Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 67 of 235
Found at i:22992996 original size:79 final size:79
Alignment explanation
Indices: 22992752--22993007 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
22992742 TTGAATGATG
* * * *
22992752 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
22992813 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
22992831 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
22992895 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
22992909 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
22992973 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
22992989 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22993008 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:23000876 original size:79 final size:81
Alignment explanation
Indices: 23000740--23000924 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
23000730 TTGAATGATG
*
23000740 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
23000804 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
23000819 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23000881 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
23000899 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23000925 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:23000938 original size:40 final size:40
Alignment explanation
Indices: 23000741--23000924 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
23000731 TGAATGATGT
* * * *
23000741 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
23000781 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
23000821 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23000859 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23000900 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23000925 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23000946 original size:79 final size:79
Alignment explanation
Indices: 23000793--23000957 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
23000783 GGACTAAGAT
* **
23000793 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
23000858 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
23000872 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
23000935 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23000951 CCGAAGG
1 CCGAAGG
23000958 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23018471 original size:16 final size:16
Alignment explanation
Indices: 23018446--23018478 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23018436 TATTCTTATG
*
23018446 TTTTATGACATGATGA
1 TTTTAAGACATGATGA
23018462 TTTTAAGACATGATGA
1 TTTTAAGACATGATGA
23018478 T
1 T
23018479 CATTTTTCCC
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:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (16 bp):
TTTTAAGACATGATGA
Found at i:23030142 original size:25 final size:25
Alignment explanation
Indices: 23030114--23030194 Score: 69
Period size: 25 Copynumber: 3.4 Consensus size: 25
23030104 CTAATGGCCG
23030114 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
23030139 ATGTGATG-AGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
23030161 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
23030186 ATGTGATGA
1 ATGTGATGA
23030195 GGCCTAATGG
Statistics
Matches: 37, Mismatches: 16, Indels: 6
0.63 0.27 0.10
Matches are distributed among these distances:
22 8 0.22
23 6 0.16
24 6 0.16
25 17 0.46
ACGTcount: A:0.32, C:0.05, G:0.31, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:23030347 original size:49 final size:47
Alignment explanation
Indices: 23030098--23030675 Score: 969
Period size: 47 Copynumber: 12.1 Consensus size: 47
23030088 TTAAATGAGT
23030098 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
23030145 TGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
23030192 TGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
23030239 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
23030286 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
23030335 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
23030384 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
23030431 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
23030480 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
23030529 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
23030578 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
23030625 -CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
23030672 TAAG
1 TAAG
23030676 TCCCGAAGGG
Statistics
Matches: 515, Mismatches: 10, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
46 2 0.00
47 270 0.52
48 2 0.00
49 241 0.47
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:23030427 original size:145 final size:143
Alignment explanation
Indices: 23030098--23030675 Score: 986
Period size: 145 Copynumber: 4.0 Consensus size: 143
23030088 TTAAATGAGT
*
23030098 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
23030163 GTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
23030228 --TATATATGTGA
131 TATATATATGTGA
23030239 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
23030304 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
23030369 TGTATATATATGTGA
129 TGTATATATATGTGA
23030384 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
23030449 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
23030514 TGTATATATATGTGA
129 TGTATATATATGTGA
23030529 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* * * * * *
23030594 ATGTGATGAATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAA
64 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAA
23030658 GTGTATA-A-ATGTGA
128 GTGTATATATATGTGA
23030672 TAAG
1 TAAG
23030676 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 8, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
141 82 0.19
143 56 0.13
144 3 0.01
145 234 0.55
147 47 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
TATATATATGTGA
Found at i:23033235 original size:11 final size:11
Alignment explanation
Indices: 23033219--23033249 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
23033209 GCTCTCTTGT
23033219 ACACATAGTGA
1 ACACATAGTGA
23033230 ACACATAGTGA
1 ACACATAGTGA
*
23033241 ACACTTAGT
1 ACACATAGT
23033250 ACTACCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.23
Consensus pattern (11 bp):
ACACATAGTGA
Found at i:23033365 original size:72 final size:72
Alignment explanation
Indices: 23033281--23033445 Score: 330
Period size: 72 Copynumber: 2.3 Consensus size: 72
23033271 GTTTATCTCG
23033281 TAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGCACCCCACATGCGACCTAGCTACATTTATCC
1 TAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGCACCCCACATGCGACCTAGCTACATTTATCC
23033346 TCTCCCA
66 TCTCCCA
23033353 TAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGCACCCCACATGCGACCTAGCTACATTTATCC
1 TAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGCACCCCACATGCGACCTAGCTACATTTATCC
23033418 TCTCCCA
66 TCTCCCA
23033425 TAGCTCTCTTGTCTACATGGT
1 TAGCTCTCTTGTCTACATGGT
23033446 ATACATCTTG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.33
Consensus pattern (72 bp):
TAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGCACCCCACATGCGACCTAGCTACATTTATCC
TCTCCCA
Found at i:23045451 original size:14 final size:14
Alignment explanation
Indices: 23045407--23045455 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
23045397 CTATGGAGGA
23045407 AAAGAAGA-AAAAG
1 AAAGAAGAGAAAAG
* *
23045420 AAA-AAGTTGAAGAG
1 AAAGAAG-AGAAAAG
23045434 -AAGAAGAGAAAAG
1 AAAGAAGAGAAAAG
23045447 AAAGAAGAG
1 AAAGAAGAG
23045456 GAGAATGGTC
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 3 0.11
13 10 0.36
14 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (14 bp):
AAAGAAGAGAAAAG
Found at i:23052204 original size:21 final size:21
Alignment explanation
Indices: 23052180--23052222 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
23052170 CTCGTGATTT
23052180 TATCCCCTAAAAATTTCCTGA
1 TATCCCCTAAAAATTTCCTGA
23052201 TATCCCCTAAAAATTTCCTGA
1 TATCCCCTAAAAATTTCCTGA
23052222 T
1 T
23052223 TTTATCACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.35
Consensus pattern (21 bp):
TATCCCCTAAAAATTTCCTGA
Found at i:23054280 original size:23 final size:23
Alignment explanation
Indices: 23054251--23054297 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
23054241 CAGAGAAAAG
23054251 GGGGATTCATCATCAAGACTAAA
1 GGGGATTCATCATCAAGACTAAA
23054274 GGGGATTCATCATCAAGACTAAA
1 GGGGATTCATCATCAAGACTAAA
23054297 G
1 G
23054298 ATCTCTCCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (23 bp):
GGGGATTCATCATCAAGACTAAA
Found at i:23074946 original size:15 final size:15
Alignment explanation
Indices: 23074889--23074958 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
23074879 TGATATTTTA
* * *
23074889 TCTTAGATTTCTGTA
1 TCTTGGATTTCTTTG
23074904 TCTTGGATTTCTTT-
1 TCTTGGATTTCTTTG
*
23074918 TCTAGGATTTCTTTG
1 TCTTGGATTTCTTTG
*
23074933 TCTTGGACTTCTTTG
1 TCTTGGATTTCTTTG
*
23074948 TCTTGGTTTTC
1 TCTTGGATTTC
23074959 ATGTCATTTC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
14 13 0.28
15 34 0.72
ACGTcount: A:0.10, C:0.16, G:0.17, T:0.57
Consensus pattern (15 bp):
TCTTGGATTTCTTTG
Found at i:23074963 original size:29 final size:29
Alignment explanation
Indices: 23074894--23074963 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
23074884 TTTTATCTTA
* * *
23074894 GATTTCTGTATCTTGGATTTCTTTTCTAG
1 GATTTCTATGTCTTGGACTTCTTTTCTAG
* *
23074923 GATTTCTTTGTCTTGGACTTCTTTGTCTTG
1 GATTTCTATGTCTTGGACTTCTTT-TCTAG
*
23074953 GTTTTC-ATGTC
1 GATTTCTATGTC
23074964 ATTTCTATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.10, C:0.16, G:0.19, T:0.56
Consensus pattern (29 bp):
GATTTCTATGTCTTGGACTTCTTTTCTAG
Found at i:23077177 original size:14 final size:16
Alignment explanation
Indices: 23077156--23077195 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
23077146 TGCAAGAAAC
23077156 GATGATATATGAAA-A
1 GATGATATATGAAATA
*
23077171 G-TGATATAGGAAATA
1 GATGATATATGAAATA
23077186 GATGATATAT
1 GATGATATAT
23077196 ATATGTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 11 0.52
15 3 0.14
16 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (16 bp):
GATGATATATGAAATA
Found at i:23083174 original size:45 final size:44
Alignment explanation
