Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 107 of 161
Found at i:33941007 original size:43 final size:43
Alignment explanation
Indices: 33940722--33941009 Score: 384
Period size: 43 Copynumber: 6.7 Consensus size: 43
33940712 AAAAAACACT
* * * *
33940722 GCTAAAGACCAAGACCTTTAGCGGC-ATTTTCCCCACAAATGCA
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTT-ACCACAAACGCC
* *
33940765 GCTAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
*
33940808 GCTAAAGACCATGACCTTTAGCGGCGCATTTTA-CACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGC-TTTTACCACAAACGCC
* * * * *
33940851 GCTAAAGACCATGATCTTTAGCAGCGC-TTTCCTCACAAACGCT
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTAC-CACAAACGCC
* *
33940894 GCTAAAGACCAAGACCTTTAGCGGCGTTTTTACCACAAATGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
33940937 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
* *
33940980 GCTAAAGAACAAGACCTTTAGCAGCGCTTT
1 GCTAAAGACCAAGACCTTTAGCGGCGCTTT
33941010 CTCCAAAAAT
Statistics
Matches: 219, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
41 3 0.01
43 204 0.93
44 12 0.05
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCC
Found at i:33941970 original size:23 final size:23
Alignment explanation
Indices: 33941937--33942666 Score: 468
Period size: 23 Copynumber: 32.0 Consensus size: 23
33941927 TGGAAAGTAA
*
33941937 CACTTTAACACTTCAATTTACAG
1 CACTTAAACACTTCAATTTACAG
* *
33941960 CATTTAAACACTTCAATTTGCAG
1 CACTTAAACACTTCAATTTACAG
* * *
33941983 CACTTTAACA-TATCAATTAACAA
1 CACTTAAACACT-TCAATTTACAG
* * *
33942006 CATTTATACACATCAA-TTACAG
1 CACTTAAACACTTCAATTTACAG
* **
33942028 CGA-TAAAACA-TCTCAATTTGTAG
1 C-ACTTAAACACT-TCAATTTACAG
*
33942051 CACTTAAACACTTCAATTTGCAG
1 CACTTAAACACTTCAATTTACAG
33942074 CACTTAAACACTTCAATTTACAG
1 CACTTAAACACTTCAATTTACAG
* * *
33942097 CACTTAAACACTTAAATTTGCAA
1 CACTTAAACACTTCAATTTACAG
* *
33942120 CACTTAAACA-TATCAATTAACAA
1 CACTTAAACACT-TCAATTTACAG
* * *
33942143 CATTTATACACCTCAA-TTACAG
1 CACTTAAACACTTCAATTTACAG
* *
33942165 C-CATAAA-ACATCTCAATTTTCAG
1 CACTTAAACAC-T-TCAATTTACAG
* * *
33942188 CAAC-TAAATACTTTAATTTGCAG
1 C-ACTTAAACACTTCAATTTACAG
*
33942211 CACTTAAACACTTCAATTTATAG
1 CACTTAAACACTTCAATTTACAG
* * * *
33942234 CATTTAAAAACTTAAATTTGCAG
1 CACTTAAACACTTCAATTTACAG
* * * *
33942257 CAGTTCAACA-TATCAATTAACAA
1 CACTTAAACACT-TCAATTTACAG
* * *
33942280 CATTTATACACCTCAA-TTACAG
1 CACTTAAACACTTCAATTTACAG
* *
33942302 CTA-TAAAACA-TCTCAATTTTCAG
1 C-ACTTAAACACT-TCAATTTACAG
*
33942325 CAAC-TAAACACTTCAATTTGCAG
1 C-ACTTAAACACTTCAATTTACAG
33942348 CACTTAAACACTTCAATTTACAG
1 CACTTAAACACTTCAATTTACAG
* * *
33942371 CATTTAAAAACTT-AATTTTGCAG
1 CACTTAAACACTTCAA-TTTACAG
* *
33942394 CACTTAAACA-TATCAATTAACAA
1 CACTTAAACACT-TCAATTTACAG
* * *
33942417 CATTTATACACCTCAA-TTACAG
1 CACTTAAACACTTCAATTTACAG
*
33942439 CGA--TAAAGCA-TCTCAATTTCCAG
1 C-ACTTAAA-CACT-TCAATTTACAG
*
33942462 CAAC-TAAACACTTCAATTTGCAG
1 C-ACTTAAACACTTCAATTTACAG
* *
33942485 TACTTAAACACTTCAATTTGCAG
1 CACTTAAACACTTCAATTTACAG
* **
33942508 CACTTAAACACTTAAATTTGTAG
1 CACTTAAACACTTCAATTTACAG
* *
33942531 CACTTAAACA-TATCAATTAACAA
1 CACTTAAACACT-TCAATTTACAG
* * * *
33942554 CATTTATACACCTCAA-TTACAA
1 CACTTAAACACTTCAATTTACAG
* *
33942576 CGA-TAAAACA-TCTCAATTTCCAG
1 C-ACTTAAACACT-TCAATTTACAG
*
33942599 CAAC-TAAATACTTCAATTTACAG
1 C-ACTTAAACACTTCAATTTACAG
* *
33942622 CACTTAAACACTTAAATTTACAA
1 CACTTAAACACTTCAATTTACAG
* *
33942645 CACTGAAACACTTAAATTTACA
1 CACTTAAACACTTCAATTTACA
33942667 AATCCACCAT
Statistics
Matches: 550, Mismatches: 114, Indels: 86
0.73 0.15 0.11
Matches are distributed among these distances:
20 2 0.00
21 6 0.01
22 79 0.14
23 445 0.81
24 15 0.03
25 3 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (23 bp):
CACTTAAACACTTCAATTTACAG
Found at i:33942174 original size:114 final size:114
Alignment explanation
Indices: 33941943--33942230 Score: 300
Period size: 114 Copynumber: 2.5 Consensus size: 114
33941933 GTAACACTTT
* * *
33941943 AACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACA-TATCAATTAACAAC
1 AACACTTCAATTTACAGCACTTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTTACAAC
* * * * ** *
33942007 ATTTATACACATCAATTACAGCGATAAAACATCTCAATTTGTAGCACTTA
65 ACTTAAACACATCAATTACAACGATAAAACACCTCAATTTACAGCACTAA
* * * *
33942057 AACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAACA
1 AACACTTCAATTTACAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACA
* * *
33942122 CTTAAACATATCAATTAACAAC-ATTTATACACCTCAA-TTACAGC-CATAA
66 CTTAAACACATCAATT-ACAACGA-TAAAACACCTCAATTTACAGCAC-TAA
* * *
33942171 AACA-TCTCAATTTTCAGCAAC-TAAATACTTTAATTTGCAGCACTTAAACACTTCAATTTA
1 AACACT-TCAATTTACAGC-ACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTA
33942231 TAGCATTTAA
Statistics
Matches: 145, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
113 2 0.01
114 126 0.87
115 17 0.12
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (114 bp):
AACACTTCAATTTACAGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAACA
CTTAAACACATCAATTACAACGATAAAACACCTCAATTTACAGCACTAA
Found at i:33942183 original size:137 final size:136
Alignment explanation
Indices: 33941937--33942663 Score: 1123
Period size: 137 Copynumber: 5.3 Consensus size: 136
33941927 TGGAAAGTAA
* * * *
33941937 CACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTA
*
33942002 ACAACATTTATACACATCAATTACAGCGATAAAACATCTCAATTTGTAGC-ACTTAAACACTTCA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTT-TAGCAAC-TAAACACTTCA
33942066 ATTTGCAG
129 ATTTGCAG
*
33942074 CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAACACTTAAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTA
* * *
33942139 ACAACATTTATACACCTCAATTACAGCCATAAAACATCTCAATTTTCAGCAACTAAATACTTTAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTT-AGCAACTAAACACTTCAA
33942204 TTTGCAG
130 TTTGCAG
* * * * *
33942211 CACTTAAACACTTCAATTTATAGCATTTAAAAACTTAAATTTGCAGCAGTTCAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTA
*
33942276 ACAACATTTATACACCTCAATTACAGCTATAAAACATCTCAATTTTCAGCAACTAAACACTTCAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTT-AGCAACTAAACACTTCAA
33942341 TTTGCAG
130 TTTGCAG
* * *
33942348 CACTTAAACACTTCAATTTACAGCATTTAAAAACTTAATTTTGCAGCACTTAAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTA
* *
33942413 ACAACATTTATACACCTCAATTACAGCGATAAAGCATCTCAATTTCCAGCAACTAAACACTTCAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTT-TAGCAACTAAACACTTCAA
33942478 TTTGCAG
130 TTTGCAG
* * *
33942485 TACTTAAACACTTCAATTTGCAGCACTTAAACACTTAAATTTGTAGCACTTAAACATATCAATTA
1 CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTA
* * *
33942550 ACAACATTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAA
66 ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTT-TAGCAACTAAACACTTCAA
*
33942615 TTTACAG
130 TTTGCAG
* * *
33942622 CACTTAAACACTTAAATTTACAACACTGAAACACTTAAATTT
1 CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTT
33942664 ACAAATCCAC
Statistics
Matches: 547, Mismatches: 40, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
136 1 0.00
137 544 0.99
138 2 0.00
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.31
Consensus pattern (136 bp):
CACTTAAACACTTCAATTTACAGCACTTAAACACTTAAATTTGCAGCACTTAAACATATCAATTA
ACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTTAGCAACTAAACACTTCAAT
TTGCAG
Found at i:33950686 original size:123 final size:123
Alignment explanation
Indices: 33950453--33950755 Score: 380
Period size: 123 Copynumber: 2.5 Consensus size: 123
33950443 CGTTTTTTAT
* ** *
33950453 AAAAAAGCCGCTAAAGA-CACGAGCATTAGCGGCGCCATTTCAAAAACGCCGCTAAAGACTTGAG
1 AAAAACGCCGCTAAAGACCA-GAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACTTGAA
* ** * *
33950517 CATTAGCAGCGCTTTTTCAAAATCGTAGCTAAAGACCTGAGAATTAG-TG-GCACTTTTTC
65 CATTAGCAGCGCTTTTTCAAAAACACAGCGAAAGACCAGAGAATTAGCTGTG-A-TTTTTC
* *
33950576 AGAAACGCCGCTAAAGACCAGAGCATTAGCGGCTCTTTTTCAAAAACGCCGCTAAAGACTTGAAC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACTTGAAC
* * * *
33950641 ATTAGCGGCGCTTTTTTAAAAACACCGCGAAAGACCAGAGCATTAGCTGTGATTTTTC
66 ATTAGCAGCGCTTTTTCAAAAACACAGCGAAAGACCAGAGAATTAGCTGTGATTTTTC
* * *
33950699 AAAAACACTG-TGAAAGACCCGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG
1 AAAAACGCCGCT-AAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG
33950756 CCCCGAAAGG
Statistics
Matches: 156, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
122 1 0.01
123 149 0.96
124 5 0.03
125 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.22
Consensus pattern (123 bp):
AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACTTGAAC
ATTAGCAGCGCTTTTTCAAAAACACAGCGAAAGACCAGAGAATTAGCTGTGATTTTTC
Found at i:33950761 original size:41 final size:41
Alignment explanation
Indices: 33950453--33950761 Score: 332
Period size: 41 Copynumber: 7.5 Consensus size: 41
33950443 CGTTTTTTAT
* * **
33950453 AAAAAAGCCGCTAAAGACACGAGCATTAGCGGCGCCATTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTC
** *
33950494 AAAAACGCCGCTAAAGACTTGAGCATTAGCAGCGCTTTTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTC
* ** * * * *
33950535 AAAATCGTAGCTAAAGACCTGAGAATTAGTGGCACTTTTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTC
* * *
33950576 AGAAACGCCGCTAAAGACCAGAGCATTAGCGGCTCTTTTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTC
** * *
33950617 AAAAACGCCGCTAAAGACTTGAACATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTC
* * * * * *
33950658 AAAAACACCGCGAAAGACCAGAGCATTAGCTGTGATTTTTC
1 AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTC
* *
33950699 AAAAACACTG-TGAAAGACCCGAGCATTAGCGGCGCTTTTTC
1 AAAAACGCCGCT-AAAGACCCGAGCATTAGCGGCGCTTTTTC
*
33950740 AAAAACGCCGCTAAAGCCCCGA
1 AAAAACGCCGCTAAAGACCCGA
33950762 AAGGTCAAAA
Statistics
Matches: 220, Mismatches: 46, Indels: 4
0.81 0.17 0.01
Matches are distributed among these distances:
41 219 1.00
42 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTTTTC
Found at i:33960811 original size:42 final size:42
Alignment explanation
Indices: 33960741--33960837 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
33960731 ACGAACTGGC
** *
33960741 ACACGGGCGTGTGAGGCCATTTTGAAGGTTATACGGCCTAGA
1 ACACGGGCGTGTGAGGCCATTTCAAAGGTTACACGGCCTAGA
* ** * *
33960783 ACATGGGCGTGTGAGGCTGTTTCAAAGGTTACACGGCCTGGC
1 ACACGGGCGTGTGAGGCCATTTCAAAGGTTACACGGCCTAGA
33960825 ACACGGGCGTGTG
1 ACACGGGCGTGTG
33960838 GCTTGCCCAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.23
Consensus pattern (42 bp):
ACACGGGCGTGTGAGGCCATTTCAAAGGTTACACGGCCTAGA
Found at i:33966849 original size:15 final size:15
Alignment explanation
Indices: 33966829--33966863 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
33966819 ACTCTGATAG
33966829 GTCATTCAAAGTTA-A
1 GTCATTCAAA-TTATA
33966844 GTCATTCAAATTATA
1 GTCATTCAAATTATA
33966859 GTCAT
1 GTCAT
33966864 ACAATCATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (15 bp):
GTCATTCAAATTATA
Found at i:33970080 original size:40 final size:40
Alignment explanation
Indices: 33970021--33970171 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 40
33970011 ATAACCACAA
* * * *
33970021 GCACAATTGCCTTCAGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
*
33970061 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
* *
33970101 GCACAAATGCCTTCAGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCAGGTCTTAGCCCGGAT-ATATCAACTC
* * *
33970141 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCACAAATGCCTTCAGGTCTTAGCCCGGATA
33970172 AAATTCAAAT
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.95
