Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 170 of 284
Found at i:57178279 original size:27 final size:26
Alignment explanation
Indices: 57178249--57178300 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
57178239 GGGAAAATCG
57178249 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
57178276 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
57178301 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:57185532 original size:50 final size:50
Alignment explanation
Indices: 57185408--57185596 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 50
57185398 ATTGTGAATA
* * * * * *
57185408 CACGTGTGTAGTACTAAGTGCAGACTACTATGCGTACTCA--ATGACTTCGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGGATG--GTAGGT
*
57185459 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGG-TGGTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGGATGGT-AGGT
* * *
57185509 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGGGATTGTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGGATGGTAGGT
* * * * *
57185558 CGCATGTATAGTACTAAGTGCAAGCTACTATGTGTATCA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
57185597 AATAGCTTCG
Statistics
Matches: 116, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
49 38 0.33
50 44 0.38
51 34 0.29
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGGATGGTAGGT
Found at i:57185717 original size:27 final size:26
Alignment explanation
Indices: 57185687--57185738 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
57185677 GGGAAAATCG
57185687 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
57185714 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
57185739 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:57186010 original size:23 final size:22
Alignment explanation
Indices: 57185975--57186032 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
57185965 GGAAGCAAAA
57185975 GAATTCTATATTGTGTGATATTT
1 GAATTCT-TATTGTGTGATATTT
57185998 GAATTCTTGATTGTGTGATATTT
1 GAATTCTT-ATTGTGTGATATTT
57186021 GAATTCTT-TTGT
1 GAATTCTTATTGT
57186033 AACAGGGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.12
22 1 0.03
23 29 0.85
ACGTcount: A:0.22, C:0.05, G:0.19, T:0.53
Consensus pattern (22 bp):
GAATTCTTATTGTGTGATATTT
Found at i:57194456 original size:28 final size:29
Alignment explanation
Indices: 57194374--57194468 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
57194364 AAAGCATGAC
*
57194374 TATGAATGTGATTTAGGTCTAATGGGCCA
1 TATGAATGTGATTTGGGTCTAATGGGCCA
* * * *
57194403 TACGAATGTGATTTGGGCCAAATGGGTCA
1 TATGAATGTGATTTGGGTCTAATGGGCCA
* *
57194432 TATGAATGAGA-TTGGGTCTAGTGGGCCA
1 TATGAATGTGATTTGGGTCTAATGGGCCA
*
57194460 TATGCATGT
1 TATGAATGT
57194469 ATGTAGACTT
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
28 20 0.38
29 33 0.62
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.32
Consensus pattern (29 bp):
TATGAATGTGATTTGGGTCTAATGGGCCA
Found at i:57195356 original size:28 final size:29
Alignment explanation
Indices: 57195274--57195368 Score: 111
Period size: 29 Copynumber: 3.3 Consensus size: 29
57195264 AAAGCATGAC
*
57195274 TATGAATGTGATTTAGGTCTAATGGGCCA
1 TATGAATGTGATTTGGGTCTAATGGGCCA
* * * *
57195303 TACGAATGTGATTTGGGCCAAATGGGTCA
1 TATGAATGTGATTTGGGTCTAATGGGCCA
* *
57195332 TATGAATGAGA-TTGGGTCTAGTGGGCCA
1 TATGAATGTGATTTGGGTCTAATGGGCCA
*
57195360 TATGCATGT
1 TATGAATGT
57195369 ATGTAGACTT
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
28 20 0.38
29 33 0.62
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.32
Consensus pattern (29 bp):
TATGAATGTGATTTGGGTCTAATGGGCCA
Found at i:57196074 original size:900 final size:900
Alignment explanation
Indices: 57194337--57196136 Score: 3600
Period size: 900 Copynumber: 2.0 Consensus size: 900
57194327 ATTGGCAACT
57194337 TGATACTAAGTGATGAGAAATTGTATGAAAGCATGACTATGAATGTGATTTAGGTCTAATGGGCC
1 TGATACTAAGTGATGAGAAATTGTATGAAAGCATGACTATGAATGTGATTTAGGTCTAATGGGCC
57194402 ATACGAATGTGATTTGGGCCAAATGGGTCATATGAATGAGATTGGGTCTAGTGGGCCATATGCAT
66 ATACGAATGTGATTTGGGCCAAATGGGTCATATGAATGAGATTGGGTCTAGTGGGCCATATGCAT
57194467 GTATGTAGACTTGTTTGGGATTTGTAAAGGGTTTTGGGCTTAGTATCTGAAACTTCTTAAACGGG
131 GTATGTAGACTTGTTTGGGATTTGTAAAGGGTTTTGGGCTTAGTATCTGAAACTTCTTAAACGGG
57194532 CATAAAACTTAATTAATTAATTGCGACCGTGGACGAGTCATAAGGTTAAGGTAAGGCAATGGGTA
196 CATAAAACTTAATTAATTAATTGCGACCGTGGACGAGTCATAAGGTTAAGGTAAGGCAATGGGTA
57194597 TATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCC
261 TATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCC
57194662 TCTTCTCTGGAATCCTACCTGGTGCATAGTATTTTTTCACTTTAGCCAACGAGGACTTGTTAACG
326 TCTTCTCTGGAATCCTACCTGGTGCATAGTATTTTTTCACTTTAGCCAACGAGGACTTGTTAACG
57194727 GGCCAAGGTAAGTAATAAACCCATAATAAAGAGAAATTATCGAAATGCCCCTAAGGGCAAAAAAT
391 GGCCAAGGTAAGTAATAAACCCATAATAAAGAGAAATTATCGAAATGCCCCTAAGGGCAAAAAAT
57194792 GACCAAAATACCCCTATGTGTTGAAGGTAAGATTTACAAATGTTACATGTATGTCTGCTGCATTC
456 GACCAAAATACCCCTATGTGTTGAAGGTAAGATTTACAAATGTTACATGTATGTCTGCTGCATTC
57194857 ATATGATATTCTGTTCAGGTTGCATATGGGTTGGGAATTACGGAACAGAGGAAGTATATGAGGTC
521 ATATGATATTCTGTTCAGGTTGCATATGGGTTGGGAATTACGGAACAGAGGAAGTATATGAGGTC
57194922 GCATGGTTGCTTGACAACCGTGGATCCACCGACGGCTATTAAGCCCAATATGTGATTAGCAGCTT
586 GCATGGTTGCTTGACAACCGTGGATCCACCGACGGCTATTAAGCCCAATATGTGATTAGCAGCTT
57194987 GCTGCAATGAAGGTAGTACCGCAACCGGGCCACCATTGATGTCTATCGGATGGGTGGGTTGATAT
651 GCTGCAATGAAGGTAGTACCGCAACCGGGCCACCATTGATGTCTATCGGATGGGTGGGTTGATAT
57195052 TTATATCCCCACATGATGTGTACCGGGGGACAGAGTTGGTGTATAGCGGTTGGAATGTTGGGGTG
716 TTATATCCCCACATGATGTGTACCGGGGGACAGAGTTGGTGTATAGCGGTTGGAATGTTGGGGTG
57195117 GGCTGCACAGCATTGCATGTATGACATTATGGTGATTGATGTTTGCTTAGGACTCTTTGAGAGTT
781 GGCTGCACAGCATTGCATGTATGACATTATGGTGATTGATGTTTGCTTAGGACTCTTTGAGAGTT
57195182 GTACACATTGAGTTTTCGAAAACTCACCCCCTCTTTTATTTTTCTCAACTAATTG
846 GTACACATTGAGTTTTCGAAAACTCACCCCCTCTTTTATTTTTCTCAACTAATTG
57195237 TGATACTAAGTGATGAGAAATTGTATGAAAGCATGACTATGAATGTGATTTAGGTCTAATGGGCC
1 TGATACTAAGTGATGAGAAATTGTATGAAAGCATGACTATGAATGTGATTTAGGTCTAATGGGCC
57195302 ATACGAATGTGATTTGGGCCAAATGGGTCATATGAATGAGATTGGGTCTAGTGGGCCATATGCAT
66 ATACGAATGTGATTTGGGCCAAATGGGTCATATGAATGAGATTGGGTCTAGTGGGCCATATGCAT
57195367 GTATGTAGACTTGTTTGGGATTTGTAAAGGGTTTTGGGCTTAGTATCTGAAACTTCTTAAACGGG
131 GTATGTAGACTTGTTTGGGATTTGTAAAGGGTTTTGGGCTTAGTATCTGAAACTTCTTAAACGGG
57195432 CATAAAACTTAATTAATTAATTGCGACCGTGGACGAGTCATAAGGTTAAGGTAAGGCAATGGGTA
196 CATAAAACTTAATTAATTAATTGCGACCGTGGACGAGTCATAAGGTTAAGGTAAGGCAATGGGTA
57195497 TATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCC
261 TATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCC
57195562 TCTTCTCTGGAATCCTACCTGGTGCATAGTATTTTTTCACTTTAGCCAACGAGGACTTGTTAACG
326 TCTTCTCTGGAATCCTACCTGGTGCATAGTATTTTTTCACTTTAGCCAACGAGGACTTGTTAACG
57195627 GGCCAAGGTAAGTAATAAACCCATAATAAAGAGAAATTATCGAAATGCCCCTAAGGGCAAAAAAT
391 GGCCAAGGTAAGTAATAAACCCATAATAAAGAGAAATTATCGAAATGCCCCTAAGGGCAAAAAAT
57195692 GACCAAAATACCCCTATGTGTTGAAGGTAAGATTTACAAATGTTACATGTATGTCTGCTGCATTC
456 GACCAAAATACCCCTATGTGTTGAAGGTAAGATTTACAAATGTTACATGTATGTCTGCTGCATTC
57195757 ATATGATATTCTGTTCAGGTTGCATATGGGTTGGGAATTACGGAACAGAGGAAGTATATGAGGTC
521 ATATGATATTCTGTTCAGGTTGCATATGGGTTGGGAATTACGGAACAGAGGAAGTATATGAGGTC
57195822 GCATGGTTGCTTGACAACCGTGGATCCACCGACGGCTATTAAGCCCAATATGTGATTAGCAGCTT
586 GCATGGTTGCTTGACAACCGTGGATCCACCGACGGCTATTAAGCCCAATATGTGATTAGCAGCTT
57195887 GCTGCAATGAAGGTAGTACCGCAACCGGGCCACCATTGATGTCTATCGGATGGGTGGGTTGATAT
651 GCTGCAATGAAGGTAGTACCGCAACCGGGCCACCATTGATGTCTATCGGATGGGTGGGTTGATAT
57195952 TTATATCCCCACATGATGTGTACCGGGGGACAGAGTTGGTGTATAGCGGTTGGAATGTTGGGGTG
716 TTATATCCCCACATGATGTGTACCGGGGGACAGAGTTGGTGTATAGCGGTTGGAATGTTGGGGTG
57196017 GGCTGCACAGCATTGCATGTATGACATTATGGTGATTGATGTTTGCTTAGGACTCTTTGAGAGTT
781 GGCTGCACAGCATTGCATGTATGACATTATGGTGATTGATGTTTGCTTAGGACTCTTTGAGAGTT
57196082 GTACACATTGAGTTTTCGAAAACTCACCCCCTCTTTTATTTTTCTCAACTAATTG
846 GTACACATTGAGTTTTCGAAAACTCACCCCCTCTTTTATTTTTCTCAACTAATTG
57196137 CCAGTAGGAG
Statistics
Matches: 900, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
900 900 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (900 bp):
TGATACTAAGTGATGAGAAATTGTATGAAAGCATGACTATGAATGTGATTTAGGTCTAATGGGCC
ATACGAATGTGATTTGGGCCAAATGGGTCATATGAATGAGATTGGGTCTAGTGGGCCATATGCAT
GTATGTAGACTTGTTTGGGATTTGTAAAGGGTTTTGGGCTTAGTATCTGAAACTTCTTAAACGGG
CATAAAACTTAATTAATTAATTGCGACCGTGGACGAGTCATAAGGTTAAGGTAAGGCAATGGGTA
TATGCATGTCTAGGATTGGATCTAGGGAGAGCTTGGTACTTAAGCGGTCTTAATGACTCACCTCC
TCTTCTCTGGAATCCTACCTGGTGCATAGTATTTTTTCACTTTAGCCAACGAGGACTTGTTAACG
GGCCAAGGTAAGTAATAAACCCATAATAAAGAGAAATTATCGAAATGCCCCTAAGGGCAAAAAAT
GACCAAAATACCCCTATGTGTTGAAGGTAAGATTTACAAATGTTACATGTATGTCTGCTGCATTC
ATATGATATTCTGTTCAGGTTGCATATGGGTTGGGAATTACGGAACAGAGGAAGTATATGAGGTC
GCATGGTTGCTTGACAACCGTGGATCCACCGACGGCTATTAAGCCCAATATGTGATTAGCAGCTT
GCTGCAATGAAGGTAGTACCGCAACCGGGCCACCATTGATGTCTATCGGATGGGTGGGTTGATAT
