Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 167 of 205
Found at i:49737944 original size:46 final size:46
Alignment explanation
Indices: 49737884--49738116 Score: 149
Period size: 46 Copynumber: 5.2 Consensus size: 46
49737874 ATAACTCTAT
* * *
49737884 CTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAACAGATTGAAGATGACAGATCTTGC
* * * * * *
49737930 CTTCCTGTATTTGGCAG-AGAAGCAGATTGATGATGGCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-CAGATTGAAGATGACAGATCTTGC
* * * * ** *
49737976 CTCCCTG-A-CT-ACAGTGGAGCACATTGAAGCCGATA-ACTCTAT--
1 CTCCCTGTATTTGGCAGTGGAACAGATTGAAGATGACAGA-TCT-TGC
* *
49738018 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTGC
1 CTCCCTGTATTTGGCAGTGGAACAGATTGAAGATGACAGATCTTGC
* * * * * * *
49738064 CTTCCTGTATTTGGCAG-AGAAGCAGATCGAATATGCCAGATTTTAC
1 CTCCCTGTATTTGGCAGTGGAA-CAGATTGAAGATGACAGATCTTGC
49738110 CTCCCTG
1 CTCCCTG
49738117 AGATTACAGT
Statistics
Matches: 136, Mismatches: 40, Indels: 22
0.69 0.20 0.11
Matches are distributed among these distances:
42 8 0.06
43 16 0.12
44 6 0.04
45 27 0.20
46 79 0.58
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (46 bp):
CTCCCTGTATTTGGCAGTGGAACAGATTGAAGATGACAGATCTTGC
Found at i:49738039 original size:134 final size:135
Alignment explanation
Indices: 49737819--49738142 Score: 564
Period size: 134 Copynumber: 2.4 Consensus size: 135
49737809 AATAGATTGA
49737819 AGATCGAA-GATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
1 AGATCGAATGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
49737883 TCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
66 TCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
49737948 GAAGC
131 GAAGC
* *
49737953 AGATTG-ATGATGGCAGATTTTACCTCCCTGACTACAGTGGAGCACATTGAAGCCGATAACTCTA
1 AGATCGAATGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
*
49738017 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
66 TCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
49738082 GAAGC
131 GAAGC
* *
49738087 AGATCGAAT-ATGCCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCC
1 AGATCGAATGATGGCAGATTTTACCTCCCT--GACTACAGTGGAGTACATTGAAGCC
49738143 AGTAATCTTA
Statistics
Matches: 179, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
133 1 0.01
134 153 0.85
135 2 0.01
136 23 0.13
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (135 bp):
AGATCGAATGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
TCTCCCTGTATTTGGCAGTGGAATAGACTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
GAAGC
Found at i:49738184 original size:134 final size:132
Alignment explanation
Indices: 49737819--49738190 Score: 513
Period size: 134 Copynumber: 2.8 Consensus size: 132
49737809 AATAGATTGA
*
49737819 AGATCGAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCGAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
49737884 CTCCCTGTATTTGGCAGTGGAATAGA-CTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
66 CTCCCTGTA--TGGCAGTGGAATAGATC-GAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
49737948 GAAGC
128 GAAGC
* *
49737953 AGATTG-ATGATGGCAGATTTTACCTCCCTGACTACAGTGGAGCACATTGAAGCCGATAACTCTA
1 AGATCGAAT-ATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTA
*
49738017 TCTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
65 TCTCCCTGTA--TGGCAGTGGAATAGATCGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGA
49738082 GAAGC
128 GAAGC
* *
49738087 AGATCGAATATGCCAGATTTTACCTCCCTGAGATTACAGTGGAGTACATTGAAGCC-AGTAA-TC
1 AGATCGAATATGGCAGATTTTACCTCCCT--GACTACAGTGGAGTACATTGAAGCCGA-TAACTC
* **
49738150 T-TACTTCCCTGGGA-AACAGTGGAATAGATCGAAGATTACAG
63 TAT-C-TCCCT-GTATGGCAGTGGAATAGATCGAAGATTACAG
49738191 GCTTATCTCC
Statistics
Matches: 217, Mismatches: 12, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
133 1 0.00
134 176 0.81
135 7 0.03
136 31 0.14
137 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (132 bp):
AGATCGAATATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATGGCAGTGGAATAGATCGAAGATTACAGATCTTGCCTTCCTGTATTTGGCAGAGAA
GC
Found at i:49738293 original size:40 final size:42
Alignment explanation
Indices: 49738192--49738303 Score: 149
Period size: 42 Copynumber: 2.7 Consensus size: 42
49738182 AGATTACAGG
* *
49738192 CTTATCTCCCTAAGCAGTAGCGGAGCAGACGAAACCACAGAT
1 CTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAACCACAGAT
* * *
49738234 CTTATCTCCCTAAGTAGTAGTGGAGCAGATC-ACATCA-AG-T
1 CTTATCTCCCTAAGAAGTAGTGGAGCAGA-CGAAACCACAGAT
49738274 CTTATCTCCCTAAGAAGTAGTGGAGCAGAC
1 CTTATCTCCCTAAGAAGTAGTGGAGCAGAC
49738304 TAAAAACACA
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
39 1 0.02
40 29 0.45
41 2 0.03
42 31 0.48
43 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (42 bp):
CTTATCTCCCTAAGAAGTAGTGGAGCAGACGAAACCACAGAT
Found at i:49739069 original size:6 final size:6
Alignment explanation
Indices: 49739038--49739068 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
49739028 CCGGTCTCTA
49739038 TTCATT TTCATT TTCATT TTCATT TT-ATT TT
1 TTCATT TTCATT TTCATT TTCATT TTCATT TT
49739069 TTTTATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (6 bp):
TTCATT
Found at i:49740190 original size:15 final size:15
Alignment explanation
Indices: 49740170--49740203 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49740160 TTTATTTTTG
* *
49740170 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
49740185 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
49740200 TTAT
1 TTAT
49740204 CGTAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:49742932 original size:35 final size:29
Alignment explanation
Indices: 49742868--49742923 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
49742858 AAAACAGAAC
49742868 AAACGCAAATCATAATCAAATGCATCAAT
1 AAACGCAAATCATAATCAAATGCATCAAT
49742897 AAACGCAAATCATAATCAAATGCATCA
1 AAACGCAAATCATAATCAAATGCATCA
49742924 GTCCCAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.20
Consensus pattern (29 bp):
AAACGCAAATCATAATCAAATGCATCAAT
Found at i:49747244 original size:32 final size:33
Alignment explanation
Indices: 49747203--49747266 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
49747193 CTATTCCATT
* *
49747203 ATTGGTAAAATTGCTATATGA-CCTTTTAAAAG
1 ATTGGTAAAACTGCTATATGACCCTTGTAAAAG
*
49747235 ATTGGTAAAACTGCTATTTGACCCTTGTAAAA
1 ATTGGTAAAACTGCTATATGACCCTTGTAAAA
49747267 TTTATAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (33 bp):
ATTGGTAAAACTGCTATATGACCCTTGTAAAAG
Found at i:49747393 original size:26 final size:26
Alignment explanation
Indices: 49747329--49747395 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
49747319 TTAATATCTG
* *
49747329 ATTTTGATTA-ATTTTATATACTTAT
1 ATTTTAATTATATTTTATATACATAT
* * *
49747354 ATTATACTTTTATTTTATGATA-ATAT
1 ATTTTAATTATATTTTAT-ATACATAT
49747380 ATTTTAATTATATTTT
1 ATTTTAATTATATTTT
49747396 CCGCCAACTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
25 6 0.19
26 23 0.72
27 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (26 bp):
ATTTTAATTATATTTTATATACATAT
Found at i:49761059 original size:46 final size:46
Alignment explanation
Indices: 49761006--49761095 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
49760996 CTATCATGGA
** * * *
49761006 AACTTATTTGTACGAGTAAGTT-CTCGTTAAGCATCAACTTATTCGG
1 AACTTATTCATACGAATAAGTTGCTCCTAAAGCA-CAACTTATTCGG
*
49761052 AACTTATTCATACGAATAAGTTGTTCCTAAAGCACAACTTATTC
1 AACTTATTCATACGAATAAGTTGCTCCTAAAGCACAACTTATTC
49761096 AAAACTAAGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
46 29 0.78
47 8 0.22
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (46 bp):
AACTTATTCATACGAATAAGTTGCTCCTAAAGCACAACTTATTCGG
Found at i:49767372 original size:60 final size:61
Alignment explanation
Indices: 49767270--49767411 Score: 171
Period size: 60 Copynumber: 2.3 Consensus size: 61
49767260 ATGTTCATAC
** *
49767270 ATCTTATCAATTT-GATCCTAAATATAAGAAATTCAACAAATTTAGCCCTCAATGTTTATAAA
1 ATCTT-TCAATTTAG-TCCTAAATATAAGAAATTCAACAAATTTAGCCCTCAACATTTACAAA
* * * * * *
49767332 ATTTTTCATTTTAGTTCTAATTATAA-AATTTCAATAAATTTAGCCCTCAACATTTACAAA
1 ATCTTTCAATTTAGTCCTAAATATAAGAAATTCAACAAATTTAGCCCTCAACATTTACAAA
49767392 ATCTTTCAATTTAGTCCTAA
1 ATCTTTCAATTTAGTCCTAA
49767412 CTTTGAAATT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
60 46 0.69
61 16 0.24
62 5 0.07
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.40
Consensus pattern (61 bp):
ATCTTTCAATTTAGTCCTAAATATAAGAAATTCAACAAATTTAGCCCTCAACATTTACAAA
Found at i:49769777 original size:14 final size:15
Alignment explanation
Indices: 49769760--49769791 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
49769750 TAAACGATAA
49769760 TAACA-AAATAGTAG
1 TAACAGAAATAGTAG
49769774 TAACAGAAATAGTAG
1 TAACAGAAATAGTAG
49769789 TAA
1 TAA
49769792 AATAGTGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.56, C:0.06, G:0.16, T:0.22
Consensus pattern (15 bp):
TAACAGAAATAGTAG
Found at i:49777547 original size:26 final size:25
Alignment explanation
Indices: 49777511--49777561 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
49777501 GCATATGTCG
49777511 AAAGAGTGTTAGAACCCAACCAGTC
1 AAAGAGTGTTAGAACCCAACCAGTC
*
49777536 NAAAGAGTGTTAGGACCCAACCAGTC
