Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 115 of 333
Found at i:37179834 original size:47 final size:47
Alignment explanation
Indices: 37179768--37180196 Score: 714
Period size: 47 Copynumber: 9.1 Consensus size: 47
37179758 GAAATGATAG
37179768 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37179815 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
37179864 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37179911 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37179958 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
37180005 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37180052 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37180099 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
37180146 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
37180193 TAAG
1 TAAG
37180197 TCCCGAAGGG
Statistics
Matches: 361, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 314 0.87
49 47 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:37180371 original size:37 final size:37
Alignment explanation
Indices: 37180315--37180393 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
37180305 CCGAGCTCTA
* * *
37180315 AAGACCCGATGACTACGTGTG-GGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAG-ATTATGTCCGGGT
*
37180352 AAGACCCGATAACTTCGTGTGAAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
37180389 AAGAC
1 AAGAC
37180394 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAAGATTATGTCCGGGT
Found at i:37184045 original size:47 final size:47
Alignment explanation
Indices: 37183994--37184527 Score: 726
Period size: 47 Copynumber: 11.1 Consensus size: 47
37183984 TTAGGATTTT
* *
37183994 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
***
37184041 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCGTATGTGTGATAAGGCCGAATGGCCA
37184092 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* *
37184139 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* ***
37184186 ATGTGATGAACGTGAACCCGCATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA----CATGCGTATGTGTGATAAGGCCGAATGGCCA
37184237 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
*** *
37184284 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCGTATGTGTGATAAGGCCGAATGGCCA
*
37184337 ATATGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
37184384 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
* * *
37184431 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
** * * *
37184478 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
37184525 ATG
1 ATG
37184528 CGAAACGTGT
Statistics
Matches: 436, Mismatches: 37, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
47 306 0.70
48 1 0.00
49 2 0.00
51 85 0.19
52 1 0.00
53 41 0.09
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
Found at i:37184144 original size:145 final size:144
Alignment explanation
Indices: 37183994--37184527 Score: 783
Period size: 145 Copynumber: 3.7 Consensus size: 144
37183984 TTAGGATTTT
* * *
37183994 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
37184059 CGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
37184124 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
* * * *
37184139 CTGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
37184204 CGCATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 CG-ATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
37184269 AAGGCCGAATGGCCA
130 AAGGCCGAATGGCCA
** * *
37184284 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATATGATGAATG
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATG
***
37184349 TGAA--C-ATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
60 TGAACCCGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGT
37184411 GTGATAAGGCCGAATGGCCA
125 GTGATAAGGCCGAATGGCCA
* * *
37184431 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
37184496 TGA-ATATATGTG-G-TAAGGCCGAATGGCTAATG
66 CGATATATATGTGTGATAAGGCCGAATGGCCAATG
37184528 CGAAACGTGT
Statistics
Matches: 354, Mismatches: 26, Indels: 22
0.88 0.06 0.05
Matches are distributed among these distances:
141 58 0.16
142 1 0.00
143 6 0.02
144 1 0.00
145 155 0.44
146 2 0.01
147 90 0.25
149 1 0.00
151 40 0.11
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.26
Consensus pattern (144 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
CGATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATA
AGGCCGAATGGCCA
Found at i:37184241 original size:24 final size:24
Alignment explanation
Indices: 37184213--37184288 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
37184203 CCGCATATAT
37184213 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
37184237 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
37184260 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
37184284 ATGTG
1 ATGTG
37184289 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:37184387 original size:24 final size:24
Alignment explanation
Indices: 37184360--37184435 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
37184350 GAACATGCGT
37184360 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * **
37184384 ATGTGATGA-ATGTG--AACAT-GCGT
1 ATGTG-TGATAAG-GCCGA-ATGGCCA
37184407 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
37184431 ATGTG
1 ATGTG
37184436 ATGAATGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 4 0.11
23 12 0.32
24 17 0.46
25 4 0.11
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:37184591 original size:46 final size:46
Alignment explanation
Indices: 37184501--37184591 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
37184491 GAACATGAAT
* * * **
37184501 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACAAGATGG
* * *
37184547 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACAAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACAAGATG
37184592 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACAAGATGG
Found at i:37184955 original size:37 final size:37
Alignment explanation
Indices: 37184736--37184954 Score: 384
Period size: 37 Copynumber: 5.9 Consensus size: 37
37184726 GGAAATATAT
*
37184736 TCCGGGTAAGACTCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
37184773 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37184810 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
37184847 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
37184884 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
37184921 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
37184955 TCGTCTGAGC
Statistics
Matches: 175, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 175 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:37193916 original size:7 final size:7
Alignment explanation
Indices: 37193904--37193939 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
37193894 ATCTAAAATA
37193904 AATGTCC
1 AATGTCC
37193911 AATGTCC
1 AATGTCC
37193918 AATGTCC
1 AATGTCC
37193925 AATGTCC
1 AATGTCC
37193932 AATGTCC
1 AATGTCC
37193939 A
1 A
37193940 TTTACAACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.28
Consensus pattern (7 bp):
AATGTCC
Found at i:37195197 original size:41 final size:41
Alignment explanation
Indices: 37195140--37195217 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
37195130 AATTTCCTTA
*
37195140 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGGCGTGGGTG
1 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTGGGTG
37195181 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTG
1 TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTG
37195218 TGATCACCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (41 bp):
TTTAGAAGTGTCACACGCCCGTGCATGAGGGGCCGTGGGTG
Found at i:37200302 original size:25 final size:25
Alignment explanation
Indices: 37200269--37200338 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
37200259 CTCTTTTAAT
*
37200269 AACTAGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
37200294 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
37200319 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
37200339 AGCACTTCCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:37200392 original size:16 final size:16
Alignment explanation
Indices: 37200371--37200401 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37200361 AACCCAACCC
*
37200371 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
37200387 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
37200402 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:37200581 original size:27 final size:27
Alignment explanation
Indices: 37200551--37200681 Score: 156
Period size: 27 Copynumber: 4.9 Consensus size: 27
37200541 ATGGTAATAT
* *
37200551 TACCCCACAAGGGTATCTCGATAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
* * * *
37200578 TACCCTATAGGGGTATTTCAATATTTC
1 TACCCTACAAGGGTATTTCGATAATTC
* *
37200605 TACCCTACAAGGGTATTTTGGTAATTC
1 TACCCTACAAGGGTATTTCGATAATTC
*
37200632 TACCCTAC-AGGAGTATTTCAATAATTC
1 TACCCTACAAGG-GTATTTCGATAATTC
*
37200659 TACCCTACAGGGGTATTTCGATA
1 TACCCTACAAGGGTATTTCGATA
37200682 TTTTACAAAT
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
26 3 0.04
27 80 0.94
28 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (27 bp):
TACCCTACAAGGGTATTTCGATAATTC
Found at i:37200609 original size:54 final size:54
Alignment explanation
Indices: 37200551--37200681 Score: 190
Period size: 54 Copynumber: 2.4 Consensus size: 54
37200541 ATGGTAATAT
* * * * *
37200551 TACCCCACAAGGGTATCTCGATAATTCTACCCTATAGGGGTATTTCAATATTTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTC
* *
37200605 TACCCTACAAGGGTATTTTGGTAATTCTACCCTACAGGAGTATTTCAATAATTC
1 TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTC
*
37200659 TACCCTACAGGGGTATTTCGATA
1 TACCCTACAAGGGTATTTCGATA
37200682 TTTTACAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 67 1.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (54 bp):
TACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGAGTATTTCAATAATTC
Found at i:37200727 original size:27 final size:26
Alignment explanation
Indices: 37200638--37200810 Score: 127
Period size: 27 Copynumber: 6.5 Consensus size: 26
37200628 ATTCTACCCT
* * * **
37200638 ACAGGAGTATTTCAATAATTCTACCCT
1 ACAGGGGTATTTCGATAATTTTA-CAA
37200665 ACAGGGGTATTTCGAT-ATTTTACAA
1 ACAGGGGTATTTCGATAATTTTACAA
* *
37200690 ATC-GAGAGTATTTCGATAATTTCACAA
1 A-CAG-GGGTATTTCGATAATTTTACAA
* *
37200717 ATCAGGGGTATTTTGGTAATTTTACAA
1 A-CAGGGGTATTTCGATAATTTTACAA
* * * *
37200744 GCCAGGAGTATTTTGGTAATTTTACAA
1 -ACAGGGGTATTTCGATAATTTTACAA
*
37200771 ACTAGGGGTATTT-TAGTAATTTTACAA
1 AC-AGGGGTATTTCGA-TAATTTTACAA
37200798 ACTAGGGGTATTT
1 AC-AGGGGTATTT