TTATATCCCCACATGATGTGTACCGGGGGACAGAGTTGGTGTATAGCGGTTGGAATGTTGGGGTG
GGCTGCACAGCATTGCATGTATGACATTATGGTGATTGATGTTTGCTTAGGACTCTTTGAGAGTT
GTACACATTGAGTTTTCGAAAACTCACCCCCTCTTTTATTTTTCTCAACTAATTG
Found at i:57197695 original size:249 final size:249
Alignment explanation
Indices: 57197257--57197755 Score: 935
Period size: 249 Copynumber: 2.0 Consensus size: 249
57197247 GCTTGAAAAT
*
57197257 GATTAGTGAACTTGGTTGGTTATTGATAGTTTTAAAATCTTAATAAATTATGTGTATGTTCGAAT
1 GATTAGTGAACTTGGTTGGTTATTGATAGTTTAAAAATCTTAATAAATTATGTGTATGTTCGAAT
* *
57197322 ACACATAGCTTTATTTGGTTCGGTTTGCATAGAAAGTGTATATCTACTTAAAGTGGTTAATTGTA
66 ACACATAACTTTATTTGGTTCGATTTGCATAGAAAGTGTATATCTACTTAAAGTGGTTAATTGTA
*
57197387 TAATGATATAGGTATGGTTAATAAAGTTAAATAAAGATTATTTATTGAGATTATTTGTTTAATAG
131 TAATGATATAGGTATGGTTAATAAAGTTAAATAAAGATTAATTATTGAGATTATTTGTTTAATAG
57197452 GGATTGTAAGTGAAACAAAGATAAATTACCAAATGAATAGTGATTTATGTAATA
196 GGATTGTAAGTGAAACAAAGATAAATTACCAAATGAATAGTGATTTATGTAATA
* *
57197506 GATTAGTGAACTTGGTTGGTTATTGATAGTTTAAAAATGTTTATAAATTATGTGTATGTTCGAAT
1 GATTAGTGAACTTGGTTGGTTATTGATAGTTTAAAAATCTTAATAAATTATGTGTATGTTCGAAT
*
57197571 ACGCATAACTTTATTTGGTTCGATTTGCATAGAAAGTGTATATCTACTTAAAGTGGTTAATTGTA
66 ACACATAACTTTATTTGGTTCGATTTGCATAGAAAGTGTATATCTACTTAAAGTGGTTAATTGTA
57197636 TAATGATATAGGTATGGTTAATAAAGTTAAATAAAGATTAATTATTGAGATTATTTGTTTAATAG
131 TAATGATATAGGTATGGTTAATAAAGTTAAATAAAGATTAATTATTGAGATTATTTGTTTAATAG
57197701 GGATTGTAAGTGAAACAAAGATAAATTACCAAATGAATAGTGATTTATGTAATA
196 GGATTGTAAGTGAAACAAAGATAAATTACCAAATGAATAGTGATTTATGTAATA
57197755 G
1 G
57197756 TATCTACGGG
Statistics
Matches: 243, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
249 243 1.00
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.39
Consensus pattern (249 bp):
GATTAGTGAACTTGGTTGGTTATTGATAGTTTAAAAATCTTAATAAATTATGTGTATGTTCGAAT
ACACATAACTTTATTTGGTTCGATTTGCATAGAAAGTGTATATCTACTTAAAGTGGTTAATTGTA
TAATGATATAGGTATGGTTAATAAAGTTAAATAAAGATTAATTATTGAGATTATTTGTTTAATAG
GGATTGTAAGTGAAACAAAGATAAATTACCAAATGAATAGTGATTTATGTAATA
Found at i:57206518 original size:86 final size:84
Alignment explanation
Indices: 57206371--57206542 Score: 192
Period size: 86 Copynumber: 2.0 Consensus size: 84
57206361 CATAAGCTCG
* * * *
57206371 TACAATGCCAATGTCCCAGGCGTGACTTACATGTAATCAAATATCGATGCCACTATCCCAGACAG
1 TACAATACCAATGTCCCAGACATGACTTACACGTAATCAAATATCGATGCCACTATCCCAGAC-G
*
57206436 T-GTCTTGCACGA-AATCATA
65 TGGTCTTACACGATAA-CATA
*
57206455 TACAATACCAATGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGATGCCAACGT-T-CCA
1 TACAATACCAATGTCCCAGACAT-GACTTACACGT-AATCA-AATATCGATGCC-AC-TATCCCA
57206517 GACGTGGTCTTACACGATAACATA
61 GACGTGGTCTTACACGATAACATA
57206541 TA
1 TA
57206543 TTGAATCCTA
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
84 20 0.27
85 11 0.15
86 36 0.48
87 7 0.09
88 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (84 bp):
TACAATACCAATGTCCCAGACATGACTTACACGTAATCAAATATCGATGCCACTATCCCAGACGT
GGTCTTACACGATAACATA
Found at i:57211633 original size:20 final size:20
Alignment explanation
Indices: 57211589--57211654 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
57211579 CATCCAAACA
57211589 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
57211608 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
*
57211628 CTAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
57211648 CCAGAAA
1 CCAGAAA
57211655 TTATTTTTCG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 16 0.36
20 28 0.64
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.27
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:57214792 original size:35 final size:35
Alignment explanation
Indices: 57214741--57214809 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
57214731 AAAAGTAGAG
*
57214741 GACTAAATCCGCACAAATCGATAAGTACAGGGACA
1 GACTAAATCCGCACAAATAGATAAGTACAGGGACA
57214776 GACTAAATCCAG-ACAAATAGATAAGTACAGGGAC
1 GACTAAATCC-GCACAAATAGATAAGTACAGGGAC
57214810 CATCCTCAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 31 0.97
36 1 0.03
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (35 bp):
GACTAAATCCGCACAAATAGATAAGTACAGGGACA
Found at i:57216884 original size:20 final size:20
Alignment explanation
Indices: 57216859--57216896 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
57216849 GGCAACAATC
57216859 TCAGTCCACCCCCAATCCTA
1 TCAGTCCACCCCCAATCCTA
57216879 TCAGTCCACCCCCAATCC
1 TCAGTCCACCCCCAATCC
57216897 CCTGGTGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.53, G:0.05, T:0.18
Consensus pattern (20 bp):
TCAGTCCACCCCCAATCCTA
Found at i:57218839 original size:22 final size:22
Alignment explanation
Indices: 57218814--57218855 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57218804 AATTCTGTAG
57218814 GAATATTCTGTAAATATTTTAA
1 GAATATTCTGTAAATATTTTAA
* *
57218836 GAATATTTTGTAGATATTTT
1 GAATATTCTGTAAATATTTT
57218856 TTTATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (22 bp):
GAATATTCTGTAAATATTTTAA
Found at i:57220497 original size:22 final size:22
Alignment explanation
Indices: 57220472--57220516 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57220462 TTTAATAAAA
57220472 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
57220494 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
57220516 A
1 A
57220517 CAAGTATAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:57223094 original size:22 final size:22
Alignment explanation
Indices: 57223066--57223110 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
57223056 AGGGGGAGTG
57223066 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
57223088 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
57223110 T
1 T
57223111 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:57223580 original size:21 final size:21
Alignment explanation
Indices: 57223556--57223595 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
57223546 TTAATATAAT
57223556 CTGTCAA-TAGGAGATTTGGGG
1 CTGTCAATTAGG-GATTTGGGG
57223577 CTGTCAATTAGGGATTTGG
1 CTGTCAATTAGGGATTTGG
57223596 AGATAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.23, C:0.10, G:0.35, T:0.33
Consensus pattern (21 bp):
CTGTCAATTAGGGATTTGGGG
Found at i:57228485 original size:18 final size:18
Alignment explanation
Indices: 57228462--57228497 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57228452 AACTTCCACG
*
57228462 AATGAAAAAGATTAAAAT
1 AATGAAAAACATTAAAAT
57228480 AATGAAAAACATTAAAAT
1 AATGAAAAACATTAAAAT
57228498 TATTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (18 bp):
AATGAAAAACATTAAAAT
Found at i:57230393 original size:13 final size:13
Alignment explanation
Indices: 57230377--57230401 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57230367 TATAGTGAAA
57230377 AAGTATTTTTGAT
1 AAGTATTTTTGAT
57230390 AAGTATTTTTGA
1 AAGTATTTTTGA
57230402 AAATTGCTTT
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:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
AAGTATTTTTGAT
Found at i:57230711 original size:14 final size:14
Alignment explanation
Indices: 57230692--57230718 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57230682 TTTAAATATA
57230692 ATAATTAGATATTT
1 ATAATTAGATATTT
57230706 ATAATTAGATATT
1 ATAATTAGATATT
57230719 GACACAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATAATTAGATATTT
Found at i:57231293 original size:32 final size:33
Alignment explanation
Indices: 57231257--57231319 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
57231247 ATTTTTTTAA
* * *
57231257 TATTATTTTCTTATTATTTTTCT-TTATTTTGC
1 TATTATTTTATTATTATATTACTATTATTTTGC
57231289 TATTATTTTATTATTATATTACTATTATTTT
1 TATTATTTTATTATTATATTACTATTATTTT
57231320 ATTGTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (33 bp):
TATTATTTTATTATTATATTACTATTATTTTGC
Found at i:57231327 original size:11 final size:11
Alignment explanation
Indices: 57231251--57231328 Score: 70
Period size: 11 Copynumber: 7.2 Consensus size: 11
57231241 TGACAAATTT
*
57231251 TTTTAATATTA
1 TTTTATTATTA
*
57231262 TTTTCTTATTA
1 TTTTATTATTA
57231273 TTTT-TCT-TTA
1 TTTTAT-TATTA
**
57231283 TTTTGCTATTA
1 TTTTATTATTA
57231294 TTTTATTATTA
1 TTTTATTATTA
* *
57231305 TATTACTATTA
1 TTTTATTATTA
*
57231316 TTTTATTGTTA
1 TTTTATTATTA
57231327 TT
1 TT
57231329 GTTTGGATAT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
10 9 0.17
11 45 0.83
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:57231393 original size:30 final size:30
Alignment explanation
Indices: 57231357--57231418 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
57231347 ATTTATTTTA
57231357 TTATTAATTTTGTTATTATTTTAAAGATAT
1 TTATTAATTTTGTTATTATTTTAAAGATAT
* *
57231387 TTATTAATTTTGTTATTATTTTAGAGGTAT
1 TTATTAATTTTGTTATTATTTTAAAGATAT
57231417 TT
1 TT
57231419 GCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (30 bp):
TTATTAATTTTGTTATTATTTTAAAGATAT
Found at i:57242373 original size:32 final size:32
Alignment explanation