1 -AAAGAGTGTTAGAACCCAACCAGTC
49777562 TAATTGATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (25 bp):
AAAGAGTGTTAGAACCCAACCAGTC
Found at i:49785653 original size:5 final size:5
Alignment explanation
Indices: 49785643--49785672 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
49785633 TTATAAAAAG
49785643 AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA
49785673 GAAAAGACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:49785655 original size:15 final size:16
Alignment explanation
Indices: 49785635--49785676 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
49785625 TTTTCCTGTT
49785635 ATAAAA-AGAAATAAA
1 ATAAAATAGAAATAAA
49785650 ATAAAATA-AAATAAA
1 ATAAAATAGAAATAAA
49785665 ATAAAATAGAAA
1 ATAAAATAGAAA
49785677 AGACTAGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
ATAAAATAGAAATAAA
Found at i:49788532 original size:93 final size:94
Alignment explanation
Indices: 49788393--49788562 Score: 220
Period size: 93 Copynumber: 1.8 Consensus size: 94
49788383 GGTGTAGTAA
* * * * * *
49788393 GTGATTTTAGAGATAGTTTTGTTTTTGTTCTTTCTAGTTTGATGGATGCTTGATTCTTTTATCGA
1 GTGATTTTAGAGATAATTTTGTTGTTGTTCTCTCTAGTTTGATGGATACTCGATTATTTTATCGA
* *
49788458 TTTTTATCTGTTGTTTTGGACTATCCGAG
66 TATTTACCTGTTGTTTTGGACTATCCGAG
*
49788487 GTGATTTTA-AGATAATTTTGTTGTTG-TCGTCTCTAGTTT-ATTGGATACTCGATTATTTTGTC
1 GTGATTTTAGAGATAATTTTGTTGTTGTTC-TCTCTAGTTTGA-TGGATACTCGATTATTTTATC
49788549 GATATTTACCTGTT
64 GATATTTACCTGTT
49788563 TGGTGGATGC
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
92 3 0.05
93 53 0.82
94 9 0.14
ACGTcount: A:0.18, C:0.10, G:0.20, T:0.52
Consensus pattern (94 bp):
GTGATTTTAGAGATAATTTTGTTGTTGTTCTCTCTAGTTTGATGGATACTCGATTATTTTATCGA
TATTTACCTGTTGTTTTGGACTATCCGAG
Found at i:49788882 original size:33 final size:33
Alignment explanation
Indices: 49788845--49788949 Score: 174
Period size: 33 Copynumber: 3.2 Consensus size: 33
49788835 TTAAAAAAAA
* *
49788845 AATTATAATATGAAAACAATGTATATATGCTGT
1 AATTATAATACGAAAACAATGTATATAAGCTGT
* *
49788878 AATTATAATACGAAAACAATGTATGTAAGCTGC
1 AATTATAATACGAAAACAATGTATATAAGCTGT
49788911 AATTATAATACGAAAACAATGTATATAAGCTGT
1 AATTATAATACGAAAACAATGTATATAAGCTGT
49788944 AATTAT
1 AATTAT
49788950 CTGTCTAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (33 bp):
AATTATAATACGAAAACAATGTATATAAGCTGT
Found at i:49789496 original size:3 final size:3
Alignment explanation
Indices: 49789488--49789518 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49789478 AAGTAACATC
49789488 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
49789519 AGGGATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:49804072 original size:27 final size:27
Alignment explanation
Indices: 49804033--49804226 Score: 244
Period size: 27 Copynumber: 7.1 Consensus size: 27
49804023 AGAGATCAAT
* * *
49804033 AAATGATCAAATTACCCCCACCGGATA
1 AAATGATCGAATTACCCCCACAGGGTA
49804060 AAATGATCGAATTACCTCCCACAGGGTA
1 AAATGATCGAATTACC-CCCACAGGGTA
49804088 AAATGATCGAATTACCCCCACAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
* *
49804115 AAATGATCGAATCACCCCTACAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
* * *
49804142 AAATGATCGAATCACCCTCATAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
* * *
49804169 AAATGACCGAATTACCCTCATAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
* * * *
49804196 AAATAATCGAAATACCCCTATAGGGTA
1 AAATGATCGAATTACCCCCACAGGGTA
49804223 AAAT
1 AAAT
49804227 TACTTTTATG
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
27 126 0.83
28 25 0.17
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (27 bp):
AAATGATCGAATTACCCCCACAGGGTA
Found at i:49804633 original size:28 final size:28
Alignment explanation
Indices: 49804593--49804654 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
49804583 CACTGTACCA
* * *
49804593 TTACTATATTGGGCTAAGGCCCACATTG
1 TTACTGTAATGGGCTAAGGCCCACACTG
*
49804621 TTACTGTAATGGGCTAAGGCTCACACTG
1 TTACTGTAATGGGCTAAGGCCCACACTG
49804649 -TACTGT
1 TTACTGT
49804655 TACTGAATAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (28 bp):
TTACTGTAATGGGCTAAGGCCCACACTG
Found at i:49804682 original size:33 final size:33
Alignment explanation
Indices: 49804619--49804682 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
49804609 AGGCCCACAT
* *
49804619 TGTTACTGTAATGGGCTAAGGCTCACACTGTAC
1 TGTTACTGTAATGGGCTAAGCCCCACACTGTAC
* *
49804652 TGTTACTG-AATAGGGCTCAGCCCCAGACTGT
1 TGTTACTGTAAT-GGGCTAAGCCCCACACTGT
49804683 CATTGCTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 3 0.12
33 23 0.88
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (33 bp):
TGTTACTGTAATGGGCTAAGCCCCACACTGTAC
Found at i:49808500 original size:3 final size:3
Alignment explanation
Indices: 49808494--49808525 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
49808484 TAATAATAAT
49808494 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
49808526 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:49808530 original size:3 final size:3
Alignment explanation
Indices: 49808524--49808558 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
49808514 CAACAACAAC
49808524 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49808559 AAGGATAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:49808894 original size:31 final size:31
Alignment explanation
Indices: 49808856--49808917 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
49808846 AGGCAAATTA
*
49808856 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCATAATAAAACTCTTT
49808887 CAAGAGTAATTGAATCATAATAAAACTCTTT
1 CAAGAGTAATTGAATCATAATAAAACTCTTT
49808918 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCATAATAAAACTCTTT
Found at i:49815882 original size:22 final size:23
Alignment explanation
Indices: 49815844--49815889 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
49815834 TTTTCAATTA
*
49815844 TGATAAATTTAATTAATTT-TTT
1 TGATAAATTTAAATAATTTATTT
49815866 TGAT-AATTTGAAATAATTTATTT
1 TGATAAATTT-AAATAATTTATTT
49815889 T
1 T
49815890 ATGTTATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 12 0.57
23 4 0.19
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (23 bp):
TGATAAATTTAAATAATTTATTT
Found at i:49817364 original size:25 final size:24
Alignment explanation
Indices: 49817329--49817380 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
49817319 CATACCGCAA
49817329 CTCTTTATGAGCGTCCTGATATAGG
1 CTCTTTATGAGCGTCCTGATAT-GG
* *
49817354 CTCTTTGTGAGCTTCCTGATATGG
1 CTCTTTATGAGCGTCCTGATATGG
49817378 CTC
1 CTC
49817381 ACTTGAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (24 bp):
CTCTTTATGAGCGTCCTGATATGG
Found at i:49824082 original size:49 final size:49
Alignment explanation
Indices: 49824023--49824120 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
49824013 CTTCCAAGGA
*
49824023 TTATTTTCTGTATTATAGGGGATATCGGTGCCAATTTTCCTTTCGATGT
1 TTATTTTCTGTATTACAGGGGATATCGGTGCCAATTTTCCTTTCGATGT
49824072 TTATTTTCTGTATTACAGGGGATATCGGTGCCAATTTTCCTTTCGATGT
1 TTATTTTCTGTATTACAGGGGATATCGGTGCCAATTTTCCTTTCGATGT
49824121 CACCCTTCAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.46
Consensus pattern (49 bp):
TTATTTTCTGTATTACAGGGGATATCGGTGCCAATTTTCCTTTCGATGT
Found at i:49832329 original size:52 final size:51
Alignment explanation
Indices: 49832251--49832378 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
49832241 CGAATGACTT
**
49832251 AAGTGTGGTACTATGTGAATTCCACTTTGTGAAGAAAGATAGCTTTGATC-AC
1 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTG-TCTAC
*
49832303 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTGTCTAC
1 AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCTAC
* * *
49832354 AAGGGTAGTACTATGTGCAGGCCAC
1 AAGTGTGGTACTATGTGAAGGCCAC
49832379 CGGGTATCCA
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.03
51 35 0.51
52 32 0.46
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (51 bp):
AAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGTCTAC
Found at i:49834599 original size:42 final size:42
Alignment explanation
Indices: 49834551--49834702 Score: 128
Period size: 42 Copynumber: 3.6 Consensus size: 42
49834541 AAGGCTGAAT
* *
49834551 AGAAGCTCATGAGAGATAAAC-AGAAACCCATAAGGGTTGAAC
1 AGAAGCTCATAAGAGATAAACGA-AAACCCATAAGGGTTAAAC
* * * *
49834593 GGAAGCTCGTAAGAGTTGAACGAAAACCCATAAGGGTTAAAC
1 AGAAGCTCATAAGAGATAAACGAAAACCCATAAGGGTTAAAC
* * * * * *
49834635 AGAAGCTCA-ATAGAGCTGAACGGAAACTCATATGAGTTAAAC
1 AGAAGCTCATA-AGAGATAAACGAAAACCCATAAGGGTTAAAC
* * * *
49834677 AGAAGTTCGTGAGAGGTAAACGAAAA
1 AGAAGCTCATAAGAGATAAACGAAAA
49834703 GTAAACACGA
Statistics
Matches: 88, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 86 0.98
43 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.16
Consensus pattern (42 bp):
AGAAGCTCATAAGAGATAAACGAAAACCCATAAGGGTTAAAC
Found at i:49834626 original size:21 final size:21
Alignment explanation
Indices: 49834574--49834626 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
49834564 AGATAAACAG
* *
49834574 AAACCCATAAGGGTTGAACGG
1 AAACCCATAAGAGTTGAACGA
* * *
49834595 AAGCTCGTAAGAGTTGAACGA
1 AAACCCATAAGAGTTGAACGA
49834616 AAACCCATAAG
1 AAACCCATAAG
49834627 GGTTAAACAG