41 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCAGGTCTTAGCCCGGATATATCAACTC
Found at i:33983524 original size:34 final size:35
Alignment explanation
Indices: 33983473--33983541 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 35
33983463 CCACAAATCA
* *
33983473 TCATATCAGTCACAGTTAAGTCATTCAAATCATAG
1 TCATATCAGTCACAGTTAAATCAGTCAAATCATAG
*
33983508 TCATA-CAGTCATAGTTAAATCAGTCAAATCATAG
1 TCATATCAGTCACAGTTAAATCAGTCAAATCATAG
33983542 CACAAGTCAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (35 bp):
TCATATCAGTCACAGTTAAATCAGTCAAATCATAG
Found at i:33983682 original size:27 final size:26
Alignment explanation
Indices: 33983621--33983749 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 26
33983611 ACCTTACAGA
*
33983621 GGTATTTTGGTAATTTTTCAAATCAG
1 GGTATTTCGGTAATTTTTCAAATCAG
**
33983647 GG-ATATTCGGTAATTTTTCAAACTGGG
1 GGTAT-TTCGGTAATTTTTCAAA-TCAG
* ** *
33983674 GGTATTTCGATAATTTCACAAATTAG
1 GGTATTTCGGTAATTTTTCAAATCAG
* * * **
33983700 AAGTATTTTGATAATTTCACAAATCGAG
1 -GGTATTTCGGTAATTTTTCAAATC-AG
*
33983728 GGTATTTCGGTAATTTTACAAA
1 GGTATTTCGGTAATTTTTCAAA
33983750 CAAAGGCTGT
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
25 2 0.02
26 20 0.24
27 57 0.69
28 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (26 bp):
GGTATTTCGGTAATTTTTCAAATCAG
Found at i:34007042 original size:40 final size:40
Alignment explanation
Indices: 34006985--34007067 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
34006975 TCAGTGACGA
* *
34006985 ATGACTATTCCAGCTCCAAGAATTTGAAGAGTTCAGATTT
1 ATGACTATTACAACTCCAAGAATTTGAAGAGTTCAGATTT
34007025 ATGACTATTACAACTCCAAGAATTTGAAGAGTTCAGATTT
1 ATGACTATTACAACTCCAAGAATTTGAAGAGTTCAGATTT
34007065 ATG
1 ATG
34007068 GCATAGGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (40 bp):
ATGACTATTACAACTCCAAGAATTTGAAGAGTTCAGATTT
Found at i:34008301 original size:51 final size:51
Alignment explanation
Indices: 34008225--34008326 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
34008215 CTAGGGTAGT
34008225 GACTAGTTGGTTGATGAGGAACCCGAGGCGATAGTTAAGTGGGATTGCCAA
1 GACTAGTTGGTTGATGAGGAACCCGAGGCGATAGTTAAGTGGGATTGCCAA
34008276 GACTAGTTGGTTGATGAGGAACCCGAGGCGATAGTTAAGTGGGATTGCCAA
1 GACTAGTTGGTTGATGAGGAACCCGAGGCGATAGTTAAGTGGGATTGCCAA
34008327 AGCGAGCTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (51 bp):
GACTAGTTGGTTGATGAGGAACCCGAGGCGATAGTTAAGTGGGATTGCCAA
Found at i:34012875 original size:66 final size:66
Alignment explanation
Indices: 34012803--34012926 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
34012793 TATTAGACAG
* * * *
34012803 CTGTCAACTGCAGCGACAA-TTCTGGATGCAATCTGGAATTAACTCATGCAGCGACATTGCGGAT
1 CTGTCAACTGCAGCGACAATTTC-AGACGCAATCTGGAATGAACTCATGCAACGACATTGCGGAT
34012867 AT
65 AT
* * *
34012869 CTGTCAACTGCGGTGATAATTTCAGACGCAATCTGGAATGAACTCATGCAACGACATT
1 CTGTCAACTGCAGCGACAATTTCAGACGCAATCTGGAATGAACTCATGCAACGACATT
34012927 AGTGCAGAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
66 47 0.94
67 3 0.06
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.26
Consensus pattern (66 bp):
CTGTCAACTGCAGCGACAATTTCAGACGCAATCTGGAATGAACTCATGCAACGACATTGCGGATA
T
Found at i:34030220 original size:84 final size:84
Alignment explanation
Indices: 34030112--34030349 Score: 406
Period size: 84 Copynumber: 2.8 Consensus size: 84
34030102 CATTGATCAA
* * *
34030112 AAAGGGGTTGTTATGTGCTGATTCCCTGTATCATTAATTATAAGGTGGTTGTTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCTGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
34030177 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
*
34030196 AAAGGGGTTGCTATGTGCTAATT-CCTCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCT-GTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATT
34030260 CCACCGTATCCTTGATTGTG
65 CCACCGTATCCTTGATTGTG
* *
34030280 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGAGTC
1 AAAGGGGTTGCTATGTGCTGATTCCCTGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
34030345 CACCG
66 CACCG
34030350 GGATCCTTTG
Statistics
Matches: 145, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
83 3 0.02
84 140 0.97
85 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.36
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCTGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTC
CACCGTATCCTTGATTGTG
Found at i:34030255 original size:41 final size:40
Alignment explanation
Indices: 34030075--34030389 Score: 270
Period size: 41 Copynumber: 7.5 Consensus size: 40
34030065 TGACTGTAAA
* * * * * * *
34030075 GGGTTGCTAGGTGCAGATTCTCTGAATCATTGATCAAAAAG
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TATAAG
* * * *
34030116 GGGTTGTTATGTGCTGATTCCCTGTATCATTAATTATAAG
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAG
* * *
34030156 GTGGTTGTTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAG
1 G-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT--AAG
* * *
34030200 GGGTTGCTATGTGCTAATTCCTCGTATCATTGATTATAAG
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAG
* *
34030240 GTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAG
1 G-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGATTAT--AAG
*
34030284 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAG
1 GGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAG
* * * ** *
34030324 GTGGTTGCTAAGTGCTGAGTCCACCGGGATCCTTTGAACATGAG
1 G-GGTTGCTAAGTGCTGATTCC-CC-GTAT-CATTGATTATAAG
34030368 GTGGTTGCTAAGTGCTGATTCC
1 G-GGTTGCTAAGTGCTGATTCC
34030390 ATCGTGTAAC
Statistics
Matches: 227, Mismatches: 35, Indels: 21
0.80 0.12 0.07
Matches are distributed among these distances:
40 13 0.06
41 83 0.37
42 54 0.24
43 39 0.17
44 38 0.17
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (40 bp):
GGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTATAAG
Found at i:34033946 original size:15 final size:16
Alignment explanation
Indices: 34033916--34033947 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34033906 ACTTTAGGGG
34033916 CAAAAATGTAATTTTT
1 CAAAAATGTAATTTTT
*
34033932 CAAAAATGTGATTTTT
1 CAAAAATGTAATTTTT
34033948 GGATTGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
CAAAAATGTAATTTTT
Found at i:34051917 original size:20 final size:19
Alignment explanation
Indices: 34051893--34051940 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
34051883 CAAACAAAGA
*
34051893 AAAATTAAAACCAAATAAAT
1 AAAATTAAAAACAAA-AAAT
* *
34051913 GAAATGACAAAACAAAAAAT
1 AAAATTA-AAAACAAAAAAT
34051933 AAAATTAA
1 AAAATTAA
34051941 GCATTGTGTA
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 1 0.05
20 14 0.64
21 7 0.32
ACGTcount: A:0.71, C:0.08, G:0.04, T:0.17
Consensus pattern (19 bp):
AAAATTAAAAACAAAAAAT
Found at i:34062881 original size:20 final size:20
Alignment explanation
Indices: 34062844--34062899 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
34062834 TAATTTAGCA
* *
34062844 ATTTTTATTTTTATTTTAAT
1 ATTTTTATTTTCAATTTAAT
*
34062864 ATTTTTGTTTTCAATTT-AT
1 ATTTTTATTTTCAATTTAAT
*
34062883 -TTTTTATGTTCTAATTT
1 ATTTTTATTTTC-AATTT
34062900 TTTCGTTTGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 9 0.30
19 7 0.23
20 14 0.47
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (20 bp):
ATTTTTATTTTCAATTTAAT
Found at i:34065714 original size:27 final size:27
Alignment explanation
Indices: 34065340--34065752 Score: 412
Period size: 27 Copynumber: 15.3 Consensus size: 27
34065330 GGGGTATAAT
* *
34065340 AGTCATTTTAACC-TTCAGGGGTATTTC
1 AGTCATTTTACCCTTTGA-GGGTATTTC
34065367 AGTCATTTTACCCTTT-AGGGGTACTTT-
1 AGTCATTTTACCCTTTGA-GGGTA-TTTC
* *
34065394 AGTTATTTTACCCTTTGGGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* *
34065421 GGTCATTTTACCCTTTAAGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* *
34065448 AGTCATTTTACCCTTTAAGCGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* *
34065475 AGTCATTTTACCCTTTAAGCGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* *
34065502 AGTCATTTTACCCTTCGAGGTTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
*
34065529 -GATCATTTTACCCTTCG-GGCGTATTTC
1 AG-TCATTTTACCCTTTGAGG-GTATTTC
*
34065556 AGTCATTTTACCCTTTGAAGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* *
34065583 -GATCATTTTACCC-TTCAGCGGTATTTT
1 AG-TCATTTTACCCTTTGAG-GGTATTTC
* *
34065610 GGTCATTTTACCCTTCGAGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* * * *
34065637 GGTCATTTTATCCTTCGGGGGTATTTC
1 AGTCATTTTACCCTTTGAGGGTATTTC
* *
34065664 -GATCATTTTACCCTTCGAGTGTATTTC
1 AG-TCATTTTACCCTTTGAGGGTATTTC
* *
34065691 AATCATTTTACCCTTTGAGGGTATTTT
1 AGTCATTTTACCCTTTGAGGGTATTTC
* * *
34065718 GGTTATTTT-TCCTTTCGAGGGTATTTC
1 AGTCATTTTACCCTTT-GAGGGTATTTC
*
34065745 GGTCATTT
1 AGTCATTT
34065753 AATGGGCCTA
Statistics
Matches: 334, Mismatches: 37, Indels: 30
0.83 0.09 0.07
Matches are distributed among these distances:
26 16 0.05
27 307 0.92
28 11 0.03
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.45
Consensus pattern (27 bp):
AGTCATTTTACCCTTTGAGGGTATTTC
Found at i:34072887 original size:26 final size:26
Alignment explanation
Indices: 34072848--34072923 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
34072838 CACCAAAATC
* *
34072848 GCAGCAAAGTTGCCAGTAATAGTGAT
1 GCAGCAAAGCTGCCAGTAATAGTAAT
*
34072874 GCAGCGAAGCTGCCAGTAATAGTAAT
1 GCAGCAAAGCTGCCAGTAATAGTAAT
* * *
34072900 GCTGCAAAGCTGCTAGTAACAGTA
1 GCAGCAAAGCTGCCAGTAATAGTA
34072924 TATGTGGCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.21
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAATAGTAAT
Found at i:34073164 original size:26 final size:26
Alignment explanation
Indices: 34073096--34073564 Score: 361
Period size: 27 Copynumber: 17.4 Consensus size: 26
34073086 AGGGGTATAA
* *
34073096 CAGTCATTTTACCCTTCAAAGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
** * *
34073123 TGGTCATTTTACCCTTGAGGTTATGT
1 CAGTCATTTTACCCTTGAGGGTATTT
* *
34073149 CAGTCATTTTAACCTTTAGGGGTATTT
1 CAGTCATTTTACCCTTGA-GGGTATTT
34073176 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
* *
34073203 CGGTCATTTTACCCTTGGGGGCTATTT
1 CAGTCATTTTACCCTTGAGGG-TATTT
* * *
34073230 CGGTCATTTTACCCTTCAAAGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
** * **
34073257 TGGTCATTTTACCTTTTGAGCATATTT
1 CAGTCATTTTACC-CTTGAGGGTATTT
* *
34073284 TAGTTATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
* * *
34073311 CAATCATTTTA-CTTGTCGGGGGTATTT
1 CAGTCATTTTACCCT-T-GAGGGTATTT
34073338 C-GATCATTTTACCCTTCGAGGGTATTT
1 CAG-TCATTTTACCCTT-GAGGGTATTT
* * *
34073365 CAATTATTTTACCCTTTGGGGGTATTT
1 CAGTCATTTTACCC-TTGAGGGTATTT
* *
34073392 CAGTTATTTTACCCTTCGAGGGCATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
** *
34073419 TGGTCATTTTACCCTTTGAGGTTATTT
1 CAGTCATTTTACCC-TTGAGGGTATTT
* *
34073446 CAATCATTTTACCCTTCAAGGGTATTT
1 CAGTCATTTTACCCTT-GAGGGTATTT
* *
34073473 C-GATCATTTTACCCTTCGAAGGAATTT
1 CAG-TCATTTTACCCTT-GAGGGTATTT
* *
34073500 -TGATCATTTTACCCTTCGAGGATATTT
1 CAG-TCATTTTACCCTT-GAGGGTATTT
** *
34073527 TGGTCGTTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCC-TTGAGGGTATTT
*
34073554 CAATCATTTTA
1 CAGTCATTTTA
34073565 GGCCCATTAC
Statistics
Matches: 356, Mismatches: 68, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
26 32 0.09
27 310 0.87
28 14 0.04
ACGTcount: A:0.20, C:0.19, G:0.18, T:0.44
Consensus pattern (26 bp):
CAGTCATTTTACCCTTGAGGGTATTT
Found at i:34073229 original size:54 final size:53
Alignment explanation
Indices: 34073098--34073564 Score: 411
Period size: 54 Copynumber: 8.7 Consensus size: 53
34073088 GGGTATAACA
*** ** * * *
34073098 GTCATTTTACCCTTCAAAGGTATTTTGGTCATTTTACCCTT-GAGGTTATGTCA
