Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 79 of 255
Found at i:23780845 original size:40 final size:40
Alignment explanation
Indices: 23780790--23780870 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
23780780 GTAAAGACAT
* * *
23780790 AACCTATAAGAGATCTCCTTCTATCTAGGTTTCCAGCAAA
1 AACCTATAAGAGATCTCATTCTATCTACGTCTCCAGCAAA
23780830 AACCTATAAGAGATCTCATTCTATCTACGTCTCCAGCAAA
1 AACCTATAAGAGATCTCATTCTATCTACGTCTCCAGCAAA
23780870 A
1 A
23780871 TCATCATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (40 bp):
AACCTATAAGAGATCTCATTCTATCTACGTCTCCAGCAAA
Found at i:23785722 original size:31 final size:31
Alignment explanation
Indices: 23785684--23785747 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
23785674 GTATCGTCGG
*
23785684 GATTACCAGTCCAGGCTAAATCCCTTGCAAC
1 GATTACCAATCCAGGCTAAATCCCTTGCAAC
23785715 GATTACCAATCCAGGCTAAATCCCTTGCAAC
1 GATTACCAATCCAGGCTAAATCCCTTGCAAC
23785746 GA
1 GA
23785748 CATATATTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (31 bp):
GATTACCAATCCAGGCTAAATCCCTTGCAAC
Found at i:23788264 original size:23 final size:23
Alignment explanation
Indices: 23788236--23788318 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 23
23788226 TTTTAATAGT
23788236 AATTATATTA-AAAATATTATTA
1 AATTATATTATAAAATATTATTA
**
23788258 ATATTATATTATATTATATTATTA
1 A-ATTATATTATAAAATATTATTA
23788282 AATTATATT-TAATAATAATTATATTA
1 AATTATATTATAA-AAT-A-T-TATTA
23788308 AATTATGATTA
1 AATTAT-ATTA
23788319 AATTATTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
22 3 0.06
23 19 0.39
24 12 0.24
25 1 0.02
26 11 0.22
27 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (23 bp):
AATTATATTATAAAATATTATTA
Found at i:23788268 original size:5 final size:5
Alignment explanation
Indices: 23788249--23788328 Score: 53
Period size: 5 Copynumber: 16.4 Consensus size: 5
23788239 TATATTAAAA
* * *
23788249 ATATT AT-TA ATATT ATATT ATATT ATA-T -TATT AAATT ATATT -TAATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT-ATT
* *
23788296 ATAATT ATATT AAATT ATGATT AAATT AT-TT AT
1 AT-ATT ATATT ATATT AT-ATT ATATT ATATT AT
23788329 TTTTATTTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
3 2 0.03
4 10 0.17
5 37 0.63
6 10 0.17
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:23788318 original size:16 final size:16
Alignment explanation
Indices: 23788235--23788323 Score: 69
Period size: 16 Copynumber: 5.7 Consensus size: 16
23788225 ATTTTAATAG
*
23788235 TAATTATATTAAAAATA
1 TAATTATATT-AAATTA
* *
23788252 TTATTAATATTATATTA
1 TAATT-ATATTAAATTA
23788269 T-ATTATATT--ATTA
1 TAATTATATTAAATTA
* *
23788282 -AATTATATTTAATAA
1 TAATTATATTAAATTA
23788297 TAATTATATTAAATTA
1 TAATTATATTAAATTA
* *
23788313 TGATTAAATTA
1 TAATTATATTA
23788324 TTTATTTTTA
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 12 0.20
15 8 0.14
16 25 0.42
17 9 0.15
18 5 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
TAATTATATTAAATTA
Found at i:23788320 original size:11 final size:10
Alignment explanation
Indices: 23788236--23788324 Score: 61
Period size: 10 Copynumber: 9.6 Consensus size: 10
23788226 TTTTAATAGT
23788236 AATTATATTA
1 AATTATATTA
*
23788246 AA-AATATT-
1 AATTATATTA
23788254 -ATTAATATTA
1 AATT-ATATTA
*
23788264 TATTATATTA
1 AATTATATTA
*
23788274 TA-T-TATTA
1 AATTATATTA
*
23788282 AATTATATTT
1 AATTATATTA
23788292 AA-TA-A-T-
1 AATTATATTA
23788298 AATTATATTA
1 AATTATATTA
23788308 AATTATGATTA
1 AATTAT-ATTA
23788319 AATTAT
1 AATTAT
23788325 TTATTTTTAT
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
6 2 0.03
7 4 0.06
8 8 0.12
9 15 0.23
10 22 0.34
11 13 0.20
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (10 bp):
AATTATATTA
Found at i:23788358 original size:60 final size:61
Alignment explanation
Indices: 23788192--23788371 Score: 206
Period size: 60 Copynumber: 2.9 Consensus size: 61
23788182 ATTAATTTTC
* * *
23788192 TAATATTATATATTTTTATTTTTATTAATTCATATTTTAATAGTAATTATATTAAAAATATTAT
1 TAATATTATTTATTTTTATTTTTATTAATT--TATTTTAATAATAATTATATT-AAAATATGAT
* * * *
23788256 TAATATTATATTA-TATTA-TATTATTAAATTATATTTAATAATAATTATATTAAATTATGAT
1 TAATATTAT-TTATTTTTATTTTTATTAATTTAT-TTTAATAATAATTATATTAAAATATGAT
*
23788317 TAA-ATTATTTATTTTTATTTTTCTTAATTTATTTTAATAATAATTCA-ATTAAAAT
1 TAATATTATTTATTTTTATTTTTATTAATTTATTTTAATAATAATT-ATATTAAAAT
23788372 TTAATAACAA
Statistics
Matches: 99, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
59 3 0.03
60 29 0.29
61 26 0.26
62 17 0.17
63 9 0.09
64 13 0.13
65 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.56
Consensus pattern (61 bp):
TAATATTATTTATTTTTATTTTTATTAATTTATTTTAATAATAATTATATTAAAATATGAT
Found at i:23790552 original size:38 final size:38
Alignment explanation
Indices: 23790501--23790578 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
23790491 ATGGTAACCA
23790501 CCTGAAATTTTGAGAAAAGAGAATGAAATAATTCCAAG
1 CCTGAAATTTTGAGAAAAGAGAATGAAATAATTCCAAG
23790539 CCTGAAATTTTGAGAAAAGAGAATGAAATAATTCCAAG
1 CCTGAAATTTTGAGAAAAGAGAATGAAATAATTCCAAG
23790577 CC
1 CC
23790579 AGACTCGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (38 bp):
CCTGAAATTTTGAGAAAAGAGAATGAAATAATTCCAAG
Found at i:23794978 original size:51 final size:52
Alignment explanation
Indices: 23794902--23795024 Score: 178
Period size: 51 Copynumber: 2.4 Consensus size: 52
23794892 TCCCAAACTT
* * *
23794902 ACTTCATACTTCATCTGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCTGGATATTATTACTTTATTGTTCTAGCTTCAACAAGA
* *
23794953 ACTTCATATTTCATCCGGATA-TATTACTTTATTGTTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCTGGATATTATTACTTTATTGTTCTAGCTTCAACAAGA
*
23795004 GCTTCATATTTCATCTGGATA
1 ACTTCATATTTCATCTGGATA
23795025 ACTTAGTTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (52 bp):
ACTTCATATTTCATCTGGATATTATTACTTTATTGTTCTAGCTTCAACAAGA
Found at i:23795919 original size:16 final size:16
Alignment explanation
Indices: 23795881--23795930 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
23795871 TCTATAATTC
*
23795881 ATATTATAATTTAAATA
1 ATATAATAA-TTAAATA
* *
23795898 AAATAATAATTATATA
1 ATATAATAATTAAATA
*
23795914 ATATAATAATTTAATA
1 ATATAATAATTAAATA
23795930 A
1 A
23795931 AGTAAGAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAATAATTAAATA
Found at i:23800343 original size:38 final size:38
Alignment explanation
Indices: 23800292--23800531 Score: 345
Period size: 38 Copynumber: 6.3 Consensus size: 38
23800282 ATATTCGATG
*
23800292 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
23800330 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
23800368 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
* ** *
23800408 AATATCCGGGTTAAATCCTACAGGCTTCGTGCTAGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
23800446 TATATTCGGGTTAAATCCCGCAGGCTTCATGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * *
23800484 TATATCCGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
23800522 TATATTCGGG
1 TATATCCGGG
23800532 CCTTCATGCC
Statistics
Matches: 179, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
38 139 0.78
39 10 0.06
40 30 0.17
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:23800987 original size:45 final size:42
Alignment explanation
Indices: 23800918--23801027 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 42
23800908 TGTTGACTTG
* * *
23800918 ACTATTCCGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGA
1 ACTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA
**
23800962 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 -ACTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
23801005 ACTGATATCGGGCC-TCGAGCCTA
1 ACT-AT-TCGGGCCTTCGAGCCTA
23801028 ACAGGCAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.22
44 7 0.12
45 35 0.60
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (42 bp):
ACTATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGA
Found at i:23803112 original size:42 final size:42
Alignment explanation
Indices: 23803049--23803201 Score: 155
Period size: 42 Copynumber: 3.6 Consensus size: 42
23803039 TTATGTGTTA
* * * *
23803049 TCGTGTAAGACCATATCTGGGATATGGCGTTGATATGAGATT
1 TCGTGTAAGACCATATTTGGGACATGGCATCGATATGAGATT
* *
23803091 TTGTGTAAGACCA-AGTTTGGGACATGGCATCGAAATGAGATT
1 TCGTGTAAGACCATA-TTTGGGACATGGCATCGATATGAGATT
* * * * * *
23803133 TCGTATAAGACTATATATGGGATATGGCATCGATGTGAGATC
1 TCGTGTAAGACCATATTTGGGACATGGCATCGATATGAGATT
* * *
23803175 CCATGTAAGACCATGTTTGGGACATGG
1 TCGTGTAAGACCATATTTGGGACATGG
23803202 AATTGGCATC
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
41 1 0.01
42 86 0.98
43 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCATATTTGGGACATGGCATCGATATGAGATT
Found at i:23807794 original size:20 final size:19
Alignment explanation
Indices: 23807771--23807810 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
23807761 CTAAACTGAT
*
23807771 AACTCAGGAAATTTTTACAA
1 AACTCAGAAAATTTTT-CAA
*
23807791 AACTTAGAAAATTTTTCAA
1 AACTCAGAAAATTTTTCAA
23807810 A
1 A
23807811 CTACAGGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.33
Consensus pattern (19 bp):
AACTCAGAAAATTTTTCAA
Found at i:23810780 original size:9 final size:8
Alignment explanation
Indices: 23810759--23810793 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
23810749 CGTACAATCA
23810759 AAAACATTT
1 AAAA-ATTT
23810768 AAAAATTT
1 AAAAATTT
23810776 AAAAATTT
1 AAAAATTT
*
23810784 AAAAAATT
1 AAAAATTT
23810792 AA
1 AA
23810794 TCACATCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (8 bp):
AAAAATTT
Found at i:23813899 original size:39 final size:39
Alignment explanation
Indices: 23813845--23813937 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
23813835 GTGTTTGAGA
*
23813845 TAGAAAAATATCCGGACATGAGATCCGCAGGCTATATGC
1 TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
* * *
23813884 TAGAAATATATCCGGACTTGAGGTCCGCAGGCTACATGC
1 TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
*
23813923 TGGAAAAATATCCGG
1 TAGAAAAATATCCGG
23813938 GTTAAAGACC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (39 bp):
TAGAAAAATATCCGGACATGAGATCCGCAGGCTACATGC
Found at i:23818781 original size:42 final size:42
Alignment explanation
Indices: 23818734--23818818 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
23818724 GTTTAAGTAC
23818734 ATACATCGTACTATATCACAACCCAATTAGGCTCATAAGCCT
1 ATACATCGTACTATATCACAACCCAATTAGGCTCATAAGCCT
*
23818776 ATACATCGTACTATATCACTACCCAATTAGGCTCATAAGCCT
1 ATACATCGTACTATATCACAACCCAATTAGGCTCATAAGCCT
23818818 A
1 A