Indices: 57242332--57242398 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
57242322 TCATGATCTG
57242332 TCAACCAATCCATACCCAATATAACATCAAAT
1 TCAACCAATCCATACCCAATATAACATCAAAT
57242364 TCAACCAATCCATACCCAATATAACATCAAAT
1 TCAACCAATCCATACCCAATATAACATCAAAT
57242396 TCA
1 TCA
57242399 TCAAACGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.22
Consensus pattern (32 bp):
TCAACCAATCCATACCCAATATAACATCAAAT
Found at i:57246311 original size:21 final size:21
Alignment explanation
Indices: 57246284--57246338 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
57246274 TTGCGTGGCG
**
57246284 CAACACGTGATGTGTGTAGCA
1 CAACACGAAATGTGTGTAGCA
*
57246305 TAACACGAAATGTGTGTAGCA
1 CAACACGAAATGTGTGTAGCA
*
57246326 CAACACGCAATGT
1 CAACACGAAATGT
57246339 CTATGTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (21 bp):
CAACACGAAATGTGTGTAGCA
Found at i:57249364 original size:14 final size:13
Alignment explanation
Indices: 57249340--57249379 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
57249330 AGGAAAGTCC
57249340 ATTAGGTTAATTTA
1 ATTA-GTTAATTTA
57249354 AGTTAGTTAATTTA
1 A-TTAGTTAATTTA
57249368 ATTAGTTTAATT
1 ATTAG-TTAATT
57249380 AAAATATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.17
14 17 0.71
15 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (13 bp):
ATTAGTTAATTTA
Found at i:57251043 original size:142 final size:142
Alignment explanation
Indices: 57250787--57251070 Score: 559
Period size: 142 Copynumber: 2.0 Consensus size: 142
57250777 TTCAATGCGT
*
57250787 AATACAATCTATTAAAGATGGGCCACACCTTGGTGCTAGAGAAACTTCTAACCACTAGAAACATT
1 AATACAATCTAGTAAAGATGGGCCACACCTTGGTGCTAGAGAAACTTCTAACCACTAGAAACATT
57250852 TTCCAATATTGTTTTGAAGGAAAGAGCCCCAATGGTTTTCGAGTAGCGAACCTTATGTATGGTGC
66 TTCCAATATTGTTTTGAAGGAAAGAGCCCCAATGGTTTTCGAGTAGCGAACCTTATGTATGGTGC
57250917 GAATCCTAGGAG
131 GAATCCTAGGAG
57250929 AATACAATCTAGTAAAGATGGGCCACACCTTGGTGCTAGAGAAACTTCTAACCACTAGAAACATT
1 AATACAATCTAGTAAAGATGGGCCACACCTTGGTGCTAGAGAAACTTCTAACCACTAGAAACATT
57250994 TTCCAATATTGTTTTGAAGGAAAGAGCCCCAATGGTTTTCGAGTAGCGAACCTTATGTATGGTGC
66 TTCCAATATTGTTTTGAAGGAAAGAGCCCCAATGGTTTTCGAGTAGCGAACCTTATGTATGGTGC
57251059 GAATCCTAGGAG
131 GAATCCTAGGAG
57251071 GTTGATGTTT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 141 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (142 bp):
AATACAATCTAGTAAAGATGGGCCACACCTTGGTGCTAGAGAAACTTCTAACCACTAGAAACATT
TTCCAATATTGTTTTGAAGGAAAGAGCCCCAATGGTTTTCGAGTAGCGAACCTTATGTATGGTGC
GAATCCTAGGAG
Found at i:57254738 original size:27 final size:27
Alignment explanation
Indices: 57254664--57254793 Score: 127
Period size: 27 Copynumber: 4.8 Consensus size: 27
57254654 ATTCAAAGTT
* *
57254664 CGCCACAAAGGCTATTCTTTCATATTA
1 CGCCATAAAGGCTTTTCTTTCATATTA
* * * * *
57254691 TGCCCATAGA-GATGTTCCTTTCAAATTA
1 CG-CCATAAAGGCT-TTTCTTTCATATTA
* * *
57254719 CACCATAAAGGCTTTTCTTTCCTTTTA
1 CGCCATAAAGGCTTTTCTTTCATATTA
*
57254746 TGCCATAAAGGCTTTTCTTTCATATTA
1 CGCCATAAAGGCTTTTCTTTCATATTA
*
57254773 CGCCATAAAGGATTTTCTTTC
1 CGCCATAAAGGCTTTTCTTTC
57254794 CTGACGTATT
Statistics
Matches: 79, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
27 61 0.77
28 18 0.23
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (27 bp):
CGCCATAAAGGCTTTTCTTTCATATTA
Found at i:57254779 original size:54 final size:55
Alignment explanation
Indices: 57254655--57254795 Score: 153
Period size: 54 Copynumber: 2.6 Consensus size: 55
57254645 AGGTGATCCA
* * * *
57254655 TTCAAAGTT-CGCCACAAAGGCTATTCTTTCATATTATGCCCATAGAGATGTTCCT
1 TTCAAA-TTACGCCATAAAGGCTTTTCTTTCCTATTATGCCCATAAAGATGTTCCT
* * * *
57254710 TTCAAATTACACCATAAAGGCTTTTCTTTCCTTTTATG-CCATAAAGGCT-TTTCT
1 TTCAAATTACGCCATAAAGGCTTTTCTTTCCTATTATGCCCATAAA-GATGTTCCT
* *
57254764 TTCATATTACGCCATAAAGGATTTTCTTTCCT
1 TTCAAATTACGCCATAAAGGCTTTTCTTTCCT
57254796 GACGTATTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
54 41 0.56
55 32 0.44
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (55 bp):
TTCAAATTACGCCATAAAGGCTTTTCTTTCCTATTATGCCCATAAAGATGTTCCT
Found at i:57255881 original size:13 final size:13
Alignment explanation
Indices: 57255860--57255895 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
57255850 TATTTTCAAT
*
57255860 ATATTTTTTAAAG
1 ATATGTTTTAAAG
*
57255873 TTATGTTTTAAAG
1 ATATGTTTTAAAG
57255886 ATATGTTTTA
1 ATATGTTTTA
57255896 TGCGTTCTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (13 bp):
ATATGTTTTAAAG
Found at i:57258779 original size:93 final size:93
Alignment explanation
Indices: 57258666--57258837 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
57258656 CGCCCATAAG
* *
57258666 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57258731 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
57258759 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
57258824 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
57258838 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:57258834 original size:46 final size:46
Alignment explanation
Indices: 57258659--57258834 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
57258649 TGTAACCCGC
* * *
57258659 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
57258705 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
57258755 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
57258798 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
57258835 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:57260395 original size:48 final size:47
Alignment explanation
Indices: 57260249--57260509 Score: 169
Period size: 48 Copynumber: 5.4 Consensus size: 47
57260239 GGTGCTAGTG
* *
57260249 TAAGACATGTCTGGGACATGCATC-AGCCAT-A-G-TATGAGAGCTAGTA
1 TAAGACATGTCTGGGACATGCATCGA-CC-TCACGATAT-AAAGCCAGTA
* * *
57260295 TAAGACATGTCTGGGACATGCATCGACCTTGAC-ATATTTAAGCCA-AA
1 TAAGACATGTCTGGGACATGCATCGACC-TCACGATA-TAAAGCCAGTA
* *
57260342 GTAAGACATGTTTGGGACATGCATCGACCTCACGATATACAAGCTAGTA
1 -TAAGACATGTCTGGGACATGCATCGACCTCACGATATA-AAGCCAGTA
* * * * * * *
57260391 TAAGACCTGTCTAGGACATGGCATCGACACTGATAGAT-GAGAGCCAGTG
1 TAAGACATGTCTGGGACAT-GCATCGAC-CTCA-CGATATAAAGCCAGTA
* * * *
57260440 TAAGACCTGTTTGGGACATGGCATC-AGCCTCTCTATATGAAAGCCAGTA
1 TAAGACATGTCTGGGACAT-GCATCGA-CCTCACGATAT-AAAGCCAGTA
*
57260489 TAAGACCATGTTTGGGACATG
1 TAAGA-CATGTCTGGGACATG
57260510 GCGTCGGCAT
Statistics
Matches: 170, Mismatches: 29, Indels: 29
0.75 0.13 0.13
Matches are distributed among these distances:
46 27 0.16
47 9 0.05
48 60 0.35
49 54 0.32
50 17 0.10
51 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (47 bp):
TAAGACATGTCTGGGACATGCATCGACCTCACGATATAAAGCCAGTA
Found at i:57260452 original size:97 final size:98
Alignment explanation
Indices: 57260248--57260511 Score: 278
Period size: 97 Copynumber: 2.7 Consensus size: 98
57260238 GGGTGCTAGT
* * *
57260248 GTAAGACATGTCTGGGACAT-GCATCAGCCAT-A-G-TATGAGAGCTAGTATAAGACATGTCTGG
1 GTAAGACATGTTTGGGACATGGCATCAGCC-TCACGATATGAAAGCTAGTATAAGACCTGTCTGG
* *
57260309 GACAT-GCATCGACCTTGACATATTTAAGCCAAA
65 GACATGGCATCGACCTTGACAGATTGAAGCCAAA
*
57260342 GTAAGACATGTTTGGGACAT-GCATC-GACCTCACGATAT-ACAAGCTAGTATAAGACCTGTCTA
1 GTAAGACATGTTTGGGACATGGCATCAG-CCTCACGATATGA-AAGCTAGTATAAGACCTGTCTG
* **
57260404 GGACATGGCATCGACAC-TGATAGA-TGAGAGCCAGT
64 GGACATGGCATCGAC-CTTGACAGATTGA-AGCCAAA
* * * * *
57260439 GTAAGACCTGTTTGGGACATGGCATCAGCCTCTCTATATGAAAGCCAGTATAAGACCATGTTTGG
1 GTAAGACATGTTTGGGACATGGCATCAGCCTCACGATATGAAAGCTAGTATAAGACC-TGTCTGG
57260504 GACATGGC
65 GACATGGC
57260512 GTCGGCATCT
Statistics
Matches: 143, Mismatches: 15, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
93 2 0.01
94 27 0.19
95 2 0.01
96 30 0.21
97 37 0.26
98 30 0.21
99 15 0.10
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (98 bp):
GTAAGACATGTTTGGGACATGGCATCAGCCTCACGATATGAAAGCTAGTATAAGACCTGTCTGGG
ACATGGCATCGACCTTGACAGATTGAAGCCAAA
Found at i:57260485 original size:49 final size:48
Alignment explanation
Indices: 57260343--57260511 Score: 171
Period size: 49 Copynumber: 3.5 Consensus size: 48
57260333 TAAGCCAAAG
* * * *
57260343 TAAGACATGTTTGGGACAT-GCATCGACCTCACGATAT-ACAAGCTAGTA
1 TAAGACCTGTTTGGGACATGGCATCG-CCTCTCTATATGA-AAGCCAGTA
* * * * * * * *
57260391 TAAGACCTGTCTAGGACATGGCATCGACACTGATAGATGAGAGCCAGTG
1 TAAGACCTGTTTGGGACATGGCATCGCCTCT-CTATATGAAAGCCAGTA
57260440 TAAGACCTGTTTGGGACATGGCATCAGCCTCTCTATATGAAAGCCAGTA
1 TAAGACCTGTTTGGGACATGGCATC-GCCTCTCTATATGAAAGCCAGTA
57260489 TAAGACCATGTTTGGGACATGGC
1 TAAGACC-TGTTTGGGACATGGC
57260512 GTCGGCATCT
Statistics
Matches: 96, Mismatches: 20, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
48 18 0.19
49 58 0.60
50 20 0.21
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (48 bp):
TAAGACCTGTTTGGGACATGGCATCGCCTCTCTATATGAAAGCCAGTA
Found at i:57261801 original size:43 final size:43
Alignment explanation
Indices: 57261753--57261838 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