Indices: 23083090--23083174 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
23083080 ATGTAATCTG
* *
23083090 AACTCATTGAGTTGTGTCTGAGTTCATGATTTATGTGACATCCA
1 AACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCCA
* *
23083134 AACTCATTGAGTTGTGGTCTGAGTTCGTGATATGTATGACA
1 AACTCATTGAGTTGT-GTCTGAGTTCATGATATATATGACA
23083175 CATGTTTTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 15 0.42
45 21 0.58
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.38
Consensus pattern (44 bp):
AACTCATTGAGTTGTGTCTGAGTTCATGATATATATGACATCCA
Found at i:23083434 original size:21 final size:21
Alignment explanation
Indices: 23083408--23083450 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
23083398 AAAGAGAAGT
23083408 TCAATAAGAAATCTTGATGAA
1 TCAATAAGAAATCTTGATGAA
23083429 TCAATAAGAAATCTTGATGAA
1 TCAATAAGAAATCTTGATGAA
23083450 T
1 T
23083451 ACGTCAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.30
Consensus pattern (21 bp):
TCAATAAGAAATCTTGATGAA
Found at i:23093561 original size:9 final size:9
Alignment explanation
Indices: 23093549--23093578 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
23093539 TTTTAAATAA
23093549 ATTAATAGC
1 ATTAATAGC
23093558 ATTAATAGC
1 ATTAATAGC
23093567 ATTAATATGC
1 ATTAATA-GC
23093577 AT
1 AT
23093579 ATATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.80
10 4 0.20
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (9 bp):
ATTAATAGC
Found at i:23105222 original size:16 final size:17
Alignment explanation
Indices: 23105185--23105224 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
23105175 TTTTTAAAAG
23105185 AAAAACAAATGAATATT
1 AAAAACAAATGAATATT
* *
23105202 AAAAACAATTGAATCTT
1 AAAAACAAATGAATATT
23105219 AAAAAC
1 AAAAAC
23105225 TTAATGAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (17 bp):
AAAAACAAATGAATATT
Found at i:23121896 original size:21 final size:21
Alignment explanation
Indices: 23121872--23121914 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
23121862 AAAATTTAAA
23121872 AAAACATAA-TAAAATATTTTT
1 AAAA-ATAAGTAAAATATTTTT
* *
23121893 AAAATTAAGTATAATATTTTT
1 AAAAATAAGTAAAATATTTTT
23121914 A
1 A
23121915 TTAAAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AAAAATAAGTAAAATATTTTT
Found at i:23122458 original size:148 final size:145
Alignment explanation
Indices: 23122289--23122579 Score: 336
Period size: 146 Copynumber: 2.0 Consensus size: 145
23122279 ACATTATAAT
*
23122289 ATATATAATTAAGGTAGATTATTAA-ATATATATATATCCCTATATA-CAACTATAT-TATTATA
1 ATATATAATTAAGGTAGATTATTAATA-ATATATA-AT-CATATATATC-A-TA-ATGTATTATA
* * * * * *
23122351 ATGTATATTTTTATATTCATGATATGTAAGCTTAAACACTATACTTTAACTAACTTTATAACAAA
60 ATGTACATTTTTATATTAATCATATGTAACCTTAAACACTAAACTGTAACTAACTTTATAACAAA
*
23122416 TTATAATATATACAATTAGAA
125 TTATAAAATATACAATTAGAA
* * * *
23122437 ATATATAGTTAAGGTATATTATTAATAATATGTAATCATATGTATCATAATGGTATTATAATGTA
1 ATATATAATTAAGGTAGATTATTAATAATATATAATCATATATATCATAAT-GTATTATAATGTA
* * *** *
23122502 CATTTTTATATTAATCATATGTAACCTTAAACCCTAAAGTGTAACTAACTTTATGGTAGATTATA
65 CATTTTTATATTAATCATATGTAACCTTAAACACTAAACTGTAACTAACTTTATAACAAATTATA
23122567 AAATATACAATTA
130 AAATATACAATTA
23122580 ACATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
144 2 0.02
145 2 0.02
146 84 0.69
147 3 0.02
148 29 0.24
149 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.08, T:0.41
Consensus pattern (145 bp):
ATATATAATTAAGGTAGATTATTAATAATATATAATCATATATATCATAATGTATTATAATGTAC
ATTTTTATATTAATCATATGTAACCTTAAACACTAAACTGTAACTAACTTTATAACAAATTATAA
AATATACAATTAGAA
Found at i:23125408 original size:37 final size:37
Alignment explanation
Indices: 23125358--23125465 Score: 207
Period size: 37 Copynumber: 2.9 Consensus size: 37
23125348 GCTCAAACAA
23125358 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
23125395 AATCTCTACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
23125432 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
23125466 ATATATTTCC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:23125670 original size:48 final size:48
Alignment explanation
Indices: 23125616--23125747 Score: 219
Period size: 48 Copynumber: 2.7 Consensus size: 48
23125606 ATCGCCTAAT
23125616 TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA
1 TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA
23125664 TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA
1 TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA
* * *
23125712 TGTTTCACATTAGCCATTCGGCCTTATCACACATAT
1 TATTTCACACTAGCCATTCGGCTTTA-C-CACATAT
23125748 GCATGTTCAC
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
48 71 0.90
49 1 0.01
50 7 0.09
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.34
Consensus pattern (48 bp):
TATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACA
Found at i:23125839 original size:47 final size:47
Alignment explanation
Indices: 23125716--23125841 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
23125706 CATACATGTT
* *
23125716 TCACATTAGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
23125763 TCACATTGGCCATTCGGCCTTAACACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
23125810 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
23125842 ACACATAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:23130340 original size:44 final size:47
Alignment explanation
Indices: 23130136--23130355 Score: 239
Period size: 51 Copynumber: 4.6 Consensus size: 47
23130126 ATGGTACGCA
*
23130136 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACAT--GACCAATTATCCGGTACACG
* ** * *
23130185 TAGTAGTCTGCACTTAGTACTGCACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACT--ACACATGACC-AATTATCCGGTACACG
* * * *
23130235 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACA--TGA-CCAA-TTATCCGGTACACG
*
23130286 TAGTAACCTGCACTTAGTACTACACAT-A-C-ATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGACCAATTATCCGGTACACG
23130330 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
23130356 CGTGACCTCA
Statistics
Matches: 144, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
44 36 0.25
45 1 0.01
48 6 0.04
49 25 0.17
50 36 0.25
51 40 0.28
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (47 bp):
TAGTAGCCTGCACTTAGTACTACACATGACCAATTATCCGGTACACG
Found at i:23130355 original size:95 final size:97
Alignment explanation
Indices: 23130136--23130362 Score: 273
Period size: 95 Copynumber: 2.3 Consensus size: 97
23130126 ATGGTACGCA
* * ** **
23130136 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGTCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACTTA
*
23130201 GTACTGCACACATGACCTAACCATCTGATACACG
66 GTACT-CACACATGACC-AACCATCCGATACACG
* * *
23130235 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAACCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACACATAGTAACCTGCACT
** *
23130300 TAGTACT-ACACAT-A-C-ATTATCCGGTACACG
64 TAGTACTCACACATGACCAACCATCCGATACACG
23130330 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
23130363 TCACAATAGA
Statistics
Matches: 112, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
94 1 0.01
95 42 0.38
97 1 0.01
98 1 0.01
99 35 0.31
100 3 0.03
101 29 0.26
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (97 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACATAGTAACCTGCACTTA
GTACTCACACATGACCAACCATCCGATACACG
Found at i:23134411 original size:25 final size:26
Alignment explanation
Indices: 23134361--23134413 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
23134351 GTAATTTTGC
*
23134361 AAAAATATGAAATATGAACTGAATTG
1 AAAAATATGAAATATGAAATGAATTG
* *
23134387 AAAAATA-GAAATATTAAATGGATTG
1 AAAAATATGAAATATGAAATGAATTG
23134412 AA
1 AA
23134414 TTTGTCAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (26 bp):
AAAAATATGAAATATGAAATGAATTG
Found at i:23136213 original size:33 final size:33
Alignment explanation
Indices: 23136157--23136234 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
23136147 CAAGGCCCTG
*
23136157 CTATGGTCTT-TTATTCACATGCCATAACCGAA
1 CTATGGTCTTATTATTCACATGCCATAACCCAA
* * * *
23136189 TTATGGTCTTATTATTCGA-TTGCCATAGCCCAG
1 CTATGGTCTTATTATTC-ACATGCCATAACCCAA
23136222 CTATGGTCTTATT
1 CTATGGTCTTATT
23136235 TGGCAACTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 9 0.24
33 28 0.74
34 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (33 bp):
CTATGGTCTTATTATTCACATGCCATAACCCAA
Found at i:23137380 original size:24 final size:25
Alignment explanation
Indices: 23137352--23137399 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
23137342 TTTGTGGTCC
* *
23137352 CAAAACTA-CTGTTCCAATTTGACT
1 CAAAAATAGCTGTTACAATTTGACT
23137376 CAAAAATAGGCTGTTACAATTTGA
1 CAAAAATA-GCTGTTACAATTTGA
23137400 ACCTTAGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
26 13 0.65
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (25 bp):
CAAAAATAGCTGTTACAATTTGACT
Found at i:23139626 original size:55 final size:53
Alignment explanation
Indices: 23139518--23139715 Score: 202
Period size: 55 Copynumber: 3.7 Consensus size: 53
23139508 ATTAAGGTTT
* * * **
23139518 AAGGATACCATGTAAGACCATGCCAAGAAATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGG-CATTAATAA-G-TTCATAAGGC
* *
23139573 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTT-C-ATAAGGC
* * * * ** *
23139628 AAAGG-TCCCATGTATGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTCATAAGGC
23139681 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
23139716 ATTGTAAGTT
Statistics
Matches: 118, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
52 6 0.05
53 35 0.30
54 7 0.06
55 66 0.56
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTAATAAGTTCATAAGGC
Found at i:23139985 original size:16 final size:16
Alignment explanation
Indices: 23139964--23139994 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23139954 ATAAATTTGA
23139964 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
23139980 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
23139995 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:23150794 original size:39 final size:40
Alignment explanation
Indices: 23150749--23150880 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
23150739 GCTCCTCGTT
* * *
23150749 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
23150789 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
23150828 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
23150868 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
