAAGTTTTGTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAG-ACAG-TTTCCCTTGAAAC-AAATTTTGTCTCT
** *
129959 CTTGAGACAGTTTTTCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTTCCTTGAAACAAA
63 CTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA
130021 GTTTTGCCTC
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
136 1 0.01
137 27 0.24
138 14 0.13
139 69 0.62
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (138 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTT
GAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTT
GAATCTAT
Found at i:129999 original size:21 final size:21
Alignment explanation
Indices: 129973--130036 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
129963 AGACAGTTTT
129973 TCTTGAAACAAATTTTGTCTC
1 TCTTGAAACAAATTTTGTCTC
*
129994 TCTTGAGAC-AA--TT-T-TC
1 TCTTGAAACAAATTTTGTCTC
*
130010 -CTTGAAACAAAGTTTTGCCTC
1 TCTTGAAACAAA-TTTTGTCTC
130031 TCTTGA
1 TCTTGA
130037 GACAGTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 13
0.67 0.06 0.27
Matches are distributed among these distances:
15 7 0.21
16 4 0.12
17 1 0.03
18 2 0.06
19 2 0.06
20 2 0.06
21 10 0.30
22 5 0.15
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (21 bp):
TCTTGAAACAAATTTTGTCTC
Found at i:130051 original size:37 final size:36
Alignment explanation
Indices: 129896--130052 Score: 176
Period size: 37 Copynumber: 4.3 Consensus size: 36
129886 TTGAATCTAT
* *
129896 TTTC-CTTTAAACAAATTTCGTCTCTCTTG-GTACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAG-ACAG
* * *
129931 TTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 -TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* *
129969 TTTTTCTTGAAACAAATTTTGTCTCTCTTGAGACAA
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
130005 TTT-TCCTTGAAACAAAGTTTTGCCTCTCTTGAGACAG
1 TTTCT-CTTGAAACAAA-TTTTGTCTCTCTTGAGACAG
130042 TTTCTCTTGAA
1 TTTCTCTTGAA
130053 GCACCAATCT
Statistics
Matches: 103, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
35 1 0.01
36 39 0.38
37 42 0.41
38 20 0.19
39 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:130101 original size:211 final size:204
Alignment explanation
Indices: 129564--130085 Score: 636
Period size: 210 Copynumber: 2.5 Consensus size: 204
129554 CAAAAAAAAG
* * * * * * * *
129564 TTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACAAATTTTGTCTCTCTTGAGAAATTTTCTCTTA
1 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTGCCTCTCTTGAGACAGTTTCCCTTG
* * *
129629 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGTTTTCCTTG
66 AAGCAAA-----T-TCTCTTGAAACAGTTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTG
* *
129694 AAACTAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTTAGACAGT
125 AAACAAATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGT
129759 TTCTCTTGAAACAAA
190 TTCTCTTGAAACAAA
* *
129774 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTGCCTCTCTTGAGACAGTTTCCCTTG
* * *
129839 AATCAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTT
66 AAGCAAA-----T-TCTCTTGAAACAGTTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTG
* *
129904 AAACAAATTTCGTCTCTCTTG-GTACAGTTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
125 AAACAAATTTCGTCTCCCTTGAG-ACA-ATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACA
*
129968 GTTTTTCTTGAAACAAA
188 GTTTCTCTTGAAACAAA
* *
129985 TTTTGTCTCTCTTGAGACAATTTTCCTTGAAACAAAGTTTTGCCTCTCTTGAGACAGTTTCTCTT
1 TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA-TTTTGCCTCTCTTGAGACAGTTTCCCTT
** *
130050 GAAGCACCAA-TCT-TTGAAATTGTTTCTCTTGAAACA
65 GAAGCA--AATTCTCTTGAAACAGTTTCCCTTGAAACA
130086 CAAAAAAACC
Statistics
Matches: 284, Mismatches: 23, Indels: 14
0.88 0.07 0.04
Matches are distributed among these distances:
206 19 0.07
207 3 0.01
209 1 0.00
210 143 0.50
211 85 0.30