57261743 TTAAACAAAG
57261753 TTCAAAAGAGCTTTAAATTTGATTAAGTCTTGGTGACTTCGAA
1 TTCAAAAGAGCTTTAAATTTGATTAAGTCTTGGTGACTTCGAA
57261796 TTCAAAAGAGCTTTAAATTTGATTAAGTCTTGGTGACTTCGAA
1 TTCAAAAGAGCTTTAAATTTGATTAAGTCTTGGTGACTTCGAA
57261839 ACGATTGTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (43 bp):
TTCAAAAGAGCTTTAAATTTGATTAAGTCTTGGTGACTTCGAA
Found at i:57293893 original size:47 final size:44
Alignment explanation
Indices: 57293789--57294095 Score: 219
Period size: 47 Copynumber: 6.6 Consensus size: 44
57293779 TACGCGTACT
*
57293789 GATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTT-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAG--CATCTCTTGAGGCC
* * *
57293833 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTTTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-ATCTC-TT-GAGGCC
* * *
57293880 GATGCATGTCCCAGACATGTCTTACACTTGCACTCATCTCTG-TGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCA-TC-TCT-TGAGGCC
* * * * *
57293926 GATACCATGTCCCAGACATGCTCTTACACTGGCTATC-ATAGTATGGCT
1 GAT-GCATGTCCCAGACATG-TCTTACACTAGC-ATCTCTTG-A-GGCC
* * *
57293974 GATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTTGATGCT
1 GATGCATGTCCCAGACATGTCTTACACTAG-CATC-TCTTGAGGCC
* *
57294020 GATGCCATGCCCCAGACATAGTCTTACACTAGC-TCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCATCTC-T--TGAGGCC
* * *
57294068 GAAGCATGTCCCAAACACGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
57294096 GGCGCACAAA
Statistics
Matches: 211, Mismatches: 30, Indels: 42
0.75 0.11 0.15
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 29 0.14
45 3 0.01
46 40 0.19
47 92 0.44
48 41 0.19
49 1 0.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCATCTCTTGAGGCC
Found at i:57293990 original size:94 final size:91
Alignment explanation
Indices: 57293738--57294095 Score: 341
Period size: 94 Copynumber: 3.8 Consensus size: 91
57293728 GATATATTGC
* * * *
57293738 CGATGCCATGTCCCAGACATGGTCTTACACCGGCTCTCATATACGCGTACTGATGCATGTCCCAG
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATATATG-G--CCGATGCATGTCCCAG
*
57293803 ACATGTCTTACACTAGCA--CAACTCT-TAG
62 ACATGTCTTACACTAGCACTCATCTCTGT-G
* * * *
57293831 CCGATG-CGTGTCCCAGACACGTCTTACACTGGCTATC-TCTTTCGAGGCCGATGCATGTCCCAG
1 -CGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATATAT---GGCCGATGCATGTCCCAG
*
57293894 ACATGTCTTACACTTGCACTCATCTCTGTG
62 ACATGTCTTACACTAGCACTCATCTCTGTG
* *
57293924 TCGATACCATGTCCCAGACATGCTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGA
1 -CGATGCCATGTCCCAGACATG-TCTTACACTGGCTATCATA-TATGGCCGATGCATGTCCCAGA
* *
57293989 CATGTCTTACACTAGCCCTCGTCT-TGATG
63 CATGTCTTACACTAGCACTCATCTCTG-TG
* * * * * *
57294018 CTGATGCCATGCCCCAGACATAGTCTTACACTAGCTCTCATAATGTGGCCGAAGCATGTCCCAAA
1 C-GATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCAT-ATATGGCCGATGCATGTCCCAGA
*
57294083 CACGTCTTACACT
63 CATGTCTTACACT
57294096 GGCGCACAAA
Statistics
Matches: 221, Mismatches: 29, Indels: 28
0.79 0.10 0.10
Matches are distributed among these distances:
91 34 0.15
92 15 0.07
93 27 0.12
94 124 0.56
95 18 0.08
96 1 0.00
97 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (91 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATATATGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCACTCATCTCTGTG
Found at i:57294076 original size:141 final size:139
Alignment explanation
Indices: 57293736--57294098 Score: 351
Period size: 141 Copynumber: 2.6 Consensus size: 139
57293726 GGGATATATT
** * * * * *
57293736 GCCGATGCCATGTCCCAGACATGGTCTTACACCGGCTCTCATATACGCGTACTGATGCATGTCCC
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATA-ATGTGTGCCGAAGCATGTCCC
* * * * *
57293801 AGACATGTCTTACACTAGCACAACTCTTAGCCGATGCGTGTCCCAGACACGTCTTACACTGGCTA
64 AGACATGTCTTACACTGGCACAACTCATAGCCGATGCATGTCCCAGACACGTCTTACACTAGCCA
57293866 TCTCTTTCGAG
129 TCTCTTTCGAG
* * * * * *
57293877 GCCGATG-CATGTCCCAGACATGTCTTACACTTGCACTCAT-CTCTGTGTCGATACCATGTCCCA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGTGCCGA-AGCATGTCCCA
* * * *
57293940 GACATGCTCTTACACTGGCTATCATAGT-ATGGCTGATGCATGTCCCAGACATGTCTTACACTAG
65 GACATG-TCTTACACTGGC-A-CA-ACTCATAGCCGATGCATGTCCCAGACACGTCTTACACTAG
* *
57294004 CCCTCGTC-TT-GAT
126 CCATC-TCTTTCGAG
* *
57294017 GCTGATGCCATGCCCCAGACATAGTCTTACACTAGCTCTCATAATGTG-GCCGAAGCATGTCCCA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGTGCCGAAGCATGTCCCA
* *
57294081 AACACGTCTTACACTGGC
65 GACATGTCTTACACTGGC
57294099 GCACAAATCA
Statistics
Matches: 180, Mismatches: 33, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
137 4 0.02
138 15 0.08
139 27 0.15
140 35 0.19
141 71 0.39
142 25 0.14
143 3 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (139 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGTGCCGAAGCATGTCCCAG
ACATGTCTTACACTGGCACAACTCATAGCCGATGCATGTCCCAGACACGTCTTACACTAGCCATC
TCTTTCGAG
Found at i:57301441 original size:94 final size:94
Alignment explanation
Indices: 57301182--57301542 Score: 387
Period size: 94 Copynumber: 3.9 Consensus size: 94
57301172 TGGGATATAT
* * *
57301182 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCATGCTGATGCATGTC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATG---GCCGATGCATGTC
*
57301246 CCAGACATGTCTTACACTAGCA--CAACTCT-
63 CCAGACATGTCTTACACTAGCACTCATCTCTG
* * * *
57301275 TAGCCGATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCAATGCATGT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGT
*
57301336 CCCAGACATGTCTTACACTGGCACTCATCTCTG
62 CCCAGACATGTCTTACACTAGCACTCATCTCTG
* *
57301369 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGTATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
* * ** **
57301434 GACATGTCTTACACTATCCCTTGTCTGGG
66 GACATGTCTTACACTAGCACTCATCTCTG
* * * * * *
57301463 TGCCGATGCCATGCCCCAGACATAGTCTTACACTGGATCTCATAATATGGCCGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
*
57301528 GACACGTCTTACACT
66 GACATGTCTTACACT
57301543 GGCGCACAAA
Statistics
Matches: 226, Mismatches: 30, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
91 33 0.15
92 16 0.07
93 28 0.12
94 128 0.57
95 20 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCATCTCTG
Found at i:57301516 original size:48 final size:46
Alignment explanation
Indices: 57301183--57301544 Score: 253
Period size: 47 Copynumber: 7.7 Consensus size: 46
57301173 GGGATATATT
* *
57301183 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGATCTCATAGTATG
* * * * * *
57301230 CATGCTGATGCATGTCCCAGACATGTCTTACACT--AGCACA-ACTCTTA
1 ---GCCGATGCATGTCCCAGACATGTCTTACACTGGATCTCATAGT-ATG
* *
57301277 GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-T-GTCGA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTGG--ATCTCATAGT--ATG
* * *
57301324 GCCAATGCATGTCCCAGACATGTCTTACACTGGCA-CTCAT-CTCTG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGG-ATCTCATAGTATG
* *
57301369 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGATCTCATAGTATG
* * * * *
57301418 GCTGATGTATGTCCCAGACATGTCTTACACT--ATC-CCTTGTCTGGG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGATCTCATAGTAT--G
* *
57301463 TGCCGATGCCATGCCCCAGACATAGTCTTACACTGGATCTCATAATATG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGATCTCATAGTATG
* *
57301512 GCCGAAGCATGTCCCAGACACGTCTTACACTGG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGG
57301545 CGCACAAATC
Statistics
Matches: 245, Mismatches: 44, Indels: 50
0.72 0.13 0.15
Matches are distributed among these distances:
43 5 0.02
44 29 0.12
45 6 0.02
46 41 0.17
47 82 0.33
48 51 0.21
49 18 0.07
50 9 0.04
51 4 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGATCTCATAGTATG
Found at i:57308758 original size:30 final size:30
Alignment explanation
Indices: 57308724--57308785 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
57308714 CCACCCGAAT
*
57308724 GATGTTTCTAATGCACTCGTAGGGCGCATA
1 GATGTTTCTAATGCACTCATAGGGCGCATA
57308754 GATGTTTCTAATGCACTCATAGGGCGCATA
1 GATGTTTCTAATGCACTCATAGGGCGCATA
57308784 GA
1 GA
57308786 CAACGATTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (30 bp):
GATGTTTCTAATGCACTCATAGGGCGCATA
Found at i:57309933 original size:40 final size:40
Alignment explanation
Indices: 57309878--57310296 Score: 777
Period size: 40 Copynumber: 10.5 Consensus size: 40
57309868 GAATGTGCAA
57309878 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57309918 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57309958 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57309998 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57310038 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57310078 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57310118 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57310158 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
57310198 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
* * * *
57310238 GGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCG
1 GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
* *
57310277 GGCTATGTCCCGAAGGCATT
1 GGTTAAGTCCCGAAGGCATT
57310297 TGAACGAGGA
Statistics
Matches: 374, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
39 35 0.09
40 339 0.91
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCG
Found at i:57312448 original size:46 final size:46
Alignment explanation
Indices: 57312381--57312472 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
57312371 GAAGGAATTT
*
57312381 CTTGAGCTTAAGCAAGGCTCCATGTCGGTTACTGATTACGAGCGAA
1 CTTGAGCTTAAGCAAGGCTCCATGTCAGTTACTGATTACGAGCGAA
57312427 CTTGAGCTTAAGCAAGGCTCCATGTCAGTTACTGATTACGAGCGAA
1 CTTGAGCTTAAGCAAGGCTCCATGTCAGTTACTGATTACGAGCGAA
57312473 AATTTGTTAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (46 bp):
CTTGAGCTTAAGCAAGGCTCCATGTCAGTTACTGATTACGAGCGAA
Found at i:57323238 original size:53 final size:53
Alignment explanation
Indices: 57323181--57323317 Score: 204
Period size: 53 Copynumber: 2.6 Consensus size: 53
57323171 TGTATAACCA
*
57323181 TAACTGGTGGGTTATGGCATCATAT-TGAAAGAAGACCATATTGTGTAAGACCG
1 TAACTGGTGGGTTATGGCATCATATGGGAAA-AAGACCATATTGTGTAAGACCG
* * * *
57323234 TAACTAGTGGGTTATGGCATCATATGGGAAAAAGACTATATTGTGTCAGACTG
1 TAACTGGTGGGTTATGGCATCATATGGGAAAAAGACCATATTGTGTAAGACCG
*
57323287 TAACTGGTGGGTTATGGCATCATATAGGAAA
1 TAACTGGTGGGTTATGGCATCATATGGGAAA
57323318 TTTTAAGGAA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
53 72 0.95
54 4 0.05
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (53 bp):
TAACTGGTGGGTTATGGCATCATATGGGAAAAAGACCATATTGTGTAAGACCG
Found at i:57324524 original size:16 final size:17
Alignment explanation
Indices: 57324495--57324560 Score: 55
Period size: 17 Copynumber: 3.6 Consensus size: 17
57324485 AATATTTAAG
57324495 CATAT-ATCACCATACT
1 CATATAATCACCATACT
57324511 CATATAATCA-CATAACATT
1 CATATAATCACCAT-AC--T
*
57324530 CAATCATATATCACCATAAT
1 C-AT-ATA-ATCACCATACT
57324550 CATATAATCAC
1 CATATAATCAC
57324561 ATAACACTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 15
0.72 0.02 0.26
Matches are distributed among these distances:
16 8 0.20
17 11 0.27
18 3 0.07
19 4 0.10
20 4 0.10
21 3 0.07
22 5 0.12
23 3 0.07
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (17 bp):
CATATAATCACCATACT
Found at i:57324558 original size:8 final size:8
Alignment explanation
Indices: 57324472--57324604 Score: 57
Period size: 8 Copynumber: 17.0 Consensus size: 8
57324462 TCACATTACA
57324472 CATATAAT
1 CATATAAT
*
57324480 CACATAAT
1 CATATAAT
* *
57324488 -ATTTAAG
1 CATATAAT
57324495 CATAT-AT
1 CATATAAT
* *
57324502 CACCATACT
1 CA-TATAAT
57324511 CATATAAT
1 CATATAAT
*
57324519 CACATAA-
1 CATATAAT
57324526 CAT-TCAAT
1 CATAT-AAT
57324534 CATAT-AT
1 CATATAAT
*
57324541 CACCATAAT
1 CA-TATAAT
57324550 CATATAAT
1 CATATAAT
*
57324558 CACATAA-
1 CATATAAT
* *
57324565 CACT-CAAG
1 CA-TATAAT
57324573 CATAT-AT
1 CATATAAT
*
57324580 CATAATACT
1 CAT-ATAAT
57324589 CATATAAT
1 CATATAAT
*
57324597 CACATAAT
1 CATATAAT
57324605 ATTCAAGCAT
Statistics
Matches: 90, Mismatches: 22, Indels: 26
0.65 0.16 0.19
Matches are distributed among these distances:
6 1 0.01
7 24 0.27
8 53 0.59
9 12 0.13
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.31
Consensus pattern (8 bp):
CATATAAT
Found at i:57324589 original size:20 final size:20
Alignment explanation
Indices: 57324560--57324630 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
57324550 CATATAATCA
57324560 CATAACACTCAAGCATATAT
1 CATAACACTCAAGCATATAT
* *
57324580 CATAATACTC-A-TATA-AT
1 CATAACACTCAAGCATATAT
* *
57324597 CACATAATATTCAAGCATATAT
1 --CATAACACTCAAGCATATAT
*
57324619 CACAACACTCAA
1 CATAACACTCAA
57324631 AAACATGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
17 2 0.05
18 3 0.08
19 10 0.26
20 19 0.49
21 3 0.08
22 2 0.05
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (20 bp):
CATAACACTCAAGCATATAT
Found at i:57324629 original size:39 final size:39
Alignment explanation
Indices: 57324453--57324629 Score: 246
Period size: 39 Copynumber: 4.5 Consensus size: 39
57324443 ATTCACTCTT
* * * *
57324453 AAGCATATATCACATTACACATATAATCACATAATATTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
57324492 AAGCATATATCACCATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * *
57324531 AATCATATATCACCATAATCATATAATCACATAACACTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
57324570 AAGCATATATCATAATACTCATATAATCACATAATATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
57324609 AAGCATATATCACAACACTCA
1 AAGCATATATCACAATACTCA
57324630 AAAACATGTT
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 122 1.00
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:57326467 original size:28 final size:28
Alignment explanation
Indices: 57326407--57326467 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
57326397 AACAATAGGT
* * * *
57326407 AAAGGACAACCTTTGTAGCAAACCTGTT
1 AAAGGACAACCTTTATAGCAAAACTCTG
*
57326435 AAAGGACAACCTTTATGGCAAAACTCTG
1 AAAGGACAACCTTTATAGCAAAACTCTG
*
57326463 GAAGG
1 AAAGG
57326468 GTAAGCCTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (28 bp):
AAAGGACAACCTTTATAGCAAAACTCTG
Found at i:57336053 original size:21 final size:20
Alignment explanation
Indices: 57336029--57336071 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
57336019 AAAATGATCA
* *
57336029 AAGAATAAAAGAAATTGAGAG
1 AAGAAAAAAAG-AATTGAAAG
57336050 AAGAAAAAAAGAATTGAAAG
1 AAGAAAAAAAGAATTGAAAG
57336070 AA
1 AA
57336072 AAGAGAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (20 bp):
AAGAAAAAAAGAATTGAAAG
Found at i:57336077 original size:29 final size:28
Alignment explanation
Indices: 57336028--57336085 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
57336018 GAAAATGATC
*
57336028 AAAGAATAAAAGAAATTGAGAGAAGAAAA
1 AAAGAATAAAAGAAATAGAGA-AAGAAAA
*
57336057 AAAGAATTGAAAGAAA-AGAGAAAGAAAA
1 AAAGAA-TAAAAGAAATAGAGAAAGAAAA
57336085 A
1 A
57336086 GAAAAAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 8 0.31
29 10 0.38
30 8 0.31
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (28 bp):
AAAGAATAAAAGAAATAGAGAAAGAAAA
Found at i:57336130 original size:11 final size:11
Alignment explanation
Indices: 57336066--57336132 Score: 50
Period size: 12 Copynumber: 6.2 Consensus size: 11
57336056 AAAAGAATTG
*
57336066 AAAGAAAAGAG
1 AAAGAAAAGAA
57336077 AAAGAAAAAGAA
1 AAAG-AAAAGAA
*
57336089 AAAGAAATTGAA
1 AAAGAAA-AGAA
*
57336101 AAAG--AGGAA
1 AAAGAAAAGAA
* *
57336110 AATG-AGAGAA
1 AAAGAAAAGAA
57336120 AAAGAAAAGAA
1 AAAGAAAAGAA
57336131 AA
1 AA
57336133 TGTGAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 8
0.73 0.13 0.13
Matches are distributed among these distances:
9 6 0.14
10 7 0.16
11 14 0.32
12 17 0.39
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.04
Consensus pattern (11 bp):
AAAGAAAAGAA
Found at i:57337825 original size:40 final size:40
Alignment explanation
Indices: 57337746--57337911 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
57337736 AACCCAAGTA
* * * * *
57337746 CCTTCGGAATTTAG-CCGGATAT-AGCAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
* *
57337785 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
57337825 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
57337865 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
57337905 CCTTCGG
1 CCTTCGG
57337912 ATCGTAGTCC
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 12 0.10
40 103 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:57353237 original size:79 final size:81
Alignment explanation
Indices: 57353101--57353285 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
57353091 TTGAATGATG
* *
57353101 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
57353165 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
57353180 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
57353242 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
57353260 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
57353286 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:57353299 original size:40 final size:40
Alignment explanation
Indices: 57353102--57353285 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
57353092 TGAATGATGT
* * * *
57353102 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
57353142 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
57353182 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
57353220 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
57353261 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
57353286 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:57353307 original size:79 final size:79
Alignment explanation
Indices: 57353154--57353318 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
57353144 GGACTAAGAT
* * **
57353154 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