23150881 ATCTTAATCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:23150887 original size:40 final size:39
Alignment explanation
Indices: 23150751--23150933 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
23150741 TCCTCGTTCA
* * * *
23150751 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* **
23150790 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
23150829 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * * * * * *
23150869 AAAGGCCTTC-GGATCTTAATCCAGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
23150910 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23150934 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
39 37 0.31
40 73 0.62
41 8 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:23155007 original size:50 final size:50
Alignment explanation
Indices: 23154932--23155031 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
23154922 AATTCGCAAC
*
23154932 TGATAATAGCCCGATCTCAAATCTATTTTTGAGAACACTGAGGCTCCCTT
1 TGATAATAGCCCGATCTCAAATCTATTGTTGAGAACACTGAGGCTCCCTT
23154982 TGATAATAGCCCGATCTCAAATCTATTGTTGAGAACACTGAGGCTCCCTT
1 TGATAATAGCCCGATCTCAAATCTATTGTTGAGAACACTGAGGCTCCCTT
23155032 CAGTTGGTCG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (50 bp):
TGATAATAGCCCGATCTCAAATCTATTGTTGAGAACACTGAGGCTCCCTT
Found at i:23158546 original size:151 final size:150
Alignment explanation
Indices: 23158337--23158637 Score: 494
Period size: 151 Copynumber: 2.0 Consensus size: 150
23158327 TTATGCTTAG
*
23158337 TAAGTTTGAGCAAGGAATTCCAGCATGCACAAAGAATAGCACACATTTAGCTAAACGGAATATTT
1 TAAGTTTGAGCAAGGAATTCCAGCACGCACAAAGAATAGCACACATTTAGCTAAACGGAATATTT
***
23158402 CATAATACGCAATTTACCGATATCAAACTTGCTTCACAACATTAACAACCCTTATGTGCATACAC
66 CATAATACGCAATTTACCGATATCAAACTTGCTTCACAACATTAACAACCCTTATACACATACAC
*
23158467 AATAAACTAACTTGGCCGAA
131 AATAAACTAACTTAGCCGAA
*
23158487 TAAGTTTGAGCAAGGAAATTCCAGCACGCACAAAGAATATCACACATTTAGCTAAACGGAATATT
1 TAAGTTTGAGCAAGG-AATTCCAGCACGCACAAAGAATAGCACACATTTAGCTAAACGGAATATT
* * * *
23158552 TCATAATACGCAATTTATCGATTTTAAACTTGTTTCACAACATTAACAACCCTTATACACATACA
65 TCATAATACGCAATTTACCGATATCAAACTTGCTTCACAACATTAACAACCCTTATACACATACA
*
23158617 CAATAGACTAACTTAGCCGAA
130 CAATAAACTAACTTAGCCGAA
23158638 GGCCGATAGC
Statistics
Matches: 139, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
150 15 0.11
151 124 0.89
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (150 bp):
TAAGTTTGAGCAAGGAATTCCAGCACGCACAAAGAATAGCACACATTTAGCTAAACGGAATATTT
CATAATACGCAATTTACCGATATCAAACTTGCTTCACAACATTAACAACCCTTATACACATACAC
AATAAACTAACTTAGCCGAA
Found at i:23159813 original size:119 final size:119
Alignment explanation
Indices: 23158786--23159757 Score: 1840
Period size: 119 Copynumber: 8.2 Consensus size: 119
23158776 AAATCACGTA
* * * *
23158786 CCTTCGAGATTTAA-CCGGATATAGCTCCTCGTTCAAATGCCTTCGGGACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
*
23158850 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGTACGAATG
66 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
* * *
23158904 CCTTCGGGACTTAACCCGGATTTA-ATAACCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTA
1 CCTTCGGGACTTAACCCGGATATAGCT-CCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTA
23158968 GTAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
65 GTAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
23159023 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
23159088 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
23159142 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
23159207 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
23159261 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
23159326 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
23159380 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
23159445 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
23159499 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
23159564 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
23159618 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
1 CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
*
23159683 TAACTCACACAATGCCTTTGGGACATAACCCGGATTTAACAACTCGCACGAATG
66 TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
23159737 CCTTCGGGACTTAACCCGGAT
1 CCTTCGGGACTTAACCCGGAT
23159758 TTAATAACTC
Statistics
Matches: 839, Mismatches: 12, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
118 13 0.02
119 825 0.98
120 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAACCCGGATATAGCTCCCCGTTCAAATGCCTTCGGAACATAGCCCGGTTTTAG
TAACTCACACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
Found at i:23162150 original size:48 final size:48
Alignment explanation
Indices: 23162094--23162585 Score: 689
Period size: 48 Copynumber: 10.0 Consensus size: 48
23162084 TTGATGCATA
*
23162094 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
23162142 AGATATGTATATGTGGTAAAGCCGAATGGCTAATATGGAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
23162190 AGATGTGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG----A-A-ATATGTATG
23162244 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
23162292 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATG
* * *
23162344 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
23162394 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
23162442 AGATATGCATATGTGCTAAAGCTGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
* *
23162492 AGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
23162540 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
23162586 GGCGATGTGT
Statistics
Matches: 402, Mismatches: 28, Indels: 28
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.00
48 217 0.54
49 7 0.02
50 86 0.21
51 4 0.01
52 42 0.10
53 1 0.00
54 44 0.11
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:23162270 original size:102 final size:96
Alignment explanation
Indices: 23162094--23162585 Score: 689
Period size: 102 Copynumber: 5.0 Consensus size: 96
23162084 TTGATGCATA
*
23162094 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
23162159 AAAGCCGAATGGCTAATATGGAATATGTATG
66 AAAGCCGAATGGCTAATGTGAAATATGTATG
* *
23162190 AGATGTGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATGTATGAGATATGTATA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG----A-A-ATATGTATGAGATATGTATA
23162255 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
60 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
23162292 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATGAGATATGTATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-ATATGTATGAGATATGTATATG
* * *
23162357 TGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
62 TGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
* *
23162394 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGCT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* *
23162459 AAAGCTGAATGG-TCAATGTGAAATATATATATG
66 AAAGCCGAATGGCT-AATGTG-AA-ATATGTATG
* *
23162492 AGATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
23162557 AAAGCCGAATGGCTAGTGTGAAATATGTA
66 AAAGCCGAATGGCTAATGTGAAATATGTA
23162586 GGCGATGTGT
Statistics
Matches: 364, Mismatches: 22, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
96 40 0.11
97 3 0.01
98 131 0.36
99 2 0.01
100 50 0.14
101 3 0.01
102 135 0.37
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (96 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:23162387 original size:150 final size:148
Alignment explanation
Indices: 23162094--23162585 Score: 714
Period size: 150 Copynumber: 3.3 Consensus size: 148
23162084 TTGATGCATA
*
23162094 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* * *
23162159 AAAGCCGAATGGCTAATATGG---A-ATATGTATGAGATGTGTATATGTGGTAAAGCCGAATGGC
66 AAAGCCGAATGGCT-A-ATGGAAAATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGC
*
23162220 TAATGCGAAATATATATATGTATG
129 TAATGTG--A-A-ATATATGTATG
23162244 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
23162309 AAAGCCGAATGGCTAATGCGAAATATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGT
66 AAAGCCGAATGGCTAATG-GAAA-ATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGC
*
23162374 TAATGTGAAATATATATATG
129 TAATGTGAAATATATGTATG
* *
23162394 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGCT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
23162459 AAAGCTGAATGG-TCAATGTG-AAATATATATATGAGATATGTATATGTGGTAAAG-TCGAATGG
66 AAAGCCGAATGGCT-AATG-GAAAATATATATATGAGATATGTATATGTGGTAAAGCT-GAATGG
*
23162521 CTAGTGTG-AA-ATATGTATG
128 CTAATGTGAAATATATGTATG
*
23162540 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
23162586 GGCGATGTGT
Statistics
Matches: 319, Mismatches: 15, Indels: 20
0.90 0.04 0.06
Matches are distributed among these distances:
146 53 0.17
147 3 0.01
148 47 0.15
149 5 0.02
150 167 0.52
151 1 0.00
152 1 0.00
153 1 0.00
154 41 0.13
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (148 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGGAAAATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGCTA
ATGTGAAATATATGTATG
Found at i:23162839 original size:37 final size:37
Alignment explanation
Indices: 23162731--23162839 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
23162721 GGAAATATAT
* * *
23162731 TCCGGGTAAGACTCGATGACCACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
23162768 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
23162805 TTCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
23162840 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:23167392 original size:27 final size:28
Alignment explanation
Indices: 23167333--23167392 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
23167323 TCTTAGGTTA
* * *
23167333 TGCCATGAAAGCCTTCCTTTTCAGATAT
1 TGCCATGAAAGACTTCCTTTACAGAGAT
*
23167361 AGCCATG-AAGACTTCCTTTACAGAGAT
1 TGCCATGAAAGACTTCCTTTACAGAGAT
23167388 TGCCA
1 TGCCA
23167393 CAAAGGCTGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 21 0.78
28 6 0.22
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (28 bp):
TGCCATGAAAGACTTCCTTTACAGAGAT
Found at i:23169132 original size:21 final size:21
Alignment explanation
Indices: 23169106--23169145 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
23169096 GAAAGTTGCT
23169106 CCTAAAAACAAGATTTTCTTC
1 CCTAAAAACAAGATTTTCTTC
23169127 CCTAAAAACAAGATTTTCT
1 CCTAAAAACAAGATTTTCT
23169146 AAGTTTCATG