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
AAACCCATAAGAGTTGAACGA
Found at i:49838412 original size:27 final size:27
Alignment explanation
Indices: 49838382--49838435 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
49838372 TGACCCAAAA
49838382 TGTAAAAAACCGATTCTTTCACCGATT
1 TGTAAAAAACCGATTCTTTCACCGATT
* *
49838409 TGTAGAAAACCGATTCTTTTACCGATT
1 TGTAAAAAACCGATTCTTTCACCGATT
49838436 CATCCGATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (27 bp):
TGTAAAAAACCGATTCTTTCACCGATT
Found at i:49842335 original size:68 final size:68
Alignment explanation
Indices: 49842208--49842335 Score: 184
Period size: 68 Copynumber: 1.9 Consensus size: 68
49842198 AGCAGCATTG
* * * * ** *
49842208 GGAGGATGTGAGTTCGACCTATGCTTGATTATGGGTCAGGTCAGGTTGGATTTAAGTTGAATTGA
1 GGAGGATATGAGTTCGAACTAGGCTTGATCATGGGTCAGGTCAGACTGGATTCAAGTTGAATTGA
49842273 TAC
66 TAC
*
49842276 GGAGGATATGAGTTCGAACTAGGCTTGATCATGGGTCAGGTCAGACTGGATTCAGGTTGA
1 GGAGGATATGAGTTCGAACTAGGCTTGATCATGGGTCAGGTCAGACTGGATTCAAGTTGA
49842336 GCTGATGCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 52 1.00
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (68 bp):
GGAGGATATGAGTTCGAACTAGGCTTGATCATGGGTCAGGTCAGACTGGATTCAAGTTGAATTGA
TAC
Found at i:49849439 original size:6 final size:6
Alignment explanation
Indices: 49849428--49849454 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49849418 GAAAACATAA
49849428 TTCATT TTCATT TTCATT TTCATT TTC
1 TTCATT TTCATT TTCATT TTCATT TTC
49849455 TTAAAAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (6 bp):
TTCATT
Found at i:49851596 original size:31 final size:31
Alignment explanation
Indices: 49851553--49851622 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
49851543 CTTAACAACC
*
49851553 CAATAACTTAAATAAAAACTTTCAAATGGTT
1 CAATGACTTAAATAAAAACTTTCAAATGGTT
** **
49851584 CAATGACTTAAATGGAAACTTTTGAATGGTT
1 CAATGACTTAAATAAAAACTTTCAAATGGTT
*
49851615 CATTGACT
1 CAATGACT
49851623 ATTTTGTAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (31 bp):
CAATGACTTAAATAAAAACTTTCAAATGGTT
Found at i:49854675 original size:21 final size:21
Alignment explanation
Indices: 49854637--49854682 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
49854627 TATTTTAAAT
49854637 GTTTATTTACTTTTAA-TTTA
1 GTTTATTTACTTTTAATTTTA
49854657 GTTTAATTTA-TTTTAAATTTTA
1 GTTT-ATTTACTTTT-AATTTTA
49854679 GTTT
1 GTTT
49854683 TAACACAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 8 0.35
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (21 bp):
GTTTATTTACTTTTAATTTTA
Found at i:49856890 original size:11 final size:11
Alignment explanation
Indices: 49856867--49856926 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
49856857 TTATCATATG
49856867 TAAATCTTA-TT
1 TAAAT-TTATTT
49856878 TAAATTTATTT
1 TAAATTTATTT
49856889 TAAATTTGA-TT
1 TAAATTT-ATTT
*
49856900 TAAATATATTT
1 TAAATTTATTT
*
49856911 TATATTATTATTT
1 TA-AAT-TTATTT
49856924 TAA
1 TAA
49856927 GTTGTTTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
10 4 0.10
11 26 0.63
12 4 0.10
13 7 0.17
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (11 bp):
TAAATTTATTT
Found at i:49856892 original size:22 final size:22
Alignment explanation
Indices: 49856867--49856912 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49856857 TTATCATATG
*
49856867 TAAATCTT-ATTTAAATTTATTT
1 TAAAT-TTGATTTAAATATATTT
49856889 TAAATTTGATTTAAATATATTT
1 TAAATTTGATTTAAATATATTT
49856911 TA
1 TA
49856913 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TAAATTTGATTTAAATATATTT
Found at i:49858620 original size:31 final size:32
Alignment explanation
Indices: 49858584--49858705 Score: 126
Period size: 33 Copynumber: 3.8 Consensus size: 32
49858574 ATTTTATGAT
49858584 ATTATTTAAATA-TAATTTATCATTATATCAA
1 ATTATTTAAATATTAATTTATCATTATATCAA
** **
49858615 ATTATTTAAATATTACAAATATCATTATATTTA
1 ATTATTTAAATATTA-ATTTATCATTATATCAA
*
49858648 ATTATTTAAAAATT-ATTTATCATTATATGCAA
1 ATTATTTAAATATTAATTTATCATTATAT-CAA
*
49858680 A--ATTTAAAATATTTCATTTATCATTA
1 ATTATTT-AAATA-TTAATTTATCATTA
49858706 AATTTACAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 10
0.79 0.11 0.11
Matches are distributed among these distances:
30 4 0.05
31 28 0.37
32 6 0.08
33 37 0.49
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.48
Consensus pattern (32 bp):
ATTATTTAAATATTAATTTATCATTATATCAA
Found at i:49858643 original size:33 final size:32
Alignment explanation
Indices: 49858584--49858692 Score: 100
Period size: 31 Copynumber: 3.4 Consensus size: 32
49858574 ATTTTATGAT
**
49858584 ATTATTTAAATA-TAATTTATCATTATATCAA
1 ATTATTTAAATATTAAAATATCATTATATCAA
**
49858615 ATTATTTAAATATTACAAATATCATTATATTTA
1 ATTATTTAAATATTA-AAATATCATTATATCAA
* **
49858648 ATTATTTAAAAATT-ATTTATCATTATATGCAA
1 ATTATTTAAATATTAAAATATCATTATAT-CAA
49858680 A--ATTTAAAATATT
1 ATTATTT-AAATATT
49858693 TCATTTATCA
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
30 4 0.06
31 30 0.47
32 4 0.06
33 26 0.41
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.48
Consensus pattern (32 bp):
ATTATTTAAATATTAAAATATCATTATATCAA
Found at i:49858666 original size:64 final size:64
Alignment explanation
Indices: 49858584--49858711 Score: 170
Period size: 64 Copynumber: 2.0 Consensus size: 64
49858574 ATTTTATGAT
* *
49858584 ATTATTTAAATATAATTTATCATTATAT-CAAATTATTT-AAATATTACAAATATCATTATATTT
1 ATTATTTAAAAATAATTTATCATTATATGCAAA--ATTTAAAATATTACAAATATCATTAAATTT
49858647 A
64 A
* * **
49858648 ATTATTTAAAAATTATTTATCATTATATGCAAAATTTAAAATATTTCATTTATCATTAAATTTA
1 ATTATTTAAAAATAATTTATCATTATATGCAAAATTTAAAATATTACAAATATCATTAAATTTA
49858712 CAAATAATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 4 0.07
64 48 0.86
65 4 0.07
ACGTcount: A:0.45, C:0.06, G:0.01, T:0.48
Consensus pattern (64 bp):
ATTATTTAAAAATAATTTATCATTATATGCAAAATTTAAAATATTACAAATATCATTAAATTTA
Found at i:49859147 original size:20 final size:19
Alignment explanation
Indices: 49859105--49859147 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
49859095 ATGATTATAT
***
49859105 TTTAATATTTAAAATATGG
1 TTTAATATTTAAAATAAAA
49859124 TTTATATATTTAAAATAAAA
1 TTTA-ATATTTAAAATAAAA
49859144 TTTA
1 TTTA
49859148 CAAATAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAATATTTAAAATAAAA
Found at i:49866307 original size:6 final size:6
Alignment explanation
Indices: 49866296--49866324 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49866286 GTTATCCCCA
49866296 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCTC
49866325 CCAACATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (6 bp):
CCCTCT
Found at i:49869998 original size:120 final size:120
Alignment explanation
Indices: 49869860--49870152 Score: 500
Period size: 120 Copynumber: 2.4 Consensus size: 120
49869850 AATTATTTTA
* * * *
49869860 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTATATT
*
49869923 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
64 TTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
49869980 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTACTTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
49870045 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
49870100 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
49870153 GAATAAACTA
Statistics
Matches: 165, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
119 4 0.02
120 159 0.96
121 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:49870020 original size:15 final size:15
Alignment explanation
Indices: 49869985--49870026 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49869975 TTAAGAATTT
*
49869985 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49869999 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49870013 TATTTAATAATAAT
1 TATTTAATTATAAT
49870027 TATGTTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49870140 original size:15 final size:15
Alignment explanation
Indices: 49870105--49870146 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49870095 TTAAGAATTT
*
49870105 TATTAAATTAT-ATA
1 TATTTAATTATAATA
49870119 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
49870133 TATTTAATAATAAT
1 TATTTAATTATAAT
49870147 TATGTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:49874850 original size:19 final size:18
Alignment explanation
Indices: 49874826--49874869 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
49874816 AAAGACATGC
*
49874826 TATACATACAGAAATCTCA
1 TATACATA-ACAAATCTCA
*
49874845 TATACAATAACATATCTCA
1 TATAC-ATAACAAATCTCA
49874864 TATACA
1 TATACA
49874870 GTCAGATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 18 0.82
20 3 0.14
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.30
Consensus pattern (18 bp):
TATACATAACAAATCTCA
Found at i:49875946 original size:21 final size:21
Alignment explanation
Indices: 49875879--49875946 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
49875869 GTGTCCCCTC
* *
49875879 CACACGGGCGTGTGTGGCCTT
1 CACATGGGCATGTGTGGCCTT
* * * *
49875900 CATAAGGGCCTATGTGGCCTT
1 CACATGGGCATGTGTGGCCTT
49875921 CACATGGGCATGTGTGGCCTT
1 CACATGGGCATGTGTGGCCTT
49875942 CACAT
1 CACAT