23818819 ACACATGATC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.27
Consensus pattern (42 bp):
ATACATCGTACTATATCACAACCCAATTAGGCTCATAAGCCT
Found at i:23821901 original size:29 final size:29
Alignment explanation
Indices: 23821859--23821929 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
23821849 CATGAAGGCG
*
23821859 AATCATATTCATATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGCCCA
* *
23821888 AATCACATTTATATGGCCCGTTAGGCCC-
1 AATCACATTCATATGGCCCATTAGGCCCA
**
23821916 AGCCACATTCATAT
1 AATCACATTCATAT
23821930 TCATGCTCAC
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 11 0.31
29 25 0.69
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGCCCA
Found at i:23822166 original size:16 final size:16
Alignment explanation
Indices: 23822145--23822181 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
23822135 AAACTTTTAG
23822145 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
* *
23822161 CTTTTCGGTATTTTGA
1 CTTTTCGGCATTTCGA
23822177 CTTTT
1 CTTTT
23822182 TTGCATTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.19, G:0.16, T:0.54
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:23829563 original size:28 final size:29
Alignment explanation
Indices: 23829531--23829644 Score: 119
Period size: 28 Copynumber: 4.0 Consensus size: 29
23829521 TACCTGTATC
*
23829531 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
23829559 TGGCCCATTAGGCCCAAATCACCTAT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
23829588 T-GCCCATTAAACCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * *
23829616 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
23829644 T
1 T
23829645 TCATGCTCAC
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
27 1 0.01
28 49 0.69
29 20 0.28
30 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:23853890 original size:42 final size:42
Alignment explanation
Indices: 23853831--23853914 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
23853821 TGTCAAATTT
23853831 TCTCATTCACCACAATTACCAATATGTCACCTTCGTTTTAGG
1 TCTCATTCACCACAATTACCAATATGTCACCTTCGTTTTAGG
23853873 TCTCATTCACCACAATTACCAATATGTCACCTTCGTTTTAGG
1 TCTCATTCACCACAATTACCAATATGTCACCTTCGTTTTAGG
23853915 CATTCTTCTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.29, G:0.10, T:0.36
Consensus pattern (42 bp):
TCTCATTCACCACAATTACCAATATGTCACCTTCGTTTTAGG
Found at i:23859555 original size:40 final size:40
Alignment explanation
Indices: 23859358--23859541 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
23859348 CGAATGATGT
** * * *
23859358 CCGGGCTAAGTCCCGAAGGC-TTTGTGATAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-CGAGTTACTATAA
* *
23859398 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
23859438 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23859476 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
23859517 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23859542 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:23859563 original size:79 final size:79
Alignment explanation
Indices: 23859410--23859574 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
23859400 GGACTAAGAT
* **
23859410 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
23859475 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
23859489 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
23859552 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23859568 CCGAAGG
1 CCGAAGG
23859575 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:23861023 original size:25 final size:25
Alignment explanation
Indices: 23860988--23861108 Score: 170
Period size: 25 Copynumber: 4.8 Consensus size: 25
23860978 TAAGCTTGTT
* *
23860988 AATTTGTTCTTAATAATTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
23861013 AATTTGCTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
*
23861038 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* *
23861063 AATTTGCTCTTAATATTTCTGGTTA
1 AATTTGCTCTTAATAATTCCGGTTA
* * *
23861088 AATTTGCCCTTATTATTTCCG
1 AATTTGCTCTTAATAATTCCG
23861109 AATAAGTGAC
Statistics
Matches: 87, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 87 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCCGGTTA
Found at i:23861993 original size:45 final size:45
Alignment explanation
Indices: 23861927--23862103 Score: 266
Period size: 45 Copynumber: 4.0 Consensus size: 45
23861917 TATCGTACAG
* *
23861927 TACTATTCAGGCCTTTAAGCCTAGCAGGCTATAATGTCGGTGAGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
23861972 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGG
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
23862017 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
23862062 TACTATTCGGGCCTTCGAGCCTAGCAGGC-AAAATACCGGTGA
1 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
23862104 ATGAATTCAG
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 10 0.08
45 110 0.92
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (45 bp):
TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:23862082 original size:90 final size:89
Alignment explanation
Indices: 23861926--23862103 Score: 293
Period size: 90 Copynumber: 2.0 Consensus size: 89
23861916 ATATCGTACA
* * *
23861926 GTACTATTCAGGCCTTTAAGCCTAGCAGGCTATAATGTCGGTGAGATACTATTCGGGCCTTTGAG
1 GTACTATTCAGGCCTTTAAGCCTAGCAGGCTATAATGCCGATGAGATACTATTCGGGCCTTCGAG
* *
23861991 CCTAGCAGGCTATAATGCCGGTGAG
66 CCTAGCAGGC-AAAATACCGGTGAG
*
23862016 GTACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGATGAGATACTATTCGGGCCTTCGAG
1 GTACTATTCAGGCCTTTAAGCCTAGCAGGCTATAATGCCGATGAGATACTATTCGGGCCTTCGAG
23862081 CCTAGCAGGCAAAATACCGGTGA
66 CCTAGCAGGCAAAATACCGGTGA
23862104 ATGAATTCAG
Statistics
Matches: 82, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 11 0.13
90 71 0.87
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (89 bp):
GTACTATTCAGGCCTTTAAGCCTAGCAGGCTATAATGCCGATGAGATACTATTCGGGCCTTCGAG
CCTAGCAGGCAAAATACCGGTGAG
Found at i:23864293 original size:44 final size:44
Alignment explanation
Indices: 23864135--23864295 Score: 134
Period size: 44 Copynumber: 3.7 Consensus size: 44
23864125 AATATATACA
* * * *
23864135 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAACA-TCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAAACAAA-AGTTG
* * *
23864178 ATGTCGCTA--TCCCAGACAGGGTCTTACATGTAAAGCAAAAGTTG
1 ATG-C-CAACGTCCCAGACATGGTCTTACATGTAAAACAAAAGTTG
*
23864222 ATGCCAACGTCCCAGGCATGGTCTTACATGTAAAACAAAAGTCT-
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAAACAAAAGT-TG
* * ** *
23864266 ATGCCAATGTCCTAGATGTGGTGTTACATG
1 ATGCCAACGTCCCAGACATGGTCTTACATG
23864296 AAATCACATA
Statistics
Matches: 96, Mismatches: 15, Indels: 13
0.77 0.12 0.10
Matches are distributed among these distances:
42 2 0.02
43 25 0.26
44 66 0.69
45 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAAACAAAAGTTG
Found at i:23890667 original size:27 final size:26
Alignment explanation
Indices: 23890627--23890745 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 26
23890617 TGGATAAGTT
23890627 GTAGAATTACCGAAATACTCCTGTAGG
1 GTAGAATTACCGAAATAC-CCTGTAGG
* *
23890654 ATAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCC-TGTAGG
* *
23890681 GTAGAAATACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATA-CCCTGTAGG
* *
23890708 GTAGAATTACCGAGATACCCATGTGGG
1 GTAGAATTACCGAAATACCC-TGTAGG
*
23890735 GTATAATTACC
1 GTAGAATTACC
23890746 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.06
27 70 0.90
28 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTGTAGG
Found at i:23894818 original size:39 final size:40
Alignment explanation
Indices: 23894773--23894940 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
23894763 CGGGGTTTAG
* * *
23894773 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
23894812 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
23894852 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
23894892 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
23894933 CCGGATAT
1 CCGGATAT
23894941 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:23894923 original size:41 final size:40
Alignment explanation
Indices: 23894796--23894940 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
23894786 CTCGCACAAG
* * * * *
23894796 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
23894836 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
23894876 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
23894917 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
23894941 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:23913453 original size:40 final size:40
Alignment explanation
Indices: 23913398--23913706 Score: 519
Period size: 40 Copynumber: 7.7 Consensus size: 40
23913388 TGAGCATTGG
23913398 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23913438 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
*
23913478 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
23913518 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
23913558 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCGTGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
23913598 AATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGAT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* *
23913638 GATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTT
1 AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
* * *
23913678 GATATGTCCGGGTTAAGACCCGAAGGCAA
1 AATATATCCGGGCTAAGACCCGAAGGCAA
23913707 ATGTGTTTGC
Statistics
Matches: 253, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
AATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTT
Found at i:23922183 original size:40 final size:40
Alignment explanation
Indices: 23922129--23922396 Score: 473
Period size: 40 Copynumber: 6.7 Consensus size: 40
23922119 GAGCATTGGA
*
23922129 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
23922169 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
23922209 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
23922249 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
23922289 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
23922329 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
23922369 ATATGTCCGGGTTAAAACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
23922397 ATGTGTTTGC
Statistics
Matches: 221, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 221 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:23925708 original size:20 final size:20