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:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (21 bp):
CCTAAAAACAAGATTTTCTTC
Found at i:23178844 original size:21 final size:21
Alignment explanation
Indices: 23178820--23178859 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
23178810 CATGTATAGA
23178820 CTATTGTGGTTAAATGTTGGG
1 CTATTGTGGTTAAATGTTGGG
23178841 CTATTGTGGTTAAATGTTG
1 CTATTGTGGTTAAATGTTG
23178860 ATGTGTGGAA
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:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (21 bp):
CTATTGTGGTTAAATGTTGGG
Found at i:23184768 original size:57 final size:57
Alignment explanation
Indices: 23184673--23184823 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 57
23184663 GGAGTTATCT
* * * * * **
23184673 CTTACATTTCTAGAGTTTTGCTACAAAGGTTGTTCTTTATGAGGTTCACCACAAAGG
1 CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTTTAACAGGTTCACCACAAAGG
* * ** * *
23184730 CTTACCTTTTTAGAGTTCTGCTACAATGGCTATCCTTTAACAGGTTTGCCATAATGG
1 CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTTTAACAGGTTCACCACAAAGG
* * * * *
23184787 CTTACCTTTCCAAAGTTTTGCGACAAAGGCTTTCCTT
1 CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTT
23184824 CTCCTAGTGA
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
57 74 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (57 bp):
CTTACCTTTCTAGAGTTCTGCTACAAAGGCTATCCTTTAACAGGTTCACCACAAAGG
Found at i:23185015 original size:54 final size:53
Alignment explanation
Indices: 23184934--23185036 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 53
23184924 CCTTCCTTAA
* *
23184934 TTTTTTTCATATGATACTATAACCCACCAGTTACAGTCTTACATGATATGGTC
1 TTTTTTTCATATGATACCATAACCCACCAATTACAGTCTTACATGATATGGTC
* * **
23184987 TTTTTTCTCATATGGTTCCATAACCCACCAATTATGGTCTTACATGATAT
1 TTTTTT-TCATATGATACCATAACCCACCAATTACAGTCTTACATGATAT
23185037 AGTCCTTCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.41
Consensus pattern (53 bp):
TTTTTTTCATATGATACCATAACCCACCAATTACAGTCTTACATGATATGGTC
Found at i:23187351 original size:12 final size:12
Alignment explanation
Indices: 23187334--23187358 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23187324 CACCATAGTT
23187334 AAGATCATGTCA
1 AAGATCATGTCA
23187346 AAGATCATGTCA
1 AAGATCATGTCA
23187358 A
1 A
23187359 TAATTTTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAGATCATGTCA
Found at i:23196290 original size:40 final size:40
Alignment explanation
Indices: 23196260--23196429 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
23196250 GGACTAAGAT
* *
23196260 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
23196300 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
23196340 CCGAAGGCATTCGTGCGAGTTGTTGAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
23196380 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
23196419 CCGAAGGCATT
1 CCGAAGGCATT
23196430 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.28
40 84 0.72
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:23196344 original size:80 final size:79
Alignment explanation
Indices: 23196207--23196431 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 79
23196197 TTGAATGCTG
* * * * * * *
23196207 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
23196271 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * *
23196287 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* ** *
23196352 GTGCGAGTTGTTGAA
65 GTGCGAGATACTAAA
* * * * *
23196367 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
23196432 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:23196449 original size:79 final size:80
Alignment explanation
Indices: 23196285--23196464 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 80
23196275 CGAGATACTA
* * *
23196285 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** ** *
23196350 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
23196365 AATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
*
23196429 TTGAACGAGGAGCT-
66 TCGAACGAGGAGCTG
*
23196443 ATATCC-GGTTAAATCCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
23196465 TACGTGATTT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
78 15 0.18
79 45 0.53
80 25 0.29
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:23203966 original size:21 final size:21
Alignment explanation
Indices: 23203940--23203992 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
23203930 ACTGCCCTCG
*
23203940 ATGTCGCGACACGACCCTCCT
1 ATGTCGCGACAAGACCCTCCT
* *
23203961 ATGTCGTGACAAGGCCCTCCT
1 ATGTCGCGACAAGACCCTCCT
*
23203982 ATGTCACGACA
1 ATGTCGCGACA
23203993 TACCCCTTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.21
Consensus pattern (21 bp):
ATGTCGCGACAAGACCCTCCT
Found at i:23206278 original size:102 final size:102
Alignment explanation
Indices: 23206102--23206332 Score: 329
Period size: 102 Copynumber: 2.3 Consensus size: 102
23206092 ACACGTGTGT
* * **
23206102 AGTACTGTGTGAAGGCTACTATGTGTATCGATAAATAATGGTCACATGTGTAGTACTAAGTGAAG
1 AGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTACTAAGTGAAG
*
23206167 GCTACTATGTGTACC-GAGAAGTTTTGGTCACATGTAC
66 GCTACTATGTGTACCGGA-AAGATTTGGTCACATGTAC
* *
23206204 AGTACTGCGTGAAGGCTACTACGTGTACCGATAAATGATGAACACATGTGTAGTACTAAGTGAAG
1 AGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTACTAAGTGAAG
* **
23206269 GCTACTATGTGTACCGGAAAGATTTGGTCACGTGTGT
66 GCTACTATGTGTACCGGAAAGATTTGGTCACATGTAC
* * *
23206306 AGTACTATGTGAAGGTTTCTACGTGTA
1 AGTACTGTGTGAAGGCTACTACGTGTA
23206333 ACGGATGATA
Statistics
Matches: 114, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
102 112 0.98
103 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (102 bp):
AGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGAACACATGTGTAGTACTAAGTGAAG
GCTACTATGTGTACCGGAAAGATTTGGTCACATGTAC
Found at i:23206332 original size:51 final size:51
Alignment explanation
Indices: 23206097--23206320 Score: 254
Period size: 51 Copynumber: 4.4 Consensus size: 51
23206087 ATGAAACACG
** *
23206097 TGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATAAATAATGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGATAAATAATGGTCACA
* * **
23206148 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGGTCACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGATAAATAATGGTCACA
** ** * * **
23206199 TGTACAGTACTGCGTGAAGGCTACTACGTGTACCGATAAATGATGAACACA
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGATAAATAATGGTCACA
* *
23206250 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGGA-AAGAT-TTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACC-GATAA-ATAATGGTCACA
*
23206301 TGTGTAGTACTATGTGAAGG
1 TGTGTAGTACTAAGTGAAGG
23206321 TTTCTACGTG
Statistics
Matches: 143, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
51 139 0.97
52 4 0.03
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGATAAATAATGGTCACA
Found at i:23206369 original size:102 final size:100
Alignment explanation
Indices: 23206093--23206362 Score: 303
Period size: 102 Copynumber: 2.6 Consensus size: 100
23206083 ATCGATGAAA
* * *
23206093 CACGTGTGTAGTACTGTGTGAAGGCTACTATGTGTATCGATA-AATAATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAACGATATAA-AA--GTAACATGTGTAGTA
*
23206157 CTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGGT
63 CTAAGTGAAGGCTACTATGTGTACCGAGAAGATTTGGT
* ** * * * *
23206195 CACATGTACAGTACTGCGTGAAGGCTACTACGTGTACCGATA-AATGATGAACACATGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAACGATATAA--AAGTA-ACATGTGTAGTA
23206259 CTAAGTGAAGGCTACTATGTGTACCG-GAAAGATTTGGT
63 CTAAGTGAAGGCTACTATGTGTACCGAG-AAGATTTGGT
* * * *
23206297 CACGTGTGTAGTACTATGTGAAGGTTTCTACGTGTAACGGATGATAAAAGTAACATGGGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAAC-GAT-ATAAAAGTAACATGTGTAGTAC
23206362 T
64 T
23206363 GTGTGAAAAA
Statistics
Matches: 140, Mismatches: 22, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
101 2 0.01
102 128 0.91
103 7 0.05
104 1 0.01
105 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (100 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTAACGATATAAAAGTAACATGTGTAGTACTA
AGTGAAGGCTACTATGTGTACCGAGAAGATTTGGT
Found at i:23208101 original size:13 final size:13
Alignment explanation
Indices: 23208083--23208111 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23208073 ATGATATGTT
23208083 TATATAAAATTTG
1 TATATAAAATTTG
23208096 TATATAAAATTTG
1 TATATAAAATTTG
23208109 TAT
1 TAT
23208112 TCGTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (13 bp):
TATATAAAATTTG
Found at i:23209828 original size:25 final size:25
Alignment explanation
Indices: 23209800--23209893 Score: 82
Period size: 25 Copynumber: 3.8 Consensus size: 25
23209790 CTATAAACGG
* *
23209800 TAAGCTCATTCGTGCTGAATAACAA
1 TAAGCTCATACGAGCTGAATAACAA
* * * **
23209825 TAAGCTCCTCCGTGCTGAATAATGA
1 TAAGCTCATACGAGCTGAATAACAA
* * *
23209850 TAAGCTCATGCGAGCTGAGA-ATCAG
1 TAAGCTCATACGAGCTGA-ATAACAA
23209875 TAAGCTCATACGAGCTGAA
1 TAAGCTCATACGAGCTGAA
23209894 ATCGGTAACC
Statistics
Matches: 56, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
24 1 0.02
25 54 0.96
26 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAATAACAA
Found at i:23209901 original size:24 final size:25
Alignment explanation
Indices: 23209850--23209901 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
23209840 TGAATAATGA
*
23209850 TAAGCTCATGCGAGCTGAGAATCAG
1 TAAGCTCATACGAGCTGAGAATCAG
*
23209875 TAAGCTCATACGAGCTGA-AATCGG
1 TAAGCTCATACGAGCTGAGAATCAG
23209899 TAA
1 TAA
23209902 CCCTAATGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (25 bp):
TAAGCTCATACGAGCTGAGAATCAG
Found at i:23214071 original size:17 final size:18
Alignment explanation
Indices: 23214038--23214079 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
23214028 TGGAATAGTT
*
23214038 AATAA-CAATTTATATTC
1 AATAATCAATTCATATTC
23214055 AATAATCAATTCA-ATTC
1 AATAATCAATTCATATTC
*
23214072 CATAATCA
1 AATAATCA
23214080 CAAGTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATCAATTCATATTC
Found at i:23215293 original size:37 final size:37
Alignment explanation
Indices: 23215242--23215348 Score: 110
Period size: 38 Copynumber: 2.9 Consensus size: 37
23215232 AAGTTTATCT
23215242 GTAG-ATTTTACTCATTTGAGCTCCATTCAGTATAACA
1 GTAGAATTTT-CTCATTTGAGCTCCATTCAGTATAACA
*
23215279 GTAGAATTTTCTCATTTGAGCTTCACA-TCAATATAACA
1 GTAGAATTTTCTCATTTGAGC-TC-CATTCAGTATAACA
* * * * * *
23215317 ATAAAATTTGCTCGTTTGAGCTACTTTCAGTA
