Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 63 of 279
Found at i:21131555 original size:46 final size:46
Alignment explanation
Indices: 21131504--21131595 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
21131494 AACCCTAGGG
*
21131504 GTATTTCGGTAATTATGCTCTTTAGGGGTAATTTCGTACTTACGCA
1 GTATTTCGATAATTATGCTCTTTAGGGGTAATTTCGTACTTACGCA
21131550 GTATTTCGATAATTATGCTCTTTAGGGGTAATTTCGTACTTACGCA
1 GTATTTCGATAATTATGCTCTTTAGGGGTAATTTCGTACTTACGCA
21131596 ACTACACAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (46 bp):
GTATTTCGATAATTATGCTCTTTAGGGGTAATTTCGTACTTACGCA
Found at i:21133641 original size:56 final size:56
Alignment explanation
Indices: 21133575--21133691 Score: 218
Period size: 56 Copynumber: 2.1 Consensus size: 56
21133565 TTAAGGTATA
21133575 TGTAA-GTAGTTTGAATAAATGAACAATAATAATAATAAATCATCTAGTGAATTGG
1 TGTAATGTAGTTTGAATAAATGAACAATAATAATAATAAATCATCTAGTGAATTGG
*
21133630 TGTAATGTAGTTTGAATAAATGAATAATAATAATAATAAATCATCTAGTGAATTGG
1 TGTAATGTAGTTTGAATAAATGAACAATAATAATAATAAATCATCTAGTGAATTGG
21133686 TGTAAT
1 TGTAAT
21133692 TGCCGAATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 5 0.08
56 55 0.92
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.35
Consensus pattern (56 bp):
TGTAATGTAGTTTGAATAAATGAACAATAATAATAATAAATCATCTAGTGAATTGG
Found at i:21134257 original size:97 final size:97
Alignment explanation
Indices: 21134091--21134283 Score: 341
Period size: 97 Copynumber: 2.0 Consensus size: 97
21134081 GAAATCGTTT
* *
21134091 GACAACATTCGAGGTAAGTTTTCGAGAAATGAAACTTAGGTTATGATTTGATTAAGTCATGACAT
1 GACAACATCCGAGGTAAGTTTTCAAGAAATGAAACTTAGGTTATGATTTGATTAAGTCATGACAT
21134156 ATAAGCATAACAAATAAACGGTGATATAATGC
66 ATAAGCATAACAAATAAACGGTGATATAATGC
* * *
21134188 GACAACATCCGAGGTAAGTTTTCAAGTATTGAAACTTAGTTTATGATTTGATTAAGTCATGACAT
1 GACAACATCCGAGGTAAGTTTTCAAGAAATGAAACTTAGGTTATGATTTGATTAAGTCATGACAT
21134253 ATAAGCATAACAAATAAACGGTGATATAATG
66 ATAAGCATAACAAATAAACGGTGATATAATG
21134284 ATTCTACTTG
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (97 bp):
GACAACATCCGAGGTAAGTTTTCAAGAAATGAAACTTAGGTTATGATTTGATTAAGTCATGACAT
ATAAGCATAACAAATAAACGGTGATATAATGC
Found at i:21134564 original size:40 final size:40
Alignment explanation
Indices: 21134509--21134733 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
21134499 TATTCGGATG
*
21134509 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
21134549 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
21134589 ATATCCGGGAAAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * * *
21134632 ATACCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* ** * *
21134672 ACATCAAGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
21134712 ATATCC-GGCTAAAG-CCCGAAGG
1 ATATCCGGGCT-AAGTCCCGAAGG
21134734 TACTTGGGTT
Statistics
Matches: 153, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
39 12 0.08
40 108 0.71
43 33 0.22
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21134752 original size:83 final size:80
Alignment explanation
Indices: 21134516--21134733 Score: 296
Period size: 83 Copynumber: 2.7 Consensus size: 80
21134506 ATGATATCCG
*
21134516 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCAGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCAGGCTAAGTCCCGAAGGCATTTGTGC
* **
21134581 TAGTGACTATATCCG
66 TAGTGACTACATCAA
** * * *
21134596 GGAAAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCTGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCAGGCTAAGTCCCGAAGGCATTTG
21134661 TGCTAGTGACTACATCAA
63 TGCTAGTGACTACATCAA
*
21134679 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAAG-CCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCAGGCT-AAGTCCCGAAGG
21134734 TACTTGGGTT
Statistics
Matches: 120, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
79 11 0.09
80 38 0.32
81 1 0.01
82 1 0.01
83 69 0.57
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCAGGCTAAGTCCCGAAGGCATTTGTGC
TAGTGACTACATCAA
Found at i:21135077 original size:91 final size:91
Alignment explanation
Indices: 21134922--21135102 Score: 344
Period size: 91 Copynumber: 2.0 Consensus size: 91
21134912 AATATATTGG
*
21134922 TTGAAGCGTGAAGAAATTATGATTTTGAGAATGTGCATATATGAAATTATTCATTTAGTCATATG
1 TTGAAGCGTGAAAAAATTATGATTTTGAGAATGTGCATATATGAAATTATTCATTTAGTCATATG
21134987 AACGCTATACTTTAGTCGTAAATAAA
66 AACGCTATACTTTAGTCGTAAATAAA
21135013 TTGAAGCGTGAAAAAATTATGATTTTGAGAATGTGCATATATGAAATTATTCATTTAGTCATATG
1 TTGAAGCGTGAAAAAATTATGATTTTGAGAATGTGCATATATGAAATTATTCATTTAGTCATATG
*
21135078 AAGGCTATACTTTAGTCGTAAATAA
66 AACGCTATACTTTAGTCGTAAATAA
21135103 TTTCGTTACT
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 88 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (91 bp):
TTGAAGCGTGAAAAAATTATGATTTTGAGAATGTGCATATATGAAATTATTCATTTAGTCATATG
AACGCTATACTTTAGTCGTAAATAAA
Found at i:21139095 original size:46 final size:44
Alignment explanation
Indices: 21139027--21139139 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 44
21139017 GCATTGGGAT
*
21139027 AGTGTAAGACATGTCTCGGACATGCATCAGCCT-CGAGACGTAAGTC
1 AGTGTAAGACATGTCTAGGACATGCATC-GCCTACGAGACGT--GTC
* * *
21139073 AGTGTAAGACATGTCTAAGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGCCTACGAGACGTGTC
*
21139117 AATGTAAGACCATGTCTAGGACA
1 AGTGTAAGA-CATGTCTAGGACA
21139140 CGGCATTGTC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
44 11 0.19
45 15 0.25
46 33 0.56
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCGCCTACGAGACGTGTC
Found at i:21141916 original size:54 final size:54
Alignment explanation
Indices: 21141834--21142755 Score: 1783
Period size: 54 Copynumber: 17.1 Consensus size: 54
21141824 GGTCGTTAGG
21141834 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21141888 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21141942 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21141996 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142050 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142104 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142158 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142212 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142266 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142320 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142374 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142428 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142482 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142536 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142590 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142644 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
* ** * *
21142698 ACCCCTATAGTGCAAAATTA-CAGAAATACCCTTGTAGTGTAAAATTACCAAAAT
1 ACCCCTATAGTGCAAAATTATC-GAAATACCCTTGAAGTAAAAAATTATCGAAAT
21142752 ACCC
1 ACCC
21142756 TCGATTTGTG
Statistics
Matches: 862, Mismatches: 5, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
53 1 0.00
54 861 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (54 bp):
ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
Found at i:21143289 original size:35 final size:33
Alignment explanation
Indices: 21143231--21143299 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 33
21143221 TATTTATATA
*
21143231 ACTACTTCTGTATTAAGATGGGCTTAGGCCCAG
1 ACTACTTCTGTACTAAGATGGGCTTAGGCCCAG
*
21143264 ACTACTTACTGTTACTAATATGGGCTTAGGCCCAG
1 ACTACTT-CTG-TACTAAGATGGGCTTAGGCCCAG
21143299 A
1 A
21143300 ATGTATTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 7 0.22
34 3 0.09
35 22 0.69
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (33 bp):
ACTACTTCTGTACTAAGATGGGCTTAGGCCCAG
Found at i:21144818 original size:27 final size:27
Alignment explanation
Indices: 21144787--21144839 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
21144777 GCTGCCAGAA
21144787 CAGTAAGTGTGGCAAAGCCACCAGTAT
1 CAGTAAGTGTGGCAAAGCCACCAGTAT
* *
21144814 CAGTAATTGTGGCATAGCCACCAGTA
1 CAGTAAGTGTGGCAAAGCCACCAGTA
21144840 ATAGTGAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGTAAGTGTGGCAAAGCCACCAGTAT
Found at i:21145039 original size:27 final size:27
Alignment explanation
Indices: 21145008--21145121 Score: 131
Period size: 27 Copynumber: 4.2 Consensus size: 27
21144998 GGCATAATCA
* *
21145008 TCATTCTACCATACAGGGGTTTTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* * * *
21145035 TCATTTTTCTC-TACAGTGGCATTACAG
1 TCATTTTAC-CATACAGGGGTATTACGG
*
21145062 TCATTTTACCATACTGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
* *
21145089 TCATTTTACCCTACAGGGGTATTTCGG
1 TCATTTTACCATACAGGGGTATTACGG
21145116 TCATTT
1 TCATTT
21145122 CACAAATCGA
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 69 0.97
28 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:21145119 original size:54 final size:54
Alignment explanation
Indices: 21145008--21145121 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
21144998 GGCATAATCA
* * * * *
21145008 TCATTCTACCATACAGGGGTTTTACGGTCATTTTTCTCTACAGTGGCATTACAG
1 TCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAG
* * * *
21145062 TCATTTTACCATACTGGGGTATTACGGTCATTTTACCCTACAGGGGTATTTCGG
1 TCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAG
21145116 TCATTT
1 TCATTT
21145122 CACAAATCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (54 bp):
TCATTTTACCATACAGGGGTATTACGGTCATTTTACCCTACAGGGGCATTACAG
Found at i:21147174 original size:27 final size:27
Alignment explanation
Indices: 21147144--21147197 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21147134 TGTCATGTGA
* *
21147144 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
21147171 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
21147198 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:21151259 original size:34 final size:35
Alignment explanation
Indices: 21151221--21151302 Score: 89
Period size: 34 Copynumber: 2.4 Consensus size: 35
21151211 TGAATTGCGC
*
21151221 TAAGGCCCACATTGATACTGTTACTG-TAATGGG-T
1 TAAGGCCCACATTGATACTGCTACTGATAA-GGGCT
* * *
21151255 TAAGGCCCATACTGATATTGCTACTGATAAGGGCT
1 TAAGGCCCACATTGATACTGCTACTGATAAGGGCT
*
21151290 T-AGGCCCAGATTG
1 TAAGGCCCACATTG
21151303 TTTACACTGC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 35 0.88
35 5 0.12
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (35 bp):
TAAGGCCCACATTGATACTGCTACTGATAAGGGCT
Found at i:21156383 original size:54 final size:53
Alignment explanation
Indices: 21156300--21156409 Score: 157
Period size: 54 Copynumber: 2.1 Consensus size: 53
21156290 GGAAGCGTCA
**
21156300 TGGTGGCTATGCCACAACTATCTGATCTGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACAT-TATCTGTTC
* * * *
21156354 TGGTGGCTCTGCCACAATTATCTGTTCTGGTAACTCTGTCACATTATCTGTTC
1 TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACATTATCTGTTC
21156407 TGG
1 TGG
21156410 CAGCCGTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (53 bp):
TGGTGGCTATGCCACAACTATCTGATCTGGTAACTCTGCCACATTATCTGTTC
Found at i:21156406 original size:26 final size:26
Alignment explanation
Indices: 21156300--21156409 Score: 139
Period size: 27 Copynumber: 4.1 Consensus size: 26
21156290 GGAAGCGTCA
* * *
21156300 TGGTGGCTATGCCACAACTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