37200811 TGGCAATTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.02
26 18 0.15
27 100 0.82
28 1 0.01
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (26 bp):
ACAGGGGTATTTCGATAATTTTACAA
Found at i:37200756 original size:54 final size:54
Alignment explanation
Indices: 37200615--37200874 Score: 192
Period size: 54 Copynumber: 4.8 Consensus size: 54
37200605 TACCCTACAA
* ** * * **
37200615 GGGTATTTTGGTAATTCTACCCTA-CAGGAGTATTTCAATAATTCTAC-CCTACAG
1 GGGTATTTTGGTAATTTTA-CAAACCAGGAGTATTTCGATAATTTTACAAAT-CAG
* * * *
37200669 GGGTATTTCGAT-ATTTTACAAATC-GAGAGTATTTCGATAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG-GAGTATTTCGATAATTTTACAAATCAG
* * *
37200722 GGGTATTTTGGTAATTTTACAAGCCAGGAGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAACCAGGAGTATTTCGATAATTTTACAAATC-AG
* * * * ** **
37200776 GGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGCAATTTTACTGATC-G
1 GGGTATTTTGGTAATTTTACAAACCAGGAGTATTTCGATAATTTTACAAATCAG
** *
37200829 AGGGTATTTTGGTAATTTTGTAAACCAAGG-GTATTTCAATAATTTT
1 -GGGTATTTTGGTAATTTTACAAACC-AGGAGTATTTCGATAATTTT
37200875 GTAAATCGAG
Statistics
Matches: 165, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
52 3 0.02
53 38 0.23
54 119 0.72
55 5 0.03
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAGGAGTATTTCGATAATTTTACAAATCAG
Found at i:37200811 original size:27 final size:27
Alignment explanation
Indices: 37200667--37200847 Score: 172
Period size: 27 Copynumber: 6.7 Consensus size: 27
37200657 TCTACCCTAC
* *
37200667 AGGGGTATTTCGAT-ATTTTACAAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * * * *
37200692 CGAGAGTATTTCGATAATTTCACAAA-T
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
37200719 CAGGGGTATTTTGGTAATTTTACAAGCC
1 -AGGGGTATTTTGGTAATTTTACAAACT
*
37200747 AGGAGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
37200774 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* **
37200801 AGGGGTATTTTGGCAATTTTACTGA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
*
37200827 CGAGGGTATTTTGGTAATTTT
1 AG-GGGTATTTTGGTAATTTT
37200848 GTAAACCAAG
Statistics
Matches: 130, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
25 1 0.01
26 13 0.10
27 115 0.88
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:37200861 original size:81 final size:81
Alignment explanation
Indices: 37200681--37200874 Score: 221
Period size: 81 Copynumber: 2.4 Consensus size: 81
37200671 GTATTTCGAT
* * * * * *
37200681 ATTTTACAAATCGAGAGTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGC
1 ATTTTACAAACCAAGGGTATTTCAATAATTTTACAAATCAGGGGTATTTTGGCAATTTTACAAGC
37200746 CAGGAGTATTTTGGTA
66 CAGGAGTATTTTGGTA
* * * * *
37200762 ATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAA-CTAGGGGTATTTTGGCAATTTTACTGA
1 ATTTTACAAACCAAGGGTATTTCAATAATTTTACAAATC-AGGGGTATTTTGGCAATTTTAC-AA
* *
37200826 TCGAGG-GTATTTTGGTA
64 GCCAGGAGTATTTTGGTA
**
37200843 ATTTTGTAAACCAAGGGTATTTCAATAATTTT
1 ATTTTACAAACCAAGGGTATTTCAATAATTTT
37200875 GTAAATCGAG
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
80 1 0.01
81 86 0.93
82 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
ATTTTACAAACCAAGGGTATTTCAATAATTTTACAAATCAGGGGTATTTTGGCAATTTTACAAGC
CAGGAGTATTTTGGTA
Found at i:37200898 original size:27 final size:27
Alignment explanation
Indices: 37200876--37201230 Score: 548
Period size: 27 Copynumber: 13.1 Consensus size: 27
37200866 AATAATTTTG
* *
37200876 TAAATCGAGGATAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
37200903 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
37200930 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
37200957 TAAATCAAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* * *
37200984 TAAATTGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
37201011 TAAATCGAGGGTAAAACGATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
37201038 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
37201065 TAAATCGAGGATAAAATGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
37201092 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
37201119 TAAATTGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
* *
37201146 TAAATCGAGGGTAAAATGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTA
37201173 TAAATCGAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
*
37201200 TAAATCGAGGGTAAAACGGTAAATCTA
1 TAAATCGAGGGTAAAACGGTAATTCTA
37201227 TAAA
1 TAAA
37201231 ATTTGAGGGC
Statistics
Matches: 299, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 299 1.00
ACGTcount: A:0.42, C:0.09, G:0.21, T:0.28
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTA
Found at i:37203484 original size:41 final size:44
Alignment explanation
Indices: 37203434--37203516 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
37203424 GCGATTGAAA
*
37203434 TTAGCTTCGGCTA-CT-A-AAGGCACTAAGTGTGTGATATCGAC
1 TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCGAC
* * *
37203475 TTAGCTTCGGTTAGTTGAGATGGCACTAAGTGTGTGAAATCG
1 TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCG
37203517 TTCTATCTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 12 0.34
42 1 0.03
43 1 0.03
44 21 0.60
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (44 bp):
TTAGCTTCGGCTAGCTGAGAAGGCACTAAGTGTGTGAAATCGAC
Found at i:37208733 original size:40 final size:41
Alignment explanation
Indices: 37208696--37208841 Score: 151
Period size: 40 Copynumber: 3.7 Consensus size: 41
37208686 GCTACTCGTT
37208696 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGATCATAGCCCGGATT-TAGTAACTCGCA
* *
37208736 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCATAGCCCGGATTTAGTAACTCGCA
* * * * * *
37208776 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGATCATAGCCCGGATTTAGTAAC-TCGCA
*
37208817 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCATAGCCCGGA
37208842 CATCATTCAA
Statistics
Matches: 95, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
39 3 0.03
40 79 0.83
41 13 0.14
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCATAGCCCGGATTTAGTAACTCGCA
Found at i:37216684 original size:40 final size:41
Alignment explanation
Indices: 37216647--37216792 Score: 142
Period size: 40 Copynumber: 3.7 Consensus size: 41
37216637 GCTACTCGTT
37216647 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGATCATAGCCCGGATT-TAGTAACTCGCA
* *
37216687 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGATCATAGCCCGGATTTAGTAACTCGCA
* * * * * *
37216727 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGATCATAGCCCGGATTTAGTAAC-TCGCA
* *
37216768 CAAA-GCTTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCATAGCCCGGA
37216793 CATCATTCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
39 3 0.03
40 78 0.83
41 13 0.14
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGATCATAGCCCGGATTTAGTAACTCGCA
Found at i:37221702 original size:80 final size:80
Alignment explanation
Indices: 37221464--37221707 Score: 323
Period size: 80 Copynumber: 3.0 Consensus size: 80
37221454 TGGATGACAA
* * * **
37221464 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGGCTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
* *
37221528 GTGCGAGTTACTATAT
65 GTGTGAGATACTATAT
* *
37221544 CCAGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
37221609 TGCT-AGATACTATAT
66 TG-TGAGATACTATAT
* * *
37221624 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGTATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
37221689 AGTGAG-TAGCTATAT
66 TGTGAGATA-CTATAT
37221704 CCGG
1 CCGG
37221708 TTCAATCCCG
Statistics
Matches: 145, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 4 0.03
80 141 0.97
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGTGAGATACTATAT
Found at i:37221702 original size:120 final size:120
Alignment explanation
Indices: 37221464--37221707 Score: 350
Period size: 120 Copynumber: 2.0 Consensus size: 120
37221454 TGGATGACAA
*
37221464 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGGCTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
* * *
37221529 TGCGAGTTACTATATCCAGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
* *
37221584 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGATAAGTCCCGAAGGCATTTGCGCTAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* * * *
37221647 TGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGTATTCGAGTGAG-TAGCTATAT
64 TGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTATAT
37221704 CCGG
1 CCGG
37221708 TTCAATCCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
119 3 0.03
120 107 0.96
121 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (120 bp):
CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTATAT
Found at i:37221707 original size:40 final size:40
Alignment explanation
Indices: 37221464--37221682 Score: 332
Period size: 40 Copynumber: 5.5 Consensus size: 40
37221454 TGGATGACAA
* * * **
37221464 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGGCTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
37221504 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37221544 CCAGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
37221584 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGATACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
37221624 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
37221664 CCGGGCTATGTCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37221683 TATTCGAGTG
Statistics
Matches: 164, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.01
40 163 0.99
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:37222702 original size:18 final size:18
Alignment explanation
Indices: 37222679--37222715 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
37222669 AGAAGTCATG
37222679 CCATATATGTATAGATTC
1 CCATATATGTATAGATTC
37222697 CCATATATGTATAGATTC
1 CCATATATGTATAGATTC
37222715 C
1 C
37222716 TTTTCGAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (18 bp):
CCATATATGTATAGATTC
Found at i:37229569 original size:40 final size:40
Alignment explanation
Indices: 37229514--37229711 Score: 274
Period size: 40 Copynumber: 5.0 Consensus size: 40
37229504 ATGATAACCT
* * *
37229514 GGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCG
*
37229554 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
*
37229594 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
37229634 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
* * * * *
37229674 GGCTATGTCCCAAAGGTATTCGAGCGAG-TAGCTATATC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
37229712 TGGTTCAATC
Statistics
Matches: 144, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
39 3 0.02
40 141 0.98
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