212 31 0.11
214 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.42
Consensus pattern (204 bp):
TTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTGCCTCTCTTGAGACAGTTTCCCTTG
AAGCAAATTCTCTTGAAACAGTTTCCCTTGAAACAAAATCTTTGAATCTATTTTCCTTGAAACAA
ATTTCGTCTCCCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCT
TGAAACAAA
Found at i:130108 original size:175 final size:176
Alignment explanation
Indices: 129744--130113 Score: 434
Period size: 175 Copynumber: 2.1 Consensus size: 176
129734 TAAGTTTTGT
* * * *
129744 CTCTCTTTAGACAGTTTCTC--TTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
1 CTCTCTTGAAACAGTTTCTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
* * *
129806 CAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAATCAAATTTTGTCTCTCTTGAGACAGTTTCC
66 CAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTGCCTCTCTTGAGACAGTTTCC
* *****
129871 CTTGAAACAAAATCTTTGAATCTATTTTCCTTTAAACAAATTTCGT
131 CTTGAAACAAAATCTTTGAATCTATTTTCCTTGAAACAAATAAAAA
** **
129917 CTCTCTTGGTACAGTTT-TCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTTTCTTGAAA
1 CTCTCTTGAAACAGTTTCTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
*
129981 CAAATTTTGTCTCTCTTGAGACAATTTTCCTTGAAACAAAGTTTTGCCTCTCTTGAGACAGTTTC
66 CAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAA-TTTTGCCTCTCTTGAGACAGTTTC
* * * *
130046 TCTTGAAGCACCAATCTTTGAAAT-T-GTTTCTCTTGAAACACAA-AAAAA
130 CCTTGAAACA-AAATCTTTG-AATCTATTTTC-CTTGAAACA-AATAAAAA
130094 C-CT-TTGAAACAGTTTCTCTT
1 CTCTCTTGAAACAGTTTCTCTT
130114 GAAACACAAA
Statistics
Matches: 165, Mismatches: 23, Indels: 15
0.81 0.11 0.07
Matches are distributed among these distances:
172 2 0.01
173 14 0.08
174 6 0.04
175 79 0.48
176 41 0.25
177 18 0.11
178 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (176 bp):
CTCTCTTGAAACAGTTTCTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
CAAATTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAATTTTGCCTCTCTTGAGACAGTTTCC
CTTGAAACAAAATCTTTGAATCTATTTTCCTTGAAACAAATAAAAA
Found at i:130141 original size:35 final size:34
Alignment explanation
Indices: 130061--130222 Score: 222
Period size: 34 Copynumber: 4.8 Consensus size: 34
130051 AAGCACCAAT
**
130061 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAC
1 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAC
130095 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAAAC
1 CTTTGAAACAGTTTCTCTTGAAACAC--AAAAAAAC
*
130131 C-TTGAGACAGTTTCTCTTGAAACAC-AAAAAAC
1 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAC
**
130163 CTTTGAAATTGTTTCTCTTGAAACACAAAAAAAC
1 CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAC
*
130197 ATTTGAAA-ATGTTTCTCTTGAAACAC
1 CTTTGAAACA-GTTTCTCTTGAAACAC
130223 CAAACCTTCG
Statistics
Matches: 115, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
32 8 0.07
33 21 0.18
34 54 0.47
35 23 0.20
36 9 0.08
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (34 bp):
CTTTGAAACAGTTTCTCTTGAAACACAAAAAAAC
Found at i:130183 original size:102 final size:99
Alignment explanation
Indices: 130032--130222 Score: 303
Period size: 102 Copynumber: 1.9 Consensus size: 99
130022 TTTTGCCTCT
* * * *
130032 CTTGAGACAGTTTCTCTTGAAGCACCAATCTTTGAAATTGTTTCTCTTGAAACACAAAAAAACCT
1 CTTGAGACAGTTTCTCTTGAAACACAAACCTTTGAAATTGTTTCTCTTGAAACACAAAAAAACAT
130097 TTGAAACA-GTTTCTCTTGAAACACAAAAAAAAAC
66 TTGAAA-ATGTTTCTCTTGAAACACAAAAAAAAAC
130131 CTTGAGACAGTTTCTCTTGAAACACAAAAAACCTTTGAAATTGTTTCTCTTGAAACACAAAAAAA
1 CTTGAGACAGTTTCTCTTGAAACAC---AAACCTTTGAAATTGTTTCTCTTGAAACACAAAAAAA
130196 CATTTGAAAATGTTTCTCTTGAAACAC
63 CATTTGAAAATGTTTCTCTTGAAACAC
130223 CAAACCTTCG
Statistics
Matches: 84, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
99 24 0.29
101 1 0.01
102 59 0.70
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (99 bp):