21156327 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGTTC
21156354 TGGTGGCTCTGCCACAATTATCTGTTC
1 TGGTGGCTCTGCCAC-ATTATCTGTTC
** *
21156381 TGGTAACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGTTC
21156407 TGG
1 TGG
21156410 CAGCCGTGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGTTC
Found at i:21162310 original size:15 final size:15
Alignment explanation
Indices: 21162290--21162320 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21162280 AATGTGGAAG
21162290 ACGACACATAGGTGA
1 ACGACACATAGGTGA
21162305 ACGACACATAGGTGA
1 ACGACACATAGGTGA
21162320 A
1 A
21162321 TGTTGGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.13
Consensus pattern (15 bp):
ACGACACATAGGTGA
Found at i:21174832 original size:24 final size:24
Alignment explanation
Indices: 21174805--21174860 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
21174795 GTAAGGAGGG
21174805 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
*
21174829 GATAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
21174853 GATCAAGG
1 GAT-AAGG
21174861 AGCAAGAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.36, C:0.05, G:0.39, T:0.20
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:21177495 original size:43 final size:43
Alignment explanation
Indices: 21177457--21177540 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
21177447 AAATCATATA
*
21177457 ACGATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT
1 ACGATGCCAATGTCCCAGACATGGTATTACACGTAATCACAAT
* * *
21177500 ACAATGCCAATGTCCCAAACATGGTATTACATGTAATCACA
1 ACGATGCCAATGTCCCAGACATGGTATTACACGTAATCACA
21177541 TCTCAGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (43 bp):
ACGATGCCAATGTCCCAGACATGGTATTACACGTAATCACAAT
Found at i:21181700 original size:25 final size:25
Alignment explanation
Indices: 21181670--21181747 Score: 147
Period size: 25 Copynumber: 3.1 Consensus size: 25
21181660 TGTGCCAAAG
21181670 ACTGCATTTAGAACAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
*
21181695 ACTGCATTTAGAATAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
21181720 ACTGCATTTAGAACAAGGTACAGAC
1 ACTGCATTTAGAACAAGGTACAGAC
21181745 ACT
1 ACT
21181748 ATGAACTTCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (25 bp):
ACTGCATTTAGAACAAGGTACAGAC
Found at i:21184429 original size:43 final size:43
Alignment explanation
Indices: 21184358--21184441 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
21184348 ATGGTCTTAC
* * * **
21184358 GATGCCAATGTCCTATACATTGTTTTACATGTAATCACATAAT
1 GATGCCAATGTCCTAGACATGGTCTTACACATAATCACATAAT
21184401 GATGCCAATGTTCC-AGACATGGTCTTACACATAATCACATA
1 GATGCCAATG-TCCTAGACATGGTCTTACACATAATCACATA
21184442 TCGTTAATCC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 32 0.91
44 3 0.09
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.32
Consensus pattern (43 bp):
GATGCCAATGTCCTAGACATGGTCTTACACATAATCACATAAT
Found at i:21194145 original size:43 final size:43
Alignment explanation
Indices: 21193847--21194133 Score: 380
Period size: 43 Copynumber: 6.7 Consensus size: 43
21193837 ATATCGTACA
* * * *
21193847 ATGCCAGCATCCCAGACATGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
21193890 ATG-CTACTGTCTCAGACAG-GGTCTTACATGTAATCACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
*
21193933 ATGCTAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
21193976 ATGCCAACGTTCCAAACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
** *
21194019 ATGCCAACGTCTTAGACGTGGTCTTACACGTAATCACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
21194062 ATTCCAACGTCCTAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
21194105 ATGCCAATGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
21194134 ACACACACAT
Statistics
Matches: 213, Mismatches: 27, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
42 3 0.01
43 208 0.98
44 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:21194713 original size:51 final size:51
Alignment explanation
Indices: 21194637--21194736 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
21194627 CTAATAATCA
21194637 TTATAATTATTTATAGATCACATATATTGAAATTTAACAACATCTATTTGC
1 TTATAATTATTTATAGATCACATATATTGAAATTTAACAACATCTATTTGC
21194688 TTATAATTATTTATAGATCACATATATTGAAATTTAACAACATCTATTT
1 TTATAATTATTTATAGATCACATATATTGAAATTTAACAACATCTATTT
21194737 AACAACATCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (51 bp):
TTATAATTATTTATAGATCACATATATTGAAATTTAACAACATCTATTTGC
Found at i:21194738 original size:14 final size:14
Alignment explanation
Indices: 21194719--21194745 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21194709 ATATATTGAA
21194719 ATTTAACAACATCT
1 ATTTAACAACATCT
21194733 ATTTAACAACATC
1 ATTTAACAACATC
21194746 ATTATAATTA
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
ATTTAACAACATCT
Found at i:21195820 original size:86 final size:85
Alignment explanation
Indices: 21195657--21195813 Score: 201
Period size: 86 Copynumber: 1.8 Consensus size: 85
21195647 AGCTCTTACA
* * * ** * *
21195657 ATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCGATGGCCCAGCTATGGTC
1 ATGCCATATCCCAAACATAGTCTTACACATAATCACATATCGATGCCAATGGCCCAGCTATGGTC
21195722 TTACACGAAATCAAATAACG
66 TTACACGAAATCAAATAACG
*
21195742 ATGCCACTATCCCAAACATAGTCTTACACATAATCACATAAT-GATGCCAATGTCCCAGAC-ATG
1 ATGCCA-TATCCCAAACATAGTCTTACACATAATCACAT-ATCGATGCCAATGGCCCAG-CTATG
21195805 GTCTTACAC
63 GTCTTACAC
21195814 ATAATCACAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
85 6 0.10
86 52 0.85
87 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (85 bp):
ATGCCATATCCCAAACATAGTCTTACACATAATCACATATCGATGCCAATGGCCCAGCTATGGTC
TTACACGAAATCAAATAACG
Found at i:21195821 original size:43 final size:43
Alignment explanation
Indices: 21195657--21195823 Score: 162
Period size: 43 Copynumber: 3.9 Consensus size: 43
21195647 AGCTCTTACA
* ** *
21195657 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATATCCCAGACATGGTCTTACACATAATCACATAAT-G
* ** * *
21195699 ATGCCGATGGCCCAG-CTATGGTCTTACACGA-AATCAAATAACG
1 ATGCCAATATCCCAGAC-ATGGTCTTACAC-ATAATCACATAATG
* * *
21195742 ATGCCACTATCCCAAACATAGTCTTACACATAATCACATAATG
1 ATGCCAATATCCCAGACATGGTCTTACACATAATCACATAATG
*
21195785 ATGCCAATGTCCCAGACATGGTCTTACACATAATCACAT
1 ATGCCAATATCCCAGACATGGTCTTACACATAATCACAT
21195824 CTCGTTAATC
Statistics
Matches: 99, Mismatches: 20, Indels: 11
0.76 0.15 0.08
Matches are distributed among these distances:
42 6 0.06
43 91 0.92
44 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACATAATCACATAATG
Found at i:21199030 original size:21 final size:20
Alignment explanation
Indices: 21198991--21199031 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21198981 ATACATGAGT
21198991 ATTATGAAGTTTCTTGATAG
1 ATTATGAAGTTTCTTGATAG
21199011 ATTATGAATTGTTT-TTGATAG
1 ATTATGAA--GTTTCTTGATAG
21199032 TTAAGTAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (20 bp):
ATTATGAAGTTTCTTGATAG
Found at i:21199453 original size:42 final size:42
Alignment explanation
Indices: 21199388--21199505 Score: 161
Period size: 42 Copynumber: 2.9 Consensus size: 42
21199378 CAGTTATCTG
*
21199388 TGGCACTTAGTGTGCGATACGACATAGCTTTGGCTATATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATATA
* * *
21199430 TGGCACTTAGTGTGCAATTCGACATAACTTCGGC--TATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATATA
* *
21199470 TGGCACTTAGTGTGCGATTTGAGATAG-TTTGGCTAT
1 TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTAT
21199506 GTACGACACT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
39 5 0.08
40 29 0.45
41 1 0.02
42 30 0.46
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATATATA
Found at i:21201306 original size:38 final size:38
Alignment explanation
Indices: 21201250--21201352 Score: 143
Period size: 38 Copynumber: 2.7 Consensus size: 38
21201240 GGCACGAAGG
* * *
21201250 CCCGAATATAATACCAGCACTAAGCCTGCGAGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
*
21201288 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
** *
21201326 CCCGGATATTTTACTAGCACGAAGCCT
1 CCCGGATATAATACCAGCACGAAGCCT
21201353 ACGGGTCTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGAGATTTAA
Found at i:21205369 original size:27 final size:27
Alignment explanation
Indices: 21205339--21205516 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
21205329 ATATTGAGTC
* *
21205339 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
21205366 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21205393 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21205421 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* * **
21205448 CGCACTCTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
21205475 CGCACACTTAGAGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
21205502 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21205517 GTACAATTTA
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21208184 original size:33 final size:33
Alignment explanation
Indices: 21208142--21208226 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
21208132 AATCGGTAAT
* *
21208142 AGTCTGGGCCTGAGCCCTATTCAGTATCAGTAC
1 AGTCTGGGCCTGAGCCCTATACAGTATCAATAC
*
21208175 AGTCTGGGCCTTG-GCCCTATACAGTATCAATGC
1 AGTCTGGGCC-TGAGCCCTATACAGTATCAATAC
* * *
21208208 AGACTAGGCCTTAGCCCTA
1 AGTCTGGGCCTGAGCCCTA
21208227 CATAGTAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
32 1 0.02
33 41 0.93
34 2 0.05
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (33 bp):
AGTCTGGGCCTGAGCCCTATACAGTATCAATAC
Found at i:21208631 original size:27 final size:27
Alignment explanation
Indices: 21208601--21208792 Score: 185
Period size: 27 Copynumber: 7.2 Consensus size: 27
21208591 GGCAAAATCA
* *
21208601 TCATTTTACCATATAAGGGTATTACAG
1 TCATTTTACCCTATAAGGGTATTACGG
* *
21208628 TCA---TACCCTATAGGGGTATTATGG
1 TCATTTTACCCTATAAGGGTATTACGG
* * *
21208652 TCATCTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
*
21208679 TCATTTTACCCTATAAGGGTATTACGA
1 TCATTTTACCCTATAAGGGTATTACGG
* * *
21208706 TCATTTAACCCTA-CAGGGATATTATGG
1 TCATTTTACCCTATAAGGG-TATTACGG
* * * *
21208733 TCATTTAACCCTACAGGGGTATTACAG
1 TCATTTTACCCTATAAGGGTATTACGG
** *
21208760 TCATTTTAAGCTACAAGGGTATTACGG
1 TCATTTTACCCTATAAGGGTATTACGG
21208787 TCATTT
1 TCATTT
21208793 CACAAATCGA
Statistics
Matches: 137, Mismatches: 23, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
24 20 0.15
26 4 0.03
27 110 0.80
28 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTATAAGGGTATTACGG
Found at i:21208661 original size:51 final size:52
Alignment explanation
Indices: 21208601--21208702 Score: 125
Period size: 51 Copynumber: 1.9 Consensus size: 52
21208591 GGCAAAATCA
* * *
21208601 TCATTTTACCATATAAGGGTATTACAGTCA-TACCCTATAGGGGTATTATGG
1 TCATCTTACCATATAAGGGCATTACAGTCATTACCCTATAAGGGTATTATGG
* * *
21208652 TCATCTTACCCTATAGGGGCATTACGGTCATTTTACCCTATAAGGGTATTA
1 TCATCTTACCATATAAGGGCATTACAGTCA--TTACCCTATAAGGGTATTA
21208703 CGATCATTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 25 0.60
54 17 0.40
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (52 bp):
TCATCTTACCATATAAGGGCATTACAGTCATTACCCTATAAGGGTATTATGG
Found at i:21208751 original size:81 final size:80
Alignment explanation
Indices: 21208601--21208792 Score: 239
Period size: 81 Copynumber: 2.4 Consensus size: 80