Found at i:37234860 original size:26 final size:26
Alignment explanation
Indices: 37234806--37234886 Score: 96
Period size: 26 Copynumber: 3.2 Consensus size: 26
37234796 GGCTATATAA
**
37234806 CAGGAAGCTCAT-AAGAGCCA-TAAT
1 CAGGAAGCTCATAAAGAGATATTAAT
* *
37234830 CAGGAAGTTCATAAAGA-ACTTTTAAT
1 CAGGAAGCTCATAAAGAGA-TATTAAT
37234856 CAGGAAGCTCATAAAGAGATATTAAT
1 CAGGAAGCTCATAAAGAGATATTAAT
37234882 CAGGA
1 CAGGA
37234887 GCTTCAGGTA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.23
25 4 0.09
26 31 0.66
27 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (26 bp):
CAGGAAGCTCATAAAGAGATATTAAT
Found at i:37238806 original size:79 final size:82
Alignment explanation
Indices: 37238671--37238854 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 82
37238661 TGAATGATGC
*
37238671 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
37238735 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATAAT
* * * * **
37238751 CCGGGCTAAG-CCTGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
37238813 TGTGCGAGTTACTATAAT
65 TGTGCGAGATACTATAAT
*
37238831 -CGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37238855 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAAT
Found at i:37238861 original size:40 final size:40
Alignment explanation
Indices: 37238671--37238854 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
37238661 TGAATGATGC
* * * *
37238671 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAT
* * *
37238711 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
37238751 CCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
37238790 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AAT
*
37238831 -CGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37238855 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 79 0.64
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:37238876 original size:79 final size:79
Alignment explanation
Indices: 37238723--37238887 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
37238713 GGACTAAGAT
* * **
37238723 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
37238788 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37238802 CCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
37238865 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37238881 CCGAAGG
1 CCGAAGG
37238888 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
79 48 0.65
80 26 0.35
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37249978 original size:24 final size:24
Alignment explanation
Indices: 37249932--37250022 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
37249922 AAGCTCCTCC
* * *
37249932 TGAGCTGATGAACAGTAATCTCTTT
1 TGAGCTGA-AAACGGTAAGCTCTTT
*
37249957 TGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGAAAACGGTAAGCTCTTT
37249981 TGAGCT-AAATA--GTAAGCTCTTT
1 TGAGCTGAAA-ACGGTAAGCTCTTT
** *
37250003 CAAGCTG-AATCGGTAAGCTC
1 TGAGCTGAAAACGGTAAGCTC
37250023 CAATGAGTTG
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
22 16 0.30
23 11 0.20
24 19 0.35
25 8 0.15
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (24 bp):
TGAGCTGAAAACGGTAAGCTCTTT
Found at i:37250008 original size:22 final size:23
Alignment explanation
Indices: 37249970--37250022 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
37249960 GCTGAAAACG
*
37249970 GTAAGCTCTATTGAGCTAAAT-A
1 GTAAGCTCTATTAAGCTAAATCA
* *
37249992 GTAAGCTCT-TTCAAGCTGAATCG
1 GTAAGCTCTATT-AAGCTAAATCA
37250015 GTAAGCTC
1 GTAAGCTC
37250023 CAATGAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 16 0.62
23 8 0.31
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
GTAAGCTCTATTAAGCTAAATCA
Found at i:37250009 original size:46 final size:46
Alignment explanation
Indices: 37249932--37250055 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
37249922 AAGCTCCTCC
* * * *
37249932 TGAGCTGATGAACAGTAATCTCTTTTGAGCTGAAAACGGTAAGCTCTAT
1 TGAGCTGA--AACAGTAAGCTCTTTCGAGCTG-AAACGGTAAGCTCCAA
* * *
37249981 TGAGCT-AAATAGTAAGCTCTTTCAAGCTGAATCGGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTTTCGAGCTGAAACGGTAAGCTCCAA
* *
37250026 TGAGTTGAAACAGTAAGCTTTTTCGAGCTG
1 TGAGCTGAAACAGTAAGCTCTTTCGAGCTG
37250056 TGGTGAGTCC
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
45 18 0.29
46 38 0.60
48 1 0.02
49 6 0.10
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.30
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTCTTTCGAGCTGAAACGGTAAGCTCCAA
Found at i:37253598 original size:37 final size:37
Alignment explanation
Indices: 37253548--37253626 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
37253538 TTATTACGAA
* * *
37253548 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
37253585 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
37253622 GTCTT
1 GTCTT
37253627 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:37253832 original size:47 final size:47
Alignment explanation
Indices: 37253745--37254388 Score: 883
Period size: 47 Copynumber: 13.4 Consensus size: 47
37253735 CCTTTCGGGA
* * * * * * * *
37253745 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37253792 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
37253839 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37253886 CTTATTACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37253933 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37253980 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37254027 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37254078 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37254125 CTTATCACACATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37254172 CTTATTACATATATACATATACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATAC----ACTTTCACATTCATCACATCGGCCATTAGGC
*
37254223 CTTATCACATATATACATACACTTTCTCATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
37254274 CTTATCACATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37254323 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37254370 CTTATCACACATATACACT
1 CTTATCACATATATACACT
37254389 CTCTTGGCTG
Statistics
Matches: 548, Mismatches: 37, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
47 364 0.66
48 1 0.00
49 61 0.11
50 1 0.00
51 113 0.21
53 4 0.01
55 4 0.01
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37254112 original size:145 final size:141
Alignment explanation
Indices: 37253796--37254388 Score: 925
Period size: 145 Copynumber: 4.1 Consensus size: 141
37253786 CTCGGCCCTG
* *
37253796 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
*
37253861 ACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCG
66 ACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCT
37253926 ATTAGGCCTTA
131 ATTAGGCCTTA
* *
37253937 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
*
37254002 ACATTCATCACATCGGCTATTAGGCCTTATTACATATATACATACACTTTCACATTCATCACATC
66 ACATTCATCACATCGGCCATTAGGCCTTATTAC--ATAT--ATACACTTTCACATTCATCACATC
37254067 GGCTATTAGGCCTTA
127 GGCTATTAGGCCTTA
* *
37254082 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTC
1 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
* *
37254147 ACATTCATCACATCAGCTATTAGGCCTTATTACATATATACATATACTTTCACATTCATCACATC
66 ACATTCATCACATCGGCCATTAGGCCTTATTACATATATAC----ACTTTCACATTCATCACATC
* *
37254212 AGCCATTAGGCCTTA
127 GGCTATTAGGCCTTA
* * *
37254227 TCACATATATACATACACTTTCTCATTCATCACATCGGCCATTAGGCCTTATCACATATACATAC
1 TCAC--ACAT--ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT--ATAC
37254292 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACA
60 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACA
37254357 TCGGCTATTAGGCCTTA
125 TCGGCTATTAGGCCTTA
37254374 TCACACATATACACT
1 TCACACATATACACT
37254389 CTCTTGGCTG
Statistics
Matches: 419, Mismatches: 19, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
141 97 0.23
143 15 0.04
145 175 0.42
147 40 0.10
149 43 0.10
151 49 0.12
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.33
Consensus pattern (141 bp):
TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCT
ATTAGGCCTTA
Found at i:37261775 original size:24 final size:24
Alignment explanation
Indices: 37261731--37261809 Score: 90
Period size: 22 Copynumber: 3.3 Consensus size: 24
37261721 AGCTCCTCCA
* *
37261731 GAGCTGATGAACAATAAGCTCTTTT
1 GAGCTGA-AAACAGTAAGCTCTTTT
* *
37261756 GAGCTGAAAACGGTAAGCTCTATT
1 GAGCTGAAAACAGTAAGCTCTTTT
*
37261780 GAGCTG--AACAGTAAGCTCTTTC
1 GAGCTGAAAACAGTAAGCTCTTTT
37261802 GAGCTGAA
1 GAGCTGAA
37261810 TCAATAAGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
22 19 0.42
24 19 0.42
25 7 0.16
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.27
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCTTTT
Found at i:37261796 original size:22 final size:22
Alignment explanation
Indices: 37261738--37261842 Score: 86
Period size: 22 Copynumber: 4.6 Consensus size: 22
37261728 CCAGAGCTGA
* *
37261738 TGAACAATAAGCTCTTTTGAGC
1 TGAACAGTAAGCTCTATTGAGC
*
37261760 TGAAAACGGTAAGCTCTATTGAGC
1 TG--AACAGTAAGCTCTATTGAGC
37261784 TGAACAGTAAGCTCT-TTCGAGC
1 TGAACAGTAAGCTCTATT-GAGC
* * * * *
37261806 TGAATCAATAAGTTCCAATAAGC
1 TGAA-CAGTAAGCTCTATTGAGC
37261829 TGAAACAGTAAGCT
1 TG-AACAGTAAGCT
37261843 TCTTCGAGCT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
21 2 0.03
22 22 0.33
23 20 0.30
24 22 0.33
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATTGAGC
Found at i:37261852 original size:23 final size:23
Alignment explanation
Indices: 37261731--37261853 Score: 74
Period size: 23 Copynumber: 5.3 Consensus size: 23
37261721 AGCTCCTCCA
* * *
37261731 GAGCTGATGAACAATAAGCTCTTTT
1 GAGCTGA--AACAGTAAGCTCATTC
*
37261756 GAGCTGAAAACGGTAAGCTCTATT-
1 GAGCTG-AAACAGTAAGCTC-ATTC
*
37261780 GAGCTG-AACAGTAAGCTCTTTC
1 GAGCTGAAACAGTAAGCTCATTC
* * * *
37261802 GAGCTGAATCAATAAGTTCCAAT-
1 GAGCTGAAACAGTAAGCT-CATTC
*
37261825 AAGCTGAAACAGTAAGCTTC-TTC
1 GAGCTGAAACAGTAAGC-TCATTC
37261848 GAGCTG
1 GAGCTG
37261854 TGGTGAGTCT
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
21 2 0.03
22 18 0.24
23 27 0.36
24 19 0.25
25 8 0.11
26 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATTC
Found at i:37264924 original size:46 final size:46
Alignment explanation
Indices: 37264866--37264992 Score: 166
Period size: 46 Copynumber: 2.8 Consensus size: 46
37264856 TATCGCGAGA
* ** *
37264866 CCGATGCATGTCCCAGACATGTCTTACGCTAGCTTTCGT-CTCAGTG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGCTCAG-G
* *
37264912 CCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATGCTCTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGCTCAGG
* *
37264958 CTGATGCATGTCCTAGACATGTCTTACACTAGCAC
1 CCGATGCATGTCCCAGACATGTCTTACACTAGCAC