57353219 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
57353233 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
57353296 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
57353312 CCGAAGG
1 CCGAAGG
57353319 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:57359000 original size:50 final size:50
Alignment explanation
Indices: 57358900--57359170 Score: 335
Period size: 50 Copynumber: 5.6 Consensus size: 50
57358890 GAGTGCTAGC
* *
57358900 GTAAGACCATGTCTAGGACATGGCATCGA--T--AGA--TGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACCTCGATACGTGAGAGCCAGT
* *
57358944 GTAAGACCATGTATGGGACATGGCATCGACCTCGATATGTGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACCTCGATACGTGAGAGCCAGT
* * **
57358994 GTAAGACCATGTCTGGGACATGGCATCGGCCTTGATTTGTGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGACCTCGATACGTGAGAGCCAGT
* *
57359044 GTAAGACCATGTCTGAGACATGGCATC-AGCCTCGATACGTGAGAGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGA-CCTCGATACGTGAGAGCCAGT
* * * * *
57359094 GTAAGACCATGTCTGGGACAAGGCATCG-GCTCGATACCTGAGAGTCAAT
1 GTAAGACCATGTCTGGGACATGGCATCGACCTCGATACGTGAGAGCCAGT
57359143 GTAAGACCATG-CTGGGACATGGCATCGA
1 GTAAGACCATGTCTGGGACATGGCATCGA
57359171 TATTAATGTA
Statistics
Matches: 197, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
44 27 0.14
46 1 0.01
48 17 0.09
49 27 0.14
50 125 0.63
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATCGACCTCGATACGTGAGAGCCAGT
Found at i:57361521 original size:21 final size:20
Alignment explanation
Indices: 57361495--57361545 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
57361485 GTTGCTGAAA
57361495 AGGAAGTTGCTACTGCAGAAG
1 AGGAAGTTGCTA-TGCAGAAG
*
57361516 AGGAAGTTG-T-TGCTGAAG
1 AGGAAGTTGCTATGCAGAAG
*
57361534 AAGAAGTTGCTA
1 AGGAAGTTGCTA
57361546 AAAATGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 15 0.58
19 1 0.04
20 1 0.04
21 9 0.35
ACGTcount: A:0.33, C:0.10, G:0.33, T:0.24
Consensus pattern (20 bp):
AGGAAGTTGCTATGCAGAAG
Found at i:57361539 original size:18 final size:18
Alignment explanation
Indices: 57361483--57361542 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 18
57361473 TAAGAGGACA
57361483 TTGTTGCTGAA-AAGGAAG
1 TTGTTGCTGAAGAA-GAAG
* *
57361501 TTGCTACTGCAGAAGAGGAAG
1 TTG-T--TGCTGAAGAAGAAG
57361522 TTGTTGCTGAAGAAGAAG
1 TTGTTGCTGAAGAAGAAG
57361540 TTG
1 TTG
57361543 CTAAAAATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 18 0.53
19 1 0.03
20 1 0.03
21 13 0.38
22 1 0.03
ACGTcount: A:0.32, C:0.08, G:0.33, T:0.27
Consensus pattern (18 bp):
TTGTTGCTGAAGAAGAAG
Found at i:57362014 original size:17 final size:17
Alignment explanation
Indices: 57361992--57362025 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57361982 AATAAGTATA
57361992 TATTGTCATTGCATTTT
1 TATTGTCATTGCATTTT
* *
57362009 TATTGTCCTTGCGTTTT
1 TATTGTCATTGCATTTT
57362026 CATGTTACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.59
Consensus pattern (17 bp):
TATTGTCATTGCATTTT
Found at i:57365522 original size:28 final size:29
Alignment explanation
Indices: 57365468--57365522 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
57365458 ACAAGGGTTT
* *
57365468 TCACATGGCCAAGCACACGCTCGTGTCCC
1 TCACATGGCCAAGCACACGCCCATGTCCC
* *
57365497 TCACGTGGCCTAG-ACACGCCCATGTC
1 TCACATGGCCAAGCACACGCCCATGTC
57365523 ATTGCCCGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.20, C:0.40, G:0.22, T:0.18
Consensus pattern (29 bp):
TCACATGGCCAAGCACACGCCCATGTCCC
Found at i:57372663 original size:27 final size:28
Alignment explanation
Indices: 57372620--57372693 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
57372610 TGGCCCTTTT
* * *
57372620 AGGCCTAATCTCATTCATATGGCCTATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
57372648 -GGCCCAATCACTTTCATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
57372675 AGGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
57372694 GTCATGCAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:57382004 original size:16 final size:15
Alignment explanation
Indices: 57381985--57382014 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
57381975 TTCATTTCAT
57381985 TTGCATTTACGTTAAC
1 TTGCATTTA-GTTAAC
57382001 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
57382015 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:57383382 original size:21 final size:19
Alignment explanation
Indices: 57383357--57383407 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
57383347 TGGTTTAGTA
57383357 ATTTAATTTGTTTAATTACT
1 ATTTAATTTGTTTAA-TACT
*
57383377 ATTTTAATTTGGATTAATACT
1 A-TTTAATTT-GTTTAATACT
57383398 A-TTAATTTGT
1 ATTTAATTTGT
57383408 GAATCGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
18 1 0.04
19 7 0.26
20 1 0.04
21 13 0.48
22 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (19 bp):
ATTTAATTTGTTTAATACT
Found at i:57383844 original size:21 final size:21
Alignment explanation
Indices: 57383810--57383851 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57383800 ATCAATCACC
* * *
57383810 AATCCCATTTCATTTTATTTA
1 AATCCAATTCCATTTCATTTA
57383831 AATCCAATTCCATTTCATTTA
1 AATCCAATTCCATTTCATTTA
57383852 CTAGCCATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (21 bp):
AATCCAATTCCATTTCATTTA
Found at i:57389088 original size:26 final size:24
Alignment explanation
Indices: 57389043--57389092 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
57389033 CAAATAGGAA
*
57389043 TTTAACTATCACATACTTGATCAC
1 TTTAACTATCACACACTTGATCAC
*
57389067 TTTAACTCGATCACACAGTTGATCAC
1 TTTAACT--ATCACACACTTGATCAC
57389093 AACTTCCATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
26 15 0.68
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (24 bp):
TTTAACTATCACACACTTGATCAC
Found at i:57389278 original size:56 final size:56
Alignment explanation
Indices: 57389191--57389299 Score: 173
Period size: 56 Copynumber: 1.9 Consensus size: 56
57389181 TCTTACATGT
* * *
57389191 AATCACATATCGATGCCAATGTACTAGACGTGGTCTTACTCGTACACATATATCAG
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCAG
* *
57389247 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGCACATATATAT
1 AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATAT
57389300 ATCGACGCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTACTAAACGTGGTCTTACTCGCACACATATATCAG
Found at i:57399650 original size:85 final size:84
Alignment explanation
Indices: 57399531--57399686 Score: 231
Period size: 85 Copynumber: 1.8 Consensus size: 84
57399521 AAGATACCAA
* ** *
57399531 TGCCATATCTCAGATATGGTCTTACATGGGATCACATATCGATGCCGATAGCCCAGCTATGGTCT
1 TGCCATATCTCAGACATGGTCTTACATGAAATCACATATCGATGCC-ATAGCCCAGATATGGTCT
57399596 TACACGATGTCTCATACTAG
65 TACACGATGTCTCATACTAG
* * * *
57399616 TGCCATGTCTCAGACATGGTCTTATATGAAATCACATATTGATGCCATATCCCAGATATGGTCTT
1 TGCCATATCTCAGACATGGTCTTACATGAAATCACATATCGATGCCATAGCCCAGATATGGTCTT
57399681 ACACGA
66 ACACGA
57399687 AATCACAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 23 0.37
85 40 0.63
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (84 bp):
TGCCATATCTCAGACATGGTCTTACATGAAATCACATATCGATGCCATAGCCCAGATATGGTCTT
ACACGATGTCTCATACTAG
Found at i:57401799 original size:20 final size:20
Alignment explanation
Indices: 57401776--57401819 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
57401766 GAACCACTCT
*
57401776 ATTTACTTTCTTACCATTCC
1 ATTTACTTACTTACCATTCC
* *
57401796 ATTTACTTACTTTCCATTTC
1 ATTTACTTACTTACCATTCC
57401816 ATTT
1 ATTT
57401820 TGTTAGCGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTACTTACTTACCATTCC
Found at i:57415088 original size:27 final size:27
Alignment explanation
Indices: 57415071--57415550 Score: 474
Period size: 27 Copynumber: 17.6 Consensus size: 27
57415061 ATATTAAGTC
57415071 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
57415098 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
57415126 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57415153 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57415180 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
57415208 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
57415236 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
57415264 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
57415292 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57415319 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
57415346 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
57415374 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57415401 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57415428 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57415455 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
57415482 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
57415509 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
57415536 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