1 GTAGAATTTTCTCATTTGAGCTCCATTCAGTA
23215349 GAATCATTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
36 1 0.02
37 21 0.36
38 34 0.59
39 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (37 bp):
GTAGAATTTTCTCATTTGAGCTCCATTCAGTATAACA
Found at i:23215478 original size:40 final size:40
Alignment explanation
Indices: 23215434--23215513 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
23215424 ATTGGAATCG
* * *
23215434 GTAGGTATGGCTCGAAAACGCATACGTTTCACTAGATTCA
1 GTAGGTATAGCTCGAAAACACATACGTTTAACTAGATTCA
** *
23215474 GTAGGTATAGCTCGAAAGTACATACGTTTAAGTAGATTCA
1 GTAGGTATAGCTCGAAAACACATACGTTTAACTAGATTCA
23215514 ATAGATATCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (40 bp):
GTAGGTATAGCTCGAAAACACATACGTTTAACTAGATTCA
Found at i:23219589 original size:29 final size:29
Alignment explanation
Indices: 23219556--23219712 Score: 199
Period size: 29 Copynumber: 5.4 Consensus size: 29
23219546 TCATTGACTA
*
23219556 ATGAAAAGGGATAGCTTCAACTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
23219585 ATGAAAAGGGATAGCTTCAACTATCCAGT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* *
23219614 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
23219643 ATGAAAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* *
23219672 ATGAAAAGGGATAGCTTCGATTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
23219701 ATGAAAAGGGAT
1 ATGAAAAGGGAT
23219713 GGTGACGACT
Statistics
Matches: 110, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
28 2 0.02
29 106 0.96
30 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:23219619 original size:58 final size:58
Alignment explanation
Indices: 23219556--23219741 Score: 214
Period size: 58 Copynumber: 3.2 Consensus size: 58
23219546 TCATTGACTA
* * * * *
23219556 ATGAAAAGGGATAGCTTCAACTATCGAATATGAAAAGGGATAGCT-TCAACTATCCAGT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGAT-GCTGACAACCATCCAAT
* * * *
23219614 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGCTGACAACCATCCAAT
* * * *
23219672 ATGAAAAGGGATAGCTTCGATTATCGATTATGAAAAGGGATGGTGACGACTAT-CAACT
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGCTGACAACCATCCAA-T
*
23219730 ATGAAAAAGGAT
1 ATGAAAAGGGAT
23219742 GGTGATGACC
Statistics
Matches: 112, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
57 4 0.04
58 108 0.96
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGCTGACAACCATCCAAT
Found at i:23219669 original size:87 final size:87
Alignment explanation
Indices: 23219578--23219754 Score: 239
Period size: 87 Copynumber: 2.0 Consensus size: 87
23219568 AGCTTCAACT
* * * *
23219578 ATCGAATATGAAAAGGGATAGCTTCAACTATCCAGTATGAAAAGGGATAGCT-TCGGCTATCGAT
1 ATCGAATATGAAAAGGGATAGCTTCAACTATCCAGTATGAAAAGGGAT-GCTGACGACTATCAAC
*
23219642 TATGAAAAGGGATGGTGACGACC
65 TATGAAAAAGGATGGTGACGACC
* * * * *
23219665 ATCGAATATGAAAAGGGATAGCTTCGATTATCGATTATGAAAAGGGATGGTGACGACTATCAACT
1 ATCGAATATGAAAAGGGATAGCTTCAACTATCCAGTATGAAAAGGGATGCTGACGACTATCAACT
*
23219730 ATGAAAAAGGATGGTGATGACC
66 ATGAAAAAGGATGGTGACGACC
23219752 ATC
1 ATC
23219755 AGCTAAGAAC
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 2 0.03
87 76 0.97
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATAGCTTCAACTATCCAGTATGAAAAGGGATGCTGACGACTATCAACT
ATGAAAAAGGATGGTGACGACC
Found at i:23219725 original size:29 final size:29
Alignment explanation
Indices: 23219575--23219831 Score: 166
Period size: 29 Copynumber: 8.9 Consensus size: 29
23219565 GATAGCTTCA
* * *
23219575 ACTATCGAATATGAAAAGGGATAGCT-TCA
1 ACTATCGAATATGAAAAGGGAT-GGTGACG
* * * *
23219604 ACTATCCAGTATGAAAAGGGATAGCT-TCG
1 ACTATCGAATATGAAAAGGGAT-GGTGACG
* *
23219633 GCTATCGATTATGAAAAGGGATGGTGACG
1 ACTATCGAATATGAAAAGGGATGGTGACG
* * *
23219662 ACCATCGAATATGAAAAGGGATAGCT-TCG
1 ACTATCGAATATGAAAAGGGAT-GGTGACG
* *
23219691 ATTATCGATTATGAAAAGGGATGGTGACG
1 ACTATCGAATATGAAAAGGGATGGTGACG
* *
23219720 ACTATC-AACTATGAAAAAGGATGGTGATG
1 ACTATCGAA-TATGAAAAGGGATGGTGACG
* * * * *
23219749 ACCATC-AGCTAAGAACAGGAATGGTGACG
1 ACTATCGA-ATATGAAAAGGGATGGTGACG
* * * **
23219778 ACCATCGATTAATGAAAAGGGAAGGTTTCG
1 ACTATCGAAT-ATGAAAAGGGATGGTGACG
* *
23219808 ACCATCAAATATG-AAAGGGATGGT
1 ACTATCGAATATGAAAAGGGATGGT
23219832 TACAACCATC
Statistics
Matches: 182, Mismatches: 39, Indels: 15
0.77 0.17 0.06
Matches are distributed among these distances:
28 15 0.08
29 143 0.79
30 24 0.13
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
ACTATCGAATATGAAAAGGGATGGTGACG
Found at i:23219831 original size:58 final size:58
Alignment explanation
Indices: 23219642--23219841 Score: 183
Period size: 58 Copynumber: 3.4 Consensus size: 58
23219632 GGCTATCGAT
* ** * *
23219642 TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGATA-GCTTCGATTATCGAT
1 TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGA-AGGTTTCGACCATCAAA
* * * * **
23219700 TATGAAAAGGGATGGTGACGACTATC-AACTATGAAAAAGGATGGTGAT-GACCATCAGC
1 TATGAAAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGAAGGT-TTCGACCATCAAA
* * * *
23219758 TAAGAACAGGAATGGTGACGACCATCGATTAATGAAAAGGGAAGGTTTCGACCATCAAA
1 TATGAAAAGGGATGGTGACGACCATCGAAT-ATGAAAAGGGAAGGTTTCGACCATCAAA
* *
23219817 TATG-AAAGGGATGGTTACAACCATC
1 TATGAAAAGGGATGGTGACGACCATC
23219842 ATTTAACACA
Statistics
Matches: 111, Mismatches: 25, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
57 2 0.02
58 83 0.75
59 26 0.23
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.21
Consensus pattern (58 bp):
TATGAAAAGGGATGGTGACGACCATCGAATATGAAAAGGGAAGGTTTCGACCATCAAA
Found at i:23222631 original size:55 final size:50
Alignment explanation
Indices: 23222405--23222653 Score: 191
Period size: 50 Copynumber: 4.9 Consensus size: 50
23222395 TGATAATAAC
* ** * * *
23222405 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGT-A
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
* * ** ** * ** * * *
23222454 CTGACAATTTCATAACCCAGATATGGTCTTACATGGGAGTTCTTATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
* * * * *
23222504 GTGCCCATGCCATGTCCCAAACATGGTCTTAC-GGGGAACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGG-ACCTCTCATCTCA
* *
23222554 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAAA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT---CTC--A
23222609 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA--TCTCATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
23222654 CCTTTAATTT
Statistics
Matches: 156, Mismatches: 36, Indels: 15
0.75 0.17 0.07
Matches are distributed among these distances:
49 37 0.24
50 71 0.46
51 3 0.02
53 9 0.06
55 36 0.23
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA
Found at i:23229748 original size:50 final size:50
Alignment explanation
Indices: 23229684--23229816 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
23229674 CAATGTCATA
* * *
23229684 TCCCAGATATGGTCTTCCATGGGA-GTCCTCATACCGGTGTCC-ATGCCATG
1 TCCCAGATATGGTCTTACATGGGACCT-CTCATACCGGTG-CCAACGCCATG
* * *
23229734 TCCTAGATATGGTCTTACAGGGGACCTCTCATATCGGTGCCAACGCCATG
1 TCCCAGATATGGTCTTACATGGGACCTCTCATACCGGTGCCAACGCCATG
* *
23229784 TCCCAGACATGGTCTTACATGAGACCTCTCATA
1 TCCCAGATATGGTCTTACATGGGACCTCTCATA
23229817 ACCTCAATAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
49 2 0.03
50 68 0.96
51 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TCCCAGATATGGTCTTACATGGGACCTCTCATACCGGTGCCAACGCCATG
Found at i:23235484 original size:29 final size:29
Alignment explanation
Indices: 23235451--23235840 Score: 187
Period size: 29 Copynumber: 13.4 Consensus size: 29
23235441 TTATTGACTA
* *
23235451 ATGAAAAGGGATAACTTCGATTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* ** *
23235480 ATG-AAAGCGGATTGCTTCGGTTATCAAAT
1 ATGAAAAG-GGATAGCTTCGACTATCGAAT
* * * *
23235509 ATGAAAAGTGATAGCGTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * * * *
23235538 AAGAAAAGAGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
*
23235567 ATGAAAAGGGATA--TTGACGACCATCGAAT
1 ATGAAAAGGGATAGCTT--CGACTATCGAAT
* *
23235596 ATGAACAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
*
23235625 ATGAAAAGGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAAT
* * * * * *
23235654 CTAAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* * *
23235683 ATGAAAAGAGAT-GGTGAT-GACCATCGAAT
1 ATGAAAAGGGATAGCT--TCGACTATCGAAT
*
23235712 ATGAAAAGGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAAT
* * * *
23235741 ATAAAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
* * * *
23235770 ATGAAAAGGGAT-GGTGACGACCATCGATT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* *
23235799 AATGAAAAGGGAT-GGTTCCGACCATCGAAT
1 -ATGAAAAGGGATAGCTT-CGACTATCGAAT
*
23235829 ATGAAACGGGAT
1 ATGAAAAGGGAT
23235841 GGTTACAACC
Statistics
Matches: 284, Mismatches: 54, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
28 14 0.05
29 231 0.81
30 37 0.13
31 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:23235661 original size:87 final size:85
Alignment explanation
Indices: 23235570--23235811 Score: 306
Period size: 87 Copynumber: 2.8 Consensus size: 85
23235560 ATCAACTATG
** * * *
23235570 AAAAGGGATATTGACGACCATCGAATATGAACAGGGATAGCT-TCGGCTATCGAATATGAAAAGG
1 AAAAGGGATGGTGACGACCATC-AATATGAAAAGGGAT-GCTAT-GACCATCGAATATGAAAAGG
*
23235634 GATAGCTTCAGCTATCGATTCTA
63 GATAGCTTCAGCTATCGATTATA
* *
23235657 AAAAGGGATGGTGACGACCATCAAATATGAAAAGAGATGGTGATGACCATCGAATATGAAAAGGG
1 AAAAGGGATGGTGACGACCATC-AATATGAAAAGGGATGCT-ATGACCATCGAATATGAAAAGGG
23235722 ATAGCTTCAGCTATCGATTATA
64 ATAGCTTCAGCTATCGATTATA
* * *
23235744 AAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGG
1 AAAAGGGATGGTGACGACCATCAA-TATGAAAAGGGATGCT-ATGACCATCGAAT-ATGAAAAGG
23235809 GAT
63 GAT
23235812 GGTTCCGACC
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
86 4 0.03
87 122 0.88
88 13 0.09
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (85 bp):
AAAAGGGATGGTGACGACCATCAATATGAAAAGGGATGCTATGACCATCGAATATGAAAAGGGAT
AGCTTCAGCTATCGATTATA
Found at i:23235661 original size:116 final size:115
Alignment explanation
Indices: 23235473--23235840 Score: 391
Period size: 116 Copynumber: 3.2 Consensus size: 115
23235463 AACTTCGATT
* * * * *
23235473 ATCGAATATGAAAGCGGATTGCTTCGGTTATCAAATATGAAAAGTGATAGCGTCGGCTATCGATT
1 ATCGAATATGAAAG-GGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCAGCTATCGATT
* * *
23235538 AAGAAAAGAGATGGTGACGACCATCAACTATGAAAAGGGATATTGACGACC
65 AAGAAAAGAGATGGTGACGACCATCAAATATGAAAAGAGATAGTGACGACC
*