37264993 ACATATGACC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
46 67 0.94
47 4 0.06
ACGTcount: A:0.20, C:0.31, G:0.20, T:0.28
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATGCTCAGG
Found at i:37277131 original size:12 final size:12
Alignment explanation
Indices: 37277114--37277139 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37277104 CATTCCGAAG
37277114 TATATATATACA
1 TATATATATACA
37277126 TATATATATACA
1 TATATATATACA
37277138 TA
1 TA
37277140 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:37277651 original size:27 final size:27
Alignment explanation
Indices: 37277620--37277794 Score: 181
Period size: 27 Copynumber: 6.4 Consensus size: 27
37277610 TAAATTGTAC
*
37277620 AGCACTAGGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37277647 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37277673 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
37277701 GGCACTAAGTGTGCGAGTTTGACCATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37277729 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37277756 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37277783 AGCACTGAGTGT
1 AGCACTAAGTGT
37277795 ACGGACTCAA
Statistics
Matches: 125, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 101 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37277737 original size:82 final size:81
Alignment explanation
Indices: 37277621--37277776 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
37277611 AAATTGTACA
* * * *
37277621 GCACTAGGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37277685 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37277702 GCACTAAGTGTGCGAGTTTGACCATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37277767 TGCGAGTTGA
65 TGCGAATTGA
37277777 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37277761 original size:55 final size:54
Alignment explanation
Indices: 37277620--37277774 Score: 177
Period size: 55 Copynumber: 2.9 Consensus size: 54
37277610 TAAATTGTAC
* * ** *
37277620 AGCACTAGGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAACATG
* * ** *
37277673 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACCATG
1 A-GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAACATG
* *
37277728 TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTT
1 -AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTT
37277775 GATTATATAG
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 37 0.44
55 45 0.54
56 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGTTTGAACATG
Found at i:37277788 original size:82 final size:81
Alignment explanation
Indices: 37277617--37277794 Score: 205
Period size: 82 Copynumber: 2.2 Consensus size: 81
37277607 GATTAAATTG
* * * *
37277617 TACAGCACTAGGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37277682 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37277698 TGCGGCACTAAGTGTGCGAGTTTGACCATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37277762 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37277780 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
37277795 ACGGACTCAA
Statistics
Matches: 79, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.22
82 62 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37283114 original size:18 final size:18
Alignment explanation
Indices: 37283093--37283127 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37283083 TTTTTCTTTT
37283093 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
37283111 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
37283128 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:37292025 original size:46 final size:45
Alignment explanation
Indices: 37291928--37292043 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 45
37291918 TTCACGAGAC
* *
37291928 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATAG
* * * *
37291974 CGATGCATGTCTCAGACATGTCTTACACTGGCTCTCATGCT-GTGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCAT-CTAATAG
* *
37292019 CTGATGCATGGCCCAAACATGTCTT
1 C-GATGCATGTCCCAGACATGTCTT
37292044 TGACTAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.03
46 55 0.93
47 2 0.03
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATAG
Found at i:37296038 original size:30 final size:30
Alignment explanation
Indices: 37296002--37296062 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
37295992 GAAATGACCT
37296002 TTCCTAGTTTCCTTATTAAGCCTACGGTAG
1 TTCCTAGTTTCCTTATTAAGCCTACGGTAG
*
37296032 TTCCTAGTTTCCTTATTAAGCCTATGGTAG
1 TTCCTAGTTTCCTTATTAAGCCTACGGTAG
37296062 T
1 T
37296063 CCATACACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.21, G:0.16, T:0.43
Consensus pattern (30 bp):
TTCCTAGTTTCCTTATTAAGCCTACGGTAG
Found at i:37297895 original size:28 final size:29
Alignment explanation
Indices: 37297864--37297985 Score: 104
Period size: 29 Copynumber: 4.2 Consensus size: 29
37297854 GTGAGCATGA
*
37297864 ATAT-AAGGTGATTTGGGCGTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAACGGGCC
*
37297892 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAACGGGCC
* ** * * *
37297921 ATATGAATATGAATTGGGCCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAACGGGCC
* ** * *
37297950 ATATGAATATGAATTGGGCC-AGATGGGCC
1 ATATAAAGGTGATTTGGGCCTA-ACGGGCC
37297979 ATATAAA
1 ATATAAA
37297986 TGAGATTGGG
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
28 4 0.05
29 79 0.95
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAACGGGCC
Found at i:37297951 original size:58 final size:57
Alignment explanation
Indices: 37297887--37297997 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 57
37297877 TGGGCGTAAC
* *
37297887 GGGCCATATAAAGGTGATTTGGGCCTA-ATGGGCCATATGAATATGA-ATTGGGCCTGAT
1 GGGCCATATAAAGATGAATTGGGCC-AGATGGGCCATAT-AA-ATGAGATTGGGCCTGAT
* *
37297945 GGGCCATATGAATATGAATTGGGCCAGATGGGCCATATAAATGAGATTGGGCC
1 GGGCCATATAAAGATGAATTGGGCCAGATGGGCCATATAAATGAGATTGGGCC
37297998 AAGTGGGAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
56 4 0.09
57 11 0.23
58 32 0.68
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (57 bp):
GGGCCATATAAAGATGAATTGGGCCAGATGGGCCATATAAATGAGATTGGGCCTGAT
Found at i:37298010 original size:28 final size:27
Alignment explanation
Indices: 37297929--37298015 Score: 77
Period size: 29 Copynumber: 3.1 Consensus size: 27
37297919 CCATATGAAT
* **
37297929 ATGAATTGGGCCTGATGGGCCATATGAA
1 ATGAATTGGGCCAGATGGGAAATAT-AA
**
37297957 TATGAATTGGGCCAGATGGGCCATATAA
1 -ATGAATTGGGCCAGATGGGAAATATAA
*
37297985 ATGAGATTGGGCCA-AGTGGGAAATATGA
1 ATGA-ATTGGGCCAGA-TGGGAAATATAA
37298013 ATG
1 ATG
37298016 TATGTAGGGA
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
27 5 0.10
28 23 0.44
29 24 0.46
ACGTcount: A:0.32, C:0.11, G:0.32, T:0.24
Consensus pattern (27 bp):
ATGAATTGGGCCAGATGGGAAATATAA
Found at i:37307588 original size:40 final size:40
Alignment explanation
Indices: 37307533--37307808 Score: 462
Period size: 40 Copynumber: 6.8 Consensus size: 40
37307523 GCATTTGTAT
37307533 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
37307573 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
37307613 ATATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
1 --ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
37307655 ATATATCCGGGCTAAGACCCGCAGGCATTTGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* *
37307695 ATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
*
37307735 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
* ** *
37307775 CTATGCCCGGGCTAAGACCCGAAGGCAATTGTGC
1 ATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
37307809 TTGTGGTAAT
Statistics
Matches: 222, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 182 0.82
42 40 0.18
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG
Found at i:37309653 original size:42 final size:42
Alignment explanation
Indices: 37309555--37309669 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
37309545 CCATATGCGG
* * *
37309555 CTTACATAGGATCTCACATCGATGCCATATCTCAAATATGCT
1 CTTACATAAGATCTCATATCGATGCCATATCTCAAATATGAT
* * * * *
37309597 CTTATACGAA-ATCTCATTTCGATGCCATGTC-CCAATCATGAT
1 CTTACA-TAAGATCTCATATCGATGCCATATCTCAAAT-ATGAT
*
37309639 CTTACATAAGATCTCATATCAATGCCATATC
1 CTTACATAAGATCTCATATCGATGCCATATC
37309670 CTGGATGTGA
Statistics
Matches: 57, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
41 6 0.11
42 50 0.88
43 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (42 bp):
CTTACATAAGATCTCATATCGATGCCATATCTCAAATATGAT
Found at i:37313523 original size:37 final size:37
Alignment explanation
Indices: 37313473--37313545 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
37313463 AAATGCTATG
*
37313473 GCTCCATTCAGTTGATCAAATAAATAATCTATCCTCA
1 GCTCCATTAAGTTGATCAAATAAATAATCTATCCTCA
*
37313510 GCTCCCTTAAGTTGATCAAATAAATAATCTATCCTC
1 GCTCCATTAAGTTGATCAAATAAATAATCTATCCTC
37313546 GACAAGGGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (37 bp):
GCTCCATTAAGTTGATCAAATAAATAATCTATCCTCA
Found at i:37317777 original size:97 final size:97
Alignment explanation
Indices: 37317598--37317792 Score: 345
Period size: 97 Copynumber: 2.0 Consensus size: 97
37317588 GCCATTTTCG
* * *
37317598 TATACGAGGTAAGTTCATATGATTTTTAATAATGCAATGTGTATTTTAATTTTATTGCTTTGATA
1 TATACGAGATAAGTTCATATGATTTTTAATAATGCAATGTGTATTTTAATGTTATTACTTTGATA
37317663 GTATATGAGATGCAAGTCTATATACAAATAAA
66 GTATATGAGATGCAAGTCTATATACAAATAAA
*
37317695 TATATGAGATAAGTTCATATGATTTTTAATAATGCAATGTGTATTTTAATGTTATTACTTTGATA
1 TATACGAGATAAGTTCATATGATTTTTAATAATGCAATGTGTATTTTAATGTTATTACTTTGATA
*
37317760 GTATATGAGATGTAAGTCTATATACAAATAAA
66 GTATATGAGATGCAAGTCTATATACAAATAAA
37317792 T
1 T
37317793 GTATTTGAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (97 bp):
TATACGAGATAAGTTCATATGATTTTTAATAATGCAATGTGTATTTTAATGTTATTACTTTGATA
GTATATGAGATGCAAGTCTATATACAAATAAA
Found at i:37318091 original size:42 final size:43
Alignment explanation
Indices: 37318021--37318122 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 43
37318011 TTTTTTTTAC
**
37318021 GTGTAAGACCATGTCTGAGACATTGGCATCG-TGTATGATTTT
1 GTGTAAGACCATGTCTGAGACAGCGGCATCGATGTATGATTTT
* * **
37318063 GTGTAAGACCCTGTCT-AGGACAGCGGCATCGATGTTTGATTAC
1 GTGTAAGACCATGTCTGA-GACAGCGGCATCGATGTATGATTTT
* *
37318106 ATGTAAGACCACGTCTG
1 GTGTAAGACCATGTCTG
37318123 GGACGTTGGC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 26 0.54
43 21 0.44
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGAGACAGCGGCATCGATGTATGATTTT
Found at i:37321373 original size:8 final size:8
Alignment explanation
Indices: 37321351--37321384 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
37321341 GTACAAGCAA
37321351 ATTTTGTG
1 ATTTTGTG
37321359 TATTTTGTG
1 -ATTTTGTG