CTTGAGACAGTTTCTCTTGAAACACAAACCTTTGAAATTGTTTCTCTTGAAACACAAAAAAACAT
TTGAAAATGTTTCTCTTGAAACACAAAAAAAAAC
Found at i:132403 original size:63 final size:63
Alignment explanation
Indices: 132297--132420 Score: 162
Period size: 63 Copynumber: 2.0 Consensus size: 63
132287 CCCTAAGGGA
* * * *
132297 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGTAGAGCCTACCTAAGAAC
* *
132360 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGTAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGTAGAGCCTACCTAAGA
132421 GTCACATTAG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
62 1 0.02
63 49 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGTAGAGCCTACCTAAGAAC
Found at i:132413 original size:31 final size:32
Alignment explanation
Indices: 132297--132420 Score: 101
Period size: 31 Copynumber: 3.9 Consensus size: 32
132287 CCCTAAGGGA
*
132297 ACATCTTAGGGCC-TGAGAGCCTACCCAAG-AT
1 ACATCTCAGGGCCGT-AGAGCCTACCCAAGAAT
* * * * * * *
132328 AGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTCAGGGCCGTAGAGCCTACCCAAGAAT
* * * *
132360 ACATCTTAGGGCCGCAGGGCCTACCCGAGAAT
1 ACATCTCAGGGCCGTAGAGCCTACCCAAGAAT
*
132392 A-ATCTCAGGGCCGTAGAGCCTACCTAAGA
1 ACATCTCAGGGCCGTAGAGCCTACCCAAGA
132421 GTCACATTAG
Statistics
Matches: 69, Mismatches: 22, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
31 43 0.62
32 26 0.38
ACGTcount: A:0.27, C:0.28, G:0.27, T:0.18
Consensus pattern (32 bp):
ACATCTCAGGGCCGTAGAGCCTACCCAAGAAT
Found at i:133302 original size:7 final size:7
Alignment explanation
Indices: 133290--133327 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
133280 GTCAAAGAAA
133290 GTCAACG
1 GTCAACG
133297 GTCAACG
1 GTCAACG
133304 GTCAACG
1 GTCAACG
133311 GTCAACG
1 GTCAACG
133318 GTCAACG
1 GTCAACG
133325 GTC
1 GTC
133328 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:133345 original size:22 final size:22
Alignment explanation
Indices: 133317--133381 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
133307 AACGGTCAAC
133317 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
133339 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
133361 GGTCAACGATCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
133382 AGACCGGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:133381 original size:5 final size:5
Alignment explanation
Indices: 133324--133364 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
133314 AACGGTCAAC
*
133324 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC
133365 AACGATCGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.05, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:133396 original size:9 final size:9
Alignment explanation
Indices: 133378--133466 Score: 79
Period size: 9 Copynumber: 9.3 Consensus size: 9
133368 GATCGGGTCG
*
133378 GGTCAGACC
1 GGTCAAACC
133387 GGTCAAACC
1 GGTCAAACC
* *
133396 GATTCAGACC
1 G-GTCAAACC
133406 GGTCAAACC
1 GGTCAAACC
*
133415 GGTTCGAACC
1 GG-TCAAACC
*
133425 GGTCAAACA
1 GGTCAAACC
133434 GGTCAGAACC
1 GGTCA-AACC
*
133444 GGTTGAAAACC
1 GG-T-CAAACC
133455 GGTCAAACC
1 GGTCAAACC
133464 GGT
1 GGT
133467 TTCCAGCAGC
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
9 35 0.55
10 21 0.33
11 7 0.11
12 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:133442 original size:19 final size:18
Alignment explanation
Indices: 133378--133466 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 18
133368 GATCGGGTCG
133378 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
*
133396 GATTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
*
133415 GGTTC-GAACCGGTCAAACA
1 GG-TCAG-ACCGGTCAAACC
*
133434 GGTCAGAACCGGTTGAAAACC
1 GGTCAG-ACCGG-T-CAAACC
*
133455 GGTCAAACCGGT
1 GGTCAGACCGGT
133467 TTCCAGCAGC
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
18 4 0.07
19 40 0.68