49875947 AAGCGTGTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.16, C:0.26, G:0.31, T:0.26
Consensus pattern (21 bp):
CACATGGGCATGTGTGGCCTT
Found at i:49877824 original size:97 final size:97
Alignment explanation
Indices: 49877658--49877853 Score: 374
Period size: 97 Copynumber: 2.0 Consensus size: 97
49877648 GTGATGACCC
49877658 AGAGGTTAGCACTGAGGCGTTGACTCGGGTTGTGAGAGAAGTGTTAGAGAAAGTCTTCGAGCCTA
1 AGAGGTTAGCACTGAGGCGTTGACTCGGGTTGTGAGAGAAGTGTTAGAGAAAGTCTTCGAGCCTA
*
49877723 GTTTAGATATAACTAGAGAAATTGTTCAAGGT
66 GTTTAGATAGAACTAGAGAAATTGTTCAAGGT
*
49877755 AGAGGTTAGCACTGAGGCGTTGACTCGGGTTGTGAGAGAAGTGTTAGAGAAAGTCTTCGAGGCTA
1 AGAGGTTAGCACTGAGGCGTTGACTCGGGTTGTGAGAGAAGTGTTAGAGAAAGTCTTCGAGCCTA
49877820 GTTTAGATAGAACTAGAGAAATTGTTCAAGGT
66 GTTTAGATAGAACTAGAGAAATTGTTCAAGGT
49877852 AG
1 AG
49877854 GTGTGCGGAT
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.30, C:0.11, G:0.32, T:0.27
Consensus pattern (97 bp):
AGAGGTTAGCACTGAGGCGTTGACTCGGGTTGTGAGAGAAGTGTTAGAGAAAGTCTTCGAGCCTA
GTTTAGATAGAACTAGAGAAATTGTTCAAGGT
Found at i:49878341 original size:15 final size:16
Alignment explanation
Indices: 49878315--49878344 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
49878305 CAGTGAGTTT
49878315 TTTTTATATTTATTTG
1 TTTTTATATTTATTTG
49878331 TTTTTAT-TTTATTT
1 TTTTTATATTTATTT
49878345 TTTAAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTTATATTTATTTG
Found at i:49878884 original size:18 final size:17
Alignment explanation
Indices: 49878852--49878886 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
49878842 GCAAATTTTG
49878852 GTACCACAAAAGCATGT
1 GTACCACAAAAGCATGT
*
49878869 GTACCTACACAAGCATGT
1 GTACC-ACAAAAGCATGT
49878887 AAGATCTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (17 bp):
GTACCACAAAAGCATGT
Found at i:49879034 original size:21 final size:21
Alignment explanation
Indices: 49878994--49879049 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
49878984 CACAGACGTG
* *
49878994 TATGGCCTTTACACGAGTATA
1 TATGGCCTTCACATGAGTATA
* *
49879015 TATGGCCTTCACATGGGTATG
1 TATGGCCTTCACATGAGTATA
*
49879036 TGTGGCCTTCACAT
1 TATGGCCTTCACAT
49879050 AGGGGTGTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (21 bp):
TATGGCCTTCACATGAGTATA
Found at i:49884327 original size:13 final size:13
Alignment explanation
Indices: 49884296--49884337 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
49884286 ATCCATCATC
49884296 TATTCATTT-AACA
1 TATTCATTTCAA-A
*
49884309 TTTTCATTTCAAA
1 TATTCATTTCAAA
*
49884322 TATTCATATCAAA
1 TATTCATTTCAAA
49884335 TAT
1 TAT
49884338 CCCTTTTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 23 0.92
14 2 0.08
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTCATTTCAAA
Found at i:49884413 original size:27 final size:26
Alignment explanation
Indices: 49884381--49884574 Score: 135
Period size: 27 Copynumber: 7.3 Consensus size: 26
49884371 TCGTATAAAT
*
49884381 ATTTCATATAACTATTTCCGTATTATCG
1 ATTTCATATAACTA-TTCCATA-TATCG
* * **
49884409 A-TTCATATAACCATTCCGTATATTT
1 ATTTCATATAACTATTCCATATATCG
* * *
49884434 ATTTCTGTATAACCATTCCATATATCT
1 ATTTC-ATATAACTATTCCATATATCG
* * *
49884461 ATTTTCATATAATTGATT-CATATAACC
1 A-TTTCATATAACT-ATTCCATATATCG
49884488 ATTTCATATAACTATTTCCATATAATCG
1 ATTTCATATAACTA-TTCCATAT-ATCG
* *
49884516 A-TTCATATAACTATTTCATATATCT
1 ATTTCATATAACTATTCCATATATCG
* * *
49884541 ATTTCCATATAATTGATT-CATATAACC
1 ATTT-CATATAACT-ATTCCATATATCG
49884568 ATTTCAT
1 ATTTCAT
49884575 TTATTCATTT
Statistics
Matches: 137, Mismatches: 19, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
25 9 0.07
26 35 0.26
27 79 0.58
28 14 0.10
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (26 bp):
ATTTCATATAACTATTCCATATATCG
Found at i:49884485 original size:40 final size:40
Alignment explanation
Indices: 49884441--49884574 Score: 223
Period size: 40 Copynumber: 3.4 Consensus size: 40
49884431 TTTATTTCTG
* *
49884441 TATAACCATTCCATATATCTATTTTCATATAATTGATTCA
1 TATAACCATTTCATATATCTATTTCCATATAATTGATTCA
* *
49884481 TATAACCATTTCATATAACTATTTCCATATAATCGATTCA
1 TATAACCATTTCATATATCTATTTCCATATAATTGATTCA
*
49884521 TATAACTATTTCATATATCTATTTCCATATAATTGATTCA
1 TATAACCATTTCATATATCTATTTCCATATAATTGATTCA
49884561 TATAACCATTTCAT
1 TATAACCATTTCAT
49884575 TTATTCATTT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.36, C:0.18, G:0.02, T:0.44
Consensus pattern (40 bp):
TATAACCATTTCATATATCTATTTCCATATAATTGATTCA
Found at i:49884504 original size:67 final size:67
Alignment explanation
Indices: 49884383--49884537 Score: 179
Period size: 67 Copynumber: 2.3 Consensus size: 67
49884373 GTATAAATAT
* * * * ** **
49884383 TTCATATAACTATTTCCGTATTATCGATTCATATAACCATTCCGTATATTTATTTCTGTATAA-C
1 TTCATATAACTATTTTCATATAATCGATTCATATAACCATTCCATATAACTATTTCCATATAATC
49884447 CA
66 CA
* * *
49884449 TTCCATATATCTATTTTCATATAATTGATTCATATAACCATTTCATATAACTATTTCCATATAAT
1 TT-CATATAACTATTTTCATATAATCGATTCATATAACCATTCCATATAACTATTTCCATATAAT
*
49884514 CGA
65 CCA
49884517 TTCATATAACTA-TTTCATATA
1 TTCATATAACTATTTTCATATA
49884538 TCTATTTCCA
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
66 11 0.15
67 59 0.80
68 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.04, T:0.45
Consensus pattern (67 bp):
TTCATATAACTATTTTCATATAATCGATTCATATAACCATTCCATATAACTATTTCCATATAATC
CA
Found at i:49884573 original size:13 final size:13
Alignment explanation
Indices: 49884369--49884574 Score: 123
Period size: 13 Copynumber: 15.5 Consensus size: 13
49884359 CATAAAAATG
* *
49884369 TTTCGTATAAATA
1 TTTCATATAACTA
49884382 TTTCATATAACTA
1 TTTCATATAACTA
* * *
49884395 TTTCCGTATTATCGA
1 TTT-CATA-TAACTA
*
49884410 -TTCATATAACCA
1 TTTCATATAACTA
* * **
49884422 TTCCGTATATTTA
1 TTTCATATAACTA
* *
49884435 TTTCTGTATAACCA
1 TTTC-ATATAACTA
* *
49884449 TTCCATATATCTA
1 TTTCATATAACTA
*
49884462 TTTTCATATAATTGA
1 -TTTCATATAACT-A
*
49884477 -TTCATATAACCA
1 TTTCATATAACTA
49884489 TTTCATATAACTA
1 TTTCATATAACTA
*
49884502 TTTCCATATAATCGA
1 TTT-CATATAA-CTA
49884517 -TTCATATAACTA
1 TTTCATATAACTA
*
49884529 TTTCATATATCTA
1 TTTCATATAACTA
*
49884542 TTTCCATATAATTGA
1 TTT-CATATAACT-A
*
49884557 -TTCATATAACCA
1 TTTCATATAACTA
49884569 TTTCAT
1 TTTCAT
49884575 TTATTCATTT
Statistics
Matches: 146, Mismatches: 34, Indels: 26
0.71 0.17 0.13
Matches are distributed among these distances:
12 8 0.05
13 89 0.61
14 41 0.28
15 8 0.05
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.45
Consensus pattern (13 bp):
TTTCATATAACTA
Found at i:49884660 original size:25 final size:25
Alignment explanation
Indices: 49884632--49884695 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
49884622 ACAAGAGAAG
49884632 AATGCTCACACAAGCTGTAACTGTA
1 AATGCTCACACAAGCTGTAACTGTA
* *
49884657 AATGCTCACACGACCTGTAACTGTA
1 AATGCTCACACAAGCTGTAACTGTA
* *
49884682 ATTTCTCACACAAG
1 AATGCTCACACAAG
49884696 TTGTGGGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (25 bp):
AATGCTCACACAAGCTGTAACTGTA
Found at i:49889526 original size:20 final size:18
Alignment explanation
Indices: 49889484--49889523 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
49889474 ATACACATGC
49889484 ATATA-TTTTTATAATAT
1 ATATACTTTTTATAATAT
*
49889501 ACATACTTTTTATAATAT
1 ATATACTTTTTATAATAT
49889519 ATATA
1 ATATA
49889524 TACGTACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATACTTTTTATAATAT
Found at i:49889570 original size:33 final size:34
Alignment explanation
Indices: 49889505--49889572 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
49889495 TAATATACAT
49889505 ACTTTTTATAATATATATATACGTACACATTTTTA
1 ACTTTTTATAATATATATATACG-ACACATTTTTA
* *
49889540 ACTTTTGTA-AATATATATTTAC-ACATATTTTTA
1 ACTTTT-TATAATATATATATACGACACATTTTTA
49889573 TATTATTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 10 0.33
35 18 0.60
36 2 0.07
ACGTcount: A:0.37, C:0.10, G:0.03, T:0.50
Consensus pattern (34 bp):
ACTTTTTATAATATATATATACGACACATTTTTA
Found at i:49890163 original size:72 final size:72
Alignment explanation
Indices: 49890046--49890188 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 72
49890036 TCTTTTCAAA
*
49890046 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCA
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
49890111 TTTTTTC
66 TTTTTTC
* * *
49890118 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGTATGATCCC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
49890183 TTTTTT
66 TTTTTT
49890189 AAATCCGAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (72 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCA
TTTTTTC
Found at i:49890959 original size:19 final size:20
Alignment explanation
Indices: 49890937--49890976 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
49890927 TCTGGCATTA
*
49890937 AATT-TTTTTAAATTACTTT
1 AATTGTTTTGAAATTACTTT
*
49890956 AATTGTTTTGAAATTATTTT
1 AATTGTTTTGAAATTACTTT
49890976 A
1 A
49890977 TTTGGGACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
AATTGTTTTGAAATTACTTT
Found at i:49905229 original size:14 final size:16
Alignment explanation
Indices: 49905210--49905241 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
49905200 TTGTATGTTT
49905210 TGATAAT-TC-GATTC
1 TGATAATATCTGATTC
49905224 TGATAATATCTGATTC