Alignment explanation
Indices: 23925664--23925710 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23925654 AAAAATTGGG
* *
23925664 AAACATTCACGAAACTTTGG
1 AAACTTTCACGAAACTTTGA
*
23925684 AAACTTTCACTAAACTTTGA
1 AAACTTTCACGAAACTTTGA
23925704 AAACTTT
1 AAACTTT
23925711 TCTCAAAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (20 bp):
AAACTTTCACGAAACTTTGA
Found at i:23930355 original size:44 final size:44
Alignment explanation
Indices: 23930290--23930440 Score: 159
Period size: 43 Copynumber: 3.5 Consensus size: 44
23930280 GTTGACATTG
* *
23930290 ATCTGAGATATCGTGTAAGACCATGTCTGGGACACAGGCCTCA-
1 ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCAT
* * * *
23930333 ATTTGAGATTTACGTGTAAGACCATGTCTAGGACATAGGAATCAT
1 ATCTGAGATTT-CGTGTAAGACCATGTCTGGGACACAGGCATCAT
* *
23930378 ATCT--GATTTCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATC-AT
* *
23930421 A-CTGA-ATTACATGTAAGACC
1 ATCTGAGATTTCGTGTAAGACC
23930441 GCGTCCGGGA
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
42 29 0.32
43 30 0.33
44 28 0.31
45 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGGCATCAT
Found at i:23930409 original size:42 final size:42
Alignment explanation
Indices: 23930300--23930440 Score: 142
Period size: 42 Copynumber: 3.3 Consensus size: 42
23930290 ATCTGAGATA
* *
23930300 TCGTGTAAGACCATGTCTGGGACACAGGCCTCA-ATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCATATCT--GATT
* * *
23930343 TACGTGTAAGACCATGTCTAGGACATAGGAATCATATCTGATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCATATCTGATT
* *
23930386 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGATA-CTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATC-ATATCTG-ATT
* *
23930429 ACATGTAAGACC
1 TCGTGTAAGACC
23930441 GCGTCCGGGA
Statistics
Matches: 83, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
42 30 0.36
43 22 0.27
44 28 0.34
45 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCATATCTGATT
Found at i:23930722 original size:24 final size:24
Alignment explanation
Indices: 23930680--23930749 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
23930670 AGCATGGTTA
23930680 GGCTCATGAACTATTCTGTGAAAT
1 GGCTCATGAACTATTCTGTGAAAT
*
23930704 GGCT-ATGAATTATTGCTGT----T
1 GGCTCATGAACTATT-CTGTGAAAT
*
23930724 GACTCATGAACTATTCTGTGAAAT
1 GGCTCATGAACTATTCTGTGAAAT
23930748 GG
1 GG
23930750 ATATGAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
20 8 0.22
21 9 0.25
23 9 0.25
24 10 0.28
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (24 bp):
GGCTCATGAACTATTCTGTGAAAT
Found at i:23930732 original size:44 final size:44
Alignment explanation
Indices: 23930682--23930769 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
23930672 CATGGTTAGG
*
23930682 CTCATGAACTATTCTGTGAAATGGCTATGAATTATTGCTGTTGA
1 CTCATGAACTATTCTGTGAAATGGATATGAATTATTGCTGTTGA
*
23930726 CTCATGAACTATTCTGTGAAATGGATATGAATTCTTGCTGTTGA
1 CTCATGAACTATTCTGTGAAATGGATATGAATTATTGCTGTTGA
23930770 TTTGTACTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (44 bp):
CTCATGAACTATTCTGTGAAATGGATATGAATTATTGCTGTTGA
Found at i:23930755 original size:23 final size:23
Alignment explanation
Indices: 23930685--23930756 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
23930675 GGTTAGGCTC
*
23930685 ATGAACTATTCTGTGAAATGGCT
1 ATGAACTATTCTGTGAAATGGAT
*
23930708 ATGAATTATTGCTGT----T-GACT
1 ATGAACTATT-CTGTGAAATGGA-T
23930728 CATGAACTATTCTGTGAAATGGAT
1 -ATGAACTATTCTGTGAAATGGAT
23930752 ATGAA
1 ATGAA
23930757 TTCTTGCTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 16
0.67 0.05 0.28
Matches are distributed among these distances:
19 1 0.03
20 6 0.16
21 9 0.24
23 14 0.37
24 6 0.16
25 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (23 bp):
ATGAACTATTCTGTGAAATGGAT
Found at i:23935521 original size:24 final size:24
Alignment explanation
Indices: 23935476--23935527 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
23935466 AATATGTATA
*
23935476 TGAAATTGCATCTGCTTCTGTACT
1 TGAAATTGCATCTGATTCTGTACT
* * * *
23935500 TGAAATTGCTTTTGATTTTGTATT
1 TGAAATTGCATCTGATTCTGTACT
23935524 TGAA
1 TGAA
23935528 CTGTAACTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.17, T:0.48
Consensus pattern (24 bp):
TGAAATTGCATCTGATTCTGTACT
Found at i:23937358 original size:30 final size:31
Alignment explanation
Indices: 23937323--23937386 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
23937313 AATGATTTCA
23937323 TTCATAAC-TTCATTCATTTTCTGTTTTTTT
1 TTCATAACTTTCATTCATTTTCTGTTTTTTT
23937353 TTCATAACTTTCATTCATTTTCTGTTTTTTT
1 TTCATAACTTTCATTCATTTTCTGTTTTTTT
23937384 TTC
1 TTC
23937387 TTAGAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.16, C:0.17, G:0.03, T:0.64
Consensus pattern (31 bp):
TTCATAACTTTCATTCATTTTCTGTTTTTTT
Found at i:23940697 original size:26 final size:26
Alignment explanation
Indices: 23940660--23940709 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
23940650 AATTTAATTT
*
23940660 GTTTTGATTTTTTATATTAATTTTTG
1 GTTTTGATTTTTTAGATTAATTTTTG
*
23940686 GTTTT-ATATTTTTAGATTTATTTT
1 GTTTTGAT-TTTTTAGATTAATTTT
23940710 AATTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (26 bp):
GTTTTGATTTTTTAGATTAATTTTTG
Found at i:23948755 original size:2 final size:2
Alignment explanation
Indices: 23948748--23948785 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
23948738 TTATGAATGA
*
23948748 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CC CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
23948786 TAAGCTGTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:23950876 original size:28 final size:29
Alignment explanation
Indices: 23950845--23950904 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
23950835 AAAGTGATTT
*
23950845 TTGACAAAAATGTCAATT-AGGGATTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
* * *
23950873 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGACAAAAATGTAAATTGAGGGATTAAA
23950902 TTG
1 TTG
23950905 TGAAATAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.30
Consensus pattern (29 bp):
TTGACAAAAATGTAAATTGAGGGATTAAA
Found at i:23950904 original size:29 final size:28
Alignment explanation
Indices: 23950845--23950909 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
23950835 AAAGTGATTT
* *
23950845 TTGACAAAAATGTCAATTAGGGATTAAA
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
23950873 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
23950902 TTGTGAAA
1 TTGAGAAA
23950910 TAAATGAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.43, C:0.03, G:0.25, T:0.29
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:23951452 original size:43 final size:44
Alignment explanation
Indices: 23951387--23951548 Score: 147
Period size: 43 Copynumber: 3.8 Consensus size: 44
23951377 TTTATCGAGA
* *
23951387 TTACATGTAAGACCGTGCCTGGGACATTGGCATTGTAT-TGTGT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTGT
* *
23951430 TTACATGTAAGACCATGTCTGGGACATTAGCATCAT-TATATG-AT
1 TTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTATATGTGT
* * * * * *
23951474 TT-CGTGTAAGACCATGTCTGGGACGTTGGAATCG-ATATATGA
1 TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTGT
* * *
23951516 TAACATGTAAGACCATATCTGGGATA-TGGCATT
1 TTACATGTAAGACCATGTCTGGGACATTGGCATT
23951549 ATATGAGCTC
Statistics
Matches: 94, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
41 4 0.04
42 6 0.06
43 75 0.80
44 6 0.06
45 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (44 bp):
TTACATGTAAGACCATGTCTGGGACATTGGCATTGTATATGTGT
Found at i:23954265 original size:40 final size:40
Alignment explanation
Indices: 23954228--23954413 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
23954218 GCTACTCGTT
* *
23954228 CAAATGTCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
23954268 CAAATGCCTTGGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
23954308 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23954348 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23954389 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23954414 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23961744 original size:40 final size:40
Alignment explanation
Indices: 23961707--23961932 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
23961697 GCTACTCGTT
* * *
23961707 CAAATGTCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
23961747 CAAATGCCTTGGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
23961787 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
23961827 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * * *
23961867 CAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
23961908 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
23961933 CATCATTCAA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 152 0.90
41 13 0.08
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:23961821 original size:80 final size:80
Alignment explanation
Indices: 23961674--23961879 Score: 260
Period size: 80 Copynumber: 2.6 Consensus size: 80
23961664 AAATCACGTA
* ** * *
23961674 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGTCTTCGGGACATAGCCCGGTTAT
1 CCTTCGG-ATCTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGGTTAT
23961736 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
* *
23961753 CCTTGGGGA-CTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT-T
1 CCTT-CGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGG-TTAT
23961816 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
**
23961833 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
23961880 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
79 13 0.12
80 96 0.86
81 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGGTTATAG
TAACTCGCACAAATG
Found at i:23967986 original size:42 final size:42
Alignment explanation
Indices: 23967823--23967989 Score: 142
Period size: 42 Copynumber: 4.0 Consensus size: 42
23967813 AAGCATACCA
* *
23967823 ATGCCATATCCCAGATATGGTCTTGCA--TTGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGTT--ATCTCATAACG
* * * * * **
23967865 ATACCAATAGCCCAGTTATGGTTTTACACGAT-TCTCATATTG
1 ATGCC-ATATCCCAGATATGGTCTTACACGTTATCTCATAACG
* * * ***
23967907 ATGCCATGTCCCAGACATGATCTTACACAAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCATAACG
*
23967949 ATGCCATATCCCAGATATGGTCTTACACGTTAGCTCATAAC
1 ATGCCATATCCCAGATATGGTCTTACACGTTATCTCATAAC
23967990 CCTAATGTCA
Statistics
Matches: 96, Mismatches: 25, Indels: 8
0.74 0.19 0.06