20 6 0.10
21 9 0.15
ACGTcount: A:0.30, C:0.28, G:0.27, T:0.15
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:133465 original size:20 final size:21
Alignment explanation
Indices: 133429--133467 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
133419 CGAACCGGTC
133429 AAACAGGTCAGAACCGGTTGA
1 AAACAGGTCAGAACCGGTTGA
*
133450 AAACCGGTCA-AACCGGTT
1 AAACAGGTCAGAACCGGTT
133468 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.23, G:0.26, T:0.15
Consensus pattern (21 bp):
AAACAGGTCAGAACCGGTTGA
Found at i:139730 original size:32 final size:31
Alignment explanation
Indices: 139694--139770 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
139684 CGGGGCCGTG
*
139694 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAACA-ATCTCAGGGCCGCA
** *
139726 GGGCCTACCCGAGAATAATCTCAGGGCCGCA
1 GGGCCTACCTAAGAACAATCTCAGGGCCGCA
*
139757 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
139771 GTCACATTAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 24 0.63
32 14 0.37
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAACAATCTCAGGGCCGCA
Found at i:139753 original size:63 final size:63
Alignment explanation
Indices: 139647--139770 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
139637 CCCTAAGGGA
* * ** *
139647 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGTGGGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
139710 ACATCTTAGGGCC-GCAGGGCCTACCCGAGAATA-ATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAG-ATAGATCTCAGGGCCGCAGAGCCTACCTAAGA
139771 GTCACATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 48 0.92
64 3 0.06
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:140652 original size:7 final size:7
Alignment explanation
Indices: 140640--140691 Score: 95
Period size: 7 Copynumber: 7.4 Consensus size: 7
140630 GTCAAAGAAA
140640 GTCAACG
1 GTCAACG
140647 GTCAACG
1 GTCAACG
140654 GTCAACG
1 GTCAACG
140661 GTCAACG
1 GTCAACG
140668 GTCAACG
1 GTCAACG
*
140675 ATCAACG
1 GTCAACG
140682 GTCAACG
1 GTCAACG
140689 GTC
1 GTC
140692 GGGTCGGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (7 bp):
GTCAACG
Found at i:140709 original size:22 final size:22
Alignment explanation
Indices: 140681--140745 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
140671 AACGATCAAC
140681 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
140703 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
*
140725 GGTCAACGATCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
140746 AGACCGGTCA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:140745 original size:5 final size:5
Alignment explanation
Indices: 140688--140728 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
140678 AACGGTCAAC
*
140688 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC
140729 AACGATCGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 28 0.88
7 4 0.12
ACGTcount: A:0.05, C:0.22, G:0.54, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:140760 original size:9 final size:9
Alignment explanation
Indices: 140742--140840 Score: 63
Period size: 9 Copynumber: 10.3 Consensus size: 9
140732 GATCGGGTCG
*
140742 GGTCAGACC
1 GGTCAAACC
140751 GGTCAAACC
1 GGTCAAACC
* *
140760 GATTCAGACC
1 G-GTCAAACC
140770 GGTCAAACC
1 GGTCAAACC
* *
140779 GATTCGAACC
1 G-GTCAAACC
* *
140789 GGTTGAAACT
1 GG-TCAAACC
*
140799 AGTCAAACC
1 GGTCAAACC
140808 GGTCAGAACC
1 GGTCA-AACC
*
140818 GGTTGAAAACC
1 GG-T-CAAACC
140829 GGTCAAACC
1 GGTCAAACC
140838 GGT
1 GGT
140841 TTCCAGCAGC
Statistics
Matches: 67, Mismatches: 17, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
9 33 0.49
10 26 0.39
11 7 0.10
12 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.25, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:140791 original size:19 final size:19