1 TGATAATATCTGATTC
49905240 TG
1 TG
49905242 TTAAGGACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 2 0.12
16 7 0.44
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (16 bp):
TGATAATATCTGATTC
Found at i:49905947 original size:15 final size:17
Alignment explanation
Indices: 49905909--49905949 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
49905899 AATTGTTTTT
*
49905909 TATAAACGAGAATAATA
1 TATAAAAGAGAATAATA
*
49905926 TAAAAAAGAGAA-AATA
1 TATAAAAGAGAATAATA
49905942 -ATAAAAGA
1 TATAAAAGA
49905950 AAAGAGGGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 7 0.33
16 4 0.19
17 10 0.48
ACGTcount: A:0.68, C:0.02, G:0.12, T:0.17
Consensus pattern (17 bp):
TATAAAAGAGAATAATA
Found at i:49906726 original size:26 final size:26
Alignment explanation
Indices: 49906697--49906750 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
49906687 TTAGTTTCAA
** * *
49906697 ATTTTGTTGTATATGTACATACTTAC
1 ATTTTGTCATATATATACATACGTAC
49906723 ATTTTGTCATATATATACATACGTAC
1 ATTTTGTCATATATATACATACGTAC
49906749 AT
1 AT
49906751 ATTTTTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.46
Consensus pattern (26 bp):
ATTTTGTCATATATATACATACGTAC
Found at i:49906791 original size:20 final size:21
Alignment explanation
Indices: 49906768--49906817 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
49906758 AATTTATTTG
49906768 TATATATATATTT-TCATA-CT
1 TATATATATATTTAT-ATACCT
49906788 TATATAT-TATTTATATACCT
1 TATATATATATTTATATACCT
49906808 TATATATATA
1 TATATATATA
49906818 CACATATGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 8 0.30
20 17 0.63
21 2 0.07
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (21 bp):
TATATATATATTTATATACCT
Found at i:49907564 original size:107 final size:107
Alignment explanation
Indices: 49907378--49907593 Score: 378
Period size: 107 Copynumber: 2.0 Consensus size: 107
49907368 ATCAAAAGAA
49907378 AAGATTTTCTAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
* *
49907443 GGTTTCTATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
66 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
* *
49907485 AAGATTTTTTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
* *
49907550 GGTTTCGATTTCTCGTTCGACTAAATAGTCAAATATCCTCTT
66 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
49907592 AA
1 AA
49907594 AACTTCAAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (107 bp):
AAGATTTTCTAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
Found at i:49908891 original size:18 final size:18
Alignment explanation
Indices: 49908864--49908898 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49908854 ATATTTTGAA
* *
49908864 CATTTTTGTATTGTTTTG
1 CATTTATGTATTATTTTG
49908882 CATTTATGTATTATTTT
1 CATTTATGTATTATTTT
49908899 ATAGATATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.66
Consensus pattern (18 bp):
CATTTATGTATTATTTTG
Found at i:49913145 original size:21 final size:21
Alignment explanation
Indices: 49913119--49913158 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
49913109 AACAACCTAG
*
49913119 CCACATGGTCGTGTGACCCTT
1 CCACATGGTCGTGTAACCCTT
49913140 CCACATGGTCGTGTAACCC
1 CCACATGGTCGTGTAACCC
49913159 CTGTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.35, G:0.23, T:0.25
Consensus pattern (21 bp):
CCACATGGTCGTGTAACCCTT
Found at i:49919877 original size:5 final size:5
Alignment explanation
Indices: 49919863--49919896 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
49919853 ACATAAGTGC
49919863 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
49919897 ATTGTTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:49923100 original size:55 final size:55
Alignment explanation
Indices: 49923014--49923123 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
49923004 AGTCGCCTTG
* *
49923014 GGAAAGAGTCTACTAGTTTGCCAAGATGAGAAGACGGAGCTGAAGGTCCGGATAA
1 GGAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGCTGAAGGTCCGGATAA
*
49923069 GGAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGTTGAAGGTCCGGATAA
1 GGAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGCTGAAGGTCCGGATAA
49923124 CTGAACTAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.35, C:0.15, G:0.33, T:0.17
Consensus pattern (55 bp):
GGAAAGAGTCTACTAGATTGCCAAGACGAGAAGACGGAGCTGAAGGTCCGGATAA
Found at i:49932310 original size:44 final size:43
Alignment explanation
Indices: 49932073--49932321 Score: 185
Period size: 44 Copynumber: 5.8 Consensus size: 43
49932063 TTTATTACAC
* * *
49932073 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGGAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAGCAG
* * * *
49932115 AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG
1 AG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAGCAG
* * * *
49932157 -GATCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTCA-AGCAG
* * * *
49932199 -G-TCTTATCTCCCTGAGATTACAGTGGAACAGA-CCAAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTC-AAGCA---G
* *
49932243 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAG-CAG
*
49932287 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
49932322 CGAAGACACA
Statistics
Matches: 161, Mismatches: 29, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
38 2 0.01
39 24 0.15
40 1 0.01
41 29 0.18
42 8 0.05
44 62 0.39
45 2 0.01
46 32 0.20
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTCAAGCAG
Found at i:49935140 original size:5 final size:5
Alignment explanation
Indices: 49935126--49935164 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
49935116 ACATAAGTGC
49935126 TTTA- TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
49935165 ATTGTTTCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:49958136 original size:37 final size:36
Alignment explanation
Indices: 49958091--49958168 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
49958081 TCTTGTCACC
49958091 ATGT-ATTTTGAAATTAAAAAATATATTAAATG-TAAA
1 ATGTGATTTTGAAA-TAAAAAATATATTAAA-GATAAA
** * *
49958127 ATGTGATTTTTTAATCAAAAATATTTTAAAGATAAA
1 ATGTGATTTTGAAATAAAAAATATATTAAAGATAAA
49958163 ATGTGA
1 ATGTGA
49958169 AATTGATACC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
35 1 0.03
36 28 0.78
37 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (36 bp):
ATGTGATTTTGAAATAAAAAATATATTAAAGATAAA
Found at i:49970492 original size:17 final size:17
Alignment explanation
Indices: 49970470--49970527 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
49970460 ATTGAGATTG
49970470 GCTAAAATAATGCGAGA
1 GCTAAAATAATGCGAGA
* * *
49970487 GCTAAAAGGAATTAC-TG-
1 GCTAAAA-TAA-TGCGAGA
49970504 GCTAAAATAATGCGAGA
1 GCTAAAATAATGCGAGA
49970521 GCTAAAA
1 GCTAAAA
49970528 GGAATTACTA
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
15 2 0.06
16 3 0.10
17 21 0.68
18 3 0.10
19 2 0.06
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (17 bp):
GCTAAAATAATGCGAGA
Found at i:49970511 original size:34 final size:34
Alignment explanation
Indices: 49970468--49970536 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
49970458 ATATTGAGAT
49970468 TGGCTAAAATAATGCGAGAGCTAAAAGGAATTAC
1 TGGCTAAAATAATGCGAGAGCTAAAAGGAATTAC
49970502 TGGCTAAAATAATGCGAGAGCTAAAAGGAATTAC
1 TGGCTAAAATAATGCGAGAGCTAAAAGGAATTAC
49970536 T
1 T
49970537 AAAAAACTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.23, T:0.22
Consensus pattern (34 bp):
TGGCTAAAATAATGCGAGAGCTAAAAGGAATTAC
Found at i:49973028 original size:34 final size:35
Alignment explanation
Indices: 49972984--49973050 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
49972974 CAGTAAAATA
49972984 TTTTTCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTTCGTAAAATGATTTACTGGAAAATATTTTAC
*
49973018 TTTTTTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTTCGTAAAATGATTTACTGGAAAATATTTT
49973051 CTGCTGCTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (35 bp):
TTTTTCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:49981547 original size:51 final size:50
Alignment explanation
Indices: 49981462--49981622 Score: 217
Period size: 51 Copynumber: 3.3 Consensus size: 50
49981452 CGGATCACAT
* * *
49981462 TTATCACTTGTCACTTGTCCCTAATAAGAAAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGT-CCTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
49981513 TTATCACTTGTCACTTGTCGCTGATCAGATAAGTGTAGCTAAAGCTATCAC
1 TTATCACTTGTCACTTGTC-CTGATCAGATAAGTGTAGCTAAAGCTACCAC
49981564 TTATCACTTGTCA------CTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
49981608 TCATCACTTGTCACT
1 TTATCACTTGTCACT
49981623 GATCAGGAGT
Statistics
Matches: 101, Mismatches: 6, Indels: 11
0.86 0.05 0.09
Matches are distributed among these distances:
44 42 0.42
50 1 0.01
51 58 0.57
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (50 bp):
TTATCACTTGTCACTTGTCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:49981562 original size:44 final size:44
Alignment explanation
Indices: 49981514--49981628 Score: 194
Period size: 44 Copynumber: 2.6 Consensus size: 44
49981504 AGCTACCACT
* *
49981514 TATCACTTGTCACTTGTCGCTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
49981558 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