1 GTCATTTTACCCTT-GGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
* *
34073151 GTCATTTTAACCTTTAGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
1 GTCATTTT-ACCCTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
* * * *
34073205 GTCATTTTACCCTTGGGGGCTATTTCGGTCATTTTACCCTTCAAAGGTATTTTG
1 GTCATTTTACCCTTGGGGG-TATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
* * ** * * *
34073259 GTCATTTTACCTTTTGAGCATATTTTAGTTATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACC-CTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
* * *
34073313 ATCATTTTA-CTTGTCGGGGGTATTTC-GATCATTTTACCCTTCGAGGGTATTTCA
1 GTCATTTTACCCT-T-GGGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCG
* * * * *
34073367 ATTATTTTACCCTTTGGGGGTATTTCAGTTATTTTACCCTTCGAGGGCATTTTG
1 GTCATTTTACCC-TTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
* * * *
34073421 GTCATTTTACCCTTTGAGGTTATTTCAATCATTTTACCCTTCAAGGGTATTTCG
1 GTCATTTTACCC-TTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
* ** * * * *
34073475 ATCATTTTACCCTTCGAAGGAATTT-TGATCATTTTACCCTTCGAGGATATTTTG
1 GTCATTTTACCCTT-GGGGGTATTTCAG-TCATTTTACCCTTCGAGGGTATTTCG
* * *
34073529 GTCGTTTTACCCTTTGAGGGTATTTCAATCATTTTA
1 GTCATTTTACCC-TTGGGGGTATTTCAGTCATTTTA
34073565 GGCCCATTAC
Statistics
Matches: 339, Mismatches: 61, Indels: 27
0.79 0.14 0.06
Matches are distributed among these distances:
52 2 0.01
53 44 0.13
54 283 0.83
55 9 0.03
56 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (53 bp):
GTCATTTTACCCTTGGGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTCG
Found at i:34073283 original size:81 final size:80
Alignment explanation
Indices: 34073098--34073564 Score: 445
Period size: 81 Copynumber: 5.8 Consensus size: 80
34073088 GGGTATAACA
* ** * * * *
34073098 GTCATTTTACCCTTCAAAGG-TATTTTGGTCATTTTACCCTTGAGGTTATGTCAGTCATTTTAAC
1 GTCATTTTACCCTTC-GAGGATATTTCAGTCATTTTACCCTTGAGGGTATTTCAATCATTTTACC
* **
34073162 CTT-TAGGGGTATTTCA
65 CTTCGA-GGGTATTTTG
* * * **
34073178 GTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTGGGGGCTATTTCGGTCATTTTACC
1 GTCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCCTTGAGGG-TATTTCAATCATTTTACC
* *
34073243 CTTCAAAGGTATTTTG
65 CTTCGAGGGTATTTTG
* * * * *
34073259 GTCATTTTACCTTTTGAGCATATTTTAGTTATTTTACCCTTCGAGGGTATTTCAATCATTTTA-C
1 GTCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCCTT-GAGGGTATTTCAATCATTTTACC
* * *
34073323 TTGTCGGGGGTATTTCG
65 CT-TCGAGGGTATTTTG
* * * * * * *
34073340 ATCATTTTACCCTTCGAGGGTATTTCAATTATTTTACCCTTTGGGGGTATTTCAGTTATTTTACC
1 GTCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCC-TTGAGGGTATTTCAATCATTTTACC
*
34073405 CTTCGAGGGCATTTTG
65 CTTCGAGGGTATTTTG
* * * * *
34073421 GTCATTTTACCCTTTGAGGTTATTTCAATCATTTTACCCTTCAAGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCCTT-GAGGGTATTTCAATCATTTTACC
* *
34073486 CTTCGAAGGAATTTTG
65 CTTCGAGGGTATTTTG
* ** *
34073502 ATCATTTTACCCTTCGAGGATATTTTGGTCGTTTTACCCTTTGAGGGTATTTCAATCATTTTA
1 GTCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCC-TTGAGGGTATTTCAATCATTTTA
34073565 GGCCCATTAC
Statistics
Matches: 318, Mismatches: 60, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.01
80 42 0.13
81 262 0.82
82 11 0.03
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (80 bp):
GTCATTTTACCCTTCGAGGATATTTCAGTCATTTTACCCTTGAGGGTATTTCAATCATTTTACCC
TTCGAGGGTATTTTG
Found at i:34083593 original size:50 final size:50
Alignment explanation
Indices: 34083464--34083750 Score: 276
Period size: 49 Copynumber: 5.7 Consensus size: 50
34083454 AAAGAGATCT
* * *
34083464 CATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGACTATAAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
* *
34083520 CA-ATAAGACTATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** *
34083569 CATGTAAGACCATGTCACGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * **
34083619 C-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * * * **
34083668 CATGTAAGACCATATCTGGGATATGGCATTGGCA--GTATAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGGTCC
* * *
34083717 CATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
34083751 TGTTATATCC
Statistics
Matches: 198, Mismatches: 30, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
48 1 0.01
49 92 0.46
50 71 0.36
52 3 0.02
54 1 0.01
55 28 0.14
56 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:34083694 original size:99 final size:99
Alignment explanation
Indices: 34083512--34083701 Score: 272
Period size: 99 Copynumber: 1.9 Consensus size: 99
34083502 TGAGACTATA
* * **
34083512 AGAGGTCCCAATAAGACTATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAG
1 AGAGGTCCCAATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAATCCCATGTAAG
* *
34083577 ACCATGTCACGGACATGGCGTTGGCACCGAGATG
66 ACCATATCACGGACATGGCATTGGCACCGAGATG
** *
34083611 AGAGGTCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAATCCCATGTAAG
1 AGAGGTCCCAATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAATCCCATGTAAG
** *
34083676 ACCATATCTGGGATATGGCATTGGCA
66 ACCATATCACGGACATGGCATTGGCA
34083702 GTATAAGAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
99 79 1.00
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (99 bp):
AGAGGTCCCAATAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAATCCCATGTAAG
ACCATATCACGGACATGGCATTGGCACCGAGATG
Found at i:34083724 original size:99 final size:98
Alignment explanation
Indices: 34083523--34083740 Score: 258
Period size: 99 Copynumber: 2.2 Consensus size: 98
34083513 GAGGTCCCAA
* ** *
34083523 TAAGACTATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAAGACCATGTCACG
1 TAAGACTATGTCTGGGACATGGCATGGGCACCGAGATGAGAAATCCCATGTAAGACCATATCACG
* * * **
34083588 GACATGGCGTTGGCACCGAGATGAGAGGTCCCCG
66 GACATGGCATTGGCA-CGAGAAGAAACATCCCCG
* * **
34083622 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAATCCCATGTAAGACCATATCTGG
1 TAAGACTATGTCTGGGACATGGCATGGGCACCGAGATGAGAAATCCCATGTAAGACCATATCACG
* * *
34083687 GATATGGCATTGGCA-GTATAAGAAACATCCCATG
66 GACATGGCATTGGCACG-AGAAGAAACATCCC-CG
34083721 TAAGACTATGTCTGGGACAT
1 TAAGACTATGTCTGGGACAT
34083741 AGCTTTGGCA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
97 1 0.01
98 9 0.09
99 90 0.90
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (98 bp):
TAAGACTATGTCTGGGACATGGCATGGGCACCGAGATGAGAAATCCCATGTAAGACCATATCACG
GACATGGCATTGGCACGAGAAGAAACATCCCCG
Found at i:34085640 original size:50 final size:50
Alignment explanation
Indices: 34085511--34085735 Score: 256
Period size: 50 Copynumber: 4.4 Consensus size: 50
34085501 AAAGAGATCT
* * *
34085511 CATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGACTATAAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCC
* *
34085567 CA-ATAAGACTATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
** *
34085616 CATGTAAGACCATGTCACGGACATGGCGTTGGCACCGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
* * * **
34085666 C-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
*
34085715 CATGTAAGACCATATCTGGGA
1 CATGTAAGACCATGTCTGGGA
34085736 GGCAGTACAA
Statistics
Matches: 147, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
49 53 0.36
50 60 0.41
52 3 0.02
54 1 0.01
55 28 0.19
56 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCC
Found at i:34090063 original size:14 final size:12
Alignment explanation
Indices: 34090027--34090070 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
34090017 ATATGCTCTC
34090027 TTTTTTTGTTCT
1 TTTTTTTGTTCT
*
34090039 TTTTCTT-TTCT
1 TTTTTTTGTTCT
34090050 TTGCTTTTTGTTCT
1 TT--TTTTTGTTCT
34090064 TTTTTTT
1 TTTTTTT
34090071 CACTAGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 6 0.22
12 11 0.41
13 4 0.15
14 6 0.22
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (12 bp):
TTTTTTTGTTCT
Found at i:34090065 original size:19 final size:17
Alignment explanation
Indices: 34090025--34090069 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
34090015 ACATATGCTC
34090025 TCTTTTTTTGTTCTTTT
1 TCTTTTTTTGTTCTTTT
34090042 TCTTTTCTTTGCTT-TTTGT
1 TCTTTT-TTTG-TTCTTT-T
34090061 TCTTTTTTT
1 TCTTTTTTT
34090070 TCACTAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 6 0.24
18 10 0.40
19 9 0.36
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (17 bp):
TCTTTTTTTGTTCTTTT
Found at i:34112840 original size:24 final size:25
Alignment explanation
Indices: 34112778--34112834 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
34112768 TCTGGATATT
**
34112778 TAGCTCTCATGAGCTTCCCGTTATA
1 TAGCTCTTGTGAGCTTCCCGTTATA
* *
34112803 TGGTTCTTGTGAGCTTCCCGTTA-A
1 TAGCTCTTGTGAGCTTCCCGTTATA
34112827 TAGCTCTT
1 TAGCTCTT
34112835 TGGAGCATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.40
Consensus pattern (25 bp):
TAGCTCTTGTGAGCTTCCCGTTATA
Found at i:34112986 original size:23 final size:24
Alignment explanation
Indices: 34112955--34113062 Score: 71
Period size: 25 Copynumber: 4.4 Consensus size: 24
34112945 AAGCTTTTCT
*
34112955 ATTACTGGCTCTCTAGAGCTTCTCG
1 ATTA-TGGCTCTCTAGAGCTTCCCG
* * *
34112980 ATT-TGGCTCGCTTGAACTTCCCG
1 ATTATGGCTCTCTAGAGCTTCCCG
*
34113003 ATTACGGCTCT-TATGAGCTTCCCG
1 ATTATGGCTCTCTA-GAGCTTCCCG
*
34113027 -TTACATGGCTCAC-ATGAGCTTCCCG
1 ATT--ATGGCTCTCTA-GAGCTTCCCG
*
34113052 TTATATGGCTC
1 AT-TATGGCTC
34113063 GAAAGAGCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
23 22 0.33
24 14 0.21
25 28 0.42
26 1 0.02
27 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (24 bp):
ATTATGGCTCTCTAGAGCTTCCCG
Found at i:34113023 original size:24 final size:24
Alignment explanation
Indices: 34112996--34113054 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 24
34112986 CTCGCTTGAA
**
34112996 CTTCCCGATTAC-GGCTCTTATGAG
1 CTTCCCG-TTACAGGCTCACATGAG
34113020 CTTCCCGTTACATGGCTCACATGAG
1 CTTCCCGTTACA-GGCTCACATGAG
34113045 CTTCCCGTTA
1 CTTCCCGTTA
34113055 TATGGCTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 4 0.13
24 7 0.23
25 20 0.65
ACGTcount: A:0.17, C:0.32, G:0.19, T:0.32
Consensus pattern (24 bp):
CTTCCCGTTACAGGCTCACATGAG
Found at i:34113095 original size:25 final size:25
Alignment explanation
Indices: 34113008--34113100 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 25
34112998 TCCCGATTAC
* *
34113008 GGCTCTTATGAGCTTCCCGTTACAT
1 GGCTCTAATGAGCTTCCCGTTATAT
34113033 GGCTC-ACATGAGCTTCCCGTTATAT
1 GGCTCTA-ATGAGCTTCCCGTTATAT
* * *
34113058 GGCTCGAAAGAGCTTCCTGTT-TAT
1 GGCTCTAATGAGCTTCCCGTTATAT
34113082 GTGCTCTAATGAGCATTCC
1 G-GCTCTAATGAGC-TTCC
34113101 GGAATATGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
24 4 0.07
25 49 0.84
26 5 0.09
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (25 bp):
GGCTCTAATGAGCTTCCCGTTATAT
Found at i:34117049 original size:24 final size:24
Alignment explanation
Indices: 34117013--34117060 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
34117003 AACACACTAC
* *
34117013 AGCTCGAAAGAGCGTCTCGTTATT
1 AGCTCGAAAGAGCATCTCGATATT
34117037 AGCTC-AAATGAGCATCTCGATATT
1 AGCTCGAAA-GAGCATCTCGATATT
34117061 TGGCTCTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCTCGAAAGAGCATCTCGATATT
Found at i:34137278 original size:38 final size:39
Alignment explanation
Indices: 34137225--34137304 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 39
34137215 TCAAAGGGGA
*
34137225 TTAATACATGGATGACTCTGAAAGGTCTGGATGTGTTTG
1 TTAATACATGGATGACTCTAAAAGGTCTGGATGTGTTTG
*
34137264 TTAATATAT-GATGACTCTAAAAGGTCTGGATGTGTTTG
1 TTAATACATGGATGACTCTAAAAGGTCTGGATGTGTTTG
34137302 TTA
1 TTA
34137305 CAATTAAGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 31 0.79
39 8 0.21
ACGTcount: A:0.28, C:0.09, G:0.25, T:0.39