57415551 GCACAATTTA
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:57415201 original size:54 final size:54
Alignment explanation
Indices: 57415071--57415550 Score: 852
Period size: 54 Copynumber: 8.8 Consensus size: 54
57415061 ATATTAAGTC
* * * *
57415071 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACT
57415126 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
57415180 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
57415236 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTC-AACT
57415292 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
57415346 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAACT
57415401 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
57415455 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
*
57415509 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
57415551 GCACAATTTA
Statistics
Matches: 415, Mismatches: 7, Indels: 7
0.97 0.02 0.02
Matches are distributed among these distances:
54 179 0.43
55 153 0.37
56 83 0.20
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
Found at i:57415208 original size:82 final size:82
Alignment explanation
Indices: 57415071--57415550 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
57415061 ATATTAAGTC
* * * *
57415071 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
57415136 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
57415153 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
57415218 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
57415236 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
57415301 AGTGCTACATAGTCAACT
65 AGTGCTACATAGTCAACT
*
57415319 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
57415384 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
57415401 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
57415465 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
*
57415482 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTC-AATTCGCACACTTA
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
57415546 GTGCT
66 GTGCT
57415551 GCACAATTTA
Statistics
Matches: 389, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
81 99 0.25
82 181 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:57421376 original size:23 final size:22
Alignment explanation
Indices: 57421333--57421377 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
57421323 GTTAAATTGA
**
57421333 ATTGTATGTATATGATTGTATT
1 ATTGTATGTATATGAAAGTATT
57421355 ATTGTCATGTATATGAAAGTATT
1 ATTGT-ATGTATATGAAAGTATT
57421378 CACATATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (22 bp):
ATTGTATGTATATGAAAGTATT
Found at i:57421648 original size:26 final size:27
Alignment explanation
Indices: 57421619--57421691 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
57421609 CCCGTTATAT
57421619 GGCTCTTCGTGAGCTTCCCGATTAA-A
1 GGCTCTTCGTGAGCTTCCCGATTAATA
* * **
57421645 GGCTTTTTGTGAGCTTCTTGATTAATA
1 GGCTCTTCGTGAGCTTCCCGATTAATA
*
57421672 -GATCTTCG-GAGCTTCCCGAT
1 GGCTCTTCGTGAGCTTCCCGAT
57421692 ATGGCTCGCT
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 10 0.27
26 26 0.70
27 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
GGCTCTTCGTGAGCTTCCCGATTAATA
Found at i:57421855 original size:25 final size:25
Alignment explanation
Indices: 57421790--57421863 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 25
57421780 CTTTTTGATT
** *
57421790 ATGGCTCTTATGAGCTTCCCGTTAT
1 ATGGCTCACATGAGCTTCCCGTTAG
* * ** *
57421815 ATAGCCCGGATAAGCTTCCCGTTAG
1 ATGGCTCACATGAGCTTCCCGTTAG
*
57421840 ATGGCTCACATGAGCTTCCTGTTA
1 ATGGCTCACATGAGCTTCCCGTTA
57421864 TATAGCTCGA
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (25 bp):
ATGGCTCACATGAGCTTCCCGTTAG
Found at i:57421871 original size:25 final size:25
Alignment explanation
Indices: 57421799--57421871 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
57421789 TATGGCTCTT
* **
57421799 ATGAGCTTCCCGTTATATAGCCCGG
1 ATGAGCTTCCCGTTATATAGCTCAC
* * *
57421824 ATAAGCTTCCCGTTAGATGGCTCAC
1 ATGAGCTTCCCGTTATATAGCTCAC
*
57421849 ATGAGCTTCCTGTTATATAGCTC
1 ATGAGCTTCCCGTTATATAGCTC
57421872 GAGGGAGGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATATAGCTCAC
Found at i:57423564 original size:20 final size:19
Alignment explanation
Indices: 57423523--57423565 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
57423513 TGAGCCTGTG
***
57423523 GGCCCACACAGCCCATTTC
1 GGCCCACACAGCCCAAAAC
57423542 GGCCCAACACAGCCCAAAAC
1 GGCCC-ACACAGCCCAAAAC
57423562 GGCC
1 GGCC
57423566 TAAACCCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.28, C:0.47, G:0.19, T:0.07
Consensus pattern (19 bp):
GGCCCACACAGCCCAAAAC
Found at i:57426790 original size:24 final size:24
Alignment explanation
Indices: 57426758--57426805 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
57426748 TTAGATCAAG
*
57426758 AACAAAGAAAATCAGACTTAGATC
1 AACAAAGAAAATCAAACTTAGATC
57426782 AACAAAGAAAATCAAACTTAGATC
1 AACAAAGAAAATCAAACTTAGATC
57426806 GGAGGAAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.56, C:0.17, G:0.10, T:0.17
Consensus pattern (24 bp):
AACAAAGAAAATCAAACTTAGATC
Found at i:57427144 original size:42 final size:42
Alignment explanation
Indices: 57427084--57427270 Score: 168
Period size: 42 Copynumber: 4.4 Consensus size: 42
57427074 GATTTACATA
57427084 TAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCGTG
1 TAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCGTG
* * * **
57427126 TAAGACCGTGTCTAGGACAT-AGGCCTCG-AT-TGAGATTTACGCA
1 TAAGACCATGTCTGGGACATCA-GCATCGTATCT--GATTT-CGTG
* *
57427169 TAAGACCATGTCTGGGACATCGGTATCGTATCTGATTTCGTG
1 TAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCGTG
* * * *
57427211 TAAGACCCTGTCTGGGACA-GAGGCATCGATAT-TGAATTACATG
1 TAAGACCATGTCTGGGACATCA-GCATCG-TATCTG-ATTTCGTG
*
57427254 TAAGACCACGTCTGGGA
1 TAAGACCATGTCTGGGA
57427271 TGTCGGCATT
Statistics
Matches: 115, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 55 0.48
43 53 0.46
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCGTG
Found at i:57427182 original size:85 final size:85
Alignment explanation
Indices: 57427039--57427270 Score: 315
Period size: 85 Copynumber: 2.7 Consensus size: 85
57427029 TGAGACATCA
* *
57427039 TGTAAGACCGTGTCTGGGACACATGCCTCGATTGAGATTTACATATAAGACCATGTCTGGGACAT
1 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACACATAAGACCATGTCTGGGACAT
57427104 CAGCATCGTATCTGATTTCG
66 CAGCATCGTATCTGATTTCG
* * *
57427124 TGTAAGACCGTGTCTAGGACATAGGCCTCGATTGAGATTTACGCATAAGACCATGTCTGGGACAT
1 TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACACATAAGACCATGTCTGGGACAT
* *
57427189 CGGTATCGTATCTGATTTCG
66 CAGCATCGTATCTGATTTCG
* * * ** *
57427209 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCTGGGA
1 TGTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATTTACACATAAGACCATGTCTGGGA
57427271 TGTCGGCATT
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
85 124 0.95
86 1 0.01
87 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (85 bp):
TGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACACATAAGACCATGTCTGGGACAT
CAGCATCGTATCTGATTTCG
Found at i:57427188 original size:43 final size:42
Alignment explanation
Indices: 57427041--57427188 Score: 158
Period size: 43 Copynumber: 3.5 Consensus size: 42
57427031 AGACATCATG
* * *
57427041 TAAGACCGTGTCTGGGACACATGCCTCGATTGAGATTTACATA
1 TAAGACCATGTCTGGGACATA-GCCTCGATTGAGATTTACGTA
* *
57427084 TAAGACCATGTCTGGGACATCAGCATCGTATCT--GATTT-CGTG
1 TAAGACCATGTCTGGGACAT-AGCCTCG-AT-TGAGATTTACGTA
* * *
57427126 TAAGACCGTGTCTAGGACATAGGCCTCGATTGAGATTTACGCA
1 TAAGACCATGTCTGGGACATA-GCCTCGATTGAGATTTACGTA
57427169 TAAGACCATGTCTGGGACAT
1 TAAGACCATGTCTGGGACAT
57427189 CGGTATCGTA
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 30 0.35
43 48 0.56
44 3 0.03
45 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATAGCCTCGATTGAGATTTACGTA
Found at i:57427206 original size:43 final size:42
Alignment explanation
Indices: 57427082--57427279 Score: 168
Period size: 43 Copynumber: 4.7 Consensus size: 42
57427072 GAGATTTACA
*
57427082 TATAAGACCATGTCTGGGACATCAGCATCGTATCTGATTTCG
1 TATAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCG
* * * * *
57427124 TGTAAGACCGTGTCTAGGACATAGGCCTCG-AT-TGAGATTTACG
1 TATAAGACCATGTCTGGGACATCGGCATCGTATCT--GATTT-CG
* *
57427167 CATAAGACCATGTCTGGGACATCGGTATCGTATCTGATTTCG
1 TATAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCG
* * ** * *
57427209 TGTAAGACCCTGTCTGGGACAGAGGCATCGATAT-TGAATTACA
1 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATTTCG
* * **
57427252 TGTAAGACCACGTCTGGGATGTCGGCAT
1 TATAAGACCATGTCTGGGACATCGGCAT
57427280 TGTACTTATT
Statistics
Matches: 122, Mismatches: 27, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 57 0.47
43 59 0.48
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (42 bp):