23235589 ATCGAATATGAACAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAGCTATCGATT
1 ATCGAATATGAA-AGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCAGCTATCGATT
* * * *
23235654 CTA-AAAAGGGATGGTGACGACCATCAAATATGAAAAGAGATGGTGATGACC
65 -AAGAAAAGAGATGGTGACGACCATCAAATATGAAAAGAGATAGTGACGACC
* * * * * *
23235705 ATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATAAAAAGGGAT-G-GTGACGACCATCAA
1 ATCGAATATG-AAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCA-G-CTATCGA
* * * * * * * **
23235768 CTATGAAAAGGGATGGTGACGACCATCGATTAATGAAAAGGGATGGTTCCGACC
63 TTAAGAAAAGAGATGGTGACGACCATCAAAT-ATGAAAAGAGATAGTGACGACC
23235822 ATCGAATATGAAACGGGAT
1 ATCGAATATGAAA-GGGAT
23235841 GGTTACAACC
Statistics
Matches: 215, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
114 2 0.01
115 2 0.01
116 173 0.80
117 38 0.18
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (115 bp):
ATCGAATATGAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCGTCAGCTATCGATTA
AGAAAAGAGATGGTGACGACCATCAAATATGAAAAGAGATAGTGACGACC
Found at i:23235842 original size:29 final size:29
Alignment explanation
Indices: 23235531--23235853 Score: 248
Period size: 29 Copynumber: 11.1 Consensus size: 29
23235521 AGCGTCGGCT
* * * *
23235531 ATCGATTAAGAAAAGAGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
*
23235560 ATC-AACTATGAAAAGGGAT-ATTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTT-ACGACC
* * * *
23235589 ATCGAATATGAACAGGGATAGCTT-CGGCT
1 ATCGAATATGAAAAGGGAT-GGTTACGACC
* *
23235618 ATCGAATATGAAAAGGGATAGCTT-C-AGCT
1 ATCGAATATGAAAAGGGAT-GGTTACGA-CC
* * * *
23235647 ATCGATTCTAAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
* * * *
23235676 ATCAAATATGAAAAGAGATGGTGATGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
* *
23235705 ATCGAATATGAAAAGGGATAGCTT-C-AGCT
1 ATCGAATATGAAAAGGGAT-GGTTACGA-CC
* * *
23235734 ATCGATTATAAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
*
23235763 ATC-AACTATGAAAAGGGATGGTGACGACC
1 ATCGAA-TATGAAAAGGGATGGTTACGACC
* *
23235792 ATCGATTAATGAAAAGGGATGGTTCCGACC
1 ATCGAAT-ATGAAAAGGGATGGTTACGACC
* *
23235822 ATCGAATATGAAACGGGATGGTTACAACC
1 ATCGAATATGAAAAGGGATGGTTACGACC
23235851 ATC
1 ATC
23235854 ATTTAGCACA
Statistics
Matches: 236, Mismatches: 43, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
28 8 0.03
29 193 0.82
30 33 0.14
31 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.21
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTACGACC
Found at i:23239251 original size:46 final size:46
Alignment explanation
Indices: 23239184--23239276 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
23239174 TATTTTTAAA
*
23239184 TTTCATACCTATCCTATGCCTTAGAACGTTACAAGCTGAAAAGTCC
1 TTTCATACCTATCCTAAGCCTTAGAACGTTACAAGCTGAAAAGTCC
*
23239230 TTTCATACCTATCCTAAGCCTTAGAACGTTGCAAGCTGAAAAGTCC
1 TTTCATACCTATCCTAAGCCTTAGAACGTTACAAGCTGAAAAGTCC
23239276 T
1 T
23239277 ATGTGACCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (46 bp):
TTTCATACCTATCCTAAGCCTTAGAACGTTACAAGCTGAAAAGTCC
Found at i:23243280 original size:37 final size:37
Alignment explanation
Indices: 23243230--23243308 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
23243220 TTATTACGAA
* *
23243230 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
23243267 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
23243304 GTCTT
1 GTCTT
23243309 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:23243505 original size:47 final size:47
Alignment explanation
Indices: 23243427--23243776 Score: 538
Period size: 47 Copynumber: 7.4 Consensus size: 47
23243417 CCCTTCGGGA
* * * * * * *
23243427 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23243474 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23243521 CTTACCACATATATACACTTTCACATTCATCAGATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
23243568 CTTATTACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23243615 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23243662 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23243711 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23243758 CTTATCACATATATACACT
1 CTTATCACATATATACACT
23243777 GTCTTGGCTG
Statistics
Matches: 279, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 233 0.84
49 46 0.16
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23243735 original size:143 final size:141
Alignment explanation
Indices: 23243427--23243776 Score: 547
Period size: 143 Copynumber: 2.5 Consensus size: 141
23243417 CCCTTCGGGA
* * * * * * * * * *
23243427 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
*
23243492 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCAGATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
23243557 GGCCATTAGGC
131 GGCCATTAGGC
* *
23243568 CTTATTACATATATACACTTTCACATTCATCACATCAGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
* *
23243633 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTA-C-CACATATATACACTTTCACATTCATCACA
23243698 TCGGCCATTAGGC
129 TCGGCCATTAGGC
23243711 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
23243776 T
66 T
23243777 GTCTTGGCTG
Statistics
Matches: 190, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
141 85 0.45
142 1 0.01
143 104 0.55
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:23250898 original size:30 final size:30
Alignment explanation
Indices: 23250864--23250929 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
23250854 AATAGGCATA
23250864 AGTGACCTAATTTG-TCAATAATAAAAGTTT
1 AGTGACCTAATTTGATCAA-AATAAAAGTTT
** * *
23250894 AGTGATTTAATTTGATGAAATTAAAAGTTT
1 AGTGACCTAATTTGATCAAAATAAAAGTTT
23250924 A-TGACC
1 AGTGACC
23250930 CATATGATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
29 3 0.10
30 23 0.79
31 3 0.10
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (30 bp):
AGTGACCTAATTTGATCAAAATAAAAGTTT
Found at i:23251388 original size:19 final size:19
Alignment explanation
Indices: 23251344--23251392 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
23251334 ATTAATTAAA
* *
23251344 ATTTAAAAAATTTAAAAGT
1 ATTTAAAAATTTTAAAAAT
*
23251363 -TGATAAAAATTTTAAAAAT
1 AT-TTAAAAATTTTAAAAAT
23251382 ATTTAAAAATT
1 ATTTAAAAATT
23251393 AAAAATGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 22 0.92
20 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
ATTTAAAAATTTTAAAAAT
Found at i:23251411 original size:22 final size:23
Alignment explanation
Indices: 23251379--23251421 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23251369 AAATTTTAAA
* *
23251379 AATATTTAAAAATTA-AAAATGT
1 AATATTAAAAAAATATAAAATGT
23251401 AATATTAAAAAAATATAAAAT
1 AATATTAAAAAAATATAAAAT
23251422 ATATATTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (23 bp):
AATATTAAAAAAATATAAAATGT
Found at i:23251427 original size:22 final size:22
Alignment explanation
Indices: 23251379--23251428 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
23251369 AAATTTTAAA
* * *
23251379 AATATTTAAAAATTAAAAATGT
1 AATATTAAAAAAATAAAAATAT
23251401 AATATTAAAAAAATATAAAATAT
1 AATATTAAAAAAATA-AAAATAT
23251424 -ATATT
1 AATATT
23251429 TCATTTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
AATATTAAAAAAATAAAAATAT
Found at i:23259633 original size:16 final size:16
Alignment explanation
Indices: 23259612--23259644 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23259602 ATATAAATAT
*
23259612 AATAATATTAATAAAA
1 AATAATATCAATAAAA
23259628 AATAATATCAATAAAA
1 AATAATATCAATAAAA
23259644 A
1 A
23259645 TATTAAAATT
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:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAATATCAATAAAA
Found at i:23259650 original size:28 final size:30
Alignment explanation
Indices: 23259593--23259650 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23259583 TATTCTAAAT
*
23259593 TAAAAACTAATATAAATATAATAATATTAA
1 TAAAAAATAATATAAATATAATAATATTAA
*
23259623 TAAAAAATAATATCAATA-AA-AATATTAA
1 TAAAAAATAATATAAATATAATAATATTAA
23259651 AATTTAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 8 0.31
29 2 0.08
30 16 0.62
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (30 bp):
TAAAAAATAATATAAATATAATAATATTAA
Found at i:23259651 original size:25 final size:25
Alignment explanation
Indices: 23259591--23259669 Score: 63
Period size: 30 Copynumber: 3.0 Consensus size: 25
23259581 TCTATTCTAA
* *
23259591 ATTAAAAACTAATATAAATATAATAAT
1 ATTAAAAAATAATATCAATA-AA-AAT
23259618 ATTAATAAAAAATAATATCAATAAAAAT
1 A-T--TAAAAAATAATATCAATAAAAAT
* *
23259646 ATT-AAAATTTA-ATCAATAAAAAT
1 ATTAAAAAATAATATCAATAAAAAT
23259669 A
1 A
23259670 AAATTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
23 13 0.29
24 6 0.13
25 1 0.02
27 2 0.04
28 5 0.11
29 2 0.04
30 16 0.36
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
ATTAAAAAATAATATCAATAAAAAT
Found at i:23260221 original size:9 final size:9
Alignment explanation
Indices: 23260207--23260273 Score: 84
Period size: 9 Copynumber: 7.4 Consensus size: 9
23260197 TTTGGTTAAA
23260207 AATTAACCG
1 AATTAACCG
23260216 AATTAACCG
1 AATTAACCG
23260225 AATT-ACTCG
1 AATTAAC-CG
23260234 AATTAACCG
1 AATTAACCG
23260243 AATT-ACTCG
1 AATTAAC-CG
* *
23260252 AATTACCCA
1 AATTAACCG
23260261 AATTAACCG
1 AATTAACCG
23260270 AATT
1 AATT
23260274 GAATCACTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
8 4 0.08
9 43 0.86
10 3 0.06
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:23260245 original size:27 final size:27
Alignment explanation
Indices: 23260206--23260273 Score: 102
Period size: 27 Copynumber: 2.5 Consensus size: 27
23260196 TTTTGGTTAA
*
23260206 AAATTAACCGAATTAAC-CGAATTACTC
1 AAATTAACCGAATT-ACTCGAATTACCC
*
23260233 GAATTAACCGAATTACTCGAATTACCC
1 AAATTAACCGAATTACTCGAATTACCC
23260260 AAATTAACCGAATT
1 AAATTAACCGAATT
23260274 GAATCACTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.26
Consensus pattern (27 bp):
AAATTAACCGAATTACTCGAATTACCC
Found at i:23260303 original size:17 final size:17
Alignment explanation
Indices: 23260281--23260341 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
23260271 ATTGAATCAC
23260281 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
23260298 TACATAAGTCTTTGAATCAC
1 TACATAA---TTAAAAACAT
23260318 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
23260335 TACATAA
1 TACATAA
23260342 GTCTTGAAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 20 0.61
20 13 0.39
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:23260313 original size:37 final size:37