Matches are distributed among these distances:
41 18 0.19
42 59 0.61
43 18 0.19
45 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGTTATCTCATAACG
Found at i:23976133 original size:21 final size:22
Alignment explanation
Indices: 23976109--23976166 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
23976099 AATGAGTATA
23976109 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
23976130 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
23976152 -CAT-GCCATATCATGT
1 TCATAG-CATATCATGT
23976167 ATAACAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:23985975 original size:19 final size:20
Alignment explanation
Indices: 23985951--23985988 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
23985941 CACAACCAAA
*
23985951 TACCAAATT-TTAAAAATTT
1 TACCAAATTCTCAAAAATTT
23985970 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
23985989 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:23987719 original size:17 final size:19
Alignment explanation
Indices: 23987693--23987729 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
23987683 TGTAAAACCC
23987693 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
23987711 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
23987729 A
1 A
23987730 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:23990923 original size:6 final size:6
Alignment explanation
Indices: 23990912--23991000 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
23990902 AACCAAAATG
* *
23990912 AGAATC AGAATC AGAATC AGTAA-C AGAATC AAAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
23990960 AGTAA-C AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAA
1 AG-AATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAA
23991001 GGTGAATGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 18
0.72 0.09 0.20
Matches are distributed among these distances:
5 6 0.09
6 53 0.80
7 5 0.08
8 2 0.03
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:23990939 original size:24 final size:24
Alignment explanation
Indices: 23990912--23991000 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
23990902 AACCAAAATG
23990912 AGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGTAAC
* * **
23990936 AGAATCAAAATCAGAATCAATATT
1 AGAATCAGAATCAGAATCAGTAAC
* *
23990960 AGTAA-CAGAATCAGAATTACGTGAC
1 AG-AATCAGAATCAGAATCA-GTAAC
23990985 AGAATCAGAATCAGAA
1 AGAATCAGAATCAGAA
23991001 GGTGAATGCA
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
24 36 0.69
25 16 0.31
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.19
Consensus pattern (24 bp):
AGAATCAGAATCAGAATCAGTAAC
Found at i:23990948 original size:30 final size:30
Alignment explanation
Indices: 23990914--23990972 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
23990904 CCAAAATGAG
23990914 AATCAGAATCAGA-ATCAGTAACAGAATCAA
1 AATCAGAATCA-ATATCAGTAACAGAATCAA
*
23990944 AATCAGAATCAATATTAGTAACAGAATCA
1 AATCAGAATCAATATCAGTAACAGAATCA
23990973 GAATTACGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (30 bp):
AATCAGAATCAATATCAGTAACAGAATCAA
Found at i:23991156 original size:27 final size:26
Alignment explanation
Indices: 23991119--23991184 Score: 87
Period size: 27 Copynumber: 2.5 Consensus size: 26
23991109 AGCATGCCTG
*
23991119 CCAGAACAGATATCGTGACAGAGTCA
1 CCAGAACAGATATCGTGACAGAGCCA
* *
23991145 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCGTGACAGAGCCA
23991172 CCAGAATCAGATA
1 CCAGAA-CAGATA
23991185 ATGTGGCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCGTGACAGAGCCA
Found at i:23991189 original size:27 final size:27
Alignment explanation
Indices: 23991119--23991192 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
23991109 AGCATGCCTG
* *
23991119 CCAGAA-CAGAT-ATCGTGACAGAGTCA
1 CCAGAATCAGATAAT-GTGGCAGAGCCA
*
23991145 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATAATGTGGCAGAGCCA
23991172 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATAATGTGGCA
23991193 AACCCACCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.03
26 4 0.10
27 32 0.80
28 3 0.08
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAATCAGATAATGTGGCAGAGCCA
Found at i:23991199 original size:27 final size:27
Alignment explanation
Indices: 23991143--23991200 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
23991133 GTGACAGAGT
* * *
23991143 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
23991170 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
23991197 CACC
1 CACC
23991201 TAACAGAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.36, C:0.28, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:23991405 original size:22 final size:22
Alignment explanation
Indices: 23991357--23991415 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
23991347 GTAAATACGT
*
23991357 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
23991379 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
23991401 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
23991416 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:23991542 original size:27 final size:28
Alignment explanation
Indices: 23991504--23991584 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 28
23991494 CGATCGGTCA
*
23991504 ACAGATATTGTGACAGAGTCACCA-AAT
1 ACAGATATTGTGACAGAGCCACCAGAAT
*
23991531 ACAGATATTGTGGCAGAGCCACCAGAAT
1 ACAGATATTGTGACAGAGCCACCAGAAT
* * *
23991559 --AGATATTTGTGGCATAGCCACTAGAA
1 ACAGATA-TTGTGACAGAGCCACCAGAA
23991585 CGCTTCCTCC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 5 0.10
27 40 0.83
28 3 0.06
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (28 bp):
ACAGATATTGTGACAGAGCCACCAGAAT
Found at i:23991814 original size:27 final size:27
Alignment explanation
Indices: 23991784--23991979 Score: 203
Period size: 27 Copynumber: 7.3 Consensus size: 27
23991774 GGGGCAAAAT
* * *
23991784 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
23991811 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* **
23991838 AGTCTTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
23991865 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
23991892 AGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
23991919 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
23991946 AGAAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
23991973 AGTAATT
1 GGTAATT
23991980 TCACAATCAA
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:23991897 original size:81 final size:81
Alignment explanation
Indices: 23991787--23991979 Score: 244
Period size: 81 Copynumber: 2.4 Consensus size: 81
23991777 GCAAAATGGT
* * * * * * **
23991787 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTCTTTCTACCCT
1 AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
23991852 ACAAGGGTATTTC-GA
66 ACAAGGGTATTTCAGA
* * *
23991867 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTATCCTATAAGGGTATTTCAGTAATTCTACCC
1 -AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
* *
23991932 TATAGGGGTATTTCAGA
65 TACAAGGGTATTTCAGA
*
23991949 AATTCTACCCTGCAGGGGTATTTCAGTAATT
1 AATTCTACCCTACAGGGGTATTTCAGTAATT
23991980 TCACAATCAA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 94 0.98
82 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (81 bp):
AATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCAGA
Found at i:23992060 original size:54 final size:54
Alignment explanation
Indices: 23991974--23992208 Score: 278
Period size: 54 Copynumber: 4.4 Consensus size: 54
23991964 GGGTATTTCA
* * * *
23991974 GTAATTTCAC-AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ** * * *
23992027 ATAATTTTGTAAA-CTGAGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTTTACAAATC-GAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
*
23992081 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGATAAAACG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* ****
23992135 GTAATTTTACAAATCGAGAGTAAAACGGTAATTCTGTAAATCG-GGAGTACTTTG
1 GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGG-GTAAAACG
*
23992189 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAAATCGAGGG
23992209 CATTTTAGTA
Statistics
Matches: 153, Mismatches: 25, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
53 9 0.06
54 143 0.93
55 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:23992183 original size:27 final size:27
Alignment explanation
Indices: 23991984--23992177 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
23991974 GTAATTTCAC
* *
23991984 AATCAAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
23992011 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
23992038 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* * **
23992065 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
23992092 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * **
23992119 AATCGAGGATAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
23992146 AATCGAGAGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
23992173 AATCG
1 AATCG
23992178 GGAGTACTTT
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 136 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:23995222 original size:56 final size:56
Alignment explanation
Indices: 23995154--23995480 Score: 415
Period size: 56 Copynumber: 5.8 Consensus size: 56
23995144 TCCCAGATAG
* * * * *
23995154 GGTCTTAGTCGCAAACACATATCGGAATCACCTATCGATGTCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
*
23995210 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAAGGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
23995266 GGTCTTACTCGCAGACACATATCGAAATCACATATCGATGCTAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * *
23995322 GGTTTTACTCGCACAGACATATC-GAAGTCACATATCGATGCCAA-GTTATTAAACAT
1 GGTCTTACTCGCACACACATATCGGAA-TCACATATCGATGCCAACG-TATTAAACGT
* * * * *
23995378 GGTCTTACTCACTCACAGATATCGGAATTACATATCGATGCCAACGTATTAAATGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
* * ** **
23995434 GGTCTTACTCGTACACACGTATCAAAATCACATATCGACACCAACGT
1 GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGT
23995481 CCCAGACATG
Statistics
Matches: 233, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
55 3 0.01
56 226 0.97
57 4 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (56 bp):
GGTCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:23995526 original size:43 final size:43
Alignment explanation
Indices: 23995459--23995726 Score: 322
Period size: 43 Copynumber: 6.2 Consensus size: 43
23995449 CACGTATCAA