Alignment explanation
Indices: 140744--140783 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
140734 TCGGGTCGGG
140744 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGAT
140763 TCAGACCGGTCAAACCGAT
1 TCAGACCGGTCAAACCGAT
140782 TC
1 TC
140784 GAACCGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGAT
Found at i:140839 original size:20 final size:21
Alignment explanation
Indices: 140803--140841 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
140793 GAAACTAGTC
140803 AAACCGGTCAGAACCGGTTGA
1 AAACCGGTCAGAACCGGTTGA
140824 AAACCGGTCA-AACCGGTT
1 AAACCGGTCAGAACCGGTT
140842 TCCAGCAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.33, C:0.26, G:0.26, T:0.15
Consensus pattern (21 bp):
AAACCGGTCAGAACCGGTTGA
Found at i:141743 original size:21 final size:21
Alignment explanation
Indices: 141719--141779 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
141709 TTTATTTCCC
*
141719 TTATGTATTTATATATTTTAT
1 TTATTTATTTATATATTTTAT
* *
141740 TTATTTATTTATCT-TTTCTTT
1 TTATTTATTTATATATTT-TAT
*
141761 TTATTTATTTATTTATTTT
1 TTATTTATTTATATATTTT
141780 TCCTTTACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.09
21 28 0.82
22 3 0.09
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (21 bp):
TTATTTATTTATATATTTTAT
Found at i:141744 original size:4 final size:4
Alignment explanation
Indices: 141719--141778 Score: 59
Period size: 4 Copynumber: 14.5 Consensus size: 4
141709 TTTATTTCCC
* * *
141719 TTAT GTAT TTAT ATATT TTAT TTAT TTAT TTAT CTT-T TCTTT TTAT TTAT
1 TTAT TTAT TTAT TTA-T TTAT TTAT TTAT TTAT -TTAT T-TAT TTAT TTAT
141769 TTAT TTAT TT
1 TTAT TTAT TT
141779 TTCCTTTACT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
3 1 0.02
4 39 0.83
5 7 0.15
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:141747 original size:25 final size:24
Alignment explanation
Indices: 141719--141778 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
141709 TTTATTTCCC
*
141719 TTATGTATTTATATATTTTATTTAT
1 TTATTTATTTATAT-TTTTATTTAT
* *
141744 TTATTTATCTTTTCTTTTTATTTAT
1 TTATTTAT-TTATATTTTTATTTAT
141769 TTATTTATTT
1 TTATTTATTT
141779 TTCCTTTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 25 0.81
26 4 0.13
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATTTATTTATATTTTTATTTAT
Found at i:141768 original size:29 final size:29
Alignment explanation
Indices: 141735--141801 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
141725 ATTTATATAT
*
141735 TTTATTTATTTATTTAT-CTTTTCTTTTTA
1 TTTATTTATTTATTTATCCTTTAC-TTTTA
*
141764 TTTATTTATTTATTTTTCCTTTACTTTTA
1 TTTATTTATTTATTTATCCTTTACTTTTA
*
141793 TTAATTTAT
1 TTTATTTAT
141802 CTATCATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 29 0.85
30 5 0.15
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.73
Consensus pattern (29 bp):
TTTATTTATTTATTTATCCTTTACTTTTA
Found at i:141785 original size:25 final size:25
Alignment explanation
Indices: 141734--141803 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 25
141724 TATTTATATA
141734 TTTTATTTATTTATTTATCTTTTCT
1 TTTTATTTATTTATTTATCTTTTCT
141759 TTTTATTTATTTATTTAT-TTTTC-
1 TTTTATTTATTTATTTATCTTTTCT
* *
141782 CTTTACTTTTATTAATTTATCT
1 TTTTA--TTTATTTATTTATCT
141804 ATCATATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
23 4 0.10
24 5 0.12
25 30 0.75
26 1 0.03
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTATTTATTTATCTTTTCT
Found at i:145173 original size:23 final size:23
Alignment explanation
Indices: 145138--145197 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
145128 ATTAAGCACA
* *
145138 ATAACATATTAGGTAACGCTTAT
1 ATAACATAATAGGTAACGATTAT
* *
145161 ATAACGTAATAGGTAGCGATTAT
1 ATAACATAATAGGTAACGATTAT
* *
145184 ATAATAAAATAGGT
1 ATAACATAATAGGT