21208591 GGCAAAATCA
* * *
21208601 TCATTTTACCATATAAGGGTATTAC-AGTCA--TACCCTATAGGGGTATTATGGTCATCTTACCC
1 TCATTTTACCCTATAAGGGTATTACGA-TCATTTACCCTACAGGGATATTATGGTCATCTTACCC
* *
21208663 TATAGGGGCATTACGG
65 TACAGGGGCATTACAG
21208679 TCATTTTACCCTATAAGGGTATTACGATCATTTAACCCTACAGGGATATTATGGTCAT-TTAACC
1 TCATTTTACCCTATAAGGGTATTACGATCATTT-ACCCTACAGGGATATTATGGTCATCTT-ACC
*
21208743 CTACAGGGGTATTACAG
64 CTACAGGGGCATTACAG
** * *
21208760 TCATTTTAAGCTACAAGGGTATTACGGTCATTT
1 TCATTTTACCCTATAAGGGTATTACGATCATTT
21208793 CACAAATCGA
Statistics
Matches: 99, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
78 27 0.27
79 1 0.01
80 3 0.03
81 68 0.69
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (80 bp):
TCATTTTACCCTATAAGGGTATTACGATCATTTACCCTACAGGGATATTATGGTCATCTTACCCT
ACAGGGGCATTACAG
Found at i:21208860 original size:27 final size:27
Alignment explanation
Indices: 21208789--21208860 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 27
21208779 TATTACGGTC
* **
21208789 ATTTCACAAATCGAGGGTATTTCGGTA
1 ATTTCACAAATTGAGGGTATTTCAATA
* ** *
21208816 ATTTTACAACCTAAGGGTATTTCAATA
1 ATTTCACAAATTGAGGGTATTTCAATA
*
21208843 ATTTCACAAATTGGGGGT
1 ATTTCACAAATTGAGGGT
21208861 TTTAGCGACC
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTTCACAAATTGAGGGTATTTCAATA
Found at i:21212417 original size:93 final size:93
Alignment explanation
Indices: 21212306--21212477 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
21212296 CGCCCCTAAG
* *
21212306 TGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
21212371 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
21212399 TGAACTCCG-ACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTC
1 TGAACT-CGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTC
21212463 AACGAGTTCGGATGC
65 AACGAGTTCGGATGC
21212478 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 71 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:21212474 original size:46 final size:46
Alignment explanation
Indices: 21212302--21212474 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
21212292 AACCCGCCCC
* * * * *
21212302 TAAGTGAACTCGAACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
21212348 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
21212396 TCA-TGAACTCCGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
21212441 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21212475 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:21220033 original size:93 final size:93
Alignment explanation
Indices: 21219924--21220094 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
21219914 ACCCCTAAGT
* *
21219924 GAACTCGAACTCAACTCAACGAGCTC-AGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTCGA-ACATTCGCATCCATAAATGAACTCGGACTCAACTCA
21219988 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
21220017 GAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
21220082 CGAGTTCGGATGC
66 CGAGTTCGGATGC
21220095 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGAACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:21220089 original size:46 final size:47
Alignment explanation
Indices: 21219919--21220089 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 47
21219909 AACCCACCCC
* * * * *
21219919 TAAGTGAACTCGAACTCAACTCAACGAGCTC-AGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCA
* * * *
21219965 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-GAC-ATTTGCATCCA
* *
21220013 TCA-CGAACTCGGACTCAACTCAACGAGTTCGA-ACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCA
21220058 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
21220090 GATGCTCAAC
Statistics
Matches: 103, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 3 0.03
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (47 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGACATTTGCATCCA
Found at i:21220940 original size:50 final size:50
Alignment explanation
Indices: 21220873--21220971 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 50
21220863 CGAGCTTCCG
21220873 GGATTCCAAAAACGTAAAGAACATTAAAAACGGAG-CTTGGAATCACTTAT
1 GGATTCCAAAAACGTAAAGAACATTAAAAAC-GAGCCTTGGAATCACTTAT
* *
21220923 GGATTCCGAAAATGTAAAGAACATTAAAAACGAGCCTTGGAATCACTTA
1 GGATTCCAAAAACGTAAAGAACATTAAAAACGAGCCTTGGAATCACTTA
21220972 CTATGGAGCT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 3 0.07
50 43 0.93
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.22
Consensus pattern (50 bp):
GGATTCCAAAAACGTAAAGAACATTAAAAACGAGCCTTGGAATCACTTAT
Found at i:21226975 original size:53 final size:54
Alignment explanation
Indices: 21226890--21227096 Score: 218
Period size: 53 Copynumber: 3.8 Consensus size: 54
21226880 TTTGGAATTA
* *
21226890 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
21226943 AACTCACCATTGCCATTTCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * *
21226997 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTGTAA
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * *
21227052 AACTTACAAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
21227097 AAACCCTAAT
Statistics
Matches: 122, Mismatches: 30, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 40 0.33
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (54 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:21234203 original size:53 final size:54
Alignment explanation
Indices: 21234115--21234306 Score: 181
Period size: 55 Copynumber: 3.6 Consensus size: 54
21234105 CTTCCCATTT
* * * * *
21234115 CCATGTCTTGACATGGTCGTACGTGGTAT-TCTTGCCTTAT-GAACTCACCATTG
1 CCATGCCTTGACATGGTCTTACATGGTATCT-TTGCCTTATAGAACTTACCAATG
* * ** *
21234168 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG-AACTTACCAATG
* * * * * * *
21234223 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACAAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTTACCAATG
* *
21234277 CCATGCCTTGGCATGGTCTTACTTGGTATC
1 CCATGCCTTGACATGGTCTTACATGGTATC
21234307 CTTAAACCCT
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
53 33 0.30
54 35 0.32
55 41 0.38
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAACTTACCAATG
Found at i:21238108 original size:69 final size:69
Alignment explanation
Indices: 21237996--21238125 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 69
21237986 TTGAATGCTG
* *
21237996 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGAT-CCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGATTAAG-TCCCGAAGGCCTT
21238060 CTAAA
65 CTAAA
* * * *
21238065 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAGTCCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC-TTCGTGCTAAG-TGAATAAATCCGGATTAAGTCCCGAAGGC
21238126 ATTCGTGCGA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
68 1 0.02
69 43 0.83
70 8 0.15
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (69 bp):
TCCGGGCTAAGTCCCGAAGGCTTCGTGCTAAGTGAATAAATCCGGATTAAGTCCCGAAGGCCTTC
TAAA
Found at i:21238116 original size:40 final size:40
Alignment explanation
Indices: 21238061--21238207 Score: 208
Period size: 40 Copynumber: 3.7 Consensus size: 40
21238051 GAAGGCCTTC
*
21238061 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGT
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGA
*
21238101 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAATTGA
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGA
* *
21238141 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTT-A
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGA
* * *
21238179 CTAAACCCGGGCTATGTCCCGAAGGCATT
1 -TAAATCCGGGTTAAGTCCCGAAGGCATT
21238208 TGAACGAGGA
Statistics
Matches: 99, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.33
40 65 0.66
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGA
Found at i:21238227 original size:79 final size:80
Alignment explanation
Indices: 21238061--21238242 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 80
21238051 GAAGGCCTTC
** * *
21238061 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGC
** **
21238126 ATTCGTGCGAATTGA
66 ATTCGAACGAAGAGA
* * *
21238141 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAACCCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGC
* * *
21238205 ATTTGAACGAGGAGC
66 ATTCGAACGAAGAGA
* *
21238220 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
21238243 TACGTGATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 44 0.52
80 27 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAGTCCCGAAGGC
ATTCGAACGAAGAGA
Found at i:21242996 original size:81 final size:81
Alignment explanation
Indices: 21242867--21243066 Score: 253
Period size: 81 Copynumber: 2.5 Consensus size: 81
21242857 ACGATTCTTA
* * * *
21242867 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCATTGGCTCGAAGGCCCTTCGGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
21242931 ACTAAGTCCGGTTATG
66 ACTAAGTCCGGTTATG
* *
21242947 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* * * *
21243010 TAATTAAGTTCGGTTATT
64 GAACTAAGTCCGGTTATG
*
21243028 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
21243067 TACACCCCGA
Statistics
Matches: 103, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
80 13 0.13
81 54 0.52
82 32 0.31
83 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
ACTAAGTCCGGTTATG
Found at i:21243005 original size:41 final size:41
Alignment explanation
Indices: 21242868--21243052 Score: 225
Period size: 41 Copynumber: 4.6 Consensus size: 41
21242858 CGATTCTTAA
* * *
21242868 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * * *
21242907 CCATTGGCTCGAAGGCCCTTCGGAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
21242948 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
21242989 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
21243030 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
21243053 CCCAAGCTCG
Statistics
Matches: 124, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 42 0.34
41 79 0.64
43 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:21250978 original size:54 final size:54
Alignment explanation
Indices: 21250918--21251026 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
21250908 TGTGCATACG
*
21250918 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTGTGGATGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
21250972 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
21251026 C
1 C
21251027 ATGTTCTGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (54 bp):
CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
Found at i:21252326 original size:25 final size:26
Alignment explanation
Indices: 21252298--21252367 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
21252288 CTCTTTTAAT
*
21252298 AACTGGGGCAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
21252323 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
*
21252348 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21252368 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.12
25 33 0.80
26 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:21254291 original size:27 final size:26
Alignment explanation
Indices: 21254240--21254299 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
21254230 CCACATATAT
*
21254240 ATATCTGTTCTGGTGGCCTACTCACA