** * **
23995459 AATCACATATCGACACCAACGTCCCAGACATGGTCTGGCACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * * *
23995502 AATCATATATCGATGCCAATGTCCCAAACGTGGTCTTATACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * *
23995545 AATCACATATCGATGCCAACATCCCAGATGTTGT-TCTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCT-TACACGT
* * * *
23995588 AATCACATATCAATGCCAACATCCTAGACGTGGTCTTACATGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
* * * * *
23995631 AACCACGTATCGATGCCAATGTCCCAGATGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
*
23995674 AATCACATATCGATGCCAACGTCCTAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
23995717 AATCACATAT
1 AATCACATAT
23995727 TGAAAATCCT
Statistics
Matches: 187, Mismatches: 36, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 1 0.01
43 185 0.99
44 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
Found at i:23996998 original size:27 final size:26
Alignment explanation
Indices: 23996942--23996998 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
23996932 CAACCTTAAC
* * *
23996942 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
23996968 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
23996995 CCTA
1 CCTA
23996999 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:23998266 original size:16 final size:16
Alignment explanation
Indices: 23998223--23998278 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
23998213 TATGGGGGAA
*
23998223 AAGAAGAAGAG-AAAG
1 AAGAAGAAAAGAAAAG
* * *
23998238 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
23998254 AAGAAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
23998270 AAGAA-AAAA
1 AAGAAGAAAA
23998279 CTAAATCCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
15 13 0.37
16 22 0.63
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:23999320 original size:17 final size:19
Alignment explanation
Indices: 23999298--23999343 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
23999288 ACATACATAC
23999298 AATAAT-ATTTT-TCTAAT
1 AATAATAATTTTATCTAAT
*
23999315 AATAATAATTTTATCTCAT
1 AATAATAATTTTATCTAAT
*
23999334 AATACTAATT
1 AATAATAATT
23999344 AAAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 14 0.56
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (19 bp):
AATAATAATTTTATCTAAT
Found at i:24009341 original size:34 final size:35
Alignment explanation
Indices: 24009295--24009381 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 35
24009285 AGGTAAGTAT
24009295 ATGT-AAGCTTATATTGAACTTGAT-TATTTGATTAC
1 ATGTGAAG-TTATATTGAACTT-ATATATTTGATTAC
* * **
24009330 ATGTGAA-TTATAATGAACTTATATATTTGGTTTT
1 ATGTGAAGTTATATTGAACTTATATATTTGATTAC
*
24009364 ATGTGAAGTTATTTTGAA
1 ATGTGAAGTTATATTGAA
24009382 TGTGCATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
33 2 0.05
34 27 0.63
35 12 0.28
36 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (35 bp):
ATGTGAAGTTATATTGAACTTATATATTTGATTAC
Found at i:24015042 original size:53 final size:54
Alignment explanation
Indices: 24014962--24015168 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 54
24014952 TTCCTTTTTA
* * * *
24014962 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
24015015 AACTCACCATTGCCATGCCTTGGCATGGTCTTCCATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
24015069 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
24015124 AACTTACCAATGTCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
24015169 AAACCCTAAT
Statistics
Matches: 121, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 44 0.36
54 37 0.31
55 40 0.33
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:24015117 original size:55 final size:53
Alignment explanation
Indices: 24014975--24015168 Score: 181
Period size: 55 Copynumber: 3.6 Consensus size: 53
24014965 TTACCATTGT
* *
24014975 CATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
* * * * * ** * *
24015028 CATGCCTTGGCATGGTCTTCCATGGGATCTTTGCCTTATAGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AACTCACCAATGC
* * * * * *
24015083 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGT
1 CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGC
* * *
24015137 CATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 CATGTCTTGACATGGTCTTACATGGTATCCTT
24015169 AAACCCTAAT
Statistics
Matches: 110, Mismatches: 29, Indels: 3
0.77 0.20 0.02
Matches are distributed among these distances:
53 33 0.30
54 37 0.34
55 40 0.36
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGC
Found at i:24016691 original size:47 final size:47
Alignment explanation
Indices: 24016575--24016703 Score: 154
Period size: 46 Copynumber: 2.8 Consensus size: 47
24016565 GTGCGAATAA
* * *
24016575 TACCTTGATTTGGATATGGGCCATGGTATAGGTATTCAGAGAGGAGT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
* * * *
24016622 TA-CTTGATTTGGCTACT-GGCCATGTTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTA-TGGGCCATGGTATAGGTACTCAGAGAGAAGT
* *
24016668 TACCTTGATTTTGCTATGGGCCATGGTATAAGTACT
1 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACT
24016704 TATCGATTGT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
46 38 0.55
47 31 0.45
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCAGAGAGAAGT
Found at i:24023611 original size:45 final size:42
Alignment explanation
Indices: 24023489--24023657 Score: 160
Period size: 45 Copynumber: 3.9 Consensus size: 42
24023479 TACCATACCA
* * * **
24023489 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCTAAATATGGTCTTACACGAAATCTCATATCG
* * ** ** *
24023531 ATGCTAATAGCCTAGCTATTATCTTACACGAAATCTCATATTG
1 ATGC-CATATCCTAAATATGGTCTTACACGAAATCTCATATCG
*
24023574 ATGCCATAT-CTCAAATATGGTCTTCTTACACAAAATCTCATATCG
1 ATGCCATATCCT-AAATATGG---TCTTACACGAAATCTCATATCG
*
24023619 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATA
1 ATGCCATATCCTAAATATGGTCTTACACGAAATCTCATA
24023658 ACCCTAATGT
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.29
43 32 0.32
45 36 0.36
46 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCTAAATATGGTCTTACACGAAATCTCATATCG
Found at i:24027382 original size:19 final size:19
Alignment explanation
Indices: 24027343--24027382 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
24027333 ATGATATTTC
*
24027343 TTCCAAAACTATTTTCACT
1 TTCCAAAACTATTCTCACT
24027362 TTCC-AAACTATTCTCATCT
1 TTCCAAAACTATTCTCA-CT
24027381 TT
1 TT
24027383 GTATGCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (19 bp):
TTCCAAAACTATTCTCACT
Found at i:24030335 original size:43 final size:43
Alignment explanation
Indices: 24030303--24030469 Score: 171
Period size: 42 Copynumber: 3.9 Consensus size: 43
24030293 ATGGGATCTT
24030303 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
1 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
* * *
24030346 ATATCGATGCCAATAGCCCAACTATCGTCTTACACAAAATTTC
1 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
* * * *
24030389 ATATCGATGA-C-ATATCCTAGGTA-CGGTCTTACACGAAATCTC
1 ATATCGAT-ACCAATAGCCCAGCTATC-GTCTTACACGAAATTTC
** * ** *
24030431 ATATCGATGTC-ATATCCCATATATGGTCTTACACGAAAT
1 ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAAT
24030470 CTTATAAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 55 0.52
43 49 0.47
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (43 bp):
ATATCGATACCAATAGCCCAGCTATCGTCTTACACGAAATTTC
Found at i:24034718 original size:27 final size:27
Alignment explanation
Indices: 24034670--24034722 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
24034660 CATTCTACCA
* *
24034670 TACAAGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACGATAATTTTACAC
*
24034697 TACAAGGGTATTTCGATAATTTTACA
1 TACAAGGGTATTACGATAATTTTACA
24034723 AACCGGGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACGATAATTTTACAC
Found at i:24036954 original size:27 final size:27
Alignment explanation
Indices: 24036904--24036956 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
24036894 CAATAATAGT
* *
24036904 TGGGCCTAGCCCATTAACAGAATCAGG
1 TGGGCCTAGCCCAGTAACAAAATCAGG
24036931 TGGGCCTAAGCCCAGT-ACAAAATCAG
1 TGGGCCT-AGCCCAGTAACAAAATCAG
24036957 TATCAGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.32, C:0.26, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAACAAAATCAGG
Found at i:24045087 original size:17 final size:18
Alignment explanation
Indices: 24045062--24045095 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24045052 AAAGTCATTC
24045062 TCTTGTAAAACATTATTA
1 TCTTGTAAAACATTATTA
*
24045080 TCTT-TAAAACTTTATT
1 TCTTGTAAAACATTATT
24045096 TGCTGCAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.12, G:0.03, T:0.50
Consensus pattern (18 bp):
TCTTGTAAAACATTATTA
Found at i:24047478 original size:27 final size:27
Alignment explanation
Indices: 24047442--24047494 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
24047432 TCATCTACCA
* *
24047442 TACAGGGGTATTACGGTCATTTTACAC
1 TACAAGGGTATTACAGTCATTTTACAC
* *
24047469 TACAAGGGTATTTCAGTGATTTTACA
1 TACAAGGGTATTACAGTCATTTTACA
24047495 AATCGGGGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTACAGTCATTTTACAC
Found at i:24054629 original size:13 final size:13
Alignment explanation
Indices: 24054611--24054636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24054601 TGCAACAAAT
24054611 TTAAGTAGAATCA
1 TTAAGTAGAATCA
24054624 TTAAGTAGAATCA
1 TTAAGTAGAATCA
24054637 ACTTTTGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
TTAAGTAGAATCA
Found at i:24061006 original size:18 final size:18
Alignment explanation
Indices: 24060983--24061041 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
24060973 GTGTTTTAGC
*
24060983 GAAAACTGTGTTTCCATT
1 GAAAACTGTGTTTTCATT
*
24061001 GAAAACCGTGTTTTCATT
1 GAAAACTGTGTTTTCATT
24061019 GAAAA-TCGTGTTTTCATT
1 GAAAACT-GTGTTTTCATT
24061037 GAAAA
1 GAAAA
24061042 ACCTTCTTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (18 bp):
GAAAACTGTGTTTTCATT
Found at i:24062069 original size:156 final size:156
Alignment explanation
Indices: 24061785--24062096 Score: 624
Period size: 156 Copynumber: 2.0 Consensus size: 156
24061775 ACCAGGTAGG
24061785 ATTCCAGAGAAGAGGAGGTGAGTCATTAAGACCACTTCAGTACCAAGCTCTCCCTAGATCCAATC
1 ATTCCAGAGAAGAGGAGGTGAGTCATTAAGACCACTTCAGTACCAAGCTCTCCCTAGATCCAATC
24061850 CTAGACATGCATATACCCGTTGCCACACCTTAACCCTTTGACTTGTACACGGTCGTAATATATTA
66 CTAGACATGCATATACCCGTTGCCACACCTTAACCCTTTGACTTGTACACGGTCGTAATATATTA
24061915 ATTAAGTCTTATGTGGATATCATATA
131 ATTAAGTCTTATGTGGATATCATATA