TATAAGACCATGTCTGGGACATCGGCATCGTATCTGATTTCG
Found at i:57430582 original size:23 final size:19
Alignment explanation
Indices: 57430534--57430580 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
57430524 ATAATAATTG
57430534 CCTTTGATTCATTCTAAAT
1 CCTTTGATTCATTCTAAAT
57430553 CCTTTGATTCATTCTAAAT
1 CCTTTGATTCATTCTAAAT
57430572 CCTTTGATT
1 CCTTTGATT
57430581 GAAAATCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.49
Consensus pattern (19 bp):
CCTTTGATTCATTCTAAAT
Found at i:57431751 original size:22 final size:21
Alignment explanation
Indices: 57431721--57431763 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
57431711 CCTTTTTCAT
*
57431721 ATTCTAAGCTTAATATCTATCAA
1 ATTCTAAGCCTAAT-TC-ATCAA
57431744 ATTC-AAGCCTAATTCATCAA
1 ATTCTAAGCCTAATTCATCAA
57431764 TATCTCAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 8 0.42
23 4 0.21
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (21 bp):
ATTCTAAGCCTAATTCATCAA
Found at i:57434886 original size:21 final size:21
Alignment explanation
Indices: 57434852--57434892 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
57434842 AATATAGTTT
*
57434852 TATTAATAT-TTTAATGAAAA
1 TATTAATATATTAAATGAAAA
57434872 TATTAGATATATTAAATGAAA
1 TATTA-ATATATTAAATGAAA
57434893 CGGTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 4 0.22
22 9 0.50
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (21 bp):
TATTAATATATTAAATGAAAA
Found at i:57435350 original size:13 final size:13
Alignment explanation
Indices: 57435332--57435358 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57435322 TCAATAATTG
57435332 CACACGGGCGTGT
1 CACACGGGCGTGT
57435345 CACACGGGCGTGT
1 CACACGGGCGTGT
57435358 C
1 C
57435359 CCTACCGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:57454206 original size:21 final size:19
Alignment explanation
Indices: 57454181--57454219 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
57454171 GTAAATCCTT
57454181 ATTCTACATTTATAGTATAAC
1 ATTCTACA-TTATA-TATAAC
*
57454202 ATTCTATATTATATATAA
1 ATTCTACATTATATATAA
57454220 AAGAAAGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 5 0.29
21 7 0.41
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (19 bp):
ATTCTACATTATATATAAC
Found at i:57456611 original size:25 final size:25
Alignment explanation
Indices: 57456583--57456632 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
57456573 TTCAAGCGAG
*
57456583 CCATATCAGGAAGCTTAAAAAGAGC
1 CCATATCAGGAAGCTCAAAAAGAGC
* *
57456608 CCATATCAGGACGCTCATAAAGAGC
1 CCATATCAGGAAGCTCAAAAAGAGC
57456633 TGTGTTCGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (25 bp):
CCATATCAGGAAGCTCAAAAAGAGC
Found at i:57458584 original size:44 final size:43
Alignment explanation
Indices: 57458511--57458663 Score: 152
Period size: 42 Copynumber: 3.6 Consensus size: 43
57458501 CATAGGATTC
* *
57458511 CGATATGTGATTT-GTGTAAGACCACGTCTGGGATGTTGGCAT
1 CGATATGTGATTTCATGTAAGACCATGTCTGGGATGTTGGCAT
* ** *
57458553 CGATATGTGATTTACGTGTAAGACCATGTCTGGGACATCGGCAT
1 CGATATGTGATTT-CATGTAAGACCATGTCTGGGATGTTGGCAT
* * *
57458597 CGCATA--TAAGTTCATGTAAGACCCTGTCTGGGATAG-TGGCAT
1 CG-ATATGTGATTTCATGTAAGACCATGTCTGGGAT-GTTGGCAT
* *
57458639 CAATATGTGATTACATGTAAGACCA
1 CGATATGTGATTTCATGTAAGACCA
57458664 CTTTGTACGA
Statistics
Matches: 89, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
41 3 0.03
42 38 0.43
43 18 0.20
44 27 0.30
45 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTGATTTCATGTAAGACCATGTCTGGGATGTTGGCAT
Found at i:57461808 original size:43 final size:44
Alignment explanation
Indices: 57461760--57461874 Score: 130
Period size: 43 Copynumber: 2.7 Consensus size: 44
57461750 ATATCCCGGA
* * *
57461760 TATGGTCTTACATGTTATCACATATCGATGCCAATAG-CCC-AGC
1 TATGGTCTTACACGTAATCACATATCGATGCCAAT-GTCCCAAAC
* *
57461803 TATGGTCTTACACGAAATCAAATAAT-GATGCCAATGTCCCAAAC
1 TATGGTCTTACACGTAATCACAT-ATCGATGCCAATGTCCCAAAC
*
57461847 -ATGGTCTTACACGTAATCACATAACGAT
1 TATGGTCTTACACGTAATCACATATCGAT
57461875 AATCCTAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 54 0.90
44 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (44 bp):
TATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:57465139 original size:43 final size:43
Alignment explanation
Indices: 57464980--57465140 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 43
57464970 GATATGTGTA
* *
57464980 TTCATGTAAGACCACGTCTAGGACGTTGGCACTGATATGTGAT
1 TTCATGTAAGACCACGTCTAGGACGTTGGCATTGATATATGAT
* * * * * * * * *
57465023 TACGTGTAAGACCATGTCTGGGACATCGACATCG-TATTTGA-
1 TTCATGTAAGACCACGTCTAGGACGTTGGCATTGATATATGAT
* * *
57465064 TTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATTGAGATATGAT
1 TTCATGTAAGACCAC-GTCTAGGAC-GTTGGCATTGATATATGAT
*
57465107 TTCATGTAAGACCACATCTAGGACGTTGGCATTG
1 TTCATGTAAGACCACGTCTAGGACGTTGGCATTG
57465141 TACGATATTG
Statistics
Matches: 91, Mismatches: 21, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
41 26 0.29
42 12 0.13
43 52 0.57
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TTCATGTAAGACCACGTCTAGGACGTTGGCATTGATATATGAT
Found at i:57475917 original size:17 final size:18
Alignment explanation
Indices: 57475897--57475930 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57475887 TACCAAAACA
*
57475897 TGAATTATG-GATTAATT
1 TGAATAATGTGATTAATT
57475914 TGAATAATGTGATTAAT
1 TGAATAATGTGATTAAT
57475931 AAACAAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (18 bp):
TGAATAATGTGATTAATT
Found at i:57483310 original size:26 final size:26
Alignment explanation
Indices: 57483281--57483357 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
57483271 TGAGGTCACG
57483281 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
57483307 TGTGTACCGGA-TAA-T--TGGTTGC-A
1 TGTGTA--GTACTAAGTGCAGGCTACTA
57483330 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
57483356 TG
1 TG
57483358 CGTACATGAA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 2 0.06
22 3 0.08
23 8 0.22
24 4 0.11
25 4 0.11
26 10 0.28
27 3 0.08
28 2 0.06
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:57483353 original size:49 final size:49
Alignment explanation
Indices: 57483281--57483467 Score: 238
Period size: 49 Copynumber: 3.8 Consensus size: 49
57483271 TGAGGTCACG
* *
57483281 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTTGCA
* *
57483330 TGTGTAGTACTAAGTGCAGGCTACTATGCGTA-CATGAAAACT-GTAAT-CA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA-GATAATTGGT--TGCA
* * *
57483379 CGTGTGTAGTACTAAGTGCAGGCTACTA-GTGTACCAGATTATTGGTCGCA
1 --TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTTGCA
57483429 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
57483468 GCTTCGGCTA
Statistics
Matches: 118, Mismatches: 11, Indels: 18
0.80 0.07 0.12
Matches are distributed among these distances:
48 29 0.25
49 48 0.41
50 11 0.09
51 30 0.25
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTTGCA
Found at i:57483448 original size:99 final size:100
Alignment explanation
Indices: 57483276--57483461 Score: 338
Period size: 99 Copynumber: 1.9 Consensus size: 100
57483266 TATTGTGAGG
* *
57483276 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTAGTACT
57483341 AAGTGCAGGCTACTATGCGTACATGAAAACTGTAA
66 AAGTGCAGGCTACTATGCGTACATGAAAACTGTAA
*
57483376 TCACGTGTGTAGTACTAAGTGCAGGCTACTA-GTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTAGTACT
57483440 AAGTGCAGGCTACTATGCGTAC
66 AAGTGCAGGCTACTATGCGTAC
57483462 CAGATAGCTT
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
99 52 0.63
100 31 0.37
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACATGAAAACTGTAA
Found at i:57484293 original size:24 final size:24
Alignment explanation
Indices: 57484261--57484326 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
57484251 CTTAACCTGA
57484261 ACAATTATAGTGTTTTATAATTGT
1 ACAATTATAGTGTTTTATAATTGT
* ** *
57484285 ACAATTATAAT-AATAAGTAATTGT
1 ACAATTATAGTGTTTTA-TAATTGT
57484309 ACAATTATAGTGTTTTAT
1 ACAATTATAGTGTTTTAT
57484327 CTTGAAAAAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 2 0.06
24 28 0.88
25 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (24 bp):
ACAATTATAGTGTTTTATAATTGT
Found at i:57487879 original size:27 final size:26
Alignment explanation
Indices: 57487809--57487883 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
57487799 CAACATGGCT
*
57487809 ACCAGAATAGATATTGTGACAGAGTC
1 ACCAGAATAGATATTGTGGCAGAGTC
57487835 ACCAGATATAGATATTGTGGCAGAG-C
1 ACCAGA-ATAGATATTGTGGCAGAGTC
*
57487861 GACCAGAACAGATATTTGTGGCA
1 -ACCAGAATAGATA-TTGTGGCA
57487884 TAGCCACCGA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 13 0.30
27 31 0.70
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (26 bp):
ACCAGAATAGATATTGTGGCAGAGTC
Found at i:57494946 original size:20 final size:21
Alignment explanation
Indices: 57494897--57494946 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
57494887 CCCATCCCCG