37321368 ATTTTGTG
1 ATTTTGTG
*
37321376 AATTTGTG
1 ATTTTGTG
37321384 A
1 A
37321385 ATTAGGGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 16 0.67
9 8 0.33
ACGTcount: A:0.18, C:0.00, G:0.24, T:0.59
Consensus pattern (8 bp):
ATTTTGTG
Found at i:37330988 original size:71 final size:71
Alignment explanation
Indices: 37330872--37331014 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
37330862 GGTGTTACAT
*
37330872 AGCTTGGCGATACTATAAGAAAAATGGAAAAGAAAATGGAGTAAGCATAAAGCTTAGTAAGTTTG
1 AGCTTGGCGATACTATAAGAAAAATGGAAAAGAAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
37330937 CATGTA
66 CATGTA
*
37330943 AGCTTGGCGATACTATAAGAAAAATGGAAAAGAAAGGGGAGTAAGCATAAAGCTTAGTAAGTTTG
1 AGCTTGGCGATACTATAAGAAAAATGGAAAAGAAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
37331008 CATGTA
66 CATGTA
37331014 A
1 A
37331015 ATATGAGTAA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.43, C:0.08, G:0.25, T:0.23
Consensus pattern (71 bp):
AGCTTGGCGATACTATAAGAAAAATGGAAAAGAAAAGGGAGTAAGCATAAAGCTTAGTAAGTTTG
CATGTA
Found at i:37331391 original size:42 final size:43
Alignment explanation
Indices: 37331328--37331500 Score: 158
Period size: 42 Copynumber: 4.1 Consensus size: 43
37331318 TAAGATACCA
* ** *
37331328 ATGCCATGTCCCAGACGTGGTCTTACATAG-GATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACATAGAGATCTCATATCG
* *
37331370 ATGCCATATCCCAAATATGGTCTT--ATACGAGATCTCATTTCG
1 ATGCCATATCCCAGATATGGTCTTACATA-GAGATCTCATATCG
* * * * * *
37331412 ATGCCATGTCCCAGACATGGTCTTAC-TCGAAATCTTATATCA
1 ATGCCATATCCCAGATATGGTCTTACATAGAGATCTCATATCG
* * * *
37331454 ACGCCATATCCCAGATATGGTCTTACAT-GATAACACATATCG
1 ATGCCATATCCCAGATATGGTCTTACATAGAGATCTCATATCG
37331496 ATGCC
1 ATGCC
37331501 GATGTCATAT
Statistics
Matches: 103, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
40 3 0.03
41 1 0.01
42 97 0.94
43 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACATAGAGATCTCATATCG
Found at i:37331497 original size:84 final size:84
Alignment explanation
Indices: 37331328--37331506 Score: 207
Period size: 84 Copynumber: 2.1 Consensus size: 84
37331318 TAAGATACCA
* * * *
37331328 ATGCCATGTCCCAGACGTGGTCTTACATAGGATCTCACATCGATGCCATATCCCAAATATGGTCT
1 ATGCCATGTCCCAGACATGGTCTTACATAGAATCTCACATCAACGCCATATCCCAAATATGGTCT
* * * *
37331393 TATACGAGATCTCATTTCG
66 TACACGAGAACACATATCG
* * * *
37331412 ATGCCATGTCCCAGACATGGTCTTAC-TCGAAATCTTATATCAACGCCATATCCCAGATATGGTC
1 ATGCCATGTCCCAGACATGGTCTTACATAG-AATCTCACATCAACGCCATATCCCAAATATGGTC
* *
37331476 TTACATGATAACACATATCG
65 TTACACGAGAACACATATCG
37331496 ATGCCGATGTC
1 ATGCC-ATGTC
37331507 ATATCCCAGA
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
83 2 0.03
84 72 0.91
85 5 0.06
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (84 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGAATCTCACATCAACGCCATATCCCAAATATGGTCT
TACACGAGAACACATATCG
Found at i:37334256 original size:22 final size:20
Alignment explanation
Indices: 37334228--37334268 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
37334218 ATGCAATAAT
37334228 TAAAATGCTAACTAAAATGTAC
1 TAAAATG-TAAC-AAAATGTAC
*
37334250 TAAAATGTAGCAAAATGTA
1 TAAAATGTAACAAAATGTA
37334269 TTTAAGTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (20 bp):
TAAAATGTAACAAAATGTAC
Found at i:37341757 original size:32 final size:33
Alignment explanation
Indices: 37341712--37341775 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
37341702 ACGAAGTCAT
* *
37341712 CAGATACAGATA-TTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTTGTGGCGAAGCCACCAGAA
* *
37341744 CAGATATATATATTTGTGGCGAAGCCACCAGA
1 CAGATACAGATATTTGTGGCGAAGCCACCAGA
37341776 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (33 bp):
CAGATACAGATATTTGTGGCGAAGCCACCAGAA
Found at i:37346406 original size:47 final size:47
Alignment explanation
Indices: 37346356--37346549 Score: 316
Period size: 47 Copynumber: 4.1 Consensus size: 47
37346346 TTAGGATTTT
*
37346356 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37346403 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
37346450 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
37346497 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
37346544 ATGTGA
1 ATGTGA
37346550 AATATATGTA
Statistics
Matches: 136, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 136 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:37346505 original size:25 final size:25
Alignment explanation
Indices: 37346430--37346505 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
37346420 ATGCATATAT
37346430 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
37346455 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
37346477 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
37346502 GTGA
1 GTGA
37346506 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:37346600 original size:94 final size:91
Alignment explanation
Indices: 37346356--37346605 Score: 272
Period size: 94 Copynumber: 2.6 Consensus size: 91
37346346 TTAGGATTTT
* * *
37346356 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCTATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAGCATG--TATATGTGGTAAGGCCGAATGGCCTATGTG-TGAATATGAACA
*
37346421 TGCATATATGTGATAAGGCCGAATGGCCA
63 TGCATATATGTGATAAAGCCGAATGGCCA
* *
37346450 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACA
1 ATGTGATGAATGTGAGCATGTATATGTG-G-TAAGGCCGAATGGCCTATGT-GTGAATATGAACA
* *
37346515 TGCATATATGTGGTAAAGCCGAATGGTCA
63 TGCATATATGTGATAAAGCCGAATGGCCA
* *
37346544 ATGTGAAAT-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGG-CTA-GTGTGAAATATG
1 ATGTG--ATGA-ATG--TGAG-CATGTATATGTGGTAAGGCCGAATGGCCTATGTGTG-AATATG
37346606 TAGGCGATGT
Statistics
Matches: 134, Mismatches: 12, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
92 7 0.05
94 83 0.62
95 10 0.07
96 7 0.05
97 12 0.09
98 5 0.04
99 10 0.07
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (91 bp):
ATGTGATGAATGTGAGCATGTATATGTGGTAAGGCCGAATGGCCTATGTGTGAATATGAACATGC
ATATATGTGATAAAGCCGAATGGCCA
Found at i:37346817 original size:37 final size:37
Alignment explanation
Indices: 37346754--37346825 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
37346744 GGAAATATAT
* *
37346754 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
* *
37346791 TCCGGGTAAGACCTGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTT
37346826 CGTCTGAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTTTG
Found at i:37348660 original size:84 final size:84
Alignment explanation
Indices: 37348519--37348687 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
37348509 ATTTTTCCAC
37348519 AACTTTCGTTACATTTCGCTTCAATCCAGGCCACCAATACAACTCCTTTAAGTCGCGATACATTT
1 AACTTTCGTTACATTTCGCTTCAATCCAGGCCACCAATACAACTCCTTTAAGTCGCGATACATTT
37348584 TACTCCCTCCAGGATGCAT
66 TACTCCCTCCAGGATGCAT
37348603 AACTTTCGTTACATTTCGCTTCAATCCAGGCCACCAATACAACTCCTTTAAGTCGCGATACATTT
1 AACTTTCGTTACATTTCGCTTCAATCCAGGCCACCAATACAACTCCTTTAAGTCGCGATACATTT
37348668 TACTCCCTCCAGGATGCAT
66 TACTCCCTCCAGGATGCAT
37348687 A
1 A
37348688 GCATACAGAC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (84 bp):
AACTTTCGTTACATTTCGCTTCAATCCAGGCCACCAATACAACTCCTTTAAGTCGCGATACATTT
TACTCCCTCCAGGATGCAT
Found at i:37353293 original size:31 final size:32
Alignment explanation
Indices: 37353236--37353296 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
37353226 ACAAAGTCAC
* *
37353236 CAGATATAGATATTGTGGCTAGGCCACCAGGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGGA
*
37353268 CAGATATATATA-TGTGGCGAAGCCACCAG
1 CAGATATAGATATTGTGGCGAAGCCACCAG
37353297 ATTGCAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGGA
Found at i:37358911 original size:42 final size:42
Alignment explanation
Indices: 37358758--37358923 Score: 167
Period size: 42 Copynumber: 4.0 Consensus size: 42
37358748 AATCATACCA
* * *
37358758 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAATG
* * * * *
37358800 ATGCCAATAGCCCAGCTATGGTCTTACATG-ATTCTCAT-ATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATAAT-G
* * * *
37358842 ATGCCATGTCCCGGACATGGTCTTACACGAAATATCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAATG
*
37358884 ATGCCATATCCCAAATATGGTCTTACACGTAAA-CTCATAA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAATCTCATAA
37358924 CCCTAATATC
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
41 19 0.19
42 53 0.54
43 27 0.27
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATAATG
Found at i:37358921 original size:84 final size:84
Alignment explanation
Indices: 37358750--37358922 Score: 204
Period size: 84 Copynumber: 2.1 Consensus size: 84
37358740 ACACATAGAA
* * * * * *
37358750 TCATACCAATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATTGATGCCAATAGCCCAG
1 TCATACCAATGCCATATCCCAGACATGGTCTTACACGAAATATCATAATGATGCCAATAGCCCAA
* * **
37358815 CTATGGTCTTACATGATTC
66 ATATGGTCTTACACGAAAC
* * * *
37358834 TCATATCAATGCCATGTCCCGGACATGGTCTTACACGAAATATCATAATGATGCC-ATATCCCAA
1 TCATACCAATGCCATATCCCAGACATGGTCTTACACGAAATATCATAATGATGCCAATAGCCCAA
37358898 ATATGGTCTTACACGTAAAC
66 ATATGGTCTTACACG-AAAC
37358918 TCATA
1 TCATA
37358923 ACCCTAATAT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
83 20 0.27
84 54 0.73
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (84 bp):
TCATACCAATGCCATATCCCAGACATGGTCTTACACGAAATATCATAATGATGCCAATAGCCCAA
ATATGGTCTTACACGAAAC
Found at i:37364160 original size:40 final size:40
Alignment explanation
Indices: 37364115--37364357 Score: 328
Period size: 40 Copynumber: 6.1 Consensus size: 40
37364105 CGAGATTTAA
* * *
37364115 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
37364155 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37364195 CCGGATATAGTAGCTCGCACAAATGCCTTCGGGGCTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37364235 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37364275 CCGGATGTAATAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
37364315 CCGGA-ACTAGTCACTAGCGCAAATGCCTCCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
37364355 CCG
1 CCG
37364358 ATTATCATCC
Statistics
Matches: 185, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.01
40 184 0.99
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37370095 original size:39 final size:39
Alignment explanation
Indices: 37370052--37370138 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
37370042 TTCAGTGATG
* * * *
37370052 TATATCCGGACTTAGGGGCCGCATGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGGCCGCAGGCTACGTGCTGGAAA
*
37370091 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGGCCGCAGGCTACGTGCTGGAAA
*
37370130 TATGTCCGG
1 TATATCCGG
37370139 GCTAAAGTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGGCCGCAGGCTACGTGCTGGAAA