24061941 ATTCCAGAGAAGAGGAGGTGAGTCATTAAGACCACTTCAGTACCAAGCTCTCCCTAGATCCAATC
1 ATTCCAGAGAAGAGGAGGTGAGTCATTAAGACCACTTCAGTACCAAGCTCTCCCTAGATCCAATC
24062006 CTAGACATGCATATACCCGTTGCCACACCTTAACCCTTTGACTTGTACACGGTCGTAATATATTA
66 CTAGACATGCATATACCCGTTGCCACACCTTAACCCTTTGACTTGTACACGGTCGTAATATATTA
24062071 ATTAAGTCTTATGTGGATATCATATA
131 ATTAAGTCTTATGTGGATATCATATA
24062097 CTAGGCCCAA
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
156 156 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (156 bp):
ATTCCAGAGAAGAGGAGGTGAGTCATTAAGACCACTTCAGTACCAAGCTCTCCCTAGATCCAATC
CTAGACATGCATATACCCGTTGCCACACCTTAACCCTTTGACTTGTACACGGTCGTAATATATTA
ATTAAGTCTTATGTGGATATCATATA
Found at i:24062204 original size:29 final size:28
Alignment explanation
Indices: 24062147--24062231 Score: 116
Period size: 28 Copynumber: 3.0 Consensus size: 28
24062137 TACCTGTATC
* *
24062147 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
*
24062175 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
24062204 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
24062232 ATCATGCTCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 25 0.50
29 25 0.50
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:24062467 original size:16 final size:16
Alignment explanation
Indices: 24062443--24062485 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
24062433 GTAGCCAAAC
*
24062443 TTTCAACTTTTCGACA
1 TTTCGACTTTTCGACA
* *
24062459 TTTCGACTTTTTGGCA
1 TTTCGACTTTTCGACA
*
24062475 TTTCGGCTTTT
1 TTTCGACTTTT
24062486 ACGATACATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTCGACTTTTCGACA
Found at i:24068396 original size:12 final size:12
Alignment explanation
Indices: 24068379--24068405 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24068369 ATTCCGAAGT
24068379 ATATATATATAC
1 ATATATATATAC
24068391 ATATATATATAC
1 ATATATATATAC
24068403 ATA
1 ATA
24068406 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:24068938 original size:27 final size:28
Alignment explanation
Indices: 24068858--24068951 Score: 127
Period size: 27 Copynumber: 3.4 Consensus size: 28
24068848 AGATTGGCAG
* * * *
24068858 TAAGTGTGCGGGTTTAAATTGTACAGCAC
1 TAAGTGTGCGAGTTT-GATTATATAGCAC
24068887 TAAGTGTGCGAGTTTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
24068915 TAAGTGTGCGAG-TTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAC
*
24068942 TGAGTGTGCG
1 TAAGTGTGCG
24068952 GACTTAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.40
28 22 0.37
29 14 0.23
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
TAAGTGTGCGAGTTTGATTATATAGCAC
Found at i:24068962 original size:27 final size:27
Alignment explanation
Indices: 24068882--24068964 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
24068872 TAAATTGTAC
* *
24068882 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
24068910 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
24068937 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
24068964 A
1 A
24068965 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:24075794 original size:40 final size:40
Alignment explanation
Indices: 24075750--24075974 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
24075740 GCTCCTCGTT
* *
24075750 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAATTCGCA
*
24075790 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
* *
24075830 CAAATGCCTTCGGGATTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
24075870 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAT-TCGCA
* * *
24075910 CAAATGCCTTC-GGATCTTAGCCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGAT-TTAGT-AATTCGCA
*
24075951 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
24075975 CAGCATTCAA
Statistics
Matches: 169, Mismatches: 9, Indels: 15
0.88 0.05 0.08
Matches are distributed among these distances:
39 21 0.12
40 138 0.82
41 9 0.05
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAATTCGCA
Found at i:24076369 original size:14 final size:14
Alignment explanation
Indices: 24076350--24076376 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24076340 AGGATGAGCA
24076350 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
24076364 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
24076377 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:24081259 original size:40 final size:40
Alignment explanation
Indices: 24081202--24081357 Score: 294
Period size: 40 Copynumber: 3.9 Consensus size: 40
24081192 GGACATAGCT
*
24081202 ACTCACACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
24081242 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
24081282 ACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
24081322 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
24081358 CATCCGAATA
Statistics
Matches: 113, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:24090532 original size:37 final size:37
Alignment explanation
Indices: 24090473--24090574 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
24090463 AGCTCAGACG
* * *
24090473 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
24090510 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
24090547 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
24090575 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:24090778 original size:47 final size:47
Alignment explanation
Indices: 24090693--24091622 Score: 1500
Period size: 47 Copynumber: 19.6 Consensus size: 47
24090683 CCCTTCGGGA
* * * * * *
24090693 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
24090740 CCTGTCGCATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24090787 CTTATCACATATATACACTTTCACATTCAACACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24090834 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24090881 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24090928 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24090977 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24091024 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24091071 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24091120 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24091167 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24091216 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24091263 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24091310 CTTATCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24091357 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
24091404 CTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24091453 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24091500 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24091547 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24091594 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
24091623 TATTCAAATA
Statistics
Matches: 823, Mismatches: 50, Indels: 18
0.92 0.06 0.02
Matches are distributed among these distances:
47 628 0.76
49 195 0.24
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24091003 original size:143 final size:141
Alignment explanation
Indices: 24090693--24091622 Score: 1500
Period size: 143 Copynumber: 6.5 Consensus size: 141
24090683 CCCTTCGGGA
* * * * * * * * *
24090693 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCGCATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
24090758 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAACACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
24090823 GGCCATTAGGC
131 GGCCATTAGGC
* *
24090834 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATACACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
24090899 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
24090964 TCGGCTATTAGGC
129 TCGGCCATTAGGC
* *
24090977 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
24091042 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
24091107 TTGGCCATTCGGC
129 TCGGCCATTAGGC
*
24091120 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
24091185 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
24091250 TCGGCTATTAGGC
129 TCGGCCATTAGGC
24091263 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * *
24091328 TTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATACAATTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
24091393 GGCCATTAGGC
131 GGCCATTAGGC
* * *
24091404 CTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
24091469 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
24091534 TCGGCCATTAGGC
129 TCGGCCATTAGGC
24091547 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
24091612 ACTTTCACATT
64 ACTTTCACATT
24091623 TATTCAAATA
Statistics
Matches: 739, Mismatches: 42, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
141 225 0.30
143 470 0.64
145 44 0.06
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:24091014 original size:190 final size:188
Alignment explanation
Indices: 24090693--24091622 Score: 1500
Period size: 190 Copynumber: 4.9 Consensus size: 188
24090683 CCCTTCGGGA
* * * * * * * * *
24090693 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCGCATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
24090758 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAACACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
24090823 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24090881 CTTATCACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
24090946 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
24091011 TCGGCTATTAGGCCTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
24091071 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
24091136 AATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* * *
24091201 CATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
127 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
24091263 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * * *
24091328 TTTCACATTCATCACATTGGTCATTCGGCCTTATCACATATATACAATTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* * *
24091393 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCACCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
24091453 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
24091518 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
24091583 GGCCATTAGGCCTTATCACATATATATACACTTTCACATT
131 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
24091623 TATTCAAATA
Statistics
Matches: 690, Mismatches: 44, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