1 ATATCTGTTCTGGTGGACTACTCACA
*
21254266 ATATCTGTATCTGGT-GACTTCGTCACA
1 ATATCTGT-TCTGGTGGACTAC-TCACA
21254293 ATATCTG
1 ATATCTG
21254300 GCAGCCTCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGGACTACTCACA
Found at i:21262612 original size:82 final size:81
Alignment explanation
Indices: 21262475--21262632 Score: 248
Period size: 82 Copynumber: 1.9 Consensus size: 81
21262465 GGGTGTTATA
*
21262475 TCTACCCTACAAGGGTATTTCAATAATTCTACACTACAGGGGTATTTTAGTAATTCTACCCTACA
1 TCTACCCTACAAGGGTATTTCAATAATTCTACACTACAGGGGTATTTCAGTAATTCTACCCTAC-
21262540 AGGGGTATTTCGGTAAT
65 AGGGGTATTTCGGTAAT
* *
21262557 TCTACCCTAC-AGGGTTATTTCAGTAATTCTAC-CATACAGGGGTATTTCGGTAATTCTACCCTA
1 TCTACCCTACAAGGG-TATTTCAATAATTCTACAC-TACAGGGGTATTTCAGTAATTCTACCCTA
21262620 CAGGGGTATTTCG
64 CAGGGGTATTTCG
21262633 ATATTTTACA
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
81 17 0.24
82 54 0.76
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (81 bp):
TCTACCCTACAAGGGTATTTCAATAATTCTACACTACAGGGGTATTTCAGTAATTCTACCCTACA
GGGGTATTTCGGTAAT
Found at i:21262632 original size:27 final size:27
Alignment explanation
Indices: 21262475--21262631 Score: 233
Period size: 27 Copynumber: 5.8 Consensus size: 27
21262465 GGGTGTTATA
* *
21262475 TCTACCCTACAAGGGTATTTCAATAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
21262502 TCTACACTACAGGGGTATTTTAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
21262529 TCTACCCTACAAGGGGTATTTCGGTAAT
1 TCTACCCTAC-AGGGGTATTTCAGTAAT
*
21262557 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
21262584 TCTACCATACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
21262611 TCTACCCTACAGGGGTATTTC
1 TCTACCCTACAGGGGTATTTC
21262632 GATATTTTAC
Statistics
Matches: 116, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 91 0.78
28 25 0.22
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCAGTAAT
Found at i:21262681 original size:27 final size:27
Alignment explanation
Indices: 21262620--21262692 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
21262610 TTCTACCCTA
*
21262620 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTCGATAATTTCACAAAT
*
21262646 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTCGATAATTTCACAAAT
* *
21262673 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGATAATTT
21262693 TGTAAACCAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 12 0.31
27 25 0.64
28 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTCACAAAT
Found at i:21262689 original size:80 final size:82
Alignment explanation
Indices: 21262490--21262691 Score: 220
Period size: 82 Copynumber: 2.5 Consensus size: 82
21262480 CCTACAAGGG
* * * *
21262490 TATTTCAATAATTCTACACTACAGGGGTATTTTAGTAATTCTACCCTACAAGGGGTATTTCGGTA
1 TATTTCAGTAATTCTACAATACAGGGGTATTTTGGTAATTCTACCCTACAAGGGGTATTTCGATA
** *
21262555 ATTCTACCCTACAGGGT
66 ATTCTACAATACAGAGT
* *
21262572 TATTTCAGTAATTCTACCATACAGGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTTCGAT-
1 TATTTCAGTAATTCTACAATACAGGGGTATTTTGGTAATTCTACCCTACAAGGGGTATTTCGATA
*
21262635 ATTTTACAA-ATCGAGAG-
66 ATTCTACAATA-C-AGAGT
21262652 TATTTC-GATAATT-TCACAA-ATCAGGGGTATTTTGGTAATT
1 TATTTCAG-TAATTCT-ACAATA-CAGGGGTATTTTGGTAATT
21262692 TTGTAAACCA
Statistics
Matches: 103, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
79 4 0.04
80 39 0.38
81 16 0.16
82 44 0.43
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (82 bp):
TATTTCAGTAATTCTACAATACAGGGGTATTTTGGTAATTCTACCCTACAAGGGGTATTTCGATA
ATTCTACAATACAGAGT
Found at i:21262743 original size:27 final size:27
Alignment explanation
Indices: 21262713--21262974 Score: 294
Period size: 27 Copynumber: 9.7 Consensus size: 27
21262703 GGGTATTTCA
* * *
21262713 GTAATTTTGTAAATAGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21262740 GTAATTGTATAAATCGAGGGTAAAATA
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21262767 GTAATTTTGTAAATCGAGTGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21262794 GTAATTCTATAAATCGAGGGTAGAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
21262821 GTAATTCTT-TAAATCGAGGGTAAAATG
1 GTAATT-TTATAAATCGAGGGTAAAATG
* * * ** *
21262848 GTAATTCTGTAAATCAAAAGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
21262875 GTAA-TTTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21262901 GTAATTTTATAAATTGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* ***
21262928 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21262955 GTAATTTTACAAATTGAGGG
1 GTAATTTTATAAATCGAGGG
21262975 CATTTCAGTA
Statistics
Matches: 195, Mismatches: 37, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
26 21 0.11
27 173 0.89
28 1 0.01
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAATG
Found at i:21262743 original size:54 final size:53
Alignment explanation
Indices: 21262684--21262949 Score: 243
Period size: 54 Copynumber: 4.9 Consensus size: 53
21262674 AGGGGTATTT
* * * ** *
21262684 TGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATAGAGGGTAAAA
1 TGGTAATTCTATAAATCAAGGGTAAAT-AGTAATTTTGTAAATCGAGGGTAAAA
* * * *
21262738 CGGTAATTGTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGTGTAAAA
1 TGGTAATTCTATAAATCAAGGGT-AAATAGTAATTTTGTAAATCGAGGGTAAAA
* *
21262792 TGGTAATTCTATAAATCGAGGGTAGAATGGTAATTCTT-TAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCAAGGGTA-AATAGTAATT-TTGTAAATCGAGGGTAAAA
* ** *
21262846 TGGTAATTCTGTAAATCAAAAGTAAA-ACGGTAA-TTTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAATCAAGGGTAAATA--GTAATTTTGTAAATCGAGGGTAAAA
* ** * *
21262899 TGGTAATTTTATAAATTGAGGGTAAA-ACGGTAATTCTATAAATCGAGGGTA
1 TGGTAATTCTATAAATCAAGGGTAAATA--GTAATTTTGTAAATCGAGGGTA
21262950 CTTTGGTAAT
Statistics
Matches: 180, Mismatches: 25, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
52 2 0.01
53 47 0.26
54 127 0.71
55 4 0.02
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.32
Consensus pattern (53 bp):
TGGTAATTCTATAAATCAAGGGTAAATAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:21262771 original size:81 final size:81
Alignment explanation
Indices: 21262686--21262925 Score: 277
Period size: 81 Copynumber: 3.0 Consensus size: 81
21262676 GGGTATTTTG
* * ** * * * * *
21262686 GTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTGTATA
1 GTAATTTTGTAAATCAAGAGTAAATCGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
21262751 AATCGAGGGTAAAATA
66 AATCGAGGGTAAAATA
* * * * *
21262767 GTAATTTTGTAAATCGAGTGTAAAAT-GGTAATTCTATAAATCGAGGGTAGAATGGTAATTCTTT
1 GTAATTTTGTAAATCAAGAGT-AAATCGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTAT
*
21262831 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATA
* * * *
21262848 GTAATTCTGTAAATCAAAAGTAAAACGGTAA-TTTATAAATCGAGGGTAAAATGGTAATTTTATA
1 GTAATTTTGTAAATCAAGAGTAAATCGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
*
21262912 AATTGAGGGTAAAA
66 AATCGAGGGTAAAA
21262926 CGGTAATTCT
Statistics
Matches: 133, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
80 45 0.34
81 86 0.65
82 2 0.02
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (81 bp):
GTAATTTTGTAAATCAAGAGTAAATCGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAATA
Found at i:21262960 original size:107 final size:108
Alignment explanation
Indices: 21262713--21262949 Score: 305
Period size: 107 Copynumber: 2.2 Consensus size: 108
21262703 GGGTATTTCA
* * * * * * * ** ** *
21262713 GTAATTTTGTAAATAGAGGGTAAAACGGTAATTGTATAAATCGAGGGTAAAATAGTAATTTTGTA
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAAAGTAAAACGGTAATTTTATA
* * *
21262778 AATCGAGTGTAAAATGGTAATTCTATAAATCGAGGGTAGAATG
66 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
*
21262821 GTAATTCTTTAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAAAGTAAAACGGTAA-TTTATA
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAAAGTAAAACGGTAATTTTATA
* *
21262885 AATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACG
66 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
21262928 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
21262950 CTTTGGTAAT
Statistics
Matches: 111, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
107 64 0.58
108 47 0.42
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (108 bp):
GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCAAAAGTAAAACGGTAATTTTATA
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
Found at i:21262974 original size:134 final size:135
Alignment explanation
Indices: 21262732--21262974 Score: 373
Period size: 134 Copynumber: 1.8 Consensus size: 135
21262722 TAAATAGAGG
* * *
21262732 GTAAAACGGTAATTGTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGTGTAAAATGGTA
1 GTAAAACGGTAATTGTATAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTA
* *
21262797 ATTCTATAAATCGAGGGTAGAATGGTAATTCTTTAAATCGAGGGTAAAATGGTAATTCTGTAAAT
66 ATTCTATAAATCGAGGGTACAATGGTAATTCTTCAAATCGAGGGTAAAATGGTAATTCTGTAAAT
21262862 CAAAA
131 CAAAA
* *
21262867 GTAAAACGGTAATT-TATAAATCGAGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTA
1 GTAAAACGGTAATTGTATAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTA
** *
21262931 ATTCTATAAATCGAGGGTACTTTGGTAATT-TTACAAATTGAGGG
66 ATTCTATAAATCGAGGGTACAATGGTAATTCTT-CAAATCGAGGG
21262975 CATTTCAGTA
Statistics
Matches: 97, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
133 2 0.02
134 81 0.84
135 14 0.14
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (135 bp):
GTAAAACGGTAATTGTATAAATCGAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAACGGTA
ATTCTATAAATCGAGGGTACAATGGTAATTCTTCAAATCGAGGGTAAAATGGTAATTCTGTAAAT
CAAAA
Found at i:21262986 original size:134 final size:135
Alignment explanation
Indices: 21262702--21262987 Score: 355
Period size: 134 Copynumber: 2.1 Consensus size: 135
21262692 TTGTAAACCA
* * **
21262702 AGGGTATTTCAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTGTATAAATCGAGGGTAAAATA
1 AGGGAATTTCAGTAATTCTGTAAATAGAAAGTAAAACGGTAATTGTATAAATCGAGGGTAAAATA
* * * * *
21262767 GTAATTTTGTAAATCGAGTGTAAAATGGTAATTCTATAAATCGAGGGTAGAATGGTAATTCTTTA
66 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACAATGGTAATTCTTCA
21262832 AATCG
131 AATCG
** *
21262837 AGGGTAAAAT-GGTAATTCTGTAAATCA-AAAGTAAAACGGTAATT-TATAAATCGAGGGTAAAA
1 AGGG-AATTTCAGTAATTCTGTAAAT-AGAAAGTAAAACGGTAATTGTATAAATCGAGGGTAAAA
* * **
21262899 TGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTGGTAATT-TT
64 TAGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACAATGGTAATTCTT
*
21262963 ACAAATTG
129 -CAAATCG
*
21262971 AGGGCATTTCAGTAATT
1 AGGGAATTTCAGTAATT
21262988 TGGTAAAGTA
Statistics
Matches: 126, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
133 4 0.03
134 87 0.69
135 32 0.25
136 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (135 bp):
AGGGAATTTCAGTAATTCTGTAAATAGAAAGTAAAACGGTAATTGTATAAATCGAGGGTAAAATA
GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACAATGGTAATTCTTCA
AATCG
Found at i:21265568 original size:43 final size:43
Alignment explanation
Indices: 21265507--21265618 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
21265497 CCGGCATTAC
*
21265507 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
* *
21265550 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
*
21265593 GCCTGTTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