Found at i:37370156 original size:39 final size:39
Alignment explanation
Indices: 37370052--37370148 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
37370042 TTCAGTGATG
** * * * *
37370052 TATATCCGGACTTAGGGGCCGCATGCTATGTGCTGGAAT
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
*
37370091 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
* *
37370130 TATGTCCGGGC-TAAAGTCC
1 TATATCCGGACTTAAAGTCC
37370149 CGTAGGCTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 7 0.14
39 43 0.86
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTACGTGCTGGAAA
Found at i:37380977 original size:12 final size:12
Alignment explanation
Indices: 37380960--37380984 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37380950 AAATGAAATC
37380960 TTTTTATTTTTT
1 TTTTTATTTTTT
37380972 TTTTTATTTTTT
1 TTTTTATTTTTT
37380984 T
1 T
37380985 CGGTAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTATTTTTT
Found at i:37390612 original size:40 final size:40
Alignment explanation
Indices: 37390537--37390748 Score: 243
Period size: 40 Copynumber: 5.3 Consensus size: 40
37390527 TCTTCGAGAT
* *
37390537 TTAG-CCGGATATAAGT-ACTTGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATAT-AGTCACTAGCACAAATGCCTTCGGGTC
* *
37390575 TTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
37390615 TTAGCCCGGATATAGTCGCTAGCACAAATGGCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
37390655 TTAGCCCGGATATAG-CAACTCGCACGAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * * *
37390695 TTAGTCCGGTTATAGTCACCTAGCACAAAAGCCTTCGAGAC
1 TTAGCCCGGATATAGTCA-CTAGCACAAATGCCTTCGGGTC
37390736 TTAGCCCGGATAT
1 TTAGCCCGGATAT
37390749 CATTCGAATA
Statistics
Matches: 145, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
38 7 0.05
39 15 0.10
40 95 0.66
41 28 0.19
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:37400967 original size:84 final size:84
Alignment explanation
Indices: 37400804--37400968 Score: 206
Period size: 84 Copynumber: 2.0 Consensus size: 84
37400794 AATCATACCA
* * * * * *
37400804 ATGCCATATCCCAGATATGGTCTTACATGGGATCTTATATTGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGGAATCTCATAATGATGCCAATAGCCCAGATATGGTC
**
37400869 TTACACGATTCTCATATCG
66 TTACACGAAACTCATATCG
* * *
37400888 ATGCCATGTCCCAGACATGGTCTTACACGGAATCTCATAATGATGCC-ATATCCCGGATATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGGAATCTCATAATGATGCCAATAGCCCAGATATGGTC
*
37400952 TTACATGTAAACTCATA
66 TTACACG-AAACTCATA
37400969 ACCCTAATGT
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
83 20 0.29
84 48 0.71
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACACGGAATCTCATAATGATGCCAATAGCCCAGATATGGTC
TTACACGAAACTCATATCG
Found at i:37400969 original size:42 final size:42
Alignment explanation
Indices: 37400804--37400956 Score: 184
Period size: 42 Copynumber: 3.6 Consensus size: 42
37400794 AATCATACCA
* * * *
37400804 ATGCCATATCCCAGATATGGTCTTACATGGGATCTTATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGGAATCTCATAATG
* * *
37400846 ATGCCAATAGCCCAGCTATGGTCTTACAC-GATTCTCAT-ATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGGAATCTCATAAT-G
* *
37400888 ATGCCATGTCCCAGACATGGTCTTACACGGAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGGAATCTCATAATG
*
37400930 ATGCCATATCCCGGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
37400957 TGTAAACTCA
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
41 20 0.22
42 50 0.54
43 22 0.24
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGGAATCTCATAATG
Found at i:37403263 original size:30 final size:30
Alignment explanation
Indices: 37403229--37403288 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
37403219 ATTTAATATG
37403229 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * * *
37403259 AACTTTTGCATAATTGCACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
37403289 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:37405399 original size:15 final size:15
Alignment explanation
Indices: 37405375--37405404 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37405365 AATTTGGATG
37405375 TTATTATTATTATTT
1 TTATTATTATTATTT
*
37405390 TTATTTTTATTATTT
1 TTATTATTATTATTT
37405405 CGTAAGTTTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTATTATTATTATTT
Found at i:37407303 original size:27 final size:27
Alignment explanation
Indices: 37407260--37407373 Score: 151
Period size: 27 Copynumber: 4.2 Consensus size: 27
37407250 GAGGAAGCAT
*
37407260 TCTGGTGGCTCTTCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
37407287 TCTAGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
37407315 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* *
37407342 TCTGGTGACTCTGTCACAATATCTGT-
1 TCTGGTGGCTCTGCCACAATATCTGTA
37407368 TCTGGT
1 TCTGGT
37407374 AGTCATGCTG
Statistics
Matches: 79, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
26 6 0.08
27 57 0.72
28 16 0.20
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:37407366 original size:54 final size:54
Alignment explanation
Indices: 37407259--37407373 Score: 162
Period size: 55 Copynumber: 2.1 Consensus size: 54
37407249 GGAGGAAGCA
* *
37407259 TTCTGGTGGCTCTTCCACAAATATCTGATCTAGTGGCTCTGCCACAAATATCTG
1 TTCTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCACAAATATCTG
* *
37407313 TTTCTGGTGGCTCTGCCAC-AATATCTGTATCTGGTGACTCTGTCAC-AATATCTG
1 -TTCTGGTGGCTCTGCCACAAATATCTG-ATCTAGTGACTCTGCCACAAATATCTG
37407367 TTCTGGT
1 TTCTGGT
37407374 AGTCATGCTG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 7 0.13
54 16 0.29
55 32 0.58
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCACAAATATCTG
Found at i:37408671 original size:20 final size:19
Alignment explanation
Indices: 37408648--37408696 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 19
37408638 CAAAGTGTAG
37408648 ATAGAGGCAGAATTGTGCAA
1 ATAGAGGCAGAATTGTGC-A
37408668 ATAGAGGCAGAATTGTGCA
1 ATAGAGGCAGAATTGTGCA
37408687 ATCAGAGGCA
1 AT-AGAGGCA
37408697 CCAAATCGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.39, C:0.12, G:0.31, T:0.18
Consensus pattern (19 bp):
ATAGAGGCAGAATTGTGCA
Found at i:37413632 original size:42 final size:42
Alignment explanation
Indices: 37413573--37413662 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
37413563 GTCACATGCT
37413573 CGTGTGAACAGGCCGTGTGCCTCACACAGCATTAGACACACC
1 CGTGTGAACAGGCCGTGTGCCTCACACAGCATTAGACACACC
* * *
37413615 CGTGTGAGCAGGCCGTGTGCCTTACACGGCATTAGACACACC
1 CGTGTGAACAGGCCGTGTGCCTCACACAGCATTAGACACACC
*
37413657 CATGTG
1 CGTGTG
37413663 TCTAGCCCAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.23, C:0.31, G:0.27, T:0.19
Consensus pattern (42 bp):
CGTGTGAACAGGCCGTGTGCCTCACACAGCATTAGACACACC
Found at i:37415162 original size:41 final size:41
Alignment explanation
Indices: 37415055--37415175 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 41
37415045 AGCTCGAACA
* ** * *
37415055 ATGCCAAAGTCCCAGATGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATC--ATATAG
* * * *
37415098 ATGCCACTATCCCAGACAGGGTCTTACACGAAATCATATAG
1 ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAG
*
37415139 ATGCCAATGTCCCATACATGGTCTTACATGTAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATG-AAATCA
37415176 CAAATCAATG
Statistics
Matches: 63, Mismatches: 14, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
41 30 0.48
42 6 0.10
43 27 0.43
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGAAATCATATAG
Found at i:37416073 original size:45 final size:45
Alignment explanation
Indices: 37415967--37416230 Score: 385
Period size: 45 Copynumber: 6.0 Consensus size: 45
37415957 TTTTATCAAA
* * * *
37415967 TCACTGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
*
37416009 TCA-CGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
37416053 TCACCGGCATTATAGCCTGCTAGGTTCAAAGGCTCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
37416098 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
37416143 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
37416188 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCTCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
37416231 CTCTACGATA
Statistics
Matches: 203, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 6 0.03
42 20 0.10
43 5 0.02
44 8 0.04
45 164 0.81
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:37417086 original size:25 final size:25
Alignment explanation
Indices: 37417058--37417194 Score: 184
Period size: 25 Copynumber: 5.5 Consensus size: 25
37417048 TCGGAAATAA
* *
37417058 TAAGGGCAAATTTAACCAGAAATAT
1 TAAGAGCAAATTTAACCAGAATTAT
*
37417083 TAAGAGCAAATTTAACTAGAATTAT
1 TAAGAGCAAATTTAACCAGAATTAT
*
37417108 TAAGAACAAATTTAACCAGAATTAT
1 TAAGAGCAAATTTAACCAGAATTAT
* ***
37417133 TAAGAACAAATTTAATTGGAATTAT
1 TAAGAGCAAATTTAACCAGAATTAT
*
37417158 TAAGAGCAAATTTAACCGGAATTAT
1 TAAGAGCAAATTTAACCAGAATTAT
*
37417183 TAAGAACAAATT
1 TAAGAGCAAATT
37417195 AACAAGCTTA
Statistics
Matches: 100, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 100 1.00
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.29
Consensus pattern (25 bp):
TAAGAGCAAATTTAACCAGAATTAT
Found at i:37417118 original size:50 final size:50
Alignment explanation
Indices: 37417064--37417194 Score: 208
Period size: 50 Copynumber: 2.6 Consensus size: 50
37417054 ATAATAAGGG
* *
37417064 CAAATTTAACCAGAAATATTAAGAGCAAATTTAACTAGAATTATTAAGAA
1 CAAATTTAACCAGAATTATTAAGAACAAATTTAACTAGAATTATTAAGAA
* * *
37417114 CAAATTTAACCAGAATTATTAAGAACAAATTTAATTGGAATTATTAAGAG
1 CAAATTTAACCAGAATTATTAAGAACAAATTTAACTAGAATTATTAAGAA
*
37417164 CAAATTTAACCGGAATTATTAAGAACAAATT
1 CAAATTTAACCAGAATTATTAAGAACAAATT
37417195 AACAAGCTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.30
Consensus pattern (50 bp):
CAAATTTAACCAGAATTATTAAGAACAAATTTAACTAGAATTATTAAGAA
Found at i:37434317 original size:45 final size:44
Alignment explanation
Indices: 37434214--37434478 Score: 311
Period size: 45 Copynumber: 6.0 Consensus size: 44
37434204 CCGAATTCAT
* * *
37434214 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCGATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATAGT-ATC
* *
37434256 TCACTGGCATTATAGCCTGCTAGGCTCGAAGGCCCAGATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCC-GATAGTATC
* *
37434301 TCACTGGCATTATAGCCTGCTAGGTTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATAGTATC
* *
37434346 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCTGAATAGTATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATAGTATC
* * * *
37434391 TCATCGGCATTATAGCCTGTTATGCTCAAAGGCCCGATTACTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA-TAGTATC
* * *
37434436 TCACCAGCATTATAGCCTACTAGGCTCAAAGACCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCG-ATAGTA