145198 TAATTACTTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.43, C:0.08, G:0.17, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAACGATTAT
Found at i:145322 original size:23 final size:22
Alignment explanation
Indices: 145296--145355 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
145286 ATCAAGCACA
145296 ATAACAAATTAGGTAGCGCTTAT
1 ATAACAAA-TAGGTAGCGCTTAT
*
145319 ATAACGTAATAGGTAGCGCTTAT
1 ATAAC-AAATAGGTAGCGCTTAT
*
145342 ATAATAAACTAGGT
1 ATAACAAA-TAGGT
145356 TAATTACTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 2 0.06
23 28 0.88
24 2 0.06
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (22 bp):
ATAACAAATAGGTAGCGCTTAT
Found at i:145368 original size:158 final size:158
Alignment explanation
Indices: 145096--145490 Score: 614
Period size: 158 Copynumber: 2.5 Consensus size: 158
145086 AAATATATCC
* * *
145096 GATAACATAATCGGTTAATTACCGTTAATATTATTAAGCACAATAACATATTAGGTAACGCTTAT
1 GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
145161 ATAACGTAATAGGTAGCGATTATATAATAAAATAGGTTAATTACTTAATTT-TTCATTACAACAT
66 ATAACGTAATAGGTAGCGATTATATAATAAAATAGGTTAATTACTTAATTTGTT-ATTACAACAT
*
145225 ATTAGGTAAACGCCTAAAATGTTACCAAG
130 ATTAGATAAACGCCTAAAATGTTACCAAG
*
145254 GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTAT
1 GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
* *
145319 ATAACGTAATAGGTAGCGCTTATATAATAAACTAGGTTAATTACTTAATTTGTTATTACAACATA
66 ATAACGTAATAGGTAGCGATTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
* *
145384 TTAGATAAACGCCTAATATGTTACCAAT
131 TTAGATAAACGCCTAAAATGTTACCAAG
* * * * * *
145412 GATAACATAACTGGTTAATTACTAG-AAACATTATCAAGCATAATAACATATTAGGTAGTGCTTA
1 GATAACATAACCGGTTAATTAC-CGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTA
*
145476 TGTAACGTAATAGGT
65 TATAACGTAATAGGT
145491 TGCACATTAT
Statistics
Matches: 218, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
158 215 0.99
159 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (158 bp):
GATAACATAACCGGTTAATTACCGTTAATATTATCAAGCACAATAACATATTAGGTAGCGCTTAT
ATAACGTAATAGGTAGCGATTATATAATAAAATAGGTTAATTACTTAATTTGTTATTACAACATA
TTAGATAAACGCCTAAAATGTTACCAAG
Found at i:145794 original size:2 final size:2
Alignment explanation
Indices: 145787--145838 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
145777 TAAGTATGGA
145787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
145829 AT AT AT AT AT
1 AT AT AT AT AT
145839 GTGTGTGGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:146281 original size:251 final size:250
Alignment explanation
Indices: 145819--146394 Score: 1073
Period size: 251 Copynumber: 2.3 Consensus size: 250
145809 ATATATATAT
*
145819 ATATATATATATATATATATGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTT
1 ATATATATATATATA-ATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTT
*
145884 TACTTAATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGGTTAATTACTTGAT
65 TACTTAATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGATTAATTACTTGAT
*
145949 TTGTTATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCTATTGACTTTA
130 TTGTTATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTA
146014 ACATTGGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGAA
195 ACATTGGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATG-A
*
146071 ATATATATATATATAATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGAACATTGTTT
1 ATATATATATATATAATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTT
146136 ACTTAATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGATTAATTACTTGATT
66 ACTTAATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGATTAATTACTTGATT
146201 TGTTATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAA
131 TGTTATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAA
*
146266 CATTGGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGG
196 CATTGGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGA
146321 A-ATATATATATATAATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTT
1 ATATATATATATATAATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTT
146385 ACTTATATTT
66 ACTTA-ATTT
146395 TCATGATACC
Statistics
Matches: 317, Mismatches: 6, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
249 67 0.21
250 5 0.02
251 230 0.73
252 15 0.05
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (250 bp):
ATATATATATATATAATGTGTGTGTGGTTAAAGATGATGGAGCCTTAGAACCTTGTACATTGTTT
ACTTAATTTAAACTGATGGAGCCATTAGGAATCCCACGATAACATAACCGATTAATTACTTGATT
TGTTATCAAGCTTTATCAACATGGTAATTGTTTATGCATATTATAATGATATCGATTGACTTTAA
CATTGGAAATTAATATATTACTTGGTAGTAATAGATTTCGAAATTATAAGTATGA
Found at i:148645 original size:200 final size:200
Alignment explanation
Indices: 148292--148662 Score: 557
Period size: 200 Copynumber: 1.9 Consensus size: 200
148282 CGTAATTTAA
* * * * * *
148292 AAAAAGTATCGACATAAATTTAAAAAGTGTTGATACATTGTGTTGACCTATTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACATATTCTCTAATAAAACC
* *
148357 AGTATATTTTTACTAGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
66 AGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
*
148422 TTGGGATCGATACTTACAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGTCATTCATTC
131 TTGGGATCAATACTTACAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGTCATTCATTC
148487 TGGAT
196 TGGAT
* * *
148492 AAAATGTATCGACACAAATTTAGAAAA-TGTCGATACATTATTTTGACATATTCTCTCATAAAAC
1 AAAAAGTATCGACACAAATTTA-AAAAGTGTCGATACATTATGTTGACATATTCTCTAATAAAAC
* * *
148556 C-GATATATTTATACCGGTTATATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
65 CAG-TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGT
**
148620 TTTTGGGATCAATACTTTTAATAAATGTATCGACACTTTATGT
129 TTTTGGGATCAATACTTACAATAAATGTATCGACACTTTATGT
148663 TGACATATTT
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
199 1 0.01
200 147 0.97
201 4 0.03
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTTGACATATTCTCTAATAAAACC
AGTATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATAGGTTTCGATGTTT
TTGGGATCAATACTTACAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGTCATTCATTC
TGGAT
Found at i:149237 original size:20 final size:19
Alignment explanation
Indices: 149182--149239 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
149172 CTACAATATC
149182 ATTTTCTACCTATAATA-TT
1 ATTTTCTA-CTATAATATTT
* * *
149201 ATATACAACTATCAATATTT
1 ATTTTCTACTAT-AATATTT
149221 ATTTTCTACTTATAATATT
1 ATTTTCTAC-TATAATATT
149240 ATATAATCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
18 4 0.13
19 9 0.30
20 14 0.47
21 3 0.10
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTCTACTATAATATTT
Found at i:150656 original size:182 final size:183
Alignment explanation
Indices: 149809--150647 Score: 1288
Period size: 183 Copynumber: 4.6 Consensus size: 183
149799 ATTTATTAAA
* * * * * **
149809 GTATTGACACATTTAACATATCCGGTAGTGCTTTACCGG-TTTGTCATAACGAAATTGGTTTTGT
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATAATGAAACCGGTTTTGT
* *
149873 CATATTTTTACCTTTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGA
66 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
* ** *
149938 CGCTATTGCTTATTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
131 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
* * * *
149991 GTATCGACACATTCAACATATCCGGTAGAGATTTACCAGTTTTATCATAATGAAACCGGTTTTAT
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATAATGAAACCGGTTTTGT
*
150056 CAAATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
66 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
* * *
150121 CACTATTACTGCTTCTCTTTTAAATTCTAAAAGTATCGATACTTATTTCAATG
131 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
*