Consensus pattern (39 bp):
TTAATACATGGATGACTCTAAAAGGTCTGGATGTGTTTG
Found at i:34137475 original size:29 final size:28
Alignment explanation
Indices: 34137441--34137653 Score: 139
Period size: 29 Copynumber: 7.5 Consensus size: 28
34137431 AGGAGAAAAA
* *
34137441 AAGCCTTTGTGGCAAAAATCTAGAAAGGT
1 AAGCCTTTGTGGTAAAACTCT-GAAAGGT
* * * *
34137470 AAGCCTTTGTGGTGAACCTGTTAAAGGT
1 AAGCCTTTGTGGTAAAACTCTGAAAGGT
34137498 AAGCCTTTGTGGTAAAACTCTGGAAAGGT
1 AAGCCTTTGTGGTAAAACTCT-GAAAGGT
* * *
34137527 AAGCCTTTGTGGT-GAACATATTAAAGG-
1 AAGCCTTTGTGGTAAAAC-TCTGAAAGGT
* *
34137554 ACAACCTTTGTGG-AAAATCTCTTAAAAGGT
1 A-AGCCTTTGTGGTAAAA-CTC-TGAAAGGT
** * * *
34137584 AAGCCTTTGTGGCGAACCTATTAAAGGAT
1 AAGCCTTTGTGGTAAAACTCTGAAAGG-T
* *
34137613 AA-CCCTTGTGG-AAATGCTCTAGAAAGGT
1 AAGCCTTTGTGGTAAA-ACTCT-GAAAGGT
*
34137641 AAGCCTTCGTGGT
1 AAGCCTTTGTGGT
34137654 CAACTTCTTA
Statistics
Matches: 142, Mismatches: 29, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
27 3 0.02
28 65 0.46
29 71 0.50
30 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.28
Consensus pattern (28 bp):
AAGCCTTTGTGGTAAAACTCTGAAAGGT
Found at i:34137503 original size:28 final size:28
Alignment explanation
Indices: 34137464--34137623 Score: 153
Period size: 28 Copynumber: 5.6 Consensus size: 28
34137454 AAAAATCTAG
*
34137464 AAAGGTAAGCCTTTGTGGTGAACCTGTT
1 AAAGGTAAGCCTTTGTGGTGAACCTATT
* * * *
34137492 AAAGGTAAGCCTTTGTGGTAAAACTCTGG
1 AAAGGTAAGCCTTTGTGGTGAACCTAT-T
*
34137521 AAAGGTAAGCCTTTGTGGTGAACATATT
1 AAAGGTAAGCCTTTGTGGTGAACCTATT
* ** * *
34137549 AAAGG-ACAACCTTTGTGGAAAATCTCTT
1 AAAGGTA-AGCCTTTGTGGTGAACCTATT
*
34137577 AAAAGGTAAGCCTTTGTGGCGAACCTATT
1 -AAAGGTAAGCCTTTGTGGTGAACCTATT
*
34137606 AAAGGATAA-CCCTTGTGG
1 AAAGG-TAAGCCTTTGTGG
34137624 AAATGCTCTA
Statistics
Matches: 106, Mismatches: 21, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
27 1 0.01
28 57 0.54
29 47 0.44
30 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (28 bp):
AAAGGTAAGCCTTTGTGGTGAACCTATT
Found at i:34137529 original size:57 final size:56
Alignment explanation
Indices: 34137441--34137766 Score: 268
Period size: 57 Copynumber: 5.7 Consensus size: 56
34137431 AGGAGAAAAA
* *
34137441 AAGCCTTTGTGGCAAAAATCTAGAAAGGTAAGCCTTTGTGGTGAACCTGTTAAAGGT
1 AAGCCTTTGTGG-AAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGT
* *
34137498 AAGCCTTTGTGGTAAAACTCTGGAAAGGTAAGCCTTTGTGGTGAACATATTAAAGG-
1 AAGCCTTTGTGG-AAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGT
* *
34137554 ACAACCTTTGTGGAAAATCTCTTA-AAAGGTAAGCCTTTGTGGCGAACCTATTAAAGGAT
1 A-AGCCTTTGTGGAAAA-CTC-TAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGG-T
* * * * * * *
34137613 AA-CCCTTGTGGAAATGCTCTAGAAAGGTAAGCCTTCGTGGTCAACTTCTTAAA-GA
1 AAGCCTTTGTGGAAA-ACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGT
* * * * ** * *
34137668 AAACCTTTTGTGAAAAATCTCT-GAAAGGAAATTCCTTCATGGT-AACCTCAGTTAAAAGA
1 AAGCC-TTTGTGGAAAA-CTCTAGAAAGGTAA-GCCTTTGTGGTGAACCT-A-TTAAAGGT
** * * *
34137727 AAGCCTTTGTGGCTAACTCTAGATAGGAAAGCTTTTGTGG
1 AAGCCTTTGTGGAAAACTCTAGAAAGGTAAGCCTTTGTGG
34137767 AAATCACCAG
Statistics
Matches: 220, Mismatches: 34, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
55 2 0.01
56 22 0.10
57 166 0.75
58 23 0.10
59 7 0.03
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (56 bp):
AAGCCTTTGTGGAAAACTCTAGAAAGGTAAGCCTTTGTGGTGAACCTATTAAAGGT
Found at i:34137644 original size:114 final size:114
Alignment explanation
Indices: 34137464--34137689 Score: 305
Period size: 114 Copynumber: 2.0 Consensus size: 114
34137454 AAAAATCTAG
* * * *
34137464 AAAGGTAAGCCTTTGTGGTGAACCTGTTAAAGGTAAGCCTTTGTGGTAAAACTCTGGAAAGGTAA
1 AAAGGTAAGCCTTTGTGGCGAACCTATTAAAGGTAAGCCCTTGTGGTAAAACTCTAGAAAGGTAA
* * * *
34137529 GCCTTTGTGGTGAACATATTAAAGGACAACC-TTTGTGGAAAATCTCTTA
66 GCCTTCGTGGTCAACATATTAAA-GAAAACCTTTTGTGAAAAATCTCTTA
*
34137578 AAAGGTAAGCCTTTGTGGCGAACCTATTAAAGGATAA-CCCTTGTGG-AAATGCTCTAGAAAGGT
1 AAAGGTAAGCCTTTGTGGCGAACCTATTAAAGG-TAAGCCCTTGTGGTAAA-ACTCTAGAAAGGT
* *
34137641 AAGCCTTCGTGGTCAACTTCTTAAAGAAAACCTTTTGTGAAAAATCTCT
64 AAGCCTTCGTGGTCAACATATTAAAGAAAACCTTTTGTGAAAAATCTCT
34137690 GAAAGGAAAT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
113 9 0.09
114 86 0.88
115 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (114 bp):
AAAGGTAAGCCTTTGTGGCGAACCTATTAAAGGTAAGCCCTTGTGGTAAAACTCTAGAAAGGTAA
GCCTTCGTGGTCAACATATTAAAGAAAACCTTTTGTGAAAAATCTCTTA
Found at i:34147250 original size:47 final size:47
Alignment explanation
Indices: 34147181--34147286 Score: 176
Period size: 47 Copynumber: 2.3 Consensus size: 47
34147171 AGTTACTGGA
**
34147181 AGTTTATCTACGATTTTGGTGGCTTGTCCATGATATTGATTATTGGC
1 AGTTTATCTACGATTTTGGTGGCTTGTCCACAATATTGATTATTGGC
* *
34147228 AGTTTATTTGCGATTTTGGTGGCTTGTCCACAATATTGATTATTGGC
1 AGTTTATCTACGATTTTGGTGGCTTGTCCACAATATTGATTATTGGC
34147275 AGTTTATCTACG
1 AGTTTATCTACG
34147287 TTACTGTGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.20, C:0.13, G:0.23, T:0.44
Consensus pattern (47 bp):
AGTTTATCTACGATTTTGGTGGCTTGTCCACAATATTGATTATTGGC
Found at i:34161556 original size:3 final size:3
Alignment explanation
Indices: 34161542--34161577 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
34161532 TCAAAAAGGC
*
34161542 GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
34161578 AACAATGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:34161585 original size:15 final size:15
Alignment explanation
Indices: 34161552--34161594 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
34161542 GATGACGATG
* **
34161552 ATGATGATGATGATG
1 ATGATGATGATAACA
34161567 ATGATGATGATAACA
1 ATGATGATGATAACA
*
34161582 ATGATGGTGATAA
1 ATGATGATGATAA
34161595 TGACGAAGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.40, C:0.02, G:0.28, T:0.30
Consensus pattern (15 bp):
ATGATGATGATAACA
Found at i:34163976 original size:22 final size:20
Alignment explanation
Indices: 34163935--34163977 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
34163925 AATTTCTATC
*
34163935 TTTTCTCTTTTATATTAATT
1 TTTTCTCTTTTATATCAATT
*
34163955 TTTTTTCTTTTCATGATCAATT
1 TTTTCTCTTTT-AT-ATCAATT
34163977 T
1 T
34163978 AATTGTAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 2 0.11
22 7 0.37
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTTCTCTTTTATATCAATT
Found at i:34166591 original size:16 final size:16
Alignment explanation
Indices: 34166548--34166602 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
34166538 GTTTGGTTTA
34166548 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGGG
* * *
34166564 TTATAATTGAATAGGG
1 CTGTAATGGAATAGGG
* *
34166580 CTGTAAGGGAATAGAG
1 CTGTAATGGAATAGGG
34166596 CTGTAAT
1 CTGTAAT
34166603 CAGTAATTCA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.31, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGGG
Found at i:34166671 original size:44 final size:46
Alignment explanation
Indices: 34166589--34166678 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 46
34166579 GCTGTAAGGG
34166589 AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGA
1 AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGA
* **
34166635 AATAGAGCTGTAAT-AG-CATTCTTTTGTTTGGTTGAATGGAATGA
1 AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGA
34166679 TGTTTTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 25 0.61
45 2 0.05
46 14 0.34
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (46 bp):
AATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATGA
Found at i:34168733 original size:13 final size:13
Alignment explanation
Indices: 34168715--34168739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34168705 GACAGTGCAA
34168715 TAATGTAAGGCTG
1 TAATGTAAGGCTG
34168728 TAATGTAAGGCT
1 TAATGTAAGGCT
34168740 CCCTCGACAG
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:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (13 bp):
TAATGTAAGGCTG
Found at i:34174112 original size:32 final size:32
Alignment explanation
Indices: 34174071--34174132 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
34174061 ATTTTAAACC
34174071 AACTACTCAAACTCTCTAGATTCATGAATGTG
1 AACTACTCAAACTCTCTAGATTCATGAATGTG
* * *
34174103 AACTACTCAAATTTTCTATATTCATGAATG
1 AACTACTCAAACTCTCTAGATTCATGAATG
34174133 GAAATTGCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (32 bp):
AACTACTCAAACTCTCTAGATTCATGAATGTG
Found at i:34174457 original size:12 final size:12
Alignment explanation
Indices: 34174440--34174470 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
34174430 TTTCAAACTA
34174440 AAATACATAAGT
1 AAATACATAAGT
*
34174452 AAATACATGAGT
1 AAATACATAAGT
34174464 AAATACA
1 AAATACA
34174471 ACTATGCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (12 bp):
AAATACATAAGT
Found at i:34174784 original size:27 final size:25
Alignment explanation
Indices: 34174754--34174894 Score: 92
Period size: 27 Copynumber: 5.3 Consensus size: 25
34174744 TTTACCATAG
34174754 AGGCTTTCTTTTCATGGTTTGCCACAA
1 AGGCTTTCTTTTCAT--TTTGCCACAA
*
34174781 AGGCTTT-TAATTCATTTTACGCCACAA
1 AGGCTTTCT-TTTCATTTT--GCCACAA
* * *
34174808 AGGTTTTC-TTTCATATGGCACACAA
1 AGGCTTTCTTTTCATTTTGC-CACAA
34174833 AGGCTTTC-TTTCATATTACT-CCACAA
1 AGGCTTTCTTTTCAT-TT--TGCCACAA
* *
34174859 AGGTTATTCTTTTCATATTACGCCACAA
1 AGGCT-TTCTTTTCAT-TT-TGCCACAA
34174887 AGGCTTTC
1 AGGCTTTC
34174895 CTTATCTGTC
Statistics
Matches: 91, Mismatches: 12, Indels: 22
0.73 0.10 0.18
Matches are distributed among these distances:
24 2 0.02
25 21 0.23
26 17 0.19
27 32 0.35
28 19 0.21
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (25 bp):
AGGCTTTCTTTTCATTTTGCCACAA
Found at i:34174859 original size:51 final size:55
Alignment explanation
Indices: 34174774--34174894 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 55
34174764 TTCATGGTTT
* *
34174774 GCCACAAAGGCTTT-TAATTCATTTTACGCCACAAAGGTT-TTC-TTTCATA-T-G
1 GCCACAAAGGCTTTCT-ATTCATATTACGCCACAAAGGTTATTCTTTTCATATTAC
*
34174825 GCACACAAAGGCTTTCT-TTCATATTACTCCACAAAGGTTATTCTTTTCATATTAC
1 GC-CACAAAGGCTTTCTATTCATATTACGCCACAAAGGTTATTCTTTTCATATTAC
34174880 GCCACAAAGGCTTTC
1 GCCACAAAGGCTTTC
34174895 CTTATCTGTC
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
51 22 0.36
52 15 0.25
53 8 0.13
54 14 0.23
55 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (55 bp):
GCCACAAAGGCTTTCTATTCATATTACGCCACAAAGGTTATTCTTTTCATATTAC
Found at i:34174873 original size:28 final size:26
Alignment explanation
Indices: 34174774--34174894 Score: 129
Period size: 28 Copynumber: 4.6 Consensus size: 26
34174764 TTCATGGTTT
** *
34174774 GCCACAAAGGCTTTTAATTCATTTTAC
1 GCCACAAAGG-TTTTCTTTCATATTAC
*
34174801 GCCACAAAGGTTTTCTTTCATA-T-G
1 GCCACAAAGGTTTTCTTTCATATTAC
*
34174825 GCACACAAAGGCTTTCTTTCATATTAC
1 GC-CACAAAGGTTTTCTTTCATATTAC
*
34174852 TCCACAAAGGTTATTCTTTTCATATTAC
1 GCCACAAAGGTT-TTC-TTTCATATTAC
*
34174880 GCCACAAAGGCTTTC
1 GCCACAAAGGTTTTC
34174895 CTTATCTGTC
Statistics
Matches: 79, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
24 2 0.03
25 20 0.25
26 19 0.24
27 17 0.22
28 21 0.27
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (26 bp):
GCCACAAAGGTTTTCTTTCATATTAC
Found at i:34176011 original size:6 final size:6
Alignment explanation
Indices: 34175995--34176024 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
34175985 TAAGTCATGT
*
34175995 TACACA CACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA
34176025 CCAAGATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (6 bp):
TACACA
Found at i:34188505 original size:19 final size:19
Alignment explanation
Indices: 34188477--34188521 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