21265619 TGTGGCCACT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACGAA
Found at i:21269832 original size:40 final size:40
Alignment explanation
Indices: 21269777--21269968 Score: 235
Period size: 40 Copynumber: 4.8 Consensus size: 40
21269767 ATTTGAATGA
* *
21269777 GATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
*
21269817 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
* * *
21269857 GATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * * *
21269898 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTT
* * *
21269938 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
21269969 TGTGGTAATA
Statistics
Matches: 137, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 132 0.96
41 5 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (40 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTT
Found at i:21282078 original size:55 final size:53
Alignment explanation
Indices: 21281927--21282080 Score: 143
Period size: 53 Copynumber: 2.9 Consensus size: 53
21281917 GAATTAAACA
* * * *
21281927 TATCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACG
1 TATCATTGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATGAACG
* * * * * *
21281980 CACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-TCT-TTGCCTTATAGTA-G
1 TATCATTGCCATGTCTTGACATGGTCTTACAT--GATTTTCTTGCCTTAT-GAACG
*
21282033 TTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTT
1 --TATCATTGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTT
21282081 GTAAAACTTA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
53 39 0.50
54 4 0.05
55 35 0.45
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (53 bp):
TATCATTGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATGAACG
Found at i:21289291 original size:53 final size:55
Alignment explanation
Indices: 21289196--21289335 Score: 160
Period size: 53 Copynumber: 2.6 Consensus size: 55
21289186 AATTAAACTT
* * * *
21289196 ACCATTGCCATGTCTTGACATGGTCGTACGTGGTATTCTTGCCTT-TTG-AGCTC
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATAGCAGCTC
* * * *
21289249 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-TCTTTGCCTTATAGCAGTTT
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTC-TTGCCTTATAGCAGCTC
* *
21289304 ATCAATGCCATGTCTTGACATGGTCTTACATG
1 ACCATTGCCATGTCTTGACATGGTCTTACATG
21289336 ATTTCCTTGC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
52 2 0.03
53 37 0.51
54 2 0.03
55 31 0.43
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATAGCAGCTC
Found at i:21289346 original size:55 final size:53
Alignment explanation
Indices: 21289196--21289391 Score: 151
Period size: 55 Copynumber: 3.6 Consensus size: 53
21289186 AATTAAACTT
* * * *
21289196 ACCATTGCCATGTCTTGACATGGTCGTACGTGGTATT-CTTGCCTTTTGAGCTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGT-TTCCTTGCCTTTAGAGCTC
* * * ** * * *
21289249 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGCAGTTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTT-TAG-AGCTC
* * * * *
21289304 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTT-TAGAGCTC
* * * * *
21289358 ACAAAAGCCATGCCTTGGCATGGTCTTACTTGGT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGT
21289392 ATCTTTAAAC
Statistics
Matches: 111, Mismatches: 29, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
52 1 0.01
53 36 0.32
54 32 0.29
55 42 0.38
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTTTAGAGCTC
Found at i:21299149 original size:54 final size:54
Alignment explanation
Indices: 21299089--21299197 Score: 191
Period size: 54 Copynumber: 2.0 Consensus size: 54
21299079 TGTGCATACG
* *
21299089 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTGTGGATGTGTTC
1 CGCGACATTTATAAAACAAGCCTAATATTCAATAATGAAGTTATGGATGTGTTC
*
21299143 CGCGACATTTATAAAACAAGCCTAATATTCAATAATGAAGTTATGGTTGTGTTC
1 CGCGACATTTATAAAACAAGCCTAATATTCAATAATGAAGTTATGGATGTGTTC
21299197 C
1 C
21299198 ATGTTCTGTA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (54 bp):
CGCGACATTTATAAAACAAGCCTAATATTCAATAATGAAGTTATGGATGTGTTC
Found at i:21300292 original size:20 final size:20
Alignment explanation
Indices: 21300255--21300294 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
21300245 TAACTGGGGC
*
21300255 AAAGCCCTTTTTGATAAACT
1 AAAGCCCTTTTCGATAAACT
*
21300275 AAAGCCCTTTTCGGTAAACT
1 AAAGCCCTTTTCGATAAACT
21300295 GGGGCATAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (20 bp):
AAAGCCCTTTTCGATAAACT
Found at i:21306251 original size:25 final size:26
Alignment explanation
Indices: 21306217--21306268 Score: 97
Period size: 25 Copynumber: 2.0 Consensus size: 26
21306207 TTGGTTAAAA
21306217 TATATATTTAGTAGGTTAGTGGGCCT
1 TATATATTTAGTAGGTTAGTGGGCCT
21306243 TATAT-TTTAGTAGGTTAGTGGGCCT
1 TATATATTTAGTAGGTTAGTGGGCCT
21306268 T
1 T
21306269 TGGAAGGCCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.21, C:0.08, G:0.27, T:0.44
Consensus pattern (26 bp):
TATATATTTAGTAGGTTAGTGGGCCT
Found at i:21308596 original size:27 final size:27
Alignment explanation
Indices: 21308554--21308898 Score: 487
Period size: 27 Copynumber: 12.8 Consensus size: 27
21308544 GGGTGTTACA
* *
21308554 TCTACCCTATAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
**
21308581 TCTACCCTACAGGGGTATTTC-AAAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21308607 TCTACCATACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21308634 TCTACCCTACAGGGGTATTTCGATAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21308661 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21308688 TCTACCCTACAGGGGTATTTCGGTATT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21308715 TCTACCCTACAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21308742 TCTACCCTATAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21308769 TCTACCCTACAGGGGTGTTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21308796 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
**
21308823 TCTACCCTACAGGGGTATTTTAGTAACT
1 TCTACCCTACAGGGGTATTTCGGTAA-T
* *
21308851 T-TACCCTATAGGGGTATTTCGATAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21308877 TCTACGCTACAGGGGTATTTCG
1 TCTACCCTACAGGGGTATTTCG
21308899 ATATTTTACA
Statistics
Matches: 281, Mismatches: 34, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
26 25 0.09
27 254 0.90
28 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCGGTAAT
Found at i:21308947 original size:27 final size:27
Alignment explanation
Indices: 21308889--21308958 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
21308879 TACGCTACAG
*
21308889 GGGTATTTCGAT-ATTTTACAAATCGA
1 GGGTATTTCGATAATTTCACAAATCGA
*
21308915 GAGTATTTCGATAATTTCACAAATC-A
1 GGGTATTTCGATAATTTCACAAATCGA
* *
21308941 GTGGTATTTTGGTAATTT
1 G-GGTATTTCGATAATTT
21308959 TGTAAACCAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 13 0.35
27 24 0.65
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTCACAAATCGA
Found at i:21309008 original size:54 final size:54
Alignment explanation
Indices: 21308950--21309162 Score: 196
Period size: 54 Copynumber: 3.9 Consensus size: 54
21308940 AGTGGTATTT
* ** * * *
21308950 TGGTAATTTTGTAAACCAAGGGT-ATTTCAGTAATTTTGTAAATCGAGTGTAAAA
1 TGGTAATTCTGTAAACCAAGGGTAAAAT-AGTAATTCTATAAATCGAGGGTAAAA
* * * *
21309004 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
** * ** *
21309058 TGGTAATTCTGTAAATTGAA-AGTAAAACGGTAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTCTGTAAA-CCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
* * * ** *
21309112 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
21309163 CTTTGGTAAT
Statistics
Matches: 134, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
53 2 0.01
54 128 0.96
55 4 0.03
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (54 bp):
TGGTAATTCTGTAAACCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA
Found at i:21309035 original size:81 final size:81
Alignment explanation
Indices: 21308950--21309157 Score: 247
Period size: 81 Copynumber: 2.6 Consensus size: 81
21308940 AGTGGTATTT
* * ** * ** *
21308950 TGGTAATTTTGTAAACCAAGGGT-ATTTCAGTAATTTTGTAAATCGAGTGTAAAATGGTAATTCT
1 TGGTAATTCTATAAACCAAGGGTAAAAT-AGTAATTCTGTAAATCGAAAGTAAAACGGTAATTCT
21309014 ATAAATCGAGGGTAAAA
65 ATAAATCGAGGGTAAAA
* * * * *
21309031 TGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAAAGTAAAACGGTAATTTTA
1 TGGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAAAGTAAAACGGTAATTCTA
21309096 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * **
21309112 TGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGA
1 TGGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTGTAAATCGA
21309158 GGGTACTTTG
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 109 0.98
82 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (81 bp):
TGGTAATTCTATAAACCAAGGGTAAAATAGTAATTCTGTAAATCGAAAGTAAAACGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:21309171 original size:81 final size:81
Alignment explanation
Indices: 21308979--21309187 Score: 301
Period size: 81 Copynumber: 2.6 Consensus size: 81
21308969 GGGTATTTCA
* * *
21308979 GTAATTTTGTAAATCGAGTGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGAGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
*
21309044 AATCGAGGGTAAAATG
66 AATCGAGGGTAAAACG
* * *
21309060 GTAATTCTGTAAATTGAAAGTAAAACGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
1 GTAATTCTGTAAATCGAGAGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
21309125 AATCGAGGGTAAAACG
66 AATCGAGGGTAAAACG
* *** * *
21309141 GTAATTCTGTAAATCGAGGGTACTTTGGTAATTTTACAAATTGAGGG
1 GTAATTCTGTAAATCGAGAGTAAAATGGTAATTTTATAAATCGAGGG
21309188 CATTTCAATA
Statistics
Matches: 112, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 112 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.32
Consensus pattern (81 bp):
GTAATTCTGTAAATCGAGAGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTATA
AATCGAGGGTAAAACG
Found at i:21309173 original size:27 final size:27
Alignment explanation
Indices: 21308979--21309162 Score: 269
Period size: 27 Copynumber: 6.8 Consensus size: 27
21308969 GGGTATTTCA
* * *
21308979 GTAATTTTGTAAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
21309006 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
21309033 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * ** *
21309060 GTAATTCTGTAAATTGAAAGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
21309087 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
21309114 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
21309141 GTAATTCTGTAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
21309163 CTTTGGTAAT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:21309181 original size:27 final size:27
Alignment explanation
Indices: 21308979--21309187 Score: 247
Period size: 27 Copynumber: 7.7 Consensus size: 27
21308969 GGGTATTTCA
* *
21308979 GTAATTTTGTAAATCGAGTGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
*
21309006 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
*
21309033 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * * ** *
21309060 GTAATTCTGTAAATTGAAAGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
21309087 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21309114 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAATG
* * ***
21309141 GTAATTCTGTAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAATG
* *
21309168 GTAATTTTACAAATTGAGGG
1 GTAATTTTATAAATCGAGGG
21309188 CATTTCAATA
Statistics
Matches: 157, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 157 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.32
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTAAAATG
Found at i:21311767 original size:43 final size:43
Alignment explanation
Indices: 21311706--21311900 Score: 311
Period size: 43 Copynumber: 4.5 Consensus size: 43
21311696 GCATTATGCG
21311706 TGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCC
*
21311749 TGCTAGGCACGAAGGCCCGAATACACATCACTGGCATGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCC
* *
21311792 TGCTAGGCACTAAGGCCCGAATACACATGA-TCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACT-GGCACGAAGCC
* * * *
21311835 TGCTTGGCACGAAGGCCCAAATACACATCACCGGCATGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCC
21311878 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
21311901 TAATACCAGC
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 137 0.99
ACGTcount: A:0.30, C:0.31, G:0.26, T:0.13
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCC
Found at i:21311966 original size:38 final size:38
Alignment explanation
Indices: 21311898--21312000 Score: 116
Period size: 38 Copynumber: 2.7 Consensus size: 38
21311888 GAAGGCCCGA
* * * * **
21311898 ATATAATACCAGCACTAGGCCTGCGAGATTTATCCTTG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
* *
21311936 ATATAATACTAGCACGAAGCCTACGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
**
21311974 ATATTTTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACGAAGCCTGCGGG
21312001 TCTTTAAGCC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:21314720 original size:8 final size:8
Alignment explanation
Indices: 21314707--21314731 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
21314697 TCAAACCCTT
21314707 CTCACATG
1 CTCACATG
21314715 CTCACATG
1 CTCACATG
21314723 CTCACATG
1 CTCACATG
21314731 C
1 C
21314732 CACTTGCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CTCACATG
Found at i:21316766 original size:30 final size:29
Alignment explanation
Indices: 21316726--21316784 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 29
21316716 GCCTATGGGG
21316726 CAAGCCGTGTGTCACACACGGTCTAGACA
1 CAAGCCGTGTGTCACACACGGTCTAGACA
21316755 CAAGCCCGTGTGTCACACACGGTCTAGACA
1 CAAG-CCGTGTGTCACACACGGTCTAGACA
21316785 TAATCTTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.14
30 25 0.86
ACGTcount: A:0.27, C:0.32, G:0.24, T:0.17
Consensus pattern (29 bp):
CAAGCCGTGTGTCACACACGGTCTAGACA
Found at i:21317694 original size:43 final size:43
Alignment explanation
Indices: 21317633--21317746 Score: 174
Period size: 43 Copynumber: 2.7 Consensus size: 43
21317623 CACCGGCATT
* *
21317633 AAGCCTGCTAGGCACGAAGACCCGAATACACATCACTAGCACG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
* * * *
21317676 AAGCCTGCTAGGCACGAAGGCCTGAATACACATTACCGGCATG
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
21317719 AAGCCTGCTAGGCACGAAGGCCCGAATA
1 AAGCCTGCTAGGCACGAAGGCCCGAATA
21317747 TGTGGCCACT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.32, C:0.30, G:0.25, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGCACG
Found at i:21319618 original size:53 final size:53
Alignment explanation
Indices: 21319532--21319676 Score: 155
Period size: 53 Copynumber: 2.7 Consensus size: 53
21319522 TTTGGAATTA
* * * *
21319532 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGTCTTGACATGGCCTTACATGGGATCCTTGCCTTATG
* * *
21319585 AACTCACCATTGCCATTTCTTGGCATGGCCTTACATGGGATCTTTGCCTTATAG
1 AACTCACCATTGCCATGTCTTGACATGGCCTTACATGGGATCCTTGCCTTAT-G
** * * * *
21319639 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATG
1 -AACTCACCATTGCCATGTCTTGACATGGCCTTACATG
21319677 ATTTTCTTGC
Statistics
Matches: 75, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
53 45 0.60
54 1 0.01
55 29 0.39
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGTCTTGACATGGCCTTACATGGGATCCTTGCCTTATG
Found at i:21319687 original size:55 final size:53
Alignment explanation
Indices: 21319532--21319727 Score: 144
Period size: 53 Copynumber: 3.6 Consensus size: 53
21319522 TTTGGAATTA
* * * * * *
21319532 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATG
* * * * *
21319585 AACTCACCATTGCCATTTCTTGGCATGGCCTTACATGGGA-TCT-TTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACAT--GATTTTCTTGCCTTAT-G
** * * * *
21319639 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTGTAA
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTAT-G
* * * *
21319694 AACTTACAAATGCCATGCCTTGGCATGGTCTTAC
1 AACTCACCAATGCCATGTCTTGACATGGTCTTAC
21319728 TTGGTATCCT
Statistics
Matches: 111, Mismatches: 26, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
53 42 0.38
54 31 0.28
55 38 0.34
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATG
Found at i:21326999 original size:55 final size:53
Alignment explanation
Indices: 21326876--21327008 Score: 142
Period size: 53 Copynumber: 2.5 Consensus size: 53
21326866 CTTCCCATTT
* * * *
21326876 CCATGTCTTGACATGGTCGTACGTGGTATTCTTGCCTTATGAACTCACCATTG
1 CCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATGAACTCACCAATG
* * ** * *
21326929 CCATGCCTTGGCATGGTCTTACATGGGA-TCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATTC-TTGCCTTAT-G-AACTCACCAATG
21326984 CCATGTCTTGACATGGTCTTACATG
1 CCATGTCTTGACATGGTCTTACATG
21327009 ATTTCCTTGC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 2 0.03
53 32 0.49
54 1 0.02
55 30 0.46
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.37
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATGAACTCACCAATG
Found at i:21327070 original size:54 final size:55
Alignment explanation
Indices: 21326876--21327070 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 55
21326866 CTTCCCATTT
* * * * * * * *
21326876 CCATGTCTTGACATGGTCGTACGTGGTATTCTTGCCTTAT-G-AACTCACCATTG
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTATCAATG
* * * **
21326929 CCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATG
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTATCAATG
* * * * *
21326984 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTA-AAACTTA-CAAATG
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTATC-AATG
* *
21327038 CCATGCCTTGGCATGATCTTACTTGGTATCCTT
1 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
21327071 AAACCCTAAT
Statistics
Matches: 111, Mismatches: 28, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
53 34 0.31
54 36 0.32
55 41 0.37
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (55 bp):
CCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATAGAAACTTATCAATG
Found at i:21332657 original size:81 final size:81
Alignment explanation
Indices: 21332531--21332730 Score: 244
Period size: 81 Copynumber: 2.5 Consensus size: 81
21332521 ACGATTCTTA
* * *
21332531 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGGA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
21332595 ACTAAGTCCAGTTATG
66 ACTAAGTCCAGTTATG
* * *
21332611 ACACTAGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* * * * *
21332674 TAATTAAGTTCGGTTATT
64 GAACTAAGTCCAGTTATG
*
21332692 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
21332731 TACACCCCGA
Statistics
Matches: 101, Mismatches: 15, Indels: 8
0.81 0.12 0.06
Matches are distributed among these distances:
80 12 0.12
81 54 0.53
82 31 0.31
83 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGGA
ACTAAGTCCAGTTATG
Found at i:21332672 original size:41 final size:41
Alignment explanation
Indices: 21332532--21332716 Score: 216
Period size: 41 Copynumber: 4.6 Consensus size: 41
21332522 CGATTCTTAA
* * *
21332532 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * * *
21332571 CCACTGGCTCGAAGGCCCTTCGGAACTAAGTCCAGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
21332612 CACTAGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
* *
21332653 CACTGGCTCAAAAGCCCTTCGTAATTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
21332694 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
21332717 CCCAAGCTCG
Statistics
Matches: 122, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
40 42 0.34
41 77 0.63
43 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:21340638 original size:54 final size:54
Alignment explanation
Indices: 21340578--21340686 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
21340568 TGTGCATACG
*
21340578 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTGTGGATGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
21340632 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
1 CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
21340686 C
1 C
21340687 ATGTTCTGTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (54 bp):
CGCGACATTTATAAAACAAGTCTAATATTCAATAATGAAGTTATGGATGTGTTC
Found at i:21341985 original size:25 final size:26
Alignment explanation
Indices: 21341957--21342026 Score: 108
Period size: 25 Copynumber: 2.8 Consensus size: 26
21341947 CTCTTTTAAT
*
21341957 AACTGGGGCAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
21341982 AACTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
*
21342007 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21342027 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 5 0.12
25 33 0.80
26 3 0.07
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:21343853 original size:27 final size:26
Alignment explanation
Indices: 21343809--21343860 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
21343799 CTCGCTGCAA
*
21343809 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
21343836 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
21343861 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:21343937 original size:27 final size:26
Alignment explanation
Indices: 21343899--21343958 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
21343889 CCACATATAT
* *
21343899 ATATATGTTCTGGTGGCGTAC-TCACA
1 ATATCTGTTCTGGTGAC-TACGTCACA
*
21343925 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACTACGTCACA
21343952 ATATCTG
1 ATATCTG
21343959 GCAGCCTCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACTACGTCACA
Found at i:21351395 original size:32 final size:31
Alignment explanation
Indices: 21351335--21351395 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
21351325 CTCGCTGCAA
* *
21351335 TCTGGTGGCTTCGCCACATATATATATCTGT
1 TCTGGTGGCCTAGCCACATATATATATCTGT
* *
21351366 TCTGGTGGCCTAGCTACAATATATGTATCT
1 TCTGGTGGCCTAGCCAC-ATATATATATCT
21351396 AGTGACTTCG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (31 bp):
TCTGGTGGCCTAGCCACATATATATATCTGT
Found at i:21352181 original size:27 final size:27
Alignment explanation
Indices: 21352139--21352296 Score: 235
Period size: 27 Copynumber: 5.8 Consensus size: 27
21352129 GGGTGTTACA
* *
21352139 TCTACCCTACAAGGGTATTTCAATAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
21352166 TCTACCCTACAGGGGTATTTTAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
21352193 TCTACCCTACAAGGGGTATTTCGGTAAT