Alignment explanation
Indices: 23260272--23260346 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
23260262 ATTAACCGAA
23260272 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
23260309 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
23260346 T
1 T
23260347 GAAATTAACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:23260360 original size:37 final size:37
Alignment explanation
Indices: 23260272--23260363 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
23260262 ATTAACCGAA
*
23260272 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
*
23260309 TTGAATCACTACATAATTAAAAACATTACATAAGTC-
1 TTGAATAACTACATAATTAAAAACATTACATAAGTCT
23260345 TTGAAATTAAC-ACATAATT
1 TTG-AA-TAACTACATAATT
23260364 GAAATGTAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 3 0.06
37 46 0.88
38 3 0.06
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATAACTACATAATTAAAAACATTACATAAGTCT
Found at i:23260535 original size:8 final size:8
Alignment explanation
Indices: 23260522--23260551 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
23260512 TTGGGTTGGG
23260522 TTGGGTAA
1 TTGGGTAA
23260530 TTGGGTAA
1 TTGGGTAA
23260538 TTGGGTAA
1 TTGGGTAA
23260546 TTGGGT
1 TTGGGT
23260552 TGGGTTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.40, T:0.40
Consensus pattern (8 bp):
TTGGGTAA
Found at i:23268742 original size:25 final size:26
Alignment explanation
Indices: 23268713--23268763 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
23268703 TTTCTCATCC
*
23268713 CAATTTTACTCCAA-TAAAATTTTGA
1 CAATTTTACCCCAAGTAAAATTTTGA
23268738 CAATTTTACCCCAAGTAAAATTTTGA
1 CAATTTTACCCCAAGTAAAATTTTGA
23268764 GAAAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.54
26 11 0.46
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (26 bp):
CAATTTTACCCCAAGTAAAATTTTGA
Found at i:23270541 original size:40 final size:38
Alignment explanation
Indices: 23270488--23270626 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 38
23270478 TAAGGTTTCT
23270488 CTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGC
1 CTTCGGGACTTAGCCCGGATACATCACTAGCAC-AATGC
** *
23270527 TCTTCGGGACTTAGCCCGGATTTAGTAACTCA-CACCAATGC
1 -CTTCGGGACTTAGCCCGGATACA-TCACT-AGCA-CAATGC
* ** *
23270568 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACAATGC
23270608 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
23270627 CATCATTCGA
Statistics
Matches: 81, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
39 3 0.04
40 59 0.73
41 17 0.21
42 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (38 bp):
CTTCGGGACTTAGCCCGGATACATCACTAGCACAATGC
Found at i:23272615 original size:47 final size:47
Alignment explanation
Indices: 23272545--23272697 Score: 270
Period size: 47 Copynumber: 3.3 Consensus size: 47
23272535 NNNNNNNNNN
* * *
23272545 ATATATACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACGT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
*
23272592 ATATACACTTTCACATTCTTCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
23272639 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
1 ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
23272686 ATATACACTTTC
1 ATATACACTTTC
23272698 TTGGCTGAAT
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
ATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT
Found at i:23274663 original size:114 final size:114
Alignment explanation
Indices: 23274487--23274713 Score: 436
Period size: 114 Copynumber: 2.0 Consensus size: 114
23274477 ATATACCATG
*
23274487 CATTATTCAGCCCTCTAAATTCTTCCTATCACATTTTTTTTTTTTTTAAAATTCGGCACCTCCCT
1 CATTATTCAGCCCTCTAAATTCTTCCTATCACATTTTTTTTTTTTTAAAAATTCGGCACCTCCCT
23274552 CTAAACATACACTAATCTCAACCTTCAAGTTAACAACAATTTATCACTA
66 CTAAACATACACTAATCTCAACCTTCAAGTTAACAACAATTTATCACTA
23274601 CATTATTCAGCCCTCTAAATTCTTCCTATCACATTTTTTTTTTTTTAAAAATTCGGCACCTCCCT
1 CATTATTCAGCCCTCTAAATTCTTCCTATCACATTTTTTTTTTTTTAAAAATTCGGCACCTCCCT
*
23274666 CTAAACATATACTAATCTCAACCTTCAAGTTAACAACAATTTATCACT
66 CTAAACATACACTAATCTCAACCTTCAAGTTAACAACAATTTATCACT
23274714 CTTCATATCC
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.39
Consensus pattern (114 bp):
CATTATTCAGCCCTCTAAATTCTTCCTATCACATTTTTTTTTTTTTAAAAATTCGGCACCTCCCT
CTAAACATACACTAATCTCAACCTTCAAGTTAACAACAATTTATCACTA
Found at i:23275433 original size:7 final size:7
Alignment explanation
Indices: 23275419--23275484 Score: 96
Period size: 7 Copynumber: 9.4 Consensus size: 7
23275409 AATGATATGC
23275419 CCCTAAA
1 CCCTAAA
*
23275426 CGCTAAA
1 CCCTAAA
23275433 CCCTAAA
1 CCCTAAA
23275440 CCCTAAA
1 CCCTAAA
* *
23275447 ACGTAAA
1 CCCTAAA
23275454 CCCTAAA
1 CCCTAAA
*
23275461 TCCTAAA
1 CCCTAAA
23275468 CCCTAAA
1 CCCTAAA
23275475 CCCTAAA
1 CCCTAAA
23275482 CCC
1 CCC
23275485 ATGATAATGG
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 51 1.00
ACGTcount: A:0.42, C:0.39, G:0.03, T:0.15
Consensus pattern (7 bp):
CCCTAAA
Found at i:23278911 original size:27 final size:28
Alignment explanation
Indices: 23278853--23278965 Score: 144
Period size: 27 Copynumber: 4.1 Consensus size: 28
23278843 AGGAAGCGTC
* * *
23278853 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACATATTATCTGTT
23278881 CTGGTGGCTCTGCCACATA-TATCTGTT
1 CTGGTGGCTCTGCCACATATTATCTGTT
23278908 CTGGTGGCTCTGCCACA-ATTATCTGTAT
1 CTGGTGGCTCTGCCACATATTATCTGT-T
* *
23278936 CTGGTGACTCTGTCAC--ATTATCTGTT
1 CTGGTGGCTCTGCCACATATTATCTGTT
23278962 CTGG
1 CTGG
23278966 CAGCCATGTT
Statistics
Matches: 78, Mismatches: 5, Indels: 6
0.88 0.06 0.07
Matches are distributed among these distances:
26 6 0.08
27 40 0.51
28 32 0.41
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACATATTATCTGTT
Found at i:23278938 original size:55 final size:54
Alignment explanation
Indices: 23278853--23278965 Score: 174
Period size: 55 Copynumber: 2.1 Consensus size: 54
23278843 AGGAAGCGTC
*
23278853 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* *
23278908 CTGGTGGCTCTGCCAC-AATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
23278962 CTGG
1 CTGG
23278966 CAGCCATGTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
54 21 0.39
55 33 0.61
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:23289874 original size:92 final size:92
Alignment explanation
Indices: 23289717--23289901 Score: 352
Period size: 92 Copynumber: 2.0 Consensus size: 92
23289707 TGATAATCGA
*
23289717 TGATTTACTCGTAATCTTTAATTAGTTCTAACCATCTCCACTGTCTTAGATTCAATTCTTTTTGA
1 TGATTTACTCGTAATCTTTAATTAGTTCTAACCATCTCCACTGTCTCAGATTCAATTCTTTTTGA
23289782 GTTATCAAATACTTCAAACTCTTATGG
66 GTTATCAAATACTTCAAACTCTTATGG
*
23289809 TGATTTACTTGTAATCTTTAATTAGTTCTAACCATCTCCACTGTCTCAGATTCAATTCTTTTTGA
1 TGATTTACTCGTAATCTTTAATTAGTTCTAACCATCTCCACTGTCTCAGATTCAATTCTTTTTGA
23289874 GTTATCAAATACTTCAAACTCTTATGG
66 GTTATCAAATACTTCAAACTCTTATGG
23289901 T
1 T
23289902 CTGTGAATAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (92 bp):
TGATTTACTCGTAATCTTTAATTAGTTCTAACCATCTCCACTGTCTCAGATTCAATTCTTTTTGA
GTTATCAAATACTTCAAACTCTTATGG
Found at i:23294778 original size:40 final size:40
Alignment explanation
Indices: 23294695--23295077 Score: 538
Period size: 40 Copynumber: 9.6 Consensus size: 40
23294685 TTGAATGCTG
* * * * * *
23294695 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
23294735 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
23294775 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23294815 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23294855 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
23294895 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23294935 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
23294975 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23295015 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
23295054 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23295078 TGAACGAGGA
Statistics
Matches: 319, Mismatches: 21, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.11
40 276 0.87
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:23297178 original size:22 final size:21
Alignment explanation
Indices: 23297148--23297194 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
23297138 TTTAAAATTT
*
23297148 ATATATTTTAGAATTTTATAAAAA
1 ATAT-TTTTA-AACTTT-TAAAAA
23297172 ATATTTTTAAACTTTTAAAAA
1 ATATTTTTAAACTTTTAAAAA
23297193 AT
1 AT
23297195 TTTCAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 5 0.23
23 5 0.23
24 4 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTTTTAAACTTTTAAAAA
Found at i:23297187 original size:23 final size:23
Alignment explanation
Indices: 23297148--23297193 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23297138 TTTAAAATTT
23297148 ATATATTTTAGAATTTTATAAAAA
1 ATATATTTTAGAATTTTA-AAAAA
23297172 ATAT-TTTTA-AACTTTTAAAAAA
1 ATATATTTTAGAA-TTTTAAAAAA
23297194 TTTTCAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.33
23 10 0.48
24 4 0.19
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATATTTTAGAATTTTAAAAAA
Found at i:23300033 original size:28 final size:28
Alignment explanation
Indices: 23299948--23300037 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
23299938 GTGACAGAGT
* *
23299948 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTTGCA-TAGC
* *
23299977 CACCAGAACTGAT-ATATGTTGCA-AGGC
1 CACCAGAACAGATAATTTGTTGCATA-GC
23300004 CACCAGAACAGATAATTTGTTGCATAGC
1 CACCAGAACAGATAATTTGTTGCATAGC
23300032 CACCAG
1 CACCAG
23300038 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
27 21 0.41
28 22 0.43
29 8 0.16
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTTGCATAGC
Found at i:23300190 original size:28 final size:28
Alignment explanation
Indices: 23300143--23300234 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
23300133 AAATTAACCC
* *
23300143 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
23300171 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
* **
23300199 TAGGGATATAATGGTAATTTTATATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
23300227 TAGGGGTA
1 TAGGGGTA
23300235 CTCTAGTACA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:23305397 original size:52 final size:52
Alignment explanation
Indices: 23305319--23305421 Score: 188
Period size: 52 Copynumber: 2.0 Consensus size: 52
23305309 ATACTCCGTA
* *
23305319 GCAACTATTCCCACAGCATACCTACTCATCCTCAGAAATTTAGCCTCGTACC
1 GCAACTATTCCCACAGCATACCTACTCAGCCTCAGAAATTCAGCCTCGTACC