34188467 GCAGTGACAA
*
34188477 CCACAGCTATGAAGATTGT
1 CCACAACTATGAAGATTGT
34188496 CCACAACTATGAAGATTGT
1 CCACAACTATGAAGATTGT
34188515 CCACAAC
1 CCACAAC
34188522 ATGCAGAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.22
Consensus pattern (19 bp):
CCACAACTATGAAGATTGT
Found at i:34195388 original size:17 final size:17
Alignment explanation
Indices: 34195363--34195396 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
34195353 GATAAGTATA
* *
34195363 CATTGTCATTGCATTTT
1 CATTATCATTACATTTT
34195380 CATTATCATTACATTTT
1 CATTATCATTACATTTT
34195397 AGTGTCAGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.18, G:0.06, T:0.53
Consensus pattern (17 bp):
CATTATCATTACATTTT
Found at i:34196501 original size:66 final size:66
Alignment explanation
Indices: 34196395--34196525 Score: 217
Period size: 66 Copynumber: 2.0 Consensus size: 66
34196385 TTATTACATT
*
34196395 AATGTCGCTGCATGGGTTAATTCCAGATGGTGTCCAGAATTGTCGCCGCATCTGACAGATGTCTG
1 AATGTCGCTGCATGGGTTAATTCCAGATGGTGTCCAGAATTGTCGCCGCACCTGACAGATGTCTG
34196460 C
66 C
* * * *
34196461 AATGTCGCTGCATGGGTTAATTTCAGATTGTGTTCAGAATTGTCGCCGCACCTGACAGCTGTCTG
1 AATGTCGCTGCATGGGTTAATTCCAGATGGTGTCCAGAATTGTCGCCGCACCTGACAGATGTCTG
34196526 GATAAGAACC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.31
Consensus pattern (66 bp):
AATGTCGCTGCATGGGTTAATTCCAGATGGTGTCCAGAATTGTCGCCGCACCTGACAGATGTCTG
C
Found at i:34209438 original size:3 final size:3
Alignment explanation
Indices: 34209430--34209457 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
34209420 GAAGCAAAAC
34209430 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
34209458 GTTTTCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:34212470 original size:15 final size:15
Alignment explanation
Indices: 34212451--34212507 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
34212441 TAAATTTAGT
*
34212451 ACTTAAATTTTCAAT
1 ACTTAAATTTTCAAC
34212466 ACTT-AATTTTCAAC
1 ACTTAAATTTTCAAC
**
34212480 ACTTATTTTTTCAAC
1 ACTTAAATTTTCAAC
*
34212495 ACTTAATTTTTCA
1 ACTTAAATTTTCA
34212508 GTTTGTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
14 13 0.35
15 24 0.65
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (15 bp):
ACTTAAATTTTCAAC
Found at i:34212476 original size:14 final size:14
Alignment explanation
Indices: 34212451--34212504 Score: 72
Period size: 14 Copynumber: 3.7 Consensus size: 14
34212441 TAAATTTAGT
*
34212451 ACTTAAATTTTCAAT
1 ACTT-AATTTTCAAC
34212466 ACTTAATTTTCAAC
1 ACTTAATTTTCAAC
*
34212480 ACTTATTTTTTCAAC
1 ACTTA-ATTTTCAAC
34212495 ACTTAATTTT
1 ACTTAATTTT
34212505 TCAGTTTGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
14 18 0.51
15 17 0.49
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (14 bp):
ACTTAATTTTCAAC
Found at i:34214494 original size:50 final size:50
Alignment explanation
Indices: 34214435--34214536 Score: 154
Period size: 50 Copynumber: 2.0 Consensus size: 50
34214425 TTTTTTGCCA
*
34214435 CAAACAAATGAAAATGA-TTCAATTGATAATGGGTGGA-GAAATTACTTTTT
1 CAAACAAATGAAAATGATTTC-ATTGATAAT-GGTCGAGGAAATTACTTTTT
*
34214485 CAAACAAATGAAAATGATTTCATTGATGATGGTCGAGGAAATTACTTTTT
1 CAAACAAATGAAAATGATTTCATTGATAATGGTCGAGGAAATTACTTTTT
34214535 CA
1 CA
34214537 TCTAGATAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
49 5 0.10
50 40 0.83
51 3 0.06
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.32
Consensus pattern (50 bp):
CAAACAAATGAAAATGATTTCATTGATAATGGTCGAGGAAATTACTTTTT
Found at i:34220287 original size:18 final size:17
Alignment explanation
Indices: 34220264--34220300 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 17
34220254 AGAGTCTGTC
34220264 AAACCTTAGAGTTTGCCA
1 AAACC-TAGAGTTTGCCA
34220282 AAACCTAGAGTTTGCCA
1 AAACCTAGAGTTTGCCA
34220299 AA
1 AA
34220301 TGGCGAATCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (17 bp):
AAACCTAGAGTTTGCCA
Found at i:34231635 original size:84 final size:85
Alignment explanation
Indices: 34231417--34231645 Score: 282
Period size: 84 Copynumber: 2.6 Consensus size: 85
34231407 TACTGAAATA
*
34231417 TGGAAGCCTCTATGGTTGTTCTCTGATAAGTGGAAGCCTTTGTGGTTGTTCTATATTATATGTGA
1 TGGAAGCCTCTATGGTTGTTCTCTGATAAGTGGAAGCCTTTGTGGCTG---T-T-TTATA-GTGA
* ** *
34231482 GCCCTTATGGCGAAATATATTGTATG
60 GACCTTATGGAAAAATATATTATATG
* * * *
34231508 TCGAAGCCTCTGTAGTTGTACTCTGATAAGTGGAAGCCTTTGTGGCTGTTTTATA-TGA-ACCTT
1 TGGAAGCCTCTATGGTTGTTCTCTGATAAGTGGAAGCCTTTGTGGCTGTTTTATAGTGAGACCTT
*
34231571 AATGGAAAAATATGTTATATG
66 -ATGGAAAAATATATTATATG
*
34231592 TGGAAGCCTCTATGGTTGTTCTCTGATAAGTTGAAGCCTTTGTGGCTGTTTTAT
1 TGGAAGCCTCTATGGTTGTTCTCTGATAAGTGGAAGCCTTTGTGGCTGTTTTAT
34231646 GTTATATGTG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
83 4 0.03
84 68 0.56
86 5 0.04
87 1 0.01
88 1 0.01
91 43 0.35
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (85 bp):
TGGAAGCCTCTATGGTTGTTCTCTGATAAGTGGAAGCCTTTGTGGCTGTTTTATAGTGAGACCTT
ATGGAAAAATATATTATATG
Found at i:34240435 original size:27 final size:27
Alignment explanation
Indices: 34240405--34240571 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
34240395 TCATCTCCTA
**
34240405 GGGGTATAACAGTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
** * *
34240432 GGGGTATTTTGGTCATTTTCCCCTATA
1 GGGGTATTTCAGTCATTTTACCCTATG
*
34240459 GGGGTATTTCATTCATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATG
34240486 GGGGTATTTC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
* * *
34240513 AGGGTATTTCTA-TCATTTTATCCTATA
1 GGGGTATTTC-AGTCATTTTACCCTATG
34240540 GGGGTATTTC-GATCATTTTACCCTATG
1 GGGGTATTTCAG-TCATTTTACCCTATG
34240567 GGGGT
1 GGGGT
34240572 CTCGATGCAG
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTATG
Found at i:34240465 original size:54 final size:53
Alignment explanation
Indices: 34240403--34240571 Score: 223
Period size: 54 Copynumber: 3.1 Consensus size: 53
34240393 ATTCATCTCC
** * * *
34240403 TAGGGGTATAACAGTCATTTTACCCTATGGGGGTATTTTGGTCATTTTCCCCTA
1 TAGGGGTATTTCA-TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA
34240457 TAGGGGTATTTCATTCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA
1 TAGGGGTATTTCA-TCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA
* *
34240511 T-GAGGGTATTTCTATCATTTTATCCTATAGGGGTATTTCGATCATTTTACCCTA
1 TAG-GGGTATTTC-ATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA
*
34240565 TGGGGGT
1 TAGGGGT
34240572 CTCGATGCAG
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
53 1 0.01
54 101 0.97
55 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.41
Consensus pattern (53 bp):
TAGGGGTATTTCATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTA
Found at i:34240540 original size:81 final size:81
Alignment explanation
Indices: 34240417--34240571 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 81
34240407 GGTATAACAG
* * *
34240417 TCATTTTACCCTATGGGGGTATTTTGGTCATTTTCCCCTATAGGGGTATTTC-ATTCATTTTACC
1 TCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGGTATTTCGA-TCATTTTACC
34240481 CTATGGGGGTATTTCGA
65 CTATGGGGGTATTTCGA
*
34240498 TCATTTTACCCTATGAGGGTATTTCT-ATCATTTTATCCTATAGGGGTATTTCGATCATTTTACC
1 TCATTTTACCCTATGAGGGTATTT-TGATCATTTTACCCTATAGGGGTATTTCGATCATTTTACC
34240562 CTATGGGGGT
65 CTATGGGGGT
34240572 CTCGATGCAG
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
81 66 0.97
82 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (81 bp):
TCATTTTACCCTATGAGGGTATTTTGATCATTTTACCCTATAGGGGTATTTCGATCATTTTACCC
TATGGGGGTATTTCGA
Found at i:34241914 original size:37 final size:37
Alignment explanation
Indices: 34241855--34241929 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
34241845 GGGTGTTACA
* *
34241855 ATGTGAGTGGACTTAGATGGTAATTAGACCATTTATT
1 ATGTGAGTAGACTTAGAGGGTAATTAGACCATTTATT
* *
34241892 ATGTTAGTAGACTTAGAGGGTAATTCGACCATTTATT
1 ATGTGAGTAGACTTAGAGGGTAATTAGACCATTTATT
34241929 A
1 A
34241930 ACGAGGTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.37
Consensus pattern (37 bp):
ATGTGAGTAGACTTAGAGGGTAATTAGACCATTTATT
Found at i:34245568 original size:22 final size:23
Alignment explanation
Indices: 34245519--34245568 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
34245509 AAAGTTCTCG
* * *
34245519 AGAAAATAGAAAAGCAAAATGAG
1 AGAAAAAAGAAAAGCAAAAAGAA
*
34245542 TGAAAAAAGAAAAG-AAAAAGAA
1 AGAAAAAAGAAAAGCAAAAAGAA
34245564 AGAAA
1 AGAAA
34245569 GAAAAGAAGA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.72, C:0.02, G:0.20, T:0.06
Consensus pattern (23 bp):
AGAAAAAAGAAAAGCAAAAAGAA
Found at i:34256243 original size:9 final size:9
Alignment explanation
Indices: 34256229--34256254 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34256219 GCAAGCCCTA
34256229 TATTTCACT
1 TATTTCACT
34256238 TATTTCACT
1 TATTTCACT
34256247 TATTTCAC
1 TATTTCAC
34256255 AATTTCACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (9 bp):
TATTTCACT
Found at i:34256728 original size:26 final size:27
Alignment explanation
Indices: 34256699--34256749 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34256689 ATTAAACTGT
34256699 ATAAAAACCA-AATTATACCAAAATCC
1 ATAAAAACCATAATTATACCAAAATCC
** *
34256725 ATAAAGGCCATAATTATAGCAAAAT
1 ATAAAAACCATAATTATACCAAAAT
34256750 ACTCCCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 8 0.38
27 13 0.62
ACGTcount: A:0.55, C:0.18, G:0.06, T:0.22
Consensus pattern (27 bp):
ATAAAAACCATAATTATACCAAAATCC
Found at i:34258711 original size:22 final size:22
Alignment explanation
Indices: 34258683--34258735 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
34258673 AGAGATGGGG
34258683 GAGAGAAAACATCAGAAAGATA
1 GAGAGAAAACATCAGAAAGATA
* *
34258705 GAGAGAAAACATTAGAAAGATG
1 GAGAGAAAACATCAGAAAGATA
*
34258727 GAGTGAAAA
1 GAGAGAAAA
34258736 ATGACTCTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.57, C:0.06, G:0.26, T:0.11
Consensus pattern (22 bp):
GAGAGAAAACATCAGAAAGATA
Found at i:34263179 original size:25 final size:25
Alignment explanation
Indices: 34263151--34263199 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
34263141 TACAATATAT
* *
34263151 CTATAGTAGTCTCAGTATATACTAC
1 CTATAATAGTCTCAGGATATACTAC
*
34263176 CTATAATAGTTTCAGGATATACTA
1 CTATAATAGTCTCAGGATATACTA
34263200 TCAAAGACAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (25 bp):
CTATAATAGTCTCAGGATATACTAC
Found at i:34272526 original size:28 final size:28
Alignment explanation
Indices: 34272494--34272552 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
34272484 AAGTGAAAAA
34272494 GATTATATAAAATTAGATGATGAGTTAT
1 GATTATATAAAATTAGATGATGAGTTAT
34272522 GATTATATAAAATTAGATGATGAGTTAT
1 GATTATATAAAATTAGATGATGAGTTAT
34272550 GAT
1 GAT
34272553 ACATTCTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (28 bp):
GATTATATAAAATTAGATGATGAGTTAT
Found at i:34273749 original size:12 final size:12
Alignment explanation
Indices: 34273732--34273787 Score: 94
Period size: 12 Copynumber: 4.7 Consensus size: 12
34273722 AAACAGCGCT
*
34273732 AGCGGGAGAGCC
1 AGCGGGAGAACC
*
34273744 AGCGGGAGAGCC
1 AGCGGGAGAACC
34273756 AGCGGGAGAACC
1 AGCGGGAGAACC
34273768 AGCGGGAGAACC
1 AGCGGGAGAACC
34273780 AGCGGGAG
1 AGCGGGAG
34273788 GAGCTGGGGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.48, T:0.00
Consensus pattern (12 bp):
AGCGGGAGAACC
Found at i:34275335 original size:12 final size:12
Alignment explanation
Indices: 34275318--34275359 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
34275308 CTCCCCATCT
34275318 TCTTCACCTTCA
1 TCTTCACCTTCA
34275330 TCTTCACCTTCA
1 TCTTCACCTTCA
*
34275342 CCTTCACCTTCA
1 TCTTCACCTTCA
34275354 TCTTCA
1 TCTTCA