1 TCTACCCTAC-AGGGGTATTTCAGTAAT
*
21352221 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
* *
21352248 TCTACCATACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCAGTAAT
*
21352275 TCGACCCTACAGGGGTATTTCA
1 TCTACCCTACAGGGGTATTTCA
21352297 ATATTTTACA
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
27 92 0.79
28 25 0.21
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCAGTAAT
Found at i:21352205 original size:54 final size:54
Alignment explanation
Indices: 21352139--21352296 Score: 244
Period size: 55 Copynumber: 2.9 Consensus size: 54
21352129 GGGTGTTACA
** *
21352139 TCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTAAT
1 TCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAAT
*
21352193 TCTACCCTACAAGGGGTATTTCGGTAATTCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAA-GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAAT
* * *
21352248 TCTACCATACAGGGGTATTTCGGTAATTCGACCCTACAGGGGTATTTCA
1 TCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
21352297 ATATTTTACA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 47 0.49
55 48 0.51
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.34
Consensus pattern (54 bp):
TCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAAT
Found at i:21352276 original size:82 final size:81
Alignment explanation
Indices: 21352139--21352295 Score: 244
Period size: 82 Copynumber: 1.9 Consensus size: 81
21352129 GGGTGTTACA
* * *
21352139 TCTACCCTACAAGGGTATTTCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACA
1 TCTACCCTACAAGGGTATTTCAATAATTCTACCATACAGGGGTATTTCAGTAATTCGACCCTAC-
21352204 AGGGGTATTTCGGTAAT
65 AGGGGTATTTCGGTAAT
* *
21352221 TCTACCCTAC-AGGGTTATTTCAGTAATTCTACCATACAGGGGTATTTCGGTAATTCGACCCTAC
1 TCTACCCTACAAGGG-TATTTCAATAATTCTACCATACAGGGGTATTTCAGTAATTCGACCCTAC
21352285 AGGGGTATTTC
65 AGGGGTATTTC
21352296 AATATTTTAC
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
81 15 0.22
82 54 0.78
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (81 bp):
TCTACCCTACAAGGGTATTTCAATAATTCTACCATACAGGGGTATTTCAGTAATTCGACCCTACA
GGGGTATTTCGGTAAT
Found at i:21352345 original size:27 final size:27
Alignment explanation
Indices: 21352284--21352356 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
21352274 TTCGACCCTA
* *
21352284 CAGGGGTATTTCAAT-ATTTTACAAAT
1 CAGGGGTATTTCGATAATTTCACAAAT
*
21352310 C-GAGAGTATTTCGATAATTTCACAAAT
1 CAG-GGGTATTTCGATAATTTCACAAAT
* *
21352337 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGATAATTT
21352357 TGTAAACCAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.03
26 11 0.29
27 25 0.66
28 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTCACAAAT
Found at i:21352435 original size:81 final size:81
Alignment explanation
Indices: 21352350--21352604 Score: 282
Period size: 81 Copynumber: 3.2 Consensus size: 81
21352340 GGGTATTTTG
* * ** * * *
21352350 GTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTATA
1 GTAATTCTGTAAACCAAGAGTAAATCGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATA
21352415 AATCGAGGGTAAAATA
66 AATCGAGGGTAAAATA
* * * * * *
21352431 GTAATTCTGTAAATCGAGTGTAAAAT-GGTAATTCTATAAATCGAGGGTAGAACGGTAATTCTTT
1 GTAATTCTGTAAACCAAGAGT-AAATCGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTAT
*
21352495 AAATCGAGGGTAAAATG
65 AAATCGAGGGTAAAATA
* * * *
21352512 GTAATTCTGTAAATCTAA-AGTAAAACGGTAA-TTTATAAATCGAGGGTAAAATGGTAATTTTAT
1 GTAATTCTGTAAA-CCAAGAGTAAATCGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTAT
**
21352575 AAATCGAGGGTAAAACG
65 AAATCGAGGGTAAAATA
*
21352592 GTAATTCTATAAA
1 GTAATTCTGTAAA
21352605 TCGAGGGTAC
Statistics
Matches: 146, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
80 58 0.40
81 85 0.58
82 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (81 bp):
GTAATTCTGTAAACCAAGAGTAAATCGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATA
AATCGAGGGTAAAATA
Found at i:21352624 original size:27 final size:27
Alignment explanation
Indices: 21352377--21352613 Score: 314
Period size: 27 Copynumber: 8.8 Consensus size: 27
21352367 GGGTATTTCA
* * * *
21352377 GTAATTTTGTAAATAGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
21352404 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
21352431 GTAATTCTGTAAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
21352458 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
21352485 GTAATTCTTTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * ** *
21352512 GTAATTCTGTAAATCTAAAGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
21352539 GTAATT-TATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
21352565 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
21352592 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
21352614 CTTTGGTAAT
Statistics
Matches: 182, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.12
27 161 0.88
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:21352652 original size:107 final size:107
Alignment explanation
Indices: 21352377--21352632 Score: 296
Period size: 107 Copynumber: 2.4 Consensus size: 107
21352367 GGGTATTTCA
* * * * * * ** * * *
21352377 GTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCTAAAGCAAAACAGTAATT-TATA
* *
21352442 AATCGAGTGTAAAATGGTAATTCTATAAATCGAGGGTAGAACG
65 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
* ** * *
21352485 GTAATTCTTTAAATCGAGGGTAAAATGGTAATTCTGTAAATCTAAAGTAAAACGGTAATTTATAA
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCTAAAGCAAAACAGTAATTTATAA
*
21352550 ATCGAGGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACG
66 ATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
*** *
21352592 GTAATTCTATAAATCGAGGGTACTTTGGTAATTTTACAAAT
1 GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAAT
21352633 TGAGGGCATT
Statistics
Matches: 127, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
107 77 0.61
108 50 0.39
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (107 bp):
GTAATTCTATAAATCGAGGGTAAAATGGTAATTCTACAAATCTAAAGCAAAACAGTAATTTATAA
ATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACG
Found at i:21354810 original size:43 final size:43
Alignment explanation
Indices: 21354744--21354855 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
21354734 CCGGCATTAC
* * *
21354744 GCCTACTAGGCACGAAGGCCCGAATACACATCACTAGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAACACGAA
*
21354787 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAACATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAACACGAA
*
21354830 GCCTGTTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
21354856 TGTGGCCACT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.33, C:0.31, G:0.23, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAACACGAA
Found at i:21363314 original size:55 final size:53
Alignment explanation
Indices: 21363164--21363316 Score: 132
Period size: 53 Copynumber: 2.8 Consensus size: 53
21363154 AATTAAACTT
* * * * *
21363164 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACGC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATGAACGC
* * * * * *
21363217 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-TCT-TTGCCTTATAGTA-GTTT
1 ACCAATGCCATGTCTTGACATGGTCTTACAT--GATTTTCTTGCCTTAT-GAACG--C
*
21363272 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTT
21363317 GTAAAACTTA
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
53 40 0.51
54 4 0.05
55 35 0.44
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.38
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGATTTTCTTGCCTTATGAACGC
Found at i:21363911 original size:40 final size:40
Alignment explanation
Indices: 21363856--21363941 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
21363846 CACTCTAACA
21363856 TGTACTTATGACCATTAGGTACTTTTATCGATTACGTCAT
1 TGTACTTATGACCATTAGGTACTTTTATCGATTACGTCAT
* *
21363896 TGTACTTATGACCATTAGGTATTTTTATCGATTATGTCAT
1 TGTACTTATGACCATTAGGTACTTTTATCGATTACGTCAT
*
21363936 TTTACT
1 TGTACT
21363942 CGTTTTCGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (40 bp):
TGTACTTATGACCATTAGGTACTTTTATCGATTACGTCAT
Found at i:21370569 original size:53 final size:55
Alignment explanation
Indices: 21370474--21370613 Score: 160
Period size: 53 Copynumber: 2.6 Consensus size: 55
21370464 AATTAAACTT
* * * *
21370474 ACCATTGCCATGTCTTGACATGGTCGTACGTGGTATTCTTGCCTT-TTG-AGCTC
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATAGCAGCTC
* * * *
21370527 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-TCTTTGCCTTATAGCAGTTT
1 ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTC-TTGCCTTATAGCAGCTC
* *
21370582 ATCAATGCCATGTCTTGACATGGTCTTACATG
1 ACCATTGCCATGTCTTGACATGGTCTTACATG
21370614 ATTTCCTTGC
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
52 2 0.03
53 37 0.51
54 2 0.03
55 31 0.43
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
ACCATTGCCATGTCTTGACATGGTCTTACATGGGATTCTTGCCTTATAGCAGCTC
Found at i:21370624 original size:55 final size:53
Alignment explanation
Indices: 21370474--21370669 Score: 151
Period size: 55 Copynumber: 3.6 Consensus size: 53
21370464 AATTAAACTT
* * * *
21370474 ACCATTGCCATGTCTTGACATGGTCGTACGTGGTATT-CTTGCCTTTTGAGCTC
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGT-TTCCTTGCCTTTAGAGCTC
* * * ** * * *
21370527 ACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAGCAGTTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTT-TAG-AGCTC
* * * * *
21370582 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTT-TAGAGCTC
* * * * *
21370636 ACAAAAGCCATGCCTTGGCATGGTCTTACTTGGT
1 ACCAATGCCATGTCTTGACATGGTCTTACATGGT
21370670 ATCTTTAAAC
Statistics
Matches: 111, Mismatches: 29, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
52 1 0.01
53 36 0.32
54 32 0.29
55 42 0.38
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (53 bp):
ACCAATGCCATGTCTTGACATGGTCTTACATGGTTTCCTTGCCTTTAGAGCTC
Found at i:21373341 original size:27 final size:27
Alignment explanation
Indices: 21373306--21373410 Score: 113
Period size: 27 Copynumber: 3.9 Consensus size: 27
21373296 GGACCCCTAT
* *
21373306 AGTGCAAAATTATCGAAATACCCTTGA
1 AGTGAAAAATTACCGAAATACCCTTGA
* * *
21373333 AGTAAAAAATTATCGAAATACCCCT-A
1 AGTGAAAAATTACCGAAATACCCTTGA
* *
21373359 TAGTGCAAAATTACCGAAATACCCTTGT
1 -AGTGAAAAATTACCGAAATACCCTTGA
* *
21373387 AGTGTAAAATTACCAAAATACCCT
1 AGTGAAAAATTACCGAAATACCCT
21373411 CGATTTGTGA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 1 0.02
27 65 0.98
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (27 bp):
AGTGAAAAATTACCGAAATACCCTTGA
Found at i:21373380 original size:54 final size:54
Alignment explanation
Indices: 21373298--21373409 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
21373288 GGTCGTTAGG
* * *
21373298 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCTATAGTGCAAAATTACCGAAATACCCTTGAAGTAAAAAATTACCAAAAT
* **
21373352 ACCCCTATAGTGCAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
1 ACCCCTATAGTGCAAAATTACCGAAATACCCTTGAAGTAAAAAATTACCAAAAT
21373406 ACCC
1 ACCC
21373410 TCGATTTGTG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (54 bp):
ACCCCTATAGTGCAAAATTACCGAAATACCCTTGAAGTAAAAAATTACCAAAAT
Found at i:21373423 original size:27 final size:27
Alignment explanation