150174 GTATCGACACATTCAACATATCCGGTAGCGATTTATCGGTTTTGTCATAATGAAACCGGTTTTGT
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATAATGAAACCGGTTTTGT
150239 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
66 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
150304 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
131 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
*
150357 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATAATAAAACCGGTTTTGT
1 GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATAATGAAACCGGTTTTGT
* ** * **
150422 CATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTAT-TTGTATCGACACATTATTTG
66 CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
* *
150486 CGCTATTATTGCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATTTCAAT-
131 CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
* * * * * * *
150538 CTAATCGAAACTTTCAACATATCCAGTAGCGCTTTACTGGTTTTGTCATAATGAAACCGGTTTTA
1 GT-ATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATAATGAAACCGGTTTTG
* *
150603 TCATATTTTTACCTGTTATATTATTGTGGATCGATACATTTTTAT
65 TCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTAT
150648 TTGTATCGAT
Statistics
Matches: 607, Mismatches: 48, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
181 1 0.00
182 198 0.33
183 408 0.67
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (183 bp):
GTATCGACACATTCAACATATCCGGTAGCGATTTACCGGTTTTGTCATAATGAAACCGGTTTTGT
CATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGG
CGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATG
Found at i:153367 original size:32 final size:32
Alignment explanation
Indices: 153331--153392 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
153321 ACGATACAAC
* *
153331 ACATGTCA-GTGCACCACTTTAAGTGACATGAT
1 ACATGTCACGT-CAACACTTTAAGAGACATGAT
*
153363 ACATGTCACGTCAACACTTTAGGAGACATG
1 ACATGTCACGTCAACACTTTAAGAGACATG
153393 TTATGTCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (32 bp):
ACATGTCACGTCAACACTTTAAGAGACATGAT
Found at i:156956 original size:10 final size:10
Alignment explanation
Indices: 156941--156966 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
156931 TTCCTAGACG
156941 AAATCGACAT
1 AAATCGACAT
156951 AAATCGACAT
1 AAATCGACAT
156961 AAATCG
1 AAATCG
156967 CATCAGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (10 bp):
AAATCGACAT
Found at i:161207 original size:12 final size:13
Alignment explanation
Indices: 161188--161220 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
161178 AGAAACTTTC
161188 GAAAAAAA-AAGAA
1 GAAAAAAAGAA-AA
161201 GAAAAAAAGAAAA
1 GAAAAAAAGAAAA
161214 GAAAAAA
1 GAAAAAA
161221 CAGTTCGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
GAAAAAAAGAAAA
Found at i:167345 original size:44 final size:44
Alignment explanation
Indices: 167282--167398 Score: 182
Period size: 44 Copynumber: 2.7 Consensus size: 44
167272 AGAGAAAAAT
*
167282 ATTTTTTATTTAGAT-CAAAACTACGTCGTTTTGGTATAAATTTG
1 ATTTTTTA-TAAGATCCAAAACTACGTCGTTTTGGTATAAATTTG
* *
167326 ATTTTTTATAAGATCCAAAACTACGTTGTTTTGGTATAAATTTT
1 ATTTTTTATAAGATCCAAAACTACGTCGTTTTGGTATAAATTTG
*
167370 ATTTTTTATAAGATCCAAAACTATGTCGT
1 ATTTTTTATAAGATCCAAAACTACGTCGT
167399 CTTGATGTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
43 5 0.07
44 62 0.93
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (44 bp):
ATTTTTTATAAGATCCAAAACTACGTCGTTTTGGTATAAATTTG
Found at i:168929 original size:21 final size:21
Alignment explanation
Indices: 168899--168946 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
168889 TAATTTTCAA
*
168899 ACATTATTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
168920 ACATTGTTGCACCTAATTTTG
1 ACATTGTTGCACCTAATTTTG
168941 ACATTG
1 ACATTG
168947 CAATATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (21 bp):
ACATTGTTGCACCTAATTTTG
Done.