37434479 CTGTACGATA
Statistics
Matches: 194, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
42 10 0.05
43 17 0.09
44 6 0.03
45 159 0.82
46 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATAGTATC
Found at i:37435011 original size:25 final size:25
Alignment explanation
Indices: 37434989--37435125 Score: 168
Period size: 25 Copynumber: 5.5 Consensus size: 25
37434979 TCGGAAATAA
* *
37434989 TAAGGGCAAATTTAACCGAAAATAT
1 TAAGAGCAAATTTAACCGAAATTAT
* * *
37435014 TAGGAGCAAATTTAACTGGAATTAT
1 TAAGAGCAAATTTAACCGAAATTAT
*
37435039 TAAGAACAAATTTAACCGAAATTAT
1 TAAGAGCAAATTTAACCGAAATTAT
* *
37435064 TAAGAACAAATTTAA-CTAGAATTAT
1 TAAGAGCAAATTTAACCGA-AATTAT
*
37435089 TAAGAGCAAATTTAACCGGAATTAT
1 TAAGAGCAAATTTAACCGAAATTAT
*
37435114 TAAGAACAAATT
1 TAAGAGCAAATT
37435126 AACAAGCTTA
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
24 2 0.02
25 93 0.97
26 1 0.01
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (25 bp):
TAAGAGCAAATTTAACCGAAATTAT
Found at i:37435049 original size:50 final size:50
Alignment explanation
Indices: 37434995--37435125 Score: 208
Period size: 50 Copynumber: 2.6 Consensus size: 50
37434985 ATAATAAGGG
* * * *
37434995 CAAATTTAACCGAAAATATTAGGAGCAAATTTAACTGGAATTATTAAGAA
1 CAAATTTAACCGAAATTATTAAGAACAAATTTAACTAGAATTATTAAGAA
*
37435045 CAAATTTAACCGAAATTATTAAGAACAAATTTAACTAGAATTATTAAGAG
1 CAAATTTAACCGAAATTATTAAGAACAAATTTAACTAGAATTATTAAGAA
*
37435095 CAAATTTAACCGGAATTATTAAGAACAAATT
1 CAAATTTAACCGAAATTATTAAGAACAAATT
37435126 AACAAGCTTA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (50 bp):
CAAATTTAACCGAAATTATTAAGAACAAATTTAACTAGAATTATTAAGAA
Found at i:37440706 original size:19 final size:19
Alignment explanation
Indices: 37440670--37440708 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37440660 TTTTCATCAT
* *
37440670 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
37440689 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
37440708 A
1 A
37440709 ATAACTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:37441211 original size:55 final size:56
Alignment explanation
Indices: 37441146--37441260 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
37441136 AGCATGGCTG
* * * *
37441146 CCAGATACAGAGA-ATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGAAATATGTGACAGAGCCACCAGA-ACAGATAATTTATGGCA-TAGCCA
*
37441202 CCAGA-ACAGAAATATGTGGCAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
1 CCAGATACAGAAATATGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
37441257 CCAG
1 CCAG
37441261 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (56 bp):
CCAGATACAGAAATATGTGACAGAGCCACCAGAACAGATAATTTATGGCATAGCCA
Found at i:37441258 original size:28 final size:28
Alignment explanation
Indices: 37441171--37441260 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
37441161 GTGACAGAGT
*
37441171 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATAATTTGTGGCA-TAGC
* *
37441200 CACCAGAACAGA-AATATGTGGCAGAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
*
37441227 CACCAGAACAGATAATTTATGGCATAGC
1 CACCAGAACAGATAATTTGTGGCATAGC
37441255 CACCAG
1 CACCAG
37441261 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCATAGC
Found at i:37441413 original size:28 final size:28
Alignment explanation
Indices: 37441366--37441430 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
37441356 AAATTAACAC
*
37441366 TAGGGGTATAGAGGTCATTTAGCATACA
1 TAGGGGTATAGAGGTAATTTAGCATACA
*
37441394 TAGGGGTATA-ATGGTAATTTTGCATACA
1 TAGGGGTATAGA-GGTAATTTAGCATACA
37441422 TAGGGGTAT
1 TAGGGGTAT
37441431 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAGAGGTAATTTAGCATACA
Found at i:37443282 original size:28 final size:27
Alignment explanation
Indices: 37443227--37443460 Score: 344
Period size: 28 Copynumber: 8.6 Consensus size: 27
37443217 ATATTAAGTC
* * *
37443227 CGCACACTCAGTGCTATA-AATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
37443253 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
37443281 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
37443308 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
37443336 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAGTC-AACT
*
37443364 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
37443391 CGCACACTTAGTGCTGCATAGTCAAACC
1 CGCACACTTAGTGCTACATAGTC-AACT
*
37443419 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
37443446 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37443461 GCACAATTTA
Statistics
Matches: 192, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
26 16 0.08
27 72 0.38
28 104 0.54
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:37443368 original size:83 final size:83
Alignment explanation
Indices: 37443227--37443460 Score: 366
Period size: 83 Copynumber: 2.9 Consensus size: 83
37443217 ATATTAAGTC
* * * *
37443227 CGCACACTCAGTGCTATA-AATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
37443290 AGTGCTACATAGTCAACT
66 AGTGCTACATAGTCAACT
*
37443308 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACCCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
*
37443373 AGTGCTACATAGTCAATT
66 AGTGCTACATAGTCAACT
* * *
37443391 CGCACACTTAGTGCTGCATAGTCAAACCCGCACACTTAGTGCTACATAGTC-AATTCGCACACTT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
37443455 AGTGCT
66 AGTGCT
37443461 GCACAATTTA
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
81 16 0.11
82 20 0.14
83 105 0.74
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (83 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
AGTGCTACATAGTCAACT
Found at i:37443463 original size:55 final size:56
Alignment explanation
Indices: 37443227--37443460 Score: 352
Period size: 55 Copynumber: 4.3 Consensus size: 56
37443217 ATATTAAGTC
* * * * *
37443227 CGCACACTCAGTGCTATA-AATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAGTCAAACT
*
37443281 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAGTCAAACT
*
37443336 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAGTCAAACT
* *
37443391 CGCACACTTAGTGCTGCATAGTCAAACCCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAGTCAAACT
37443446 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37443461 GCACAATTTA
Statistics
Matches: 171, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
54 16 0.09
55 129 0.75
56 26 0.15
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (56 bp):
CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCTACATAGTCAAACT
Found at i:37451413 original size:28 final size:27
Alignment explanation
Indices: 37451350--37451555 Score: 333
Period size: 28 Copynumber: 7.6 Consensus size: 27
37451340 ATATTAAGTC
* * *
37451350 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
37451377 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
37451405 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
37451432 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
37451460 CGCACACTTAGTGCTACATAGTCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
37451486 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
37451514 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
37451541 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37451556 GCACAATTTA
Statistics
Matches: 171, Mismatches: 4, Indels: 8
0.93 0.02 0.04
Matches are distributed among these distances:
26 24 0.14
27 70 0.41
28 77 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:37451434 original size:55 final size:55
Alignment explanation
Indices: 37451350--37451555 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
37451340 ATATTAAGTC
* * * *
37451350 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
37451405 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
37451460 CGCACACTTAGTGCTACATAGTCAA-TCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
37451514 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
37451556 GCACAATTTA
Statistics
Matches: 146, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
54 54 0.37
55 92 0.63
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:37451544 original size:109 final size:110
Alignment explanation
Indices: 37451350--37451555 Score: 360
Period size: 109 Copynumber: 1.9 Consensus size: 110
37451340 ATATTAAGTC
*
37451350 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
37451415 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
66 GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
* * *
37451460 CGCACACTTAGTGCTACATAGTCAA-TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
*
37451524 GTGCTACATAGTCAATTCGCACACTTAGTGCT
66 GTGCTACATAGTCAACTCGCACACTTAGTGCT
37451556 GCACAATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
109 69 0.76
110 22 0.24
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (110 bp):
CGCACACTCAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:37462530 original size:37 final size:37
Alignment explanation
Indices: 37462480--37462559 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
37462470 CTTATTACGA
* * *
37462480 AGTCTTACCCGGACATAATCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
*
37462517 AGTCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
*
37462554 GGTCTT
1 AGTCTT
37462560 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
Found at i:37463047 original size:51 final size:47
Alignment explanation
Indices: 37462678--37463225 Score: 736
Period size: 47 Copynumber: 11.4 Consensus size: 47
37462668 CCTTTCGGGA
* * * * * * * *
37462678 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37462725 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
37462772 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37462819 CTTATCACATATATACACTTTCACATTCATCCCATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37462866 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37462913 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37462960 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37463007 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
37463058 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
37463109 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
37463160 CTTATTACATACATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
37463207 CTTATTACATACATACACT
1 CTTATCACATATATACACT
37463226 CTCTTGGCTG
Statistics
Matches: 469, Mismatches: 26, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 320 0.68
48 1 0.00
49 10 0.02
50 1 0.00
51 137 0.29
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:37466638 original size:40 final size:40
Alignment explanation
Indices: 37466549--37466638 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