188 89 0.13
190 468 0.68
192 133 0.19
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:24100148 original size:9 final size:9
Alignment explanation
Indices: 24100136--24100162 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
24100126 AATCCCACCG
24100136 ATCCATCCT
1 ATCCATCCT
24100145 ATCCATCCT
1 ATCCATCCT
24100154 ATCCATCCT
1 ATCCATCCT
24100163 CAAGCATAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.44, G:0.00, T:0.33
Consensus pattern (9 bp):
ATCCATCCT
Found at i:24101072 original size:14 final size:14
Alignment explanation
Indices: 24101042--24101087 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
24101032 CATAAAGGTT
*
24101042 TACATGGGTTCGTA
1 TACATGGGTTCGCA
*
24101056 TACATGGGTTAGCA
1 TACATGGGTTCGCA
* *
24101070 TACAAGCGTTCGCA
1 TACATGGGTTCGCA
24101084 TACA
1 TACA
24101088 GATTACTTAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (14 bp):
TACATGGGTTCGCA
Found at i:24113115 original size:24 final size:24
Alignment explanation
Indices: 24113080--24113128 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
24113070 AAATATTGAT
*
24113080 TTTACTAAATTATCAACTCTATAA
1 TTTACTAAATTAACAACTCTATAA
*
24113104 TTTACTAGATTAACAACTCTATAA
1 TTTACTAAATTAACAACTCTATAA
24113128 T
1 T
24113129 GTGATGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.41, C:0.16, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTACTAAATTAACAACTCTATAA
Found at i:24114140 original size:12 final size:12
Alignment explanation
Indices: 24114123--24114147 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24114113 TAAATTTTGG
24114123 ATTTTAAAATTT
1 ATTTTAAAATTT
24114135 ATTTTAAAATTT
1 ATTTTAAAATTT
24114147 A
1 A
24114148 GAATTTTTAA
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:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATTTTAAAATTT
Found at i:24116380 original size:23 final size:24
Alignment explanation
Indices: 24116354--24116403 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24116344 AATCAAAGTC
* *
24116354 AAATATA-TATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
24116377 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
24116401 AAA
1 AAA
24116404 CCTTCTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 7 0.30
24 16 0.70
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:24125425 original size:10 final size:10
Alignment explanation
Indices: 24125410--24125436 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
24125400 AATACACATT
24125410 ACTCATATCG
1 ACTCATATCG
24125420 ACTCATATCG
1 ACTCATATCG
24125430 ACTCATA
1 ACTCATA
24125437 ACATATACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.30, G:0.07, T:0.30
Consensus pattern (10 bp):
ACTCATATCG
Found at i:24128435 original size:14 final size:15
Alignment explanation
Indices: 24128399--24128437 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
24128389 AATGATTTTC
24128399 TAAAAATAATCAATTAA
1 TAAAAAT-ATCAATT-A
24128416 TAAAAATATCAATT-
1 TAAAAATATCAATTA
24128430 TAAAAATA
1 TAAAAATA
24128438 GTAGCCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.36
16 7 0.32
17 7 0.32
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAAATATCAATTA
Found at i:24132311 original size:43 final size:43
Alignment explanation
Indices: 24132217--24132311 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
24132207 GTATTGGCAT
** **
24132217 TAAGTGTGCGATACAATTATAGACTTGGCTAATTAATTGGAAC
1 TAAGTGTGCGATACAATTATAGACTTAACTAATTAATCAGAAC
* * * *
24132260 AAATTGTGCGATACAATTATAG-TTTCAACTAATTAATCAGCAC
1 TAAGTGTGCGATACAATTATAGACTT-AACTAATTAATCAGAAC
24132303 TAAGTGTGC
1 TAAGTGTGC
24132312 AAGTTCGTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (43 bp):
TAAGTGTGCGATACAATTATAGACTTAACTAATTAATCAGAAC
Found at i:24134645 original size:27 final size:27
Alignment explanation
Indices: 24134615--24134792 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
24134605 ATATTGAGTC
* * * *
24134615 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
24134642 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24134669 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
24134697 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
24134724 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
24134751 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
24134778 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
24134793 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:24134754 original size:82 final size:81
Alignment explanation
Indices: 24134636--24134791 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
24134626 TGCTATATAA
* *
24134636 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
24134701 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
24134718 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
24134782 CACTTAGTGC
65 CACTTAGTGC
24134792 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:24143996 original size:40 final size:39
Alignment explanation
Indices: 24143935--24144346 Score: 468
Period size: 40 Copynumber: 10.3 Consensus size: 39
24143925 CATTTGAATG
* * *
24143935 ATATCCGGGCTAAGTCTCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-T
* *
24143975 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGAT
* * * *
24144015 ATATCCGGGCTAAGACCCTAAGGCGTTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-T
* * *
24144055 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-T
*
24144095 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGAT
* * *
24144135 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-TAGTGAT
* * *
24144175 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGA-T
* *
24144215 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGAT
* *
24144255 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGAT
* * * *
24144295 ATA-CCTGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGCTAGT-GAT
24144335 ATATCC-GGCTAA
1 ATATCCGGGCTAA
24144347 ATTCCGAAGA
Statistics
Matches: 319, Mismatches: 44, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
39 13 0.04
40 294 0.92
41 12 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGAT
Found at i:24144152 original size:120 final size:120
Alignment explanation
Indices: 24143952--24144346 Score: 684
Period size: 120 Copynumber: 3.3 Consensus size: 120
24143942 GGCTAAGTCT
* *
24143952 CGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 CGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
24144017 ATCCGGGCTAAGACCCTAAGGCGTTTGTGCGAGTTACTATACCCGGGTTAAGACC
66 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACC
*
24144072 CGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
1 CGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
*
24144137 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATACCCGGGTTAAGACC
66 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACC
24144192 CGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 CGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
*
24144257 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCTGGGTTAAGACC
66 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACC
* * *
24144312 CGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
24144347 ATTCCGAAGA
Statistics
Matches: 262, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
119 6 0.02
120 256 0.98
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (120 bp):
CGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACC
Found at i:24152373 original size:40 final size:41
Alignment explanation
Indices: 24152311--24152702 Score: 516
Period size: 40 Copynumber: 9.8 Consensus size: 41
24152301 CATTTGAATG
* * * *
24152311 ATATCCGGGCTAAGTCCTGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
24152351 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
24152391 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * * *
24152431 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
24152471 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
24152511 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
24152551 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTG-G-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTTGATT
* *
24152591 TTATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
24152631 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
24152671 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
24152703 TTGTGGTTAT
Statistics
Matches: 311, Mismatches: 31, Indels: 20
0.86 0.09 0.06
Matches are distributed among these distances:
39 5 0.02
40 296 0.95
41 10 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:24152528 original size:120 final size:120
Alignment explanation
Indices: 24152315--24152722 Score: 719
Period size: 120 Copynumber: 3.4 Consensus size: 120
24152305 TGAATGATAT
* * * * *
24152315 CCGGGCTAAGTCCTGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
24152380 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
24152435 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
24152500 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
* *
24152555 CCGGGTTAAGACCCGAAGGCAATTGTGCTGGTGATTTTATCCGGGCTAAGACCCAAAGGCATTTG
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
24152620 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
66 TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
* * *
24152675 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
24152723 ATTCCGAAGA
Statistics
Matches: 278, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
119 6 0.02
120 272 0.98
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
Found at i:24157311 original size:43 final size:43
Alignment explanation
Indices: 24157247--24157333 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
24157237 ATCACATGTA
* * *
24157247 TCGCATCCATTATGAACTCGGACCATTCAACAAGCTCGGATGC
1 TCGCATACATAATGAACTCGGACCACTCAACAAGCTCGGATGC
*
24157290 TCGCATACATAATGAAGTCGGACCACTCAACAAGCTCGGATGC
1 TCGCATACATAATGAACTCGGACCACTCAACAAGCTCGGATGC
24157333 T
1 T
24157334 ACATATATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
TCGCATACATAATGAACTCGGACCACTCAACAAGCTCGGATGC
Found at i:24161061 original size:339 final size:339
Alignment explanation
Indices: 24160441--24161078 Score: 972
Period size: 339 Copynumber: 1.9 Consensus size: 339
24160431 ATTATCTATA
* * * * **
24160441 ATTTTTAGGGAATAAAATGAGGTGTTGGTTTGTTGGTTAAGTGTTAGTGAAATGTTCCTTAAAAC