34275360 TCTTATTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (12 bp):
TCTTCACCTTCA
Found at i:34275363 original size:6 final size:6
Alignment explanation
Indices: 34275319--34275359 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
34275309 TCCCCATCTT
* *
34275319 CTTCAC CTTCAT CTTCAC CTTCAC CTTCAC CTTCAT CTTCA
1 CTTCAC CTTCAC CTTCAC CTTCAC CTTCAC CTTCAC CTTCA
34275360 TCTTATTCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.17, C:0.44, G:0.00, T:0.39
Consensus pattern (6 bp):
CTTCAC
Found at i:34276847 original size:15 final size:15
Alignment explanation
Indices: 34276824--34276853 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34276814 ATTTGAAAAA
34276824 TTTTAACTGTTGGAT
1 TTTTAACTGTTGGAT
*
34276839 TTTTTACTGTTGGAT
1 TTTTAACTGTTGGAT
34276854 GAAAACACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.57
Consensus pattern (15 bp):
TTTTAACTGTTGGAT
Found at i:34280297 original size:44 final size:43
Alignment explanation
Indices: 34280226--34280398 Score: 136
Period size: 44 Copynumber: 4.0 Consensus size: 43
34280216 TTTACATGAT
* * *
34280226 TTTGTATAAGACCATAGT-TGGGCTATGGCTTCGATAAATGAGA
1 TTTGTGTAAGACCAT-GTCTGGGATATGGCATCGATAAATGAGA
* * *
34280269 CTTTGTGTAAAACCATGTCTGGGATATGGCATCGATATATGTGA
1 -TTTGTGTAAGACCATGTCTGGGATATGGCATCGATAAATGAGA
* * * * *
34280313 TTACGTGTCAGACCATGTCTGGGACATTGGCATCG-T-TATGTGA
1 TT-TGTGTAAGACCATGTCTGGGATA-TGGCATCGATAAATGAGA
* * * *
34280356 TTTCGGGTAAGACCATATCTGGGATATTGGCATCAATATATGA
1 TTT-GTGTAAGACCATGTCTGGGATA-TGGCATCGATAAATGA
34280399 TTCGTGTAAG
Statistics
Matches: 106, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
43 39 0.37
44 55 0.52
45 12 0.11
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
TTTGTGTAAGACCATGTCTGGGATATGGCATCGATAAATGAGA
Found at i:34280432 original size:85 final size:87
Alignment explanation
Indices: 34280275--34280472 Score: 226
Period size: 85 Copynumber: 2.3 Consensus size: 87
34280265 GAGACTTTGT
* * * * **
34280275 GTAAAACCATGTCTGGGATATGGCATCGATATATGTGATTACGTGTCAGACCATGTCTGGGACAT
1 GTAAGACCATATCTGGGATATGGCATCGATATATATGATTACGTGTAAGAAAATGTCTGGGACAT
* ** *
34280340 TGGCATCGTTATGTGATTTCGG
66 TGGCATCGATATGTGATAACAG
34280362 GTAAGACCATATCTGGGATATTGGCATC-A-ATATATGATT-CGTGTAAGAAAATTGT-TGGG-C
1 GTAAGACCATATCTGGGATA-TGGCATCGATATATATGATTACGTGTAAGAAAA-TGTCTGGGAC
*
34280422 TATTGGCATCGATATGTGATAACAT
64 -ATTGGCATCGATATGTGATAACAG
*
34280447 GTAAGACCATATCCGGGATATGGCAT
1 GTAAGACCATATCTGGGATATGGCAT
34280473 TGTATGTGAT
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
84 7 0.07
85 51 0.53
86 12 0.12
87 19 0.20
88 7 0.07
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (87 bp):
GTAAGACCATATCTGGGATATGGCATCGATATATATGATTACGTGTAAGAAAATGTCTGGGACAT
TGGCATCGATATGTGATAACAG
Found at i:34280471 original size:42 final size:43
Alignment explanation
Indices: 34280273--34280483 Score: 180
Period size: 43 Copynumber: 5.0 Consensus size: 43
34280263 ATGAGACTTT
* * *
34280273 GTGTAAAACCATGTCTGGGATA-TGGCATCGATATATGTGATTAC
1 GTGTAAGACCATATCTGGGATATTGGCATCG--ATATGTGATAAC
* * * * **
34280317 GTGTCAGACCATGTCTGGGACATTGGCATCGTTATGTGATTTC
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGATAAC
* * * *
34280360 GGGTAAGACCATATCTGGGATATTGGCATCAATATATGAT-TC
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGATAAC
** * *
34280402 GTGTAAGAAAAT-TGTTGGGCTATTGGCATCGATATGTGATAAC
1 GTGTAAGACCATAT-CTGGGATATTGGCATCGATATGTGATAAC
* * *
34280445 ATGTAAGACCATATCCGGGATA-TGGCATTG-TATGTGATA
1 GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGATA
34280484 TACAAGACTT
Statistics
Matches: 136, Mismatches: 27, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
41 10 0.07
42 40 0.29
43 58 0.43
44 20 0.15
45 8 0.06
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATATCTGGGATATTGGCATCGATATGTGATAAC
Found at i:34281214 original size:20 final size:20
Alignment explanation
Indices: 34281189--34281250 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
34281179 TTATATGGCA
34281189 TGTATAGGCTATGGTTATTT
1 TGTATAGGCTATGGTTATTT
*
34281209 TGTATAGGCCATGGTTATTT
1 TGTATAGGCTATGGTTATTT
*
34281229 TGTATAGGTTATGGTTATTT
1 TGTATAGGCTATGGTTATTT
34281249 TG
1 TG
34281251 GTTTACTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.19, C:0.05, G:0.26, T:0.50
Consensus pattern (20 bp):
TGTATAGGCTATGGTTATTT
Found at i:34286173 original size:22 final size:22
Alignment explanation
Indices: 34286146--34286189 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
34286136 ATCCTGTACA
*
34286146 ATGTTCAGGACTGCATCAATAT
1 ATGTTCAGGACTACATCAATAT
34286168 ATGTTCAGGACTACATCAATAT
1 ATGTTCAGGACTACATCAATAT
34286190 CAGGCATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (22 bp):
ATGTTCAGGACTACATCAATAT
Found at i:34287222 original size:23 final size:24
Alignment explanation
Indices: 34287181--34287227 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
34287171 TTAAAAGTTA
*
34287181 AATCTAAAAATTAACAATA-ATCT
1 AATCTAAAAATTAAAAATATATCT
34287204 AATCT-AAAATATAAAAATATATCT
1 AATCTAAAAAT-TAAAAATATATCT
34287228 TTTTTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 12 0.57
24 4 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (24 bp):
AATCTAAAAATTAAAAATATATCT
Found at i:34289011 original size:80 final size:80
Alignment explanation
Indices: 34288900--34289135 Score: 454
Period size: 80 Copynumber: 2.9 Consensus size: 80
34288890 ACTATGAATG
34288900 TATAATCTTGAAAACCACTACCACCTCATGAATATTGGATGCACCCATCCTCACCCCTCACTCCA
1 TATAATCTTGAAAACCACTACCACCTCATGAATATTGGATGCACCCATCCTCACCCCTCACTCCA
34288965 CTTCAATTTAAATTT
66 CTTCAATTTAAATTT
34288980 TATAATCTTGAAAACCACTACCACCTCATGAATATTGGATGCACCCATCCTCACCCCTCACTCCA
1 TATAATCTTGAAAACCACTACCACCTCATGAATATTGGATGCACCCATCCTCACCCCTCACTCCA
34289045 CTTCAATTTAAATTT
66 CTTCAATTTAAATTT
34289060 TATAATCTTGAAAACCACTACCACCTCATGAATATTGGATGCACCCATCCTCACCCCTCTCACTC
1 TATAATCTTGAAAACCACTACCACCTCATGAATATTGGATGCACCCATCCTCA-CCC-CTCACTC
34289125 CACTTCAATTT
64 CACTTCAATTT
34289136 GATTTTTCCT
Statistics
Matches: 154, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
80 133 0.86
81 3 0.02
82 18 0.12
ACGTcount: A:0.31, C:0.33, G:0.06, T:0.30
Consensus pattern (80 bp):
TATAATCTTGAAAACCACTACCACCTCATGAATATTGGATGCACCCATCCTCACCCCTCACTCCA
CTTCAATTTAAATTT
Found at i:34293550 original size:14 final size:14
Alignment explanation
Indices: 34293531--34293561 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
34293521 TAAGAATTAA
*
34293531 ATTATATTTTATCT
1 ATTATATTTTACCT
34293545 ATTATATTTTACCT
1 ATTATATTTTACCT
34293559 ATT
1 ATT
34293562 TTACTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTATATTTTACCT
Found at i:34296113 original size:21 final size:21
Alignment explanation
Indices: 34296089--34296132 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
34296079 TTAATATTGC
34296089 TATTATTATTATAACAT-TATA
1 TATTATTATTAT-ACATATATA
34296110 TATTATTATTATACATATATA
1 TATTATTATTATACATATATA
34296131 TA
1 TA
34296133 CGTGCATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTATTATTATACATATATA
Found at i:34298335 original size:19 final size:20
Alignment explanation
Indices: 34298298--34298337 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34298288 TCTTTTCGCA
* *
34298298 TTCATTTCATGCATTTGCAT
1 TTCATTGCATGCATATGCAT
34298318 TTCATTGCAT-CATATGCAT
1 TTCATTGCATGCATATGCAT
34298337 T
1 T
34298338 AAAAACCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (20 bp):
TTCATTGCATGCATATGCAT
Found at i:34302599 original size:44 final size:43
Alignment explanation
Indices: 34302535--34303542 Score: 352
Period size: 44 Copynumber: 22.9 Consensus size: 43
34302525 AAGGAAAAAG
* *
34302535 CAGATCTTGTCTTTATGTACTGGCGTGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGA-AA
* * * * * *
34302579 CAGATCTCG-CATTCCCGTACTGGTGGCGAAGCAGATCGAAGGAATA
1 CAGATCTTGTC-TTCACGTACTGG-CGTGAAGTAGATC-AAAGAA-A
* * * * *
34302625 CAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCGAATATA
1 CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGAAA
* * * * * *
34302668 CAGATCTCGCCTTCCCATACTGGTGGCGAAGTAGATCGAAAGAAA
1 CAGATCTTGTCTTCACGTACTGG-CGTGAAGTAGATC-AAAGAAA
* * * * *
34302713 GTAGATATTGTCTTCATGTA-TCAGCGTGAAGTAGATCAAAGTCAA
1 -CAGATCTTGTCTTCACGTACT-GGCGTGAAGTAGATCAAAG-AAA
* * * * *
34302758 CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAA
1 CAGATCTTGTCTTCACGTACTGG-CGTGAAGTAGATCAAAGAAA
* * * *
34302802 GCAGATCTTGCCTTCATGTA-TCAGCGTGAAGTAGATCAAAGTCAA
1 -CAGATCTTGTCTTCACGTACT-GGCGTGAAGTAGATCAAAG-AAA
* * * * *
34302847 CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAA
1 CAGATCTTGTCTTCACGTACTGG-CGTGAAGTAGATCAAAGAAA
* *
34302891 GCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAAA
1 -CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGAAA
* * * * * * * *
34302935 CAGATATTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGAAAA
1 CAGATCTTGTCTTCACGTACTGG-CGTGAAGTAGATCAAAG-AAA
* * *
34302980 CAGATCGTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGA-AA
* * * * * * * * * * *
34303024 TAGGTCCTGTCTTC-CTATATTGGTAGCGAAGTGGATCGAATATA
1 CAGATCTTGTCTTCAC-GTACTGG-CGTGAAGTAGATCAAAGAAA
* * ** *
34303068 C--ATC-T-TC--C-CATACCGGCG-GCAAAGTAGATTGAAGATTA
1 CAGATCTTGTCTTCACGTACTGGCGTG--AAGTAGATCAAAGA-AA
* * * * ** * * * **
34303106 CAGATTTTG-CCTC-CCTAAGCAGTAGTGGAGCAGATCGAAGATGG
1 CAGATCTTGTCTTCACGT-A-CTGGCGTGAAGTAGATCAAAGA-AA
* * * * * * * * ** *
34303150 CGGAT-TT-TACCTCCCTGAAGTTGCAGTGGAGTATATTGAAG--C
1 CAGATCTTGT-CTTCAC-GTACTGGC-GTGAAGTAGATCAAAGAAA
** * * * * *
34303192 CAGTAAT-TCTACCTCCCCGGT-C-GGCAGTGGAA-TCGATTGAAA-AAG
1 CAG--ATCT-TGTCTTCAC-GTACTGGC-GT-GAAGTAGA-TCAAAGAAA
* * *
34303237 CAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGA-AA
* * *
34303281 CAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCACGTACTGG-CGTGAAGTAGATCAAAG-AAA
* * * * *
34303326 TAGATCTTGTTTTCATGTACTAGCGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGA-AA
* * *
34303370 CAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCACGTACTGG-CGTGAAGTAGATCAAAG-AAA
* * * * *
34303415 TAGATCTTGTTTTCATGTACTAGCGTGAAGTAGATCAAAGATAC
1 CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGA-AA
* * *
34303459 CAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAGAAAA
1 CAGATCTTGTCTTCACGTACTGG-CGTGAAGTAGATCAAAG-AAA
* * *
34303504 TAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAA
1 CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAA
34303543 TATAGAAGAT
Statistics
Matches: 696, Mismatches: 206, Indels: 124
0.68 0.20 0.12
Matches are distributed among these distances:
35 1 0.00
36 1 0.00
37 16 0.02
38 5 0.01
40 4 0.01
41 3 0.00
42 13 0.02
43 64 0.09
44 280 0.40
45 269 0.39
46 39 0.06
47 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
CAGATCTTGTCTTCACGTACTGGCGTGAAGTAGATCAAAGAAA
Found at i:34302704 original size:89 final size:88
Alignment explanation
Indices: 34302470--34303562 Score: 843
Period size: 89 Copynumber: 12.4 Consensus size: 88
34302460 TATTGGTAGC
* * * * * * *
34302470 GAAGTGGATCGAATATACAGAT-TTCGCCTTCCCATACTGGTGGCGAAGCAGATTGAAGGAAAAA
1 GAAGTAGATCAAAGATACAGATCTT-GTCTTCCCATACTGGTGGTGAAGTAGATCGAA-G-AAAA
* *
34302534 GCAGATCTTGTCTTTATGTACTGGCGT
63 -CAGATCTTGTCTTCATGTACTAGCGT
* * * * *
34302561 GAAGTAGATCAAAGATAACAGATCTCG-CATTCCCGTACTGGTGGCGAAGCAGATCGAAGGAATA
1 GAAGTAGATCAAAGAT-ACAGATCTTGTC-TTCCCATACTGGTGGTGAAGTAGATCGAA-GAAAA
34302625 CAGATCTTGTCTTCATGTACTAGCGT
63 CAGATCTTGTCTTCATGTACTAGCGT
* * * * * **
34302651 GAAGTAGATCGAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGTAGATCGAAAGAAAGTA
1 GAAGTAGATCAAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCG-AAGAAAACA
*
34302716 GATATTGTCTTCATGTA-TCAGCGT
65 GATCTTGTCTTCATGTACT-AGCGT
* * * *
34302740 GAAGTAGATCAAAG-TCAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAGC
1 GAAGTAGATCAAAGAT--ACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAAC
*
34302804 AGATCTTGCCTTCATGTA-TCAGCGT
64 AGATCTTGTCTTCATGTACT-AGCGT
* * * *
34302829 GAAGTAGATCAAAG-TCAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAGAAAGC
1 GAAGTAGATCAAAGAT--ACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAAC
* *
34302893 AGATCTTGTCTTCATGTATTGGCGT
64 AGATCTTGTCTTCATGTACTAGCGT
* * * * *
34302918 GAAGTAGATCAAAGAAACAGATATTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGAAAACAG
1 GAAGTAGATCAAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
* *
34302983 ATCGTGTCTTCATGTACTGGCGT
66 ATCTTGTCTTCATGTACTAGCGT
* * * * * * * * * *
34303006 GAAGTAGATCAAAGATAGTAGGTCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAA-TATAC-
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACA
* **
34303069 -ATC-T-TC-CCA--TACCGGCG-
65 GATCTTGTCTTCATGTACTAGCGT
** * * * * * * *
34303086 GCAAAGTAGATTGAAGATTACAGATTTTG-CCTCCC-TAAGC-AGTAGTGGAGCAGATCGAAGAT
1 G--AAGTAGATCAAAGA-TACAGATCTTGTCTTCCCAT-A-CTGGTGGTGAAGTAGATCGAAGAA
** * * ** * * * * *
34303148 GGCGGATTTTACCTCCCTGAAGTTGCAGT
61 AACAGATCTTGTCTTCATGTACTAGC-GT
* * ** * * * * * * * *
34303177 GGAGTATATTGAAG--CCAG-TAATTCTACCTCCC---C-GGTCG-GCAGTGGAATCGATTGAAA
1 GAAGTAGATCAAAGATACAGAT-CTTGT-CTTCCCATACTGGTGGTGAAGTAG-ATCGA-AG-AA
* *
34303234 AAGCAGATATTGTCTTCATGTACTGGCGT
61 AA-CAGATCTTGTCTTCATGTACTAGCGT
* *
34303263 GAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAGAAAATA
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACA
*
34303328 GATCTTGTTTTCATGTACTAGCGT
65 GATCTTGTCTTCATGTACTAGCGT
* *
34303352 GAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAGAAAATA
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACA
*
34303417 GATCTTGTTTTCATGTACTAGCGT
65 GATCTTGTCTTCATGTACTAGCGT
* *
34303441 GAAGTAGATCAAAGATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAGAAAATA
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACA
34303506 GATCTTGTCTTCATGTACTAGCGT
65 GATCTTGTCTTCATGTACTAGCGT
* * *
34303530 GAAGTAGATCAAATATAGAAGATCTTGCCTTCC
1 GAAGTAGATCAAAGATA-CAGATCTTGTCTTCC
34303563 TACATAGACA
Statistics
Matches: 837, Mismatches: 123, Indels: 86
0.80 0.12 0.08
Matches are distributed among these distances:
80 2 0.00
81 26 0.03
82 18 0.02
83 8 0.01
84 13 0.02
85 4 0.00
86 22 0.03
87 17 0.02
88 98 0.12
89 477 0.57
90 81 0.10
91 20 0.02
92 45 0.05
93 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (88 bp):
GAAGTAGATCAAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
ATCTTGTCTTCATGTACTAGCGT
Found at i:34303001 original size:45 final size:45
Alignment explanation
Indices: 34302530--34303020 Score: 293
Period size: 45 Copynumber: 11.0 Consensus size: 45
34302520 GATTGAAGGA
* * *
34302530 AAAAGCAGATCTTGTCTTTATGTACTGG-CGTGAAGTAGATCAAAG
1 AAAA-CAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
* * ** * * * *
34302575 ATAACAGATCTCG-CATTCCCGTACTGGTGGCGAAGCAGATCGAAGG
1 AAAACAGATCTTGTC-TTCATGTACTGGTGGTGGAGTAGATC-AAAG
* * * * *
34302621 AATACAGATCTTGTCTTCATGTACTAG-CGTGAAGTAGATCGAA-
1 AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
* * * * *** * *
34302664 TATACAGATCTCGCCTTCCCATACTGGTGGCGAAGTAGATCGAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATC-AAAG
** * * * *
34302710 AAAGTAGATATTGTCTTCATGTA-TCAG-CGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACT-GGTGGTGGAGTAGATCAAAG
** * ***
34302754 TCAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
* * * * *
34302799 AAAGCAGATCTTGCCTTCATGTA-TCAG-CGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACT-GGTGGTGGAGTAGATCAAAG
** * ***
34302843 TCAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
* * * *
34302888 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
* * *** * *
34302932 -AAACAGATATTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAG
1 AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
* * *
34302976 AAAACAGATCGTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
34303020 A
1 A
34303021 TAGTAGGTCC
Statistics
Matches: 323, Mismatches: 108, Indels: 31
0.70 0.23 0.07
Matches are distributed among these distances:
43 40 0.12
44 122 0.38
45 124 0.38
46 36 0.11
47 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (45 bp):
AAAACAGATCTTGTCTTCATGTACTGGTGGTGGAGTAGATCAAAG
Found at i:34303331 original size:45 final size:44
Alignment explanation
Indices: 34303232--34303542 Score: 343
Period size: 45 Copynumber: 7.0 Consensus size: 44
34303222 AATCGATTGA
*
34303232 AAAAGCAGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
1 AAAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* * ** * *
34303277 ATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
* * *
34303322 AAAATAGATCTTGTTTTCATGTACTAGCGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* * ** * *
34303366 ATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
* * *
34303411 AAAATAGATCTTGTTTTCATGTACTAGCGTGAAGTAGATCAAAG
1 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
* * ** * *
34303455 ATACCAGATCTTGTCTTCCCGTACTGGTGGTGAAGTAGATCGAAG
1 AAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
* *
34303500 AAAATAGATCTTGTCTTCATGTACTAGCGTGAAGTAGATCAAA
1 AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAA
34303543 TATAGAAGAT
Statistics
Matches: 212, Mismatches: 51, Indels: 7
0.79 0.19 0.03
Matches are distributed among these distances:
44 104 0.49
45 108 0.51
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (44 bp):
AAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
Found at i:34303817 original size:132 final size:132
Alignment explanation
Indices: 34303577--34303825 Score: 306
Period size: 132 Copynumber: 1.9 Consensus size: 132
34303567 TAGACAGCGA
* * *
34303577 AGCAGATCGAAGATGGCTGATTTTACCTCCCTGAGATTGCAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCTGATTTTACCTCCCTGAGATTACAGCGGAGTACATTGAAGCCAGTAAT
* * ** *
34303642 TCTATCTCCCTAGGCAACAGTGGAATAGATTAAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
66 TCTATCTCCCTAAGCAACAATGGAATAGATTAAAGACCACAGATCTCATCTCCCTAAGCAGTAGT
34303707 GG
131 GG
* *
34303709 AGCAGATCAAAGATGG-TGGATTTTACCTCCCTGAGGTTACAGCGGAGTACGTTGAAGCCAGT-A
1 AGCAGATCAAAGATGGCT-GATTTTACCTCCCTGAGATTACAGCGGAGTACATTGAAGCCAGTAA
* ** * * *
34303772 TTCCTATCTCCTTGAAGCTGCAATGGAGTGGATTAAA-ACCGCAGATCTCATCTC
65 TT-CTATCTCCCT-AAGCAACAATGGAATAGATTAAAGACCACAGATCTCATCTC
34303826 TCTGAAGTTA
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
131 4 0.04
132 77 0.79
133 17 0.17
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (132 bp):
AGCAGATCAAAGATGGCTGATTTTACCTCCCTGAGATTACAGCGGAGTACATTGAAGCCAGTAAT
TCTATCTCCCTAAGCAACAATGGAATAGATTAAAGACCACAGATCTCATCTCCCTAAGCAGTAGT
GG
Found at i:34305098 original size:21 final size:21
Alignment explanation
Indices: 34305074--34305117 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
34305064 TTAATATTGC
34305074 TATTATTATTATAACAT-TATA
1 TATTATTATTAT-ACATATATA
34305095 TATTATTATTATACATATATA
1 TATTATTATTATACATATATA
34305116 TA
1 TA
34305118 CGTGCATTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTATTATTATACATATATA
Found at i:34307469 original size:25 final size:25
Alignment explanation
Indices: 34307441--34307491 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
34307431 CCAAAATCTA
34307441 AAAAAAATTATTCTTTCCTCAAAGT
1 AAAAAAATTATTCTTTCCTCAAAGT
34307466 AAAAAAATTATTCTTTCCTCAAAGT
1 AAAAAAATTATTCTTTCCTCAAAGT
34307491 A
1 A
34307492 GTGTCGATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.16, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAAAATTATTCTTTCCTCAAAGT
Found at i:34308203 original size:31 final size:29
Alignment explanation
Indices: 34308161--34308224 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
34308151 ATCTTAAAAC
* *
34308161 TATACATGAATTTTGGTCTAATATGTAATTT
1 TATACAAGAATTTTGAT-T-ATATGTAATTT
*
34308192 TATACAAGAATTTTGATTTTATGTAATTT
1 TATACAAGAATTTTGATTATATGTAATTT
34308221 TATA
1 TATA
34308225 TATGAAGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 14 0.47
30 1 0.03
31 15 0.50
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (29 bp):
TATACAAGAATTTTGATTATATGTAATTT
Found at i:34310757 original size:25 final size:25
Alignment explanation
Indices: 34310723--34310774 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
34310713 TGTTATTTTA
*
34310723 ATATTAGTTTCACACTTAAACTTTG
1 ATATTAGTTTCACACTTAAACTCTG
*
34310748 ATATTAGTTTCCCACTTAAACTCTG
1 ATATTAGTTTCACACTTAAACTCTG
34310773 AT
1 AT
34310775 TAGTGTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (25 bp):
ATATTAGTTTCACACTTAAACTCTG
Found at i:34310758 original size:69 final size:69
Alignment explanation
Indices: 34310669--34310797 Score: 204
Period size: 69 Copynumber: 1.9 Consensus size: 69
34310659 CTTCTCCCAG
* * ** * *
34310669 TTAAACTTTGTTTTTAGTTTCCTGCTTAAACTTTGATTAGTGTATGTTATTTTAATATTAGTTTC
1 TTAAACTTTGATATTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTC
34310734 ACAC
66 ACAC
34310738 TTAAACTTTGATATTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTA
1 TTAAACTTTGATATTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTA
34310798 TTTTACCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 54 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.50
Consensus pattern (69 bp):
TTAAACTTTGATATTAGTTTCCCACTTAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTC
ACAC
Found at i:34323255 original size:19 final size:19
Alignment explanation
Indices: 34323231--34323279 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
34323221 TAAAAGCAAC
34323231 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
34323250 ACAACATGAGTCCAAATAA
1 ACAACATCAACCCAAATAA
34323269 ACAACATCAAC
1 ACAACATCAAC
34323280 AATACAACAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.55, C:0.29, G:0.04, T:0.12
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:34323467 original size:13 final size:13
Alignment explanation
Indices: 34323449--34323473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34323439 TCAATAAACC
34323449 AGCAACAATAACA
1 AGCAACAATAACA
34323462 AGCAACAATAAC
1 AGCAACAATAAC
34323474 GCACCAAACT
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:0.60, C:0.24, G:0.08, T:0.08
Consensus pattern (13 bp):
AGCAACAATAACA
Found at i:34335613 original size:8 final size:8
Alignment explanation
Indices: 34335600--34335631 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
34335590 CTATAAACTT
34335600 GAATGAAC
1 GAATGAAC
34335608 GAATGAAC
1 GAATGAAC
34335616 GAATGAAC
1 GAATGAAC
34335624 GAATGAAC
1 GAATGAAC
34335632 ATAAAGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.25, T:0.12
Consensus pattern (8 bp):
GAATGAAC
Found at i:34335864 original size:55 final size:55
Alignment explanation
Indices: 34335798--34335907 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
34335788 TCTAAAGCCT
*
34335798 AGATCTAAGGAGAAAATTATGCAAAATGAAAAAGTGTCTATAACATGTGTTGACA
1 AGATCTAAGGAGAAAATTATGCAAAATGAAAAAGTATCTATAACATGTGTTGACA
34335853 AGATCTAAGGAGAAAATTATGCAAAATGAAAAAGTATCTATAACATGTGTTGACA
1 AGATCTAAGGAGAAAATTATGCAAAATGAAAAAGTATCTATAACATGTGTTGACA
34335908 GAGCCTATTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.25
Consensus pattern (55 bp):
AGATCTAAGGAGAAAATTATGCAAAATGAAAAAGTATCTATAACATGTGTTGACA
Found at i:34346320 original size:17 final size:16