37466539 TATGCATGTG
*
37466549 ATTGAATGTTTTTAATTTAAATGAAATTTTATGGCCCGAT
1 ATTGAATGTTTTTAATTTAAATGAAATTTTATAGCCCGAT
* *
37466589 ATTGAATGTTTTTAATTTAAATGAAATTTTCTAGCCTGAT
1 ATTGAATGTTTTTAATTTAAATGAAATTTTATAGCCCGAT
* *
37466629 TTTGCATGTT
1 ATTGAATGTT
37466639 GTGAATGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (40 bp):
ATTGAATGTTTTTAATTTAAATGAAATTTTATAGCCCGAT
Found at i:37469988 original size:43 final size:42
Alignment explanation
Indices: 37469888--37469981 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
37469878 GAGATTTAAG
* * * * *
37469888 TGTAAAACCATGTCTGGGACATTGGCATCGAATATGATTTCG
1 TGTAAGACCCTGTCTGGGACAGTGGCATCGAATATGATTACA
37469930 TGTAAGACCCTGTCTGGGACAGTGGCATCG-ATAGTTGATTACA
1 TGTAAGACCCTGTCTGGGACAGTGGCATCGAATA--TGATTACA
37469973 TGTAAGACC
1 TGTAAGACC
37469982 TCGTCTGAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 3 0.07
42 27 0.60
43 15 0.33
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACAGTGGCATCGAATATGATTACA
Found at i:37477956 original size:27 final size:27
Alignment explanation
Indices: 37477922--37478120 Score: 256
Period size: 27 Copynumber: 7.4 Consensus size: 27
37477912 TGGATAAGTT
*
37477922 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
37477949 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * **
37477976 GTAAAACTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37478003 GTAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
37478030 ATAGAATTATCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
37478057 GTAGAAATACTGAAATA-CCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
37478083 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37478110 GTAAAATTACC
1 GTAGAATTACC
37478121 ATTTTGCCCC
Statistics
Matches: 150, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 22 0.15
27 128 0.85
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:37478834 original size:27 final size:26
Alignment explanation
Indices: 37478794--37478853 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
37478784 CCACATATAT
* *
37478794 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
37478820 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
37478847 ATATCTG
1 ATATCTG
37478854 GCAGTCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:37494419 original size:40 final size:40
Alignment explanation
Indices: 37494364--37494554 Score: 224
Period size: 40 Copynumber: 4.8 Consensus size: 40
37494354 GAGAATTGAG
* * *
37494364 AGTGAAATGTCCGGGCTAAATCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
37494404 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * *
37494444 AGTGATGTATCCGGACTAAGT-TCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCT-CGAAGAGCATTCGTGCT
* ** * *
37494484 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTTGTGCT
1 AGTGATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
* * *
37494524 GGTGTTATATCCGGGCTAGGTC-CGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCTCGAAGAGCA
37494555 ATCATGCTGG
Statistics
Matches: 129, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 10 0.08
40 119 0.92
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:37496763 original size:13 final size:13
Alignment explanation
Indices: 37496745--37496769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37496735 TAATGGTATA
37496745 TTGAATCCATGAT
1 TTGAATCCATGAT
37496758 TTGAATCCATGA
1 TTGAATCCATGA
37496770 AAATTTAGTA
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:37498322 original size:22 final size:22
Alignment explanation
Indices: 37498297--37498370 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
37498287 AAGTGTATAT
37498297 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * ***
37498319 ATGTGATGAATG--TGAAAGTGTAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
37498342 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
37498364 ATGTGAT
1 ATGTGAT
37498371 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:37498334 original size:47 final size:47
Alignment explanation
Indices: 37498280--37498680 Score: 648
Period size: 47 Copynumber: 8.6 Consensus size: 47
37498270 TATTTGAATA
37498280 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37498327 AATGTGAAAGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
37498372 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37498419 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
37498466 AATGTGAAAGTGTATATATGTGATAAGGTCTAATAGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
37498513 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
37498562 AATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
37498607 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
37498654 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
37498681 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 18, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
45 89 0.27
47 200 0.61
49 41 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:37503432 original size:39 final size:39
Alignment explanation
Indices: 37503389--37503465 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
37503379 TCTGACTTAT
*
37503389 TTGAAAAATCATTTTGATGTGTTACAATGATTTTAACTA
1 TTGAAAAATCATTTTGATGTGTTAAAATGATTTTAACTA
*
37503428 TTGAAAAATCATTTTGATGTGTTAAAATTATTTTAACT
1 TTGAAAAATCATTTTGATGTGTTAAAATGATTTTAACT
37503466 TAATTAAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (39 bp):
TTGAAAAATCATTTTGATGTGTTAAAATGATTTTAACTA
Found at i:37503454 original size:20 final size:20
Alignment explanation
Indices: 37503392--37503454 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
37503382 GACTTATTTG
37503392 AAAAATCATTTTGATGTGTT
1 AAAAATCATTTTGATGTGTT
* * * * *
37503412 -ACAATGATTTTAACTAT-TG
1 AAAAATCATTTTGA-TGTGTT
37503431 AAAAATCATTTTGATGTGTT
1 AAAAATCATTTTGATGTGTT
37503451 AAAA
1 AAAA
37503455 TTATTTTAAC
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (20 bp):
AAAAATCATTTTGATGTGTT
Found at i:37503478 original size:39 final size:38
Alignment explanation
Indices: 37503392--37503483 Score: 123
Period size: 39 Copynumber: 2.4 Consensus size: 38
37503382 GACTTATTTG
*
37503392 AAAAATCATTTTGATGTGTTACAATGATTTTAACTATT
1 AAAAATCATTTTGATGTGTTAAAATGATTTTAACTATT
*
37503430 GAAAAATCATTTTGATGTGTTAAAATTATTTTAACTTAATT
1 -AAAAATCATTTTGATGTGTTAAAATGATTTTAAC-T-ATT
*
37503471 -AAGATCATTTTGA
1 AAAAATCATTTTGA
37503484 ATTGGTTAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
39 44 0.92
40 1 0.02
41 3 0.06
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.45
Consensus pattern (38 bp):
AAAAATCATTTTGATGTGTTAAAATGATTTTAACTATT
Found at i:37508725 original size:27 final size:27
Alignment explanation
Indices: 37508674--37508726 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
37508664 CCACTGTTAC
*
37508674 TGATTTTGAGAATGGGCTAGGCCCAAT
1 TGATTTTGAGAATGGGCTAGACCCAAT
37508701 TGATTTTGATG-A-GGGCTGAGACCCAA
1 TGATTTTGA-GAATGGGCT-AGACCCAA
37508727 GTGAAATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 17 0.74
28 1 0.04
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (27 bp):
TGATTTTGAGAATGGGCTAGACCCAAT
Found at i:37511759 original size:85 final size:84
Alignment explanation
Indices: 37511651--37511828 Score: 347
Period size: 85 Copynumber: 2.1 Consensus size: 84
37511641 GGCCGGCCAT
37511651 GAGCATGGGTGGCAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
1 GAGCATGGGTGGCAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
37511716 TAAGGATTAATAAAATAAA
66 TAAGGATTAATAAAATAAA
37511735 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGG-CAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
37511800 GTAAGGATTAATAAAATAAA
65 GTAAGGATTAATAAAATAAA
37511820 GAGCATGGG
1 GAGCATGGG
37511829 CAATAAAATA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 12 0.13
85 81 0.87
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (84 bp):
GAGCATGGGTGGCAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTATG
TAAGGATTAATAAAATAAA
Found at i:37513135 original size:40 final size:40
Alignment explanation
Indices: 37512992--37513136 Score: 138
Period size: 40 Copynumber: 3.6 Consensus size: 40
37512982 TCGAATGATG
* * * * *
37512992 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
37513031 TCC-GGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
37513071 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
37513112 -CCGGGATATGTCCCGATGGCATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
37513137 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
38 2 0.02
39 8 0.09
40 69 0.78
41 10 0.11
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37519739 original size:84 final size:85
Alignment explanation
Indices: 37519597--37519774 Score: 349
Period size: 84 Copynumber: 2.1 Consensus size: 85
37519587 GGTCGGCCAT
37519597 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
37519662 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
37519682 GAGCATGGGTGGACAAGATGTTATGGC-AAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
37519746 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
37519766 GAGCATGGG
1 GAGCATGGG
37519775 CAATAAAATA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 66 0.71
85 27 0.29
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:37525403 original size:21 final size:22
Alignment explanation
Indices: 37525363--37525409 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
37525353 GGGCTCACAC
*
37525363 GCCCGTGTGGTCCATGGGACAA
1 GCCCGTGTGGACCATGGGACAA
* *
37525385 GCCCGTGT-GACCTTGGGACAT
1 GCCCGTGTGGACCATGGGACAA
37525406 GCCC
1 GCCC
37525410 ATGTTGGAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.15, C:0.32, G:0.34, T:0.19
Consensus pattern (22 bp):
GCCCGTGTGGACCATGGGACAA
Found at i:37531055 original size:40 final size:40
Alignment explanation
Indices: 37530993--37531247 Score: 306
Period size: 40 Copynumber: 6.5 Consensus size: 40
37530983 AAGCCAAGTA
* * * *
37530993 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
37531032 CCTTCGGGACATAGCCCGGATATAGTAACTCGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
37531071 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
37531111 CCTTCGGGACTTAGCCCAGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
37531151 CCTTC-GGACTTAG-CCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
37531189 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
37531229 CCTCCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
37531248 TTATCATCCG
Statistics
Matches: 191, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 29 0.15
39 64 0.34
40 98 0.51
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Done.