* *
49981602 TACCACTCATCACTTGTCACTGATCAG
1 TATCACTTATCACTTGTCACTGATCAG
49981629 GAGTACTCAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
TATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGC
Found at i:49982930 original size:12 final size:12
Alignment explanation
Indices: 49982913--49982940 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
49982903 AATAGACTCA
49982913 TTCAGCTTTAAT
1 TTCAGCTTTAAT
49982925 TTCAGCTTTAAT
1 TTCAGCTTTAAT
49982937 TTCA
1 TTCA
49982941 TATATCATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (12 bp):
TTCAGCTTTAAT
Found at i:49985557 original size:55 final size:55
Alignment explanation
Indices: 49985473--49985580 Score: 207
Period size: 55 Copynumber: 2.0 Consensus size: 55
49985463 CCCTTTTCCC
49985473 ACAAAAATTCCTCCCTTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTTCT
1 ACAAAAATTCCTCCCTTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTTCT
*
49985528 ACAAAAATTCCTTCCTTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTT
1 ACAAAAATTCCTCCCTTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTT
49985581 GAAACCAAAC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.43, C:0.24, G:0.06, T:0.28
Consensus pattern (55 bp):
ACAAAAATTCCTCCCTTAGACAAAATAAACTTATCTGCCTCAAAAACAAGTTTCT
Found at i:49990699 original size:43 final size:44
Alignment explanation
Indices: 49990651--49990753 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 44
49990641 ATTGATTTGA
* *
49990651 GATTTACATGTAAGACCATGTCCGGTACATTGGCATCG-TATAT
1 GATTTACATGTAAGACCATGTCCGGGACAGTGGCATCGATATAT
* * *
49990694 GATTTACGTGTAAGACCCTGTCCGGGACAGTGGCATCGATATTT
1 GATTTACATGTAAGACCATGTCCGGGACAGTGGCATCGATATAT
*
49990738 GA-TTACATGCAAGACC
1 GATTTACATGTAAGACC
49990754 TCGTCTAGGA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
43 46 0.88
44 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
GATTTACATGTAAGACCATGTCCGGGACAGTGGCATCGATATAT
Found at i:50019581 original size:6 final size:6
Alignment explanation
Indices: 50019559--50019595 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
50019549 ACCTTGCCTC
*
50019559 AACCCGG AACCCA AACCCG AACCCG AACCCG AACCCG
1 AACCC-G AACCCG AACCCG AACCCG AACCCG AACCCG
50019596 GACGGGTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
AACCCG
Found at i:50021722 original size:20 final size:20
Alignment explanation
Indices: 50021662--50021723 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
50021652 TGGAAAATAA
* *
50021662 TAAAATAAATAATACATGAAAT
1 TAAAA-AAATAACACAT-AATT
* *
50021684 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAACACATAATT
50021704 TAAAGAAAATAA-ACATAATT
1 TAAA-AAAATAACACATAATT
50021724 ATCTAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
20 13 0.39
21 15 0.45
22 5 0.15
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.29
Consensus pattern (20 bp):
TAAAAAAATAACACATAATT
Found at i:50021796 original size:18 final size:18
Alignment explanation
Indices: 50021773--50021824 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
50021763 ATAAACCTAT
50021773 GAAAGATTAAAACCTTAA
1 GAAAGATTAAAACCTTAA
50021791 GAAAGATTAAAACCTTAA
1 GAAAGATTAAAACCTTAA
50021809 GAAAGATTAAAACCTT
1 GAAAGATTAAAACCTT
50021825 GAATTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (18 bp):
GAAAGATTAAAACCTTAA
Found at i:50022241 original size:32 final size:32
Alignment explanation
Indices: 50022200--50022263 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
50022190 TAAAATTTGT
*
50022200 TATGAAGACGTCCAAAAATTTACCAAGGAAGA
1 TATGAAGACGGCCAAAAATTTACCAAGGAAGA
50022232 TATGAAGACGGCCAAAAATTTACCAAGGAAGA
1 TATGAAGACGGCCAAAAATTTACCAAGGAAGA
50022264 AAAACAACAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (32 bp):
TATGAAGACGGCCAAAAATTTACCAAGGAAGA
Found at i:50023481 original size:12 final size:13
Alignment explanation
Indices: 50023454--50023484 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
50023444 ATTTATCCTT
50023454 TAAATTATCTCTA
1 TAAATTATCTCTA
50023467 TAAATTATCTC-A
1 TAAATTATCTCTA
50023479 TAAATT
1 TAAATT
50023485 CTTTAATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTATCTCTA
Found at i:50026054 original size:32 final size:32
Alignment explanation
Indices: 50025992--50026130 Score: 141
Period size: 31 Copynumber: 4.5 Consensus size: 32
50025982 ACCTCCCAAA
* * *
50025992 AAGTTTAAGTACCAACTTAAG-AAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
*
50026023 AAGTTTAGGTATCAAATTAGGAAAAAAGTGTC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
*
50026055 AAGTTTGGGTACCAAATT-GGACCAAAAA-----
1 AAGTTTAGGTACCAAATTAGGA--AAAAAGTGTC
* *
50026083 AAGATTAGGTACCAAATTA-GAAAAAAGTGCC
1 AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
50026114 AAGTTTAGGTACCAAAT
1 AAGTTTAGGTACCAAAT
50026131 ATTATATTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
26 5 0.06
28 18 0.20
31 36 0.40
32 26 0.29
33 5 0.06
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (32 bp):
AAGTTTAGGTACCAAATTAGGAAAAAAGTGTC
Found at i:50026122 original size:91 final size:92
Alignment explanation
Indices: 50025937--50026130 Score: 268
Period size: 91 Copynumber: 2.1 Consensus size: 92
50025927 CAAAAAAAAA
** *
50025937 AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCCCAAAAAGTTTAAGT
1 AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAGT
* *
50026002 ACCAACTTAAGAAAAAGTGTCAAGTTT
66 ACCAAATTAAGAAAAAGTGCCAAGTTT
* * * *
50026029 AGGTATCAAATTAGGAAAAAAGTGTCAAGTTTGGGTACCAAATTGGA-C-CAAAAAAAGATTAGG
1 AGGTACCAAATTAGG-AAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAG
50026092 TACCAAATT-AGAAAAAAGTGCCAAGTTT
65 TACCAAATTAAG-AAAAAGTGCCAAGTTT
50026120 AGGTACCAAAT
1 AGGTACCAAAT
50026131 ATTATATTAA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
90 2 0.02
91 44 0.49
92 15 0.17
93 29 0.32
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (92 bp):
AGGTACCAAATTAGGAAAAAGAGTCAAGTTCGGGTACCAAATTGGACCTCAAAAAAAGATTAAGT
ACCAAATTAAGAAAAAGTGCCAAGTTT
Found at i:50034704 original size:27 final size:27
Alignment explanation
Indices: 50034631--50034707 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
50034621 GGGTATGGTG
* *
50034631 CCTATCTGATAGGCGGCACCAGTGATC
1 CCTATCTGATAGGCGGCACTAGTGACC
*
50034658 CCTATCTGATAGGCGGCACTGGTGACC
1 CCTATCTGATAGGCGGCACTAGTGACC
* *
50034685 CCTATCTCATAGGTGGCACTAGT
1 CCTATCTGATAGGCGGCACTAGT
50034708 ACCATTTCCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.25
Consensus pattern (27 bp):
CCTATCTGATAGGCGGCACTAGTGACC
Found at i:50034823 original size:18 final size:17
Alignment explanation
Indices: 50034797--50034843 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 17
50034787 GTAGAAGAGA
*
50034797 AGAATGAAAGAAAATAGG
1 AGAAAGAAAGAAAATA-G
50034815 AGAAAGAAAG-AAA-AG
1 AGAAAGAAAGAAAATAG
50034830 A-AAAGAAAGAAAAT
1 AGAAAGAAAGAAAAT
50034844 GTATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 1 0.04
17 3 0.12
18 9 0.35
ACGTcount: A:0.70, C:0.00, G:0.23, T:0.06
Consensus pattern (17 bp):
AGAAAGAAAGAAAATAG
Found at i:50034862 original size:23 final size:23
Alignment explanation
Indices: 50034835--50034881 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
50034825 AAAAGAAAAG
50034835 AAAGAAAATGTATTTTTATTTTT
1 AAAGAAAATGTATTTTTATTTTT
50034858 AAAGAAAATGTATTTTTATTTTT
1 AAAGAAAATGTATTTTTATTTTT
50034881 A
1 A
50034882 TTGTTATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (23 bp):
AAAGAAAATGTATTTTTATTTTT
Found at i:50038975 original size:3 final size:3
Alignment explanation
Indices: 50038927--50038960 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
50038917 TGCTCTCTCA
*
50038927 TTC TTC TTC TTC TTC TTT TTC TTC TTC -TC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
50038961 TAAAGATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:50039153 original size:31 final size:31
Alignment explanation
Indices: 50039112--50039170 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
50039102 GACCAGGGGT
* **
50039112 GTGCTGCCTCTCTGGTAGGCACGACCAGCCA
1 GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
*
50039143 GTGCCGCCTCTCCAGTAGGCATGACCAG
1 GTGCCGCCTCTCCAGTAGGCACGACCAG
50039171 TGCTGCTCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.17, C:0.36, G:0.29, T:0.19
Consensus pattern (31 bp):
GTGCCGCCTCTCCAGTAGGCACGACCAGCCA
Found at i:50044935 original size:13 final size:13
Alignment explanation
Indices: 50044917--50044941 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50044907 TTATCATCTA
50044917 TCATTTATTTATT
1 TCATTTATTTATT
50044930 TCATTTATTTAT
1 TCATTTATTTAT
50044942 CTACGCATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TCATTTATTTATT
Found at i:50045667 original size:22 final size:22
Alignment explanation
Indices: 50045640--50045708 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
50045630 CCCTTGATCC
50045640 TTTTAACACTAT-TTTTATATAT
1 TTTTAA-ACTATCTTTTATATAT
*
50045662 TTTTAAACTGTCTTTT-T-TAT
1 TTTTAAACTATCTTTTATATAT
*
50045682 TATTTAAGACTTTCTTTTATATAT
1 T-TTTAA-ACTATCTTTTATATAT
50045706 TTT
1 TTT
50045709 ATTTTAAACT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 4 0.10