Alignment explanation
Indices: 34346297--34346340 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
34346287 ATCCTGATTT
34346297 TTAAAAAAAATAAAAA
1 TTAAAAAAAATAAAAA
* *
34346313 TCTAAAAAATATATAAA
1 T-TAAAAAAAATAAAAA
34346330 TTAAAAAAAAT
1 TTAAAAAAAAT
34346341 TCTCAAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (16 bp):
TTAAAAAAAATAAAAA
Found at i:34347090 original size:27 final size:27
Alignment explanation
Indices: 34347052--34347106 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
34347042 TGTAATAGCT
* *
34347052 AACCCATTTGAGAGATCTGAGTGGTGA
1 AACCCATTTGAGAGATCTAAGCGGTGA
34347079 AACCCATTTGAGAGATCTAAGCGGTGA
1 AACCCATTTGAGAGATCTAAGCGGTGA
34347106 A
1 A
34347107 GAAGTTCGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (27 bp):
AACCCATTTGAGAGATCTAAGCGGTGA
Found at i:34347453 original size:18 final size:19
Alignment explanation
Indices: 34347419--34347472 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
34347409 AAGAGGGGGA
*
34347419 GTATATTTTTATCATTT-TT
1 GTATATTTTTA-AATTTATT
34347438 GTATATTTTTAAATTTATT
1 GTATATTTTTAAATTTATT
* *
34347457 -AATAATTTTAAATTTA
1 GTATATTTTTAAATTTA
34347473 ATTTTTAGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (19 bp):
GTATATTTTTAAATTTATT
Found at i:34348173 original size:18 final size:16
Alignment explanation
Indices: 34348113--34348166 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
34348103 TGTCAAATGG
*
34348113 AAAACATAAATAAATA
1 AAAATATAAATAAATA
* **
34348129 AAAATAAAAATATTTAA
1 AAAATATAAATAAAT-A
34348146 AAACATATAAATAAATA
1 AAA-ATATAAATAAATA
34348163 AAAA
1 AAAA
34348167 GTTATAATCT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
16 12 0.41
17 8 0.28
18 9 0.31
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATATAAATAAATA
Found at i:34348540 original size:17 final size:19
Alignment explanation
Indices: 34348497--34348546 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
34348487 TTCTAGTTAT
* *
34348497 TTTAAATATTTATATATAT
1 TTTAAATTTTTATATATAA
*
34348516 TTTTAATTTTTA-ATA-AA
1 TTTAAATTTTTATATATAA
34348533 TTTAAA-TTTTATAT
1 TTTAAATTTTTATAT
34348547 TATTGTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 5 0.19
17 8 0.31
18 3 0.12
19 10 0.38
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAATTTTTATATATAA
Found at i:34348691 original size:11 final size:11
Alignment explanation
Indices: 34348675--34348704 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
34348665 TTATAGGCAT
*
34348675 AAGAAGTATAG
1 AAGAAGTATAA
34348686 AAGAAGTATAA
1 AAGAAGTATAA
34348697 AAGAAGTA
1 AAGAAGTA
34348705 GAGATCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (11 bp):
AAGAAGTATAA
Found at i:34352699 original size:16 final size:15
Alignment explanation
Indices: 34352680--34352737 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
34352670 GCCTTTTTTA
*
34352680 TATATATTTTTAATTG
1 TATATATTTTT-ATTT
34352696 TATATATTTTTTATTT
1 TATATA-TTTTTATTT
* *
34352712 TATAAATTTATATTT
1 TATATATTTTTATTT
34352727 TATATATTTTT
1 TATATATTTTT
34352738 TAAAATAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
15 17 0.47
16 14 0.39
17 5 0.14
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATATATTTTTATTT
Found at i:34359713 original size:16 final size:15
Alignment explanation
Indices: 34359686--34359719 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
34359676 ATAACTAGTA
*
34359686 TATAATTATATTTAT
1 TATAATTATATTAAT
34359701 TATAATATATATTAAT
1 TATAAT-TATATTAAT
34359717 TAT
1 TAT
34359720 TATCAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:34360503 original size:25 final size:26
Alignment explanation
Indices: 34360458--34360511 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
34360448 TTCTCCTAAA
*
34360458 TTTCAATTTTATTTAAGTATTTAAT-T
1 TTTCAATTTTATTGAAGTA-TTAATAT
*
34360484 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAAGTATTAATAT
34360509 TTT
1 TTT
34360512 ATACTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATTGAAGTATTAATAT
Found at i:34371177 original size:18 final size:18
Alignment explanation
Indices: 34371156--34371191 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34371146 TGTTAGTTAA
34371156 GACTATTTTGTAAAGTAG
1 GACTATTTTGTAAAGTAG
34371174 GACTATTTTGTAAAGTAG
1 GACTATTTTGTAAAGTAG
34371192 TTTTTGACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (18 bp):
GACTATTTTGTAAAGTAG
Found at i:34374420 original size:32 final size:30
Alignment explanation
Indices: 34374359--34374420 Score: 72
Period size: 32 Copynumber: 2.0 Consensus size: 30
34374349 TTTTTCCCTG
* *
34374359 AAAACTTTTACTCCTTCCCATTTACCCCCC
1 AAAACTTTTACTCCTTCCCATTCAACCCCC
34374389 AAAACTTTTACTCCCCTTCCC-TCTCAACCCCC
1 AAAACTTTTACT--CCTTCCCAT-TCAACCCCC
34374421 CAATCTACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 12 0.44
31 1 0.04
32 14 0.52
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.31
Consensus pattern (30 bp):
AAAACTTTTACTCCTTCCCATTCAACCCCC
Found at i:34374547 original size:30 final size:31
Alignment explanation
Indices: 34374513--34374572 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
34374503 AAACCTTTTA
*
34374513 TTTTCCCCCAAAATTTTTACT-CCTTCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
34374543 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
34374573 TCCCACATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:34375225 original size:5 final size:5
Alignment explanation
Indices: 34375215--34375261 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
34375205 GAACAAATAT
* *
34375215 ATTCG ATTCG ATTCG ATTCG ATTTCC ATCTC- ACTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG A-TTCG AT-TCG ATTCG ATTCG ATTCG A
34375262 GAAAATTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.06
5 28 0.78
6 6 0.17
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:34377277 original size:90 final size:90
Alignment explanation
Indices: 34377171--34377346 Score: 325
Period size: 90 Copynumber: 2.0 Consensus size: 90
34377161 TATTTAATTA
*
34377171 ATTTTTTATATTATTTAGGTAAAAATGTTGTACCATACATCGTTTCTTGACCTTTTTACCCCAAT
1 ATTTTTTATATTATTTAGGTAAAAATATTGTACCATACATCGTTTCTTGACCTTTTTACCCCAAT
* *
34377236 AATCTAAAAAATATAATAAAACATT
66 AATCCAAAAAACATAATAAAACATT
34377261 ATTTTTTATATTATTTAGGTAAAAATATTGTACCATACATCGTTTCTTGACCTTTTTACCCCAAT
1 ATTTTTTATATTATTTAGGTAAAAATATTGTACCATACATCGTTTCTTGACCTTTTTACCCCAAT
34377326 AATCCAAAAAACATAATAAAA
66 AATCCAAAAAACATAATAAAA
34377347 TATCAAATTG
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (90 bp):
ATTTTTTATATTATTTAGGTAAAAATATTGTACCATACATCGTTTCTTGACCTTTTTACCCCAAT
AATCCAAAAAACATAATAAAACATT
Found at i:34381626 original size:50 final size:50
Alignment explanation
Indices: 34381566--34381789 Score: 263
Period size: 50 Copynumber: 4.4 Consensus size: 50
34381556 TGATGGTCAC
*
34381566 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGTCACAT
* *
34381616 GTGTAATACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGTCGCAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGTCACAT
* * ** * * * * *
34381666 GTGTAATACTATGTGCAGGCTACTATGCATACC-GAATAGCTTCGATCACGT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAAT-G-ATAGGTCACAT
* * *
34381717 GTGTAGTACTATGTGCAGGCTACTACGTGTACTGGATAGTGAT-GGTCACAT
1 GTGTAGTACTATGTGCAGGCTACTACGTGTAC--CAAAATGATAGGTCACAT
34381768 GTGTAGTACTATGTGCAGGCTA
1 GTGTAGTACTATGTGCAGGCTA
34381790 TTATGTGAAC
Statistics
Matches: 149, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
49 3 0.02
50 80 0.54
51 62 0.42
52 1 0.01
53 1 0.01
54 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (50 bp):
GTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGGTCACAT
Found at i:34382041 original size:16 final size:16
Alignment explanation
Indices: 34382020--34382051 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34382010 TGATTGAAAG
*
34382020 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
34382036 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
34382052 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:34384876 original size:47 final size:48
Alignment explanation
Indices: 34384785--34384877 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 48
34384775 CATGGCAACA
* * *
34384785 TGTGATATGTGATTTCTGTATAAGACCATATCTGAGATATGGCATCGG
1 TGTGATATGTGACTACTGTATAAGACCATAGCTGAGATATGGCATCGG
* * *
34384833 TGTGATATGTG-CTACTGTGTAAGACCATAGCTGGGCTATGGCATC
1 TGTGATATGTGACTACTGTATAAGACCATAGCTGAGATATGGCATC
34384878 AATATGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 28 0.72
48 11 0.28
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (48 bp):
TGTGATATGTGACTACTGTATAAGACCATAGCTGAGATATGGCATCGG
Found at i:34385990 original size:175 final size:175
Alignment explanation
Indices: 34385699--34386049 Score: 657
Period size: 175 Copynumber: 2.0 Consensus size: 175
34385689 CTTACGAGTG
34385699 TAGTGTTACAGAAGTTTGTGTATGGAAGATTAATAATGTGGTCCGAAAAGTGAATGAATTAGCAA
1 TAGTGTTACAGAAGTTTGTGTATGGAAGATTAATAATGTGGTCCGAAAAGTGAATGAATTAGCAA
34385764 ATGAAGACAATATAAAAAGAGAGATATTGGATAGTTCTGAAAACTACTTAGATTATGCAAAGTTA
66 ATGAAGACAATATAAAAAGAGAGATATTGGATAGTTCTGAAAACTACTTAGATTATGCAAAGTTA
34385829 CTGTCACAAAAGAAGTTAAATCCAATTAAATAATTTATTCAGGTA
131 CTGTCACAAAAGAAGTTAAATCCAATTAAATAATTTATTCAGGTA
*
34385874 TAGTGTTGCAGAAGTTTGTGTATGGAAGATTAATAATGTGGTCCGAAAAGTGAATGAATTAGCAA
1 TAGTGTTACAGAAGTTTGTGTATGGAAGATTAATAATGTGGTCCGAAAAGTGAATGAATTAGCAA
*
34385939 ATGAAGACAATATAAAAAGAGAGATATTGGATAGTTCTGAAAACTACTTAGATTATGTAAAGTTA
66 ATGAAGACAATATAAAAAGAGAGATATTGGATAGTTCTGAAAACTACTTAGATTATGCAAAGTTA
* * *
34386004 CTGTCACAAGAGAAGTTAAATCCGATTAAATGATTTATTCAGGTA
131 CTGTCACAAAAGAAGTTAAATCCAATTAAATAATTTATTCAGGTA
34386049 T
1 T
34386050 GTTATTTAAA
Statistics
Matches: 171, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 171 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (175 bp):
TAGTGTTACAGAAGTTTGTGTATGGAAGATTAATAATGTGGTCCGAAAAGTGAATGAATTAGCAA
ATGAAGACAATATAAAAAGAGAGATATTGGATAGTTCTGAAAACTACTTAGATTATGCAAAGTTA
CTGTCACAAAAGAAGTTAAATCCAATTAAATAATTTATTCAGGTA
Found at i:34388003 original size:51 final size:50
Alignment explanation
Indices: 34387931--34388062 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 50
34387921 TGATAGGTCG
*
34387931 CATGTGTAATACTATGTGCAGGCTACTATGCATACCGGATAGCT-TCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAG-TAT-GATCA
* * ** * *
34387982 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGT-ATGATCA
*
34388033 CATGTGTAGTACTATGTGCAGGCTATTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
34388063 TGAACAGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 1 0.01
51 67 0.97
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGTATGATCA
Found at i:34388015 original size:101 final size:101
Alignment explanation
Indices: 34387878--34388062 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
34387868 AAAGTGATGG
*
34387878 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AAAATGATAGGTCGCATGTGTAATA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAATGAT-GGTCACATGTGTAATA
34387942 CTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
65 CTATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
* * *
34387979 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAAATGATGGTCACATGTGTAATA
*
34388044 CTATGTGCAGGCTATTATG
65 CTATGTGCAGGCTACTATG
34388063 TGAACAGGTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
101 39 0.51
102 32 0.42
103 6 0.08
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAATGATGGTCACATGTGTAATAC
TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Done.