23305371 GCAACTATTCCCACAGCATACCTACTCAGCCTCAGAAATTCAGCCTCGTAC
1 GCAACTATTCCCACAGCATACCTACTCAGCCTCAGAAATTCAGCCTCGTAC
23305422 TCAGCAACAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.29, C:0.37, G:0.11, T:0.23
Consensus pattern (52 bp):
GCAACTATTCCCACAGCATACCTACTCAGCCTCAGAAATTCAGCCTCGTACC
Found at i:23306848 original size:19 final size:19
Alignment explanation
Indices: 23306812--23306850 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
23306802 TTTTCATCAT
* *
23306812 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
23306831 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
23306850 A
1 A
23306851 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:23307362 original size:28 final size:28
Alignment explanation
Indices: 23307314--23307379 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 28
23307304 GTGACAGAGT
*
23307314 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
23307343 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
23307371 CACCAGAAC
1 CACCAGAAC
23307380 GCTTCCTCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 1 0.03
28 27 0.77
29 7 0.20
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:23307529 original size:28 final size:28
Alignment explanation
Indices: 23307482--23307546 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
23307472 AAATTAACCC
*
23307482 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
23307510 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
23307538 TAGGGGTAT
1 TAGGGGTAT
23307547 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:23314193 original size:22 final size:24
Alignment explanation
Indices: 23314135--23314194 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 24
23314125 AATTTATTTC
*
23314135 ATAATAAT-ATAAT-ATCAATTAA
1 ATAATTATAATAATAATCAATTAA
*
23314157 ATAA-TATAAACAATAAT-AATT-A
1 ATAATTAT-AATAATAATCAATTAA
23314179 ATAATTATAATAATAA
1 ATAATTATAATAATAA
23314195 ATATCTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 2 0.06
22 16 0.52
23 11 0.35
24 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATTATAATAATAATCAATTAA
Found at i:23317544 original size:13 final size:13
Alignment explanation
Indices: 23317526--23317550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23317516 TTGATAGCGG
23317526 AAAACAAGAAAAC
1 AAAACAAGAAAAC
23317539 AAAACAAGAAAA
1 AAAACAAGAAAA
23317551 GTTTTGGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAACAAGAAAAC
Found at i:23317579 original size:6 final size:6
Alignment explanation
Indices: 23317570--23317606 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
23317560 AAGAGAAAGA
*
23317570 AAAATT AAAATT AAAATT AAAATT -AAATC AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
23317607 TAATAATCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:23317602 original size:11 final size:11
Alignment explanation
Indices: 23317571--23317606 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
23317561 AGAGAAAGAA
23317571 AAATTAAAATT
1 AAATTAAAATT
23317582 AAAATTAAAATT
1 -AAATTAAAATT
*
23317594 AAATCAAAATT
1 AAATTAAAATT
23317605 AA
1 AA
23317607 TAATAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:23326273 original size:16 final size:16
Alignment explanation
Indices: 23326254--23326292 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
23326244 TCATATTAGG
23326254 ACTTAAATATTAGTAT
1 ACTTAAATATTAGTAT
23326270 ACTTAAATATTAGTAT
1 ACTTAAATATTAGTAT
*
23326286 ATTTAAA
1 ACTTAAA
23326293 GGCAGAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (16 bp):
ACTTAAATATTAGTAT
Found at i:23327995 original size:39 final size:40
Alignment explanation
Indices: 23327951--23328043 Score: 109
Period size: 39 Copynumber: 2.4 Consensus size: 40
23327941 CCTTCGGAGT
* * * *
23327951 TTAG-CCGGATATAGCCACTAGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCAGGAC
* * *
23327990 TTAGCCCGG-TTTAATAACTCGCACAAATGCCTTCAGGAC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCAGGAC
23328029 TTAGCCCGGATATAA
1 TTAGCCCGGATATAA
23328044 TAGCTCGCAA
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 36 0.82
40 8 0.18
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCAGGAC
Found at i:23328079 original size:53 final size:53
Alignment explanation
Indices: 23328001--23328105 Score: 210
Period size: 53 Copynumber: 2.0 Consensus size: 53
23327991 TAGCCCGGTT
23328001 TAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCAA
1 TAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCAA
23328054 TAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCA
1 TAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCA
23328106 CAAACGCCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (53 bp):
TAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCAA
Found at i:23328108 original size:40 final size:40
Alignment explanation
Indices: 23328053--23328171 Score: 193
Period size: 40 Copynumber: 3.0 Consensus size: 40
23328043 ATAGCTCGCA
* *
23328053 ATAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGAT
1 ATAATAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
*
23328093 ATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGGAT
1 ATAATAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
* *
23328133 ATAGTAGCTCGCACGAATGCCTTCGGGACTTAGCCCGGA
1 ATAATAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGA
23328172 ATTAGCCACT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
ATAATAGCTCGCACAAATGCCTTCGGGACTTAGCCCGGAT
Found at i:23328132 original size:93 final size:92
Alignment explanation
Indices: 23327974--23328145 Score: 281
Period size: 93 Copynumber: 1.9 Consensus size: 92
23327964 GCCACTAGCT
* * *
23327974 CAAATGCCTTCGGGACTTAGCCCGGTTTAATAACTCGCACAAATGCCTTCAGGACTTAGCCCGGA
1 CAAATGCCTTCAGGACTTAGCCCGGTATAATAACTCGCACAAACGCCTTCAGGACTTAGCCCGGA
23328039 TATAATAGCTCGCAATAATAACTCGCA
66 TATAATAGCTCGCAATAATAACTCGCA
* *
23328066 CAAATGCCTTCAGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCAGGACTTAGCCCGG-TATAATAACTCGCACAAACGCCTTCAGGACTTAGCCCGG
*
23328131 ATATAGTAGCTCGCA
65 ATATAATAGCTCGCA
23328146 CGAATGCCTT
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 24 0.33
93 49 0.67
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (92 bp):
CAAATGCCTTCAGGACTTAGCCCGGTATAATAACTCGCACAAACGCCTTCAGGACTTAGCCCGGA
TATAATAGCTCGCAATAATAACTCGCA
Found at i:23328192 original size:40 final size:39
Alignment explanation
Indices: 23328059--23328210 Score: 168
Period size: 40 Copynumber: 3.8 Consensus size: 39
23328049 CGCAATAATA
*
23328059 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAATAG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-AT-ATAG
*
23328100 -CTCGCACAAACGCCTTCGGGACTTAGCCCGG-ATATAG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
*
23328137 TAGCTCGCACGAATGCCTTCGGGACTTAGCCCGGAAT-TAG
1 -A-CTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
* *
23328177 CCACTAGCTCAAATG-CTCTCGGGACTTAGCCCGG
1 --ACTCGCACAAATGCCT-TCGGGACTTAGCCCGG
23328211 TTATCATCCG
Statistics
Matches: 97, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 2 0.02
40 86 0.89
41 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
Found at i:23335464 original size:21 final size:23
Alignment explanation
Indices: 23335440--23335482 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
23335430 GGTCTCCTCC
23335440 TAGGACACA-TTAA-ACAAACAT
1 TAGGACACATTTAACACAAACAT
23335461 TAGGACACATTTAACACAAACA
1 TAGGACACATTTAACACAAACA
23335483 CAAAGCTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.51, C:0.21, G:0.09, T:0.19
Consensus pattern (23 bp):
TAGGACACATTTAACACAAACAT
Found at i:23344714 original size:40 final size:40
Alignment explanation
Indices: 23344637--23344774 Score: 181
Period size: 40 Copynumber: 3.5 Consensus size: 40
23344627 AAACCAAGTA
* * *
23344637 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
23344676 CCTTCGGGATTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
23344716 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
23344756 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
23344775 TTATCATCCG
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 14 0.16
40 73 0.84
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:23345077 original size:178 final size:178
Alignment explanation
Indices: 23344778--23345135 Score: 716
Period size: 178 Copynumber: 2.0 Consensus size: 178
23344768 AGCCCGGTTA
23344778 TCATCCGAATATTCATGCACATATCAATAAATCATCACACATCTATATTTCATTTTCATAACTAG
1 TCATCCGAATATTCATGCACATATCAATAAATCATCACACATCTATATTTCATTTTCATAACTAG
23344843 AATTCAAACACAAGTCACTTATCAAACATTATCATTTTTGGCTCAATAGCTACATACAAAGAGCA
66 AATTCAAACACAAGTCACTTATCAAACATTATCATTTTTGGCTCAATAGCTACATACAAAGAGCA
23344908 TGATTTTGATTTGCTTATAACATGATCTAATCGAATCATAATCTAAGT
131 TGATTTTGATTTGCTTATAACATGATCTAATCGAATCATAATCTAAGT
23344956 TCATCCGAATATTCATGCACATATCAATAAATCATCACACATCTATATTTCATTTTCATAACTAG
1 TCATCCGAATATTCATGCACATATCAATAAATCATCACACATCTATATTTCATTTTCATAACTAG
23345021 AATTCAAACACAAGTCACTTATCAAACATTATCATTTTTGGCTCAATAGCTACATACAAAGAGCA
66 AATTCAAACACAAGTCACTTATCAAACATTATCATTTTTGGCTCAATAGCTACATACAAAGAGCA
23345086 TGATTTTGATTTGCTTATAACATGATCTAATCGAATCATAATCTAAGT
131 TGATTTTGATTTGCTTATAACATGATCTAATCGAATCATAATCTAAGT
23345134 TC
1 TC
23345136 CATTACTTGA
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 180 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (178 bp):
TCATCCGAATATTCATGCACATATCAATAAATCATCACACATCTATATTTCATTTTCATAACTAG
AATTCAAACACAAGTCACTTATCAAACATTATCATTTTTGGCTCAATAGCTACATACAAAGAGCA
TGATTTTGATTTGCTTATAACATGATCTAATCGAATCATAATCTAAGT
Found at i:23355953 original size:20 final size:20
Alignment explanation
Indices: 23355930--23355977 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23355920 AGCTCCGTCT
23355930 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** **
23355950 AGCTCGTTTCAGCTTGTTTG
1 AGCTCAACTCAGCTCATTTG
23355970 AGCTCAAC
1 AGCTCAAC
23355978 CGAGCTTACT
Statistics
Matches: 20, Mismatches: 8, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:23363678 original size:10 final size:10
Alignment explanation
Indices: 23363665--23363694 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
23363655 GCTTGGGTTG
23363665 GAAAGAAATT
1 GAAAGAAATT
23363675 GAAAGAAATT
1 GAAAGAAATT
23363685 GAAAGAAATT
1 GAAAGAAATT
23363695 CATTTTACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
GAAAGAAATT
Done.