1 ATTTTTAGGGAATAAAACGAGGTATTGGTTTATTGGTGAAGTGTTAGTGAAACATTCCTTAAAAC
* * * *
24160506 CTAAGTTCAAATTCCTTTTCTCACACCATTTATATTATTTTTCAATTTTGCATCAAACCTTAGTA
66 CCAAGTTCAAATTCCTTCTCACACACCATTTATATTATTTTGCAATTTTGCATCAAACCTTAGTA
* * * *
24160571 TGTGACACATATTATTTTAAAAATAAATATTGTAAAATTATTTAAAAAATAAGGAAATATCCTAG
131 TGTGACACATATTATTTTAAAAATAAATATTGCAAAATTATTTAAAAAATAAGGAAATAGCATAA
* * ** * *
24160636 TGGTTAATTGATAAATTGAAAAGCATGGAAAGTAGATTAAGGTCCCATGTTTGAATCTTTTCCCT
196 TGGTTAATTGATAAATGGAAAAGAACAGAAAGTAGATTAAGGTACCAAGTTTGAATCTTTTCCCT
*
24160701 TGCAAAATAATTAAATTTTGCAAAATCCTTTCTTTTTTTTTATGTGTGTCTTGTCCATACCCTTT
261 TGCAAAATAATTAAATTTTGCAAAATCCATTCTTTTTTTTTATGTGTGTCTTGTCCATACCCTTT
24160766 TAGATTATTTGTGC
326 TAGATTATTTGTGC
* *
24160780 ATTTTTAGGGAATAATACGAGGTATTGGTTTATTGGTGAAGTGTTAGTGAAACATTCCTTGAAAC
1 ATTTTTAGGGAATAAAACGAGGTATTGGTTTATTGGTGAAGTGTTAGTGAAACATTCCTTAAAAC
*
24160845 CCAAGTTCAAATTCCTTCTCACGCACCATTTATATTATTTTGCAATTTTGCATCAAA-CTCTAGT
66 CCAAGTTCAAATTCCTTCTCACACACCATTTATATTATTTTGCAATTTTGCATCAAACCT-TAGT
** * * * *
24160909 ATGTGACATGTCTTGTTTTTAAAATAAATATTGCAAAATTATTTCAAAAATAAGGAAATAGCATA
130 ATGTGACACATATTATTTTAAAAATAAATATTGCAAAATTATTTAAAAAATAAGGAAATAGCATA
24160974 ATGGTTAATTGATAAATGGAAAAGAACAGAAAGTAGATTAAGGTACCAAGTTTGAATCTTTTCCC
195 ATGGTTAATTGATAAATGGAAAAGAACAGAAAGTAGATTAAGGTACCAAGTTTGAATCTTTTCCC
* *
24161039 TTGCGAAATAATTAAATTTTGCAAAATTCATTCTTTTTTT
260 TTGCAAAATAATTAAATTTTGCAAAATCCATTCTTTTTTT
24161079 ATGCGTGTCC
Statistics
Matches: 266, Mismatches: 32, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
338 2 0.01
339 264 0.99
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.39
Consensus pattern (339 bp):
ATTTTTAGGGAATAAAACGAGGTATTGGTTTATTGGTGAAGTGTTAGTGAAACATTCCTTAAAAC
CCAAGTTCAAATTCCTTCTCACACACCATTTATATTATTTTGCAATTTTGCATCAAACCTTAGTA
TGTGACACATATTATTTTAAAAATAAATATTGCAAAATTATTTAAAAAATAAGGAAATAGCATAA
TGGTTAATTGATAAATGGAAAAGAACAGAAAGTAGATTAAGGTACCAAGTTTGAATCTTTTCCCT
TGCAAAATAATTAAATTTTGCAAAATCCATTCTTTTTTTTTATGTGTGTCTTGTCCATACCCTTT
TAGATTATTTGTGC
Found at i:24162625 original size:46 final size:47
Alignment explanation
Indices: 24162495--24162810 Score: 213
Period size: 46 Copynumber: 6.7 Consensus size: 47
24162485 ATGAGATCCG
* * * * *
24162495 GTGTAAGACCATGTCTGGGACATGGCATCACCATTGAGACG-AGAGCTA
1 GTGTAAGACCATGTCTAGGACATGGCATCAGC-TCGAGATGTA-AGCCA
* * *
24162543 GTGTAAGA-CATGTCTAGGACAT-GCTTTGACCTCGAGATGTAAGCCA
1 GTGTAAGACCATGTCTAGGACATGGC-ATCAGCTCGAGATGTAAGCCA
*
24162589 GTGTAAGA-CATGTCTAGGACAT-GCATCAGCTACGAGATGT--GTCA
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCT-CGAGATGTAAGCCA
* * * * * *
24162633 GTGTAAGACCATGT-TTGGTACCTGGCATCGGCACGGATATGTGAGAGCTA
1 GTGTAAGACCATGTCTAGG-ACATGGCATCAGCTC-GAGATGT-A-AGCCA
*** ** **
24162683 GTGTAAGACCATGTCTAGGACATGATGTCAGCCTCGATTTCG-ATAGTAA
1 GTGTAAGACCATGTCTAGGACATGGCATCAG-CTCGAGAT-GTA-AGCCA
* *
24162732 GTGTAAGACCATGTCTAGGACATGGCATCAACTTGATGGATG--AGCCA
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCTCGA--GATGTAAGCCA
*
24162779 GTGTAAGACCATGTCTGGGACATGGCATCAGC
1 GTGTAAGACCATGTCTAGGACATGGCATCAGC
24162811 ATTATACCCT
Statistics
Matches: 213, Mismatches: 39, Indels: 33
0.75 0.14 0.12
Matches are distributed among these distances:
44 14 0.07
45 13 0.06
46 57 0.27
47 51 0.24
48 12 0.06
49 32 0.15
50 28 0.13
51 6 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GTGTAAGACCATGTCTAGGACATGGCATCAGCTCGAGATGTAAGCCA
Found at i:24162810 original size:96 final size:94
Alignment explanation
Indices: 24162495--24162810 Score: 228
Period size: 96 Copynumber: 3.3 Consensus size: 94
24162485 ATGAGATCCG
* * *
24162495 GTGTAAGACCATGTCTGGGACATGGCATCA-CCATTGAGA-CGAGAGCTAGTGTAAGA-CATGTC
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCC-TCGA-ATCGATAG-TAGTGTAAGACCATGTC
* * *
24162557 TAGGACAT-GCTTTGACCTCGA--GATGTAAGCCA
63 TAGGACATGGC-ATCAACTCGATGGATG--AGCCA
24162589 GTGTAAGA-CATGTCTAGGACAT-GCATCAG-CTACGAGAT-G-T-GTCAGTGTAAGACCATGT-
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCCT-CGA-ATCGATAGT-AGTGTAAGACCATGTC
* * ** * *
24162647 TTGGTACCTGGCATCGGCACGGATATGTGA-GAGCTA
63 TAGG-ACATGGCATCAACTC-G--ATG-GATGAGCCA
*** *
24162683 GTGTAAGACCATGTCTAGGACATGATGTCAGCCTCGATTTCGATAGTAAGTGTAAGACCATGTCT
1 GTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGA-ATCGATAGT-AGTGTAAGACCATGTCT
*
24162748 AGGACATGGCATCAACTTGATGGATGAGCCA
64 AGGACATGGCATCAACTCGATGGATGAGCCA
*
24162779 GTGTAAGACCATGTCTGGGACATGGCATCAGC
1 GTGTAAGACCATGTCTAGGACATGGCATCAGC
24162811 ATTATACCCT
Statistics
Matches: 173, Mismatches: 28, Indels: 40
0.72 0.12 0.17
Matches are distributed among these distances:
89 1 0.01
90 13 0.08
91 12 0.07
92 15 0.09
93 13 0.08
94 21 0.12
95 16 0.09
96 45 0.26
97 5 0.03
98 2 0.01
99 27 0.16
100 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
GTGTAAGACCATGTCTAGGACATGGCATCAGCCTCGAATCGATAGTAGTGTAAGACCATGTCTAG
GACATGGCATCAACTCGATGGATGAGCCA
Found at i:24170163 original size:19 final size:19
Alignment explanation
Indices: 24170139--24170176 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
24170129 ATATTGAGAT
24170139 AGCATAACTCCCGTTTGAA
1 AGCATAACTCCCGTTTGAA
24170158 AGCATAACTCCCGTTTGAA
1 AGCATAACTCCCGTTTGAA
24170177 CCTTAGGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (19 bp):
AGCATAACTCCCGTTTGAA
Found at i:24170365 original size:46 final size:46
Alignment explanation
Indices: 24170228--24170437 Score: 178
Period size: 46 Copynumber: 4.5 Consensus size: 46
24170218 TTATTTGTGT
* * **
24170228 GCCAGTGTAAGACATGTCTGGGACATGCATCTACCAC-ATTTTGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGA-GATGAGA
* * *
24170274 GCCCAGTGTAAGACCATGTCTGGGATATGGCATCGACATTGAGATGAGA
1 G-CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCTCGAGATGAGA
* * *
24170323 GCAAGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATG-AGA
* * * * *
24170369 GCCAGTGTAAGACATATTTGGGACATGCATTG-GCTACGAGAT--GT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCT-CGAGATGAGA
*
24170413 GTCAGTGTAAGACCATGTCTGGGAC
1 GCCAGTGTAAGA-CATGTCTGGGAC
24170438 TTGGCATTGG
Statistics
Matches: 133, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.08
45 12 0.09
46 48 0.36
47 25 0.19
48 23 0.17
49 13 0.10
50 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATGAGA
Found at i:24170445 original size:46 final size:45
Alignment explanation
Indices: 24170277--24170539 Score: 194
Period size: 46 Copynumber: 5.6 Consensus size: 45
24170267 TTTGAGAGCC
* * * * * *
24170277 CAGTGTAAGACCATGTCTGGGATATGGCATCGACATTGAGATGAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAGATGTG-T
* * * *
24170324 CAAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCTCGAGATGTAAGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCATTGG-CACGAGATGT--GT
* *
24170371 CAGTGTAAGA-CATATTTGGGACAT-GCATTGGCTACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGAGATGTGT
* *
24170415 CAGTGTAAGACCATGTCTGGGACTTGGCATTGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACG---AGATGTGT
* *
24170463 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-GAGATGT----GT
* *
24170513 -AGTGTAATACCATGTTTGGGACATGGC
1 CAGTGTAAGACCATGTCTGGGACATGGC
24170540 GTCAGCCTTG
Statistics
Matches: 178, Mismatches: 23, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
44 11 0.06
45 15 0.08
46 57 0.32
47 16 0.09
48 51 0.29
49 26 0.15
50 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGAGATGTGT
Found at i:24170469 original size:48 final size:47
Alignment explanation
Indices: 24170371--24170539 Score: 177
Period size: 48 Copynumber: 3.6 Consensus size: 47
24170361 AGATGTAAGC
* * *
24170371 CAGTGTAAGA-CATATTTGGGACAT-GCATTGGCTACG--AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGC-ACGATAGAGGTGT
*
24170415 CAGTGTAAGACCATGTCTGGGACTTGGCATTGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACG-ATAGAGGTGT
* * *
24170463 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-GATA-GAG-GTGT
* *
24170513 -AGTGTAATACCATGTTTGGGACATGGC
1 CAGTGTAAGACCATGTCTGGGACATGGC
24170540 GTCAGCCTTG
Statistics
Matches: 107, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
44 10 0.09
45 14 0.13
46 8 0.07
48 44 0.41
49 28 0.26
50 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.27
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGGCACGATAGAGGTGT
Found at i:24170533 original size:49 final size:48
Alignment explanation
Indices: 24170277--24170539 Score: 167
Period size: 48 Copynumber: 5.6 Consensus size: 48
24170267 TTTGAGAGCC
* * *
24170277 CAGTGTAAGACCATGTCTGGGATATGGCATCGACATTGAGAT-GA-GAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGACA-CG-GATAGAGGAGT
* * * * *
24170324 CAAGTGTAAGA-CATGTCTGGGACAT-ACATCGGCCTCGAGAT-GTA--AGC
1 C-AGTGTAAGACCATGTCTGGGACATGGCAT-TGACACG-GATAG-AGGAGT
* * * * *
24170371 CAGTGTAAGA-CATATTTGGGACAT-GCATTGGCTAC-G--AGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGAC-ACGGATAGAGGAGT
* * * *
24170415 CAGTGTAAGACCATGTCTGGGACTTGGCATTGGCACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGATAGAGGAGT
*
24170463 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGATATGTGAGAGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGATA-GAG-GAGT
* *
24170513 -AGTGTAATACCATGTTTGGGACATGGC
1 CAGTGTAAGACCATGTCTGGGACATGGC
24170540 GTCAGCCTTG
Statistics
Matches: 175, Mismatches: 26, Indels: 28
0.76 0.11 0.12
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 12 0.07
45 15 0.09
46 44 0.25
47 18 0.10
48 54 0.31
49 27 0.15
50 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTGACACGGATAGAGGAGT
Found at i:24175273 original size:25 final size:25
Alignment explanation
Indices: 24175235--24175295 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
24175225 TCTAGTACAT
* *
24175235 GTATGCTCAT-ACGAGCTGTGAATTG
1 GTATGCTC-TCACGAGCTGTAAATCG
*
24175260 GTATGCTCTCACGAGTTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
24175285 GTATGCTCTCA
1 GTATGCTCTCA
24175296 TGAGGTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 31 0.97
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:24175306 original size:25 final size:25
Alignment explanation
Indices: 24175259--24175317 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
24175249 GCTGTGAATT
* *
24175259 GGTATGCTCTCACGAGTTGTAAATC
1 GGTATGCTCTCACGAGGTATAAATC
* *
24175284 GGTATGCTCTCATGAGGTATAAATT
1 GGTATGCTCTCACGAGGTATAAATC
*
24175309 GGTAAGCTC
1 GGTATGCTC
24175318 ATATGAGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (25 bp):
GGTATGCTCTCACGAGGTATAAATC
Done.