Indices: 21373305--21373450 Score: 91
Period size: 27 Copynumber: 5.4 Consensus size: 27
21373295 AGGACCCCTA
* * * *
21373305 TAGTGCAAAATTATCGAAATACCCTTG
1 TAGTGTAAAATTACCAAAATACCCTCG
* ** * * *
21373332 AAGTAAAAAATTATCGAAATACCC-CTA
1 TAGTGTAAAATTACCAAAATACCCTC-G
* * *
21373359 TAGTGCAAAATTACCGAAATACCCTTG
1 TAGTGTAAAATTACCAAAATACCCTCG
21373386 TAGTGTAAAATTACCAAAATACCCTCG
1 TAGTGTAAAATTACCAAAATACCCTCG
* * *
21373413 -ATTTGTGAAATTACCAAAATGCCC-CTG
1 TA-GTGTAAAATTACCAAAATACCCTC-G
*
21373440 TAGGGTAAAAT
1 TAGTGTAAAAT
21373451 GACTGAAATG
Statistics
Matches: 94, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
26 2 0.02
27 91 0.97
28 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
TAGTGTAAAATTACCAAAATACCCTCG
Found at i:21373424 original size:54 final size:53
Alignment explanation
Indices: 21373298--21373450 Score: 146
Period size: 54 Copynumber: 2.8 Consensus size: 53
21373288 GGTCGTTAGG
* * * ** * *
21373298 ACCCCTATAGTGCAAAATTATCGAAATACCCTTGAAGTAAAAAATTATCGAAAT
1 ACCCCGATAGTG-AAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
*
21373352 ACCCCTATAGTGCAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
1 ACCCCGATAGTG-AAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
* * * * *
21373406 ACCCTCGATTTGTG-AAATTACCAAAATGCCCCTGTAGGGTAAAAT
1 ACCC-CGA-TAGTGAAAATTACCGAAATACCCTTGTAGTGTAAAAT
21373451 GACTGAAATG
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 79 0.93
55 2 0.02
56 4 0.05
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (53 bp):
ACCCCGATAGTGAAAATTACCGAAATACCCTTGTAGTGTAAAATTACCAAAAT
Found at i:21373473 original size:27 final size:27
Alignment explanation
Indices: 21373429--21373482 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
21373419 GAAATTACCA
**
21373429 AAATGCCCCTGTAGGGTAAAATGACTG
1 AAATGCCCCTACAGGGTAAAATGACTG
* *
21373456 AAATGCCCCTACATGGTAAACTGACTG
1 AAATGCCCCTACAGGGTAAAATGACTG
21373483 TTTTGCCCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
AAATGCCCCTACAGGGTAAAATGACTG
Found at i:21374083 original size:51 final size:51
Alignment explanation
Indices: 21374012--21374114 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
21374002 GATGTGATAT
* *
21374012 TAAATTATCATTAGGGTTCTTTAACAGGTTTATGCTAAGTGGTAAAATGTG
1 TAAATTATCATTAAGGTTCTTTAACAGGTTTATGCTAAATGGTAAAATGTG
*
21374063 TAAATTATCATTAAGGTTCTTTAACGGGTTTATGCTAAATGGTAAAATGTG
1 TAAATTATCATTAAGGTTCTTTAACAGGTTTATGCTAAATGGTAAAATGTG
21374114 T
1 T
21374115 TTGAGCTCTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (51 bp):
TAAATTATCATTAAGGTTCTTTAACAGGTTTATGCTAAATGGTAAAATGTG
Found at i:21378391 original size:38 final size:38
Alignment explanation
Indices: 21378335--21378418 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
21378325 ATACATATGT
*
21378335 CATGACATAGGACTCCGATATATGTGTATGAGTAAGAC
1 CATGGCATAGGACTCCGATATATGTGTATGAGTAAGAC
21378373 CATGGCATAGGACTCCGATATATGTGTATGAGTAAGAC
1 CATGGCATAGGACTCCGATATATGTGTATGAGTAAGAC
21378411 CATGGCAT
1 CATGGCAT
21378419 CGATATGTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (38 bp):
CATGGCATAGGACTCCGATATATGTGTATGAGTAAGAC
Found at i:21380994 original size:25 final size:25
Alignment explanation
Indices: 21380966--21381035 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
21380956 CTCTTTTAAT
*
21380966 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
21380991 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
21381016 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
21381036 ATCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:21381568 original size:27 final size:27
Alignment explanation
Indices: 21381537--21381588 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
21381527 TTAAATCTAT
*
21381537 TCTGGTGGCCTAGCCACAATATCTGTA
1 TCTGGTGACCTAGCCACAATATCTGTA
* * *
21381564 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTAGCCACAATATCTG
21381589 GCAGCCTCGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (27 bp):
TCTGGTGACCTAGCCACAATATCTGTA
Found at i:21388125 original size:27 final size:27
Alignment explanation
Indices: 21388083--21388482 Score: 559
Period size: 27 Copynumber: 14.8 Consensus size: 27
21388073 GGGTGTTACA
* *
21388083 TCTACCCTATAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21388110 TCTACCCTACAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
21388137 TCTACCCTACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* * *
21388164 TCTACCCTACAAGGATATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21388191 TCTACCATACAGGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21388218 TCTACCCTACAGGGGTATTTCGATAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21388245 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21388272 TCTACCCTATAGGGGTATTTCGGTATT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21388299 TCTACCCTACAAGGGTATTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21388326 TCTACCCTATAGGGGTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21388353 TCTATCCTACAGGGGTGTTTCGGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* *
21388380 TCTACCCTACAGGGTTATTTCAGTAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
* **
21388407 TCTACCCTACAAGGGTATTTTAGTAACT
1 TCTACCCTACAGGGGTATTTCGGTAA-T
* *
21388435 T-TACCCTATAGGGGTATTTCGATAAT
1 TCTACCCTACAGGGGTATTTCGGTAAT
*
21388461 TCTACACTACAGGGGTATTTCG
1 TCTACCCTACAGGGGTATTTCG
21388483 ATATTTTACA
Statistics
Matches: 327, Mismatches: 44, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 2 0.01
27 323 0.99
28 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
TCTACCCTACAGGGGTATTTCGGTAAT
Found at i:21388531 original size:27 final size:26
Alignment explanation
Indices: 21388446--21388542 Score: 83
Period size: 27 Copynumber: 3.7 Consensus size: 26
21388436 TACCCTATAG
*
21388446 GGGTATTTCGATAA-TTCTAC-ACTACA
1 GGGTATTTCGATAATTTC-ACAAAT-CA
*
21388472 GGGGTATTTCGAT-ATTTTACAAATCGA
1 -GGGTATTTCGATAATTTCACAAATC-A
*
21388499 GAGTATTTCGATAATTTCACAAATCA
1 GGGTATTTCGATAATTTCACAAATCA
* *
21388525 GTGGTATTTTGGTAATTT
1 G-GGTATTTCGATAATTT
21388543 TGTAAACCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
26 17 0.29
27 41 0.71
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (26 bp):
GGGTATTTCGATAATTTCACAAATCA
Found at i:21388592 original size:54 final size:54
Alignment explanation
Indices: 21388534--21388743 Score: 224
Period size: 54 Copynumber: 3.9 Consensus size: 54
21388524 AGTGGTATTT
* * *** * * *
21388534 TGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGTGTAAAA
1 TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* * * *
21388588 TGGTAATTCTATAAATCGAGGGTAAAACGGTTATTCTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
** * * *
21388642 TGGTAATTCTATAAATTGAA-AGTAAAACGGTAATTTTATAAATCGAGGGTAAAA
1 TGGTAATTCTATAAA-CCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
* * *
21388696 TGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAGG
1 TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGG
21388744 ATACTTTGGT
Statistics
Matches: 133, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 3 0.02
54 128 0.96
55 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (54 bp):
TGGTAATTCTATAAACCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAA
Found at i:21388593 original size:27 final size:27
Alignment explanation
Indices: 21388563--21388743 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
21388553 GGGTATTTCA
* * * *
21388563 GTAATTTTGTAAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
21388590 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
21388617 GTTATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* **
21388644 GTAATTCTATAAATTGAAAGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
21388671 GTAATTTTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
21388698 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
21388725 GTAATTCTGTAAATCGAGG
1 GTAATTCTATAAATCGAGG
21388744 ATACTTTGGT
Statistics
Matches: 133, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:21388637 original size:81 final size:81
Alignment explanation
Indices: 21388535--21388742 Score: 247
Period size: 81 Copynumber: 2.6 Consensus size: 81
21388525 GTGGTATTTT
* * * ** * * * *
21388535 GGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCGAGTGTAAAATGGTAATTCTAT
1 GGTAATTCTATAAATCAAGGGTAAATCGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTAT
21388600 AAATCGAGGGTAAAAC
66 AAATCGAGGGTAAAAC
* * * * * *
21388616 GGTTATTCTATAAATCGAGGGTAAAAT-GGTAATTCTATAAATTGAAAGTAAAACGGTAATTTTA
1 GGTAATTCTATAAATCAAGGGT-AAATCGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTA
*
21388680 TAAATCGAGGGTAAAAT
65 TAAATCGAGGGTAAAAC
*
21388697 GGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTGTAAATCGAG
1 GGTAATTCTATAAATCAAGGGTAAATCGGTAATTCTGTAAATCGAG
21388743 GATACTTTGG
Statistics
Matches: 103, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
80 3 0.03
81 98 0.95
82 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (81 bp):
GGTAATTCTATAAATCAAGGGTAAATCGGTAATTCTGTAAATCGAGAGTAAAACGGTAATTCTAT
AAATCGAGGGTAAAAC
Found at i:21391531 original size:43 final size:43
Alignment explanation
Indices: 21391292--21391529 Score: 395
Period size: 43 Copynumber: 5.5 Consensus size: 43
21391282 GCATTATGCG
*
21391292 TGCTAGGCACGAAGGCCCGAATACACATCACTGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
21391335 TGCTAGGCACGAAGGCCCGAATACACATCACTGGCATGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
*
21391378 TGCTAGGCACTAAGGCCCGAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* *
21391421 TGCTTGGCACGAAGGCCCAAATACACATCACCGGCACGAAGCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
* * *
21391464 TGCTAGGCACGAAGGCCCGAATATACATCACCGGCAAGAATCC
1 TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
21391507 TGCTAGGCACGAAGGCCCGAATA
1 TGCTAGGCACGAAGGCCCGAATA
21391530 TAATACCAGC
Statistics
Matches: 183, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 183 1.00
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
TGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCC
Found at i:21391606 original size:38 final size:38
Alignment explanation
Indices: 21391527--21391629 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
21391517 GAAGGCCCGA
* * * * **
21391527 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCTTG
1 ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCAG
21391565 ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCAG
1 ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCAG
**
21391603 ATATTTTACTAGCACGAAGCCTGCGGG
1 ATATAATACTAGCACGAAGCCTGCGGG
21391630 TCTTTAAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (38 bp):
ATATAATACTAGCACGAAGCCTGCGGGATTTAACCCAG
Found at i:21396396 original size:30 final size:30
Alignment explanation
Indices: 21396356--21396419 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
21396346 GCCTATGGGG
21396356 CAAG-CCGTGTGTCACACACGGTCTAGACA
1 CAAGCCCGTGTGTCACACACGGTCTAGACA
21396385 CAAGCCCGTGTGTCACACACGGTCTAGACA
1 CAAGCCCGTGTGTCACACACGGTCTAGACA
*
21396415 TAAGC
1 CAAGC
21396420 TTAGTAAGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.17
Consensus pattern (30 bp):
CAAGCCCGTGTGTCACACACGGTCTAGACA
Done.