21 10 0.25
22 19 0.47
23 3 0.08
24 4 0.10
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (22 bp):
TTTTAAACTATCTTTTATATAT
Found at i:50046081 original size:38 final size:37
Alignment explanation
Indices: 50045997--50046091 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
50045987 TATACGTACT
*
50045997 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTACATATTT-ATAATTC
* *
50046035 T-TATATACTTACATATATTTATACATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TACATATTTATA-ATTC
*
50046071 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
50046092 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTACATATTTATAATTC
Found at i:50052124 original size:119 final size:119
Alignment explanation
Indices: 50051913--50052149 Score: 465
Period size: 119 Copynumber: 2.0 Consensus size: 119
50051903 ATGAATGCAG
*
50051913 CAAGTTAAGGATAAACAATACAAACAAACATTAACAATGAAATAAATAAATAAGAGTTGGATCAA
1 CAAGTTAAGGATAAACAATACAAACAAACATTAACAATGAAATAAATAAATAAGAGTAGGATCAA
50051978 TCGCATCATAACAAATGAATAAGCAAATAGGATTAAAATGTCCTTTTAAAATAT
66 TCGCATCATAACAAATGAATAAGCAAATAGGATTAAAATGTCCTTTTAAAATAT
50052032 CAAGTTAAGGATAAACAATACAAACAAACATTAACAATGAAATAAATAAATAAGAGTAGGATCAA
1 CAAGTTAAGGATAAACAATACAAACAAACATTAACAATGAAATAAATAAATAAGAGTAGGATCAA
50052097 TCGCATCATAACAAATGAATAAGCAAATAGGATTAAAATGTCCTTTTAAAATA
66 TCGCATCATAACAAATGAATAAGCAAATAGGATTAAAATGTCCTTTTAAAATA
50052150 ATAATAAACA
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 117 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (119 bp):
CAAGTTAAGGATAAACAATACAAACAAACATTAACAATGAAATAAATAAATAAGAGTAGGATCAA
TCGCATCATAACAAATGAATAAGCAAATAGGATTAAAATGTCCTTTTAAAATAT
Found at i:50054625 original size:87 final size:86
Alignment explanation
Indices: 50054136--50055296 Score: 1125
Period size: 87 Copynumber: 13.3 Consensus size: 86
50054126 TTTTCAATCC
* * * *
50054136 ACTTCCTACAAATATAGGAAGGCAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
1 ACTTCCTACCAATATAGGAAGAC-GAATTTGC-ATCTTCGATCTACTTCACGCCAATACATGAAG
* *
50054201 ACAAGACCTGCTTTCTTCGATCT
64 ATAAGATCTGCTTTCTTCGATCT
** * * * * * * *
50054224 ACTTTGTCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAA
1 ACTTCCT-ACCAATATAGGAAGACGA-ATTTGCATCTTCGATCTACTTCAC-GCCAATACATGAA
*** * *
50054288 GACCGGACCTG-TTATCTTTGATCT
63 GATAAGATCTGCTT-TCTTCGATCT
* * * * * * * * * *
50054312 ACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTC-CTACCAATATAGGAA
1 ACTTCCTACCAATATAGGAAGACGA-ATTTGC-ATCTTCGATCTACTTCAC-GCCAATACATGAA
* * *
50054376 GA-CAGAATTTGC-ATCTTCGATCT
63 GATAAG-ATCTGCTTTCTTCGATCT
* * * * ** * * * * * ***
50054399 ATTTCAC-GCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGA
1 ACTTC-CTACCAATATAGGAAGACGA-ATTTGC-ATCTTCGATCTACTTC-ACGCCAATACATGA
* * * * *
50054463 AGACAAGATCT-ATATCTTGGATCC
62 AGATAAGATCTGCTTTCTTCGATCT
* * **
50054487 ACTTCCTACCAATAATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAA
1 ACTTCCTACCAAT-ATAGGAAGA-CGAATTTGC-ATCTTCGATCTACTTCACGCCAATACATGAA
*
50054552 GACAAGATCTGCTTTCTTCGATCT
63 GATAAGATCTGCTTTCTTCGATCT
* * *
50054576 ACTTCGCCACCAATATGGGAAGACGAATTTGCATCTTCGATCTATTTCACGCCAATACATGAAGA
1 ACTTC-CTACCAATATAGGAAGACGAATTTGCATCTTCGATCTACTTCACGCCAATACATGAAGA
50054641 TAAGATCTGCTTTCTTCGATCT
65 TAAGATCTGCTTTCTTCGATCT
*
50054663 ACTTCCTACCAATATAGGAAGACAGAATTTGCATCTTCGATCTATTTCACGCCAATACATGAAGA
1 ACTTCCTACCAATATAGGAAGAC-GAATTTGCATCTTCGATCTACTTCACGCCAATACATGAAGA
50054728 TAAGATCTGCTTTCTTCGATCT
65 TAAGATCTGCTTTCTTCGATCT
*
50054750 ACTTCCTACCAATATAGGAAGACAGAATTTGCATCTTCGATCTATTTCACGCCAATACATGAAGA
1 ACTTCCTACCAATATAGGAAGAC-GAATTTGCATCTTCGATCTACTTCACGCCAATACATGAAGA
50054815 TAAGATCTGCTTTCTTCGATCT
65 TAAGATCTGCTTTCTTCGATCT
*
50054837 ACTTCCTACCAATATAGGAAGACAGAATTTGCATCTTCGATCTATTTCACGCCAATACATGAAGA
1 ACTTCCTACCAATATAGGAAGAC-GAATTTGCATCTTCGATCTACTTCACGCCAATACATGAAGA
50054902 TAAGATCTGCTTTCTTCGATCT
65 TAAGATCTGCTTTCTTCGATCT
*
50054924 ACTTCCTACCAATATAGGAAGACAGAATTTGCATCTTCGATCTATTTCACGCCAATACATGAAGA
1 ACTTCCTACCAATATAGGAAGAC-GAATTTGCATCTTCGATCTACTTCACGCCAATACATGAAGA
50054989 TAAGATCTGCTTTCTTCGATCT
65 TAAGATCTGCTTTCTTCGATCT
*
50055011 ACTTCCTACCAATATAGGAAGACAGAATTTGCATCTTCGATCTATTTCACGCCAATACATGAAGA
1 ACTTCCTACCAATATAGGAAGAC-GAATTTGCATCTTCGATCTACTTCACGCCAATACATGAAGA
50055076 TAAGATCTGCTTTCTTCGATCT
65 TAAGATCTGCTTTCTTCGATCT
* * * * * * ** * * *
50055098 ACTTCGCCACCAGTATGGGAAGACAAGATCTGCATTTTCGATCCGCTTC-CTACCAATATAGGAA
1 ACTTC-CTACCAATATAGGAAGACGA-ATTTGCATCTTCGATCTACTTCAC-GCCAATACATGAA
* **
50055162 GATAGGATCTGCTACCTTCGATCT
63 GATAAGATCTGCTTTCTTCGATCT
* * * * * * * * * ***
50055186 ACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTGCAATCTACTTCGCCACCAATATGGGA
1 ACTTC-CTACCAATATAGGAAGACGA-ATTTGC-ATCTTCGATCTACTTC-ACGCCAATACATGA
* * * * *
50055251 AGACAAGATTTG-TATCTTTGATCC
62 AGATAAGATCTGCTTTCTTCGATCT
50055275 ACTTCCTACCAATATAGGAAGA
1 ACTTCCTACCAATATAGGAAGA
50055297 TAGGACCTAT
Statistics
Matches: 952, Mismatches: 97, Indels: 48
0.87 0.09 0.04
Matches are distributed among these distances:
86 16 0.02
87 557 0.59
88 255 0.27
89 96 0.10
90 27 0.03
91 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (86 bp):
ACTTCCTACCAATATAGGAAGACGAATTTGCATCTTCGATCTACTTCACGCCAATACATGAAGAT
AAGATCTGCTTTCTTCGATCT
Found at i:50069976 original size:6 final size:7
Alignment explanation
Indices: 50069954--50069978 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50069944 AGTCTCTTTA
50069954 TTTAATT
1 TTTAATT
50069961 TTTAATT
1 TTTAATT
50069968 TTTAATT
1 TTTAATT
50069975 TTTA
1 TTTA
50069979 TTATACCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTAATT
Found at i:50076791 original size:21 final size:21
Alignment explanation
Indices: 50076756--50076812 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
50076746 AAAATAGTGA
*
50076756 AAAATAATAAGAAAATAACAAC
1 AAAATAATAA-AAAACAACAAC
* *
50076778 AAAATAATAAAAAACAGCAAG
1 AAAATAATAAAAAACAACAAC
*
50076799 AAAATAGTAAAAAA
1 AAAATAATAAAAAA
50076813 AAAGTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 21 0.68
22 10 0.32
ACGTcount: A:0.74, C:0.07, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAATAATAAAAAACAACAAC
Found at i:50077401 original size:91 final size:91
Alignment explanation
Indices: 50077270--50077440 Score: 220
Period size: 91 Copynumber: 1.9 Consensus size: 91
50077260 GATATTTATC
* * * * *
50077270 TTTTATAAAAAGTTTAATGTGGTACTTATATTTTGGAAATGTTAAATATGGTA-TATGAGCTATC
1 TTTTATAAAAAGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACT-TGAACTATC
***
50077334 AATTTGTGTATTATTTGGTACATATAT
65 AACCAGTGTATTATTTGGTACATATAT
* *
50077361 TTTTATAAAATA-TCTAATGTGATACTTACATTTTGAAAATGTTCAATGTGGTACTTGAACTATC
1 TTTTATAAAA-AGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACTTGAACTATC
50077425 AACCAGTGTATTATTT
65 AACCAGTGTATTATTT
50077441 ATGGTATCTG
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
91 66 0.97
92 2 0.03
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (91 bp):
TTTTATAAAAAGTCTAATGTGATACTTACATTTTGAAAATGTTAAATATGGTACTTGAACTATCA
ACCAGTGTATTATTTGGTACATATAT
Found at i:50079996 original size:24 final size:23
Alignment explanation
Indices: 50079966--50080015 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
50079956 AGGTTGGCAA
*
50079966 TTTTTTTGCGCTTTTTGCTTTCTT
1 TTTTTTTGCGCTTTTTACTTT-TT
50079990 TTTTTTTGCGCTTTTTACTTTTT
1 TTTTTTTGCGCTTTTTACTTTTT
50080013 TTT
1 TTT
50080016 CTGTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.02, C:0.14, G:0.10, T:0.74
Consensus pattern (23 bp):
TTTTTTTGCGCTTTTTACTTTTT
Found at i:50080586 original size:31 final size:31
Alignment explanation
Indices: 50080548--50080609 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
50080538 AGGCAAATTA
*
50080548 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
50080579 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
1 CAAGAGTAAGTGAATCCTAATAAAACTCTTT
50080610 AAAATTATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (31 bp):
CAAGAGTAAGTGAATCCTAATAAAACTCTTT
Found at i:50081313 original size:186 final size:184
Alignment explanation
Indices: 50080995--50081333 Score: 484
Period size: 186 Copynumber: 1.8 Consensus size: 184
50080985 AACTAGAAGT
* * *
50080995 TGTGTTTTGAAGAAGAAAAATGGTGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGTAGCTG
1 TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAGCTG
* *
50081060 ATAGTAGGAAAAAAATAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
66 ACAGTAGGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
*
50081125 AGCATGATCATAATCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
131 AGCATGATCATAACCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
* * *
50081179 TGTGTGTTGAAGAAGAAAAATGATGTTTGGCAAGAGAGAAAGTGAGAGGAA-AAAATGGCAGTCT
1 TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAG-CT
* * * * *
50081243 -ACAGTGAGGGGGAAAAAACAATTATTTTAAGTTGAAAGTGTGGTGTGGGTTTACAAAAATTACA
65 GACAGT-A--GGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACA
* *
50081307 CAAAAGCATGATTATAACCATTGTAAT
127 CAAAAGCATGATCATAACCATGGTAAT
50081334 AGGCCCAATT
Statistics
Matches: 135, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
183 13 0.10
184 49 0.36
186 73 0.54
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (184 bp):
TGTGTGTTGAAGAAGAAAAATGATGTTTGACAAGAGAGAAAATGAGAGAAATAAAATGGCAGCTG
ACAGTAGGAAAAAAACAATGATTTTAAGTTGAAAATATGGTGTGAGTTTACAAAAATTACACAAA
AGCATGATCATAACCATGGTAATGAAAAATCTTGTAGATGAAATGAGCCAACCA
Found at i:50083004 original size:18 final size:20
Alignment explanation
Indices: 50082981--50083020 Score: 66
Period size: 18 Copynumber: 2.1 Consensus size: 20
50082971 CCCTTTTTAC
50082981 ATATATTA-TTATA-TAAAT
1 ATATATTATTTATATTAAAT
50082999 ATATATTATTTATATTAAAT
1 ATATATTATTTATATTAAAT
50083019 AT
1 AT
50083021 TTCATTTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATATTATTTATATTAAAT
Found at i:50084800 original size:11 final size:11
Alignment explanation
Indices: 50084779--50084815 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
50084769 TTTTTTAAAA
50084779 TTTTACAATATT
1 TTTTAC-ATATT
50084791 TTTTACATATT
1 TTTTACATATT
50084802 TTTTA-AT-TT
1 TTTTACATATT
50084811 TTTTA
1 TTTTA
50084816 ATTTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 7 0.28
10 2 0.08
11 10 0.40
12 6 0.24
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTACATATT
Found at i:50084819 original size:38 final size:40
Alignment explanation
Indices: 50084772--50084895 Score: 109
Period size: 39 Copynumber: 3.2 Consensus size: 40
50084762 ATATTTATTT
* * *
50084772 TTTAAAATTTTACAATATTTTTTACATA-TTTTTTAATTT
1 TTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAATTT
*
50084811 TTT-TAATTTTAAAATATTTTTAAAATACTTTTTTAA-TT
1 TTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAATTT
* * *
50084849 TTAAAATATTTTTAAAACACTTTTT-TAAT--TTTTTTAA-TT
1 TTTAAA-A-TTTTAAAATA-TTTTTAAAATACTTTTTTAATTT
50084888 TTTAAAAT
1 TTTAAAAT
50084896 AAAAATGGAC
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
37 1 0.01
38 25 0.35
39 27 0.38
40 1 0.01
41 12 0.17
42 5 0.07
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAATTT
Found at i:50084831 original size:11 final size:11
Alignment explanation
Indices: 50084817--50084865 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
50084807 ATTTTTTTAA
50084817 TTTTAAAATAT
1 TTTTAAAATAT
50084828 TTTTAAAATACT
1 TTTTAAAATA-T
*
50084840 TTTT----TAA
1 TTTTAAAATAT
50084847 TTTTAAAATAT
1 TTTTAAAATAT
50084858 TTTTAAAA
1 TTTTAAAA
50084866 CACTTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
11 20 0.65
12 5 0.16
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50084894 original size:29 final size:30
Alignment explanation
Indices: 50084809--50084880 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
50084799 ATTTTTTAAT
*
50084809 TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAATTTTAAAATATTTTTAAAACAC
50084839 TTTTTTAATTTTAAAATATTTTTAAAACAC
1 TTTTTTAATTTTAAAATATTTTTAAAACAC
50084869 TTTTTTAATTTT
1 TTTTTTAATTTT
50084881 TTTAATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTTAATTTTAAAATATTTTTAAAACAC
Found at i:50090704 original size:39 final size:39
Alignment explanation
Indices: 50090650--50090726 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
50090640 AGAGCTGGAT
*
50090650 GAATTTGAACCAGACAAACTTGACCCAGCCTGTTCACAA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
*
50090689 GAATTTGAACCAGACAAATTTGACCCAGCCTGGTCACA
1 GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACA
50090727 TGACACCTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.21
Consensus pattern (39 bp):
GAATTTGAACCAGACAAACTTGACCCAGCCTGGTCACAA
Found at i:50094780 original size:40 final size:40
Alignment explanation
Indices: 50094689--50094911 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
50094679 TCCTCGTTCA
* * * * *
50094689 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
50094728 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
50094768 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
50094808 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
50094848 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
50094888 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50094912 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 25, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
39 35 0.23
40 112 0.72
41 8 0.05
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:50094920 original size:41 final size:41
Alignment explanation
Indices: 50094843--50094920 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
50094833 TTAGTATCTC
* * *
50094843 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
50094884 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
50094921 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:50098661 original size:21 final size:21
Alignment explanation
Indices: 50098622--50098666 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50098612 TAGACCTTGG
* *
50098622 ACCTTAAACCCTGAGCCCTGA
1 ACCTTAAACCCTGAACCCTAA
**
50098643 ACCTTAAACTTTGAACCCTAA
1 ACCTTAAACCCTGAACCCTAA
50098664 ACC
1 ACC
50098667 CTGAAACACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.36, G:0.09, T:0.22
Consensus pattern (21 bp):
ACCTTAAACCCTGAACCCTAA
Found at i:50098785 original size:28 final size:28
Alignment explanation
Indices: 50098754--50098808 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
50098744 TAGGGTTTAA
50098754 GGTCCAAGATACAAGGTTTAAGGTCCAT
1 GGTCCAAGATACAAGGTTTAAGGTCCAT
* * *
50098782 GGTCCATGGTCCAAGGTTTAAGGTCCA
1 GGTCCAAGATACAAGGTTTAAGGTCCA
50098809 AGGTTCATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (28 bp):
GGTCCAAGATACAAGGTTTAAGGTCCAT
Found at i:50098806 original size:14 final size:14
Alignment explanation
Indices: 50098765--50098813 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
50098755 GTCCAAGATA
50098765 CAAGGTTTAAGGTC
1 CAAGGTTTAAGGTC
* ** *
50098779 CATGGTCCATGGTC
1 CAAGGTTTAAGGTC
50098793 CAAGGTTTAAGGTC
1 CAAGGTTTAAGGTC
50098807 CAAGGTT
1 CAAGGTT
50098814 CATGTTAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (14 bp):
CAAGGTTTAAGGTC
Found at i:50098811 original size:7 final size:7
Alignment explanation
Indices: 50098752--50098812 Score: 50
Period size: 7 Copynumber: 8.7 Consensus size: 7
50098742 TTTAGGGTTT
50098752 AAGGTCC
1 AAGGTCC
* *
50098759 AAGATAC
1 AAGGTCC
**
50098766 AAGGTTT
1 AAGGTCC
50098773 AAGGTCC
1 AAGGTCC
*
50098780 ATGGTCC
1 AAGGTCC
*
50098787 ATGGTCC
1 AAGGTCC
**
50098794 AAGGTTT
1 AAGGTCC
50098801 AAGGTCC
1 AAGGTCC
50098808 AAGGT
1 AAGGT
50098813 TCATGTTAAA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.25
Consensus pattern (7 bp):
AAGGTCC
Found at i:50106499 original size:35 final size:33
Alignment explanation
Indices: 50106455--50106628 Score: 199
Period size: 32 Copynumber: 5.2 Consensus size: 33
50106445 TCACTTGTCT
* * *
50106455 TTTCCTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* * *
50106489 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
50106522 TTTCTTGTAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
* *
50106556 TTTTGTTGCAGGGAATCTCTCCTGTTCA-CATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
*
50106589 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA-GCATTA
50106623 TTTCTT
1 TTTCTT
50106629 TTTGGACCTG
Statistics
Matches: 120, Mismatches: 14, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
32 48 0.40
33 10 0.08
34 15 0.12
35 47 0.39
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (33 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCAGCATTA
Found at i:50106571 original size:67 final size:67
Alignment explanation
Indices: 50106455--50106625 Score: 270
Period size: 67 Copynumber: 2.6 Consensus size: 67
50106445 TCACTTGTCT
* * * * *
50106455 TTTCCTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
50106520 CA
66 CA
*
50106522 TTTCTTGTAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
50106587 CA
66 CA
* *
50106589 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
50106626 CTTTTTGGAC
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 95 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.42
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:50106927 original size:13 final size:13
Alignment explanation
Indices: 50106909--50106933 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50106899 TATTTTAATA
50106909 TTATTTTGTGTGT
1 TTATTTTGTGTGT
50106922 TTATTTTGTGTG
1 TTATTTTGTGTG
50106934 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:50108779 original size:41 final size:41
Alignment explanation
Indices: 50108722--50108828 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
50108712 CAGTGACATA
* *
50108722 ATTCAGACTTTACGTCTAGTAGGCTTAATGCCGGTGAAATT
1 ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATT
50108763 ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGATACA-T
1 ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGA-A-ATT
* *
50108805 -TTCGGACTATAAGTCTAGCAGGCT
1 ATTCAGACTATACGTCTAGCAGGCT
50108829 CAAGAGCTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 57 0.95
42 2 0.03
43 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (41 bp):
ATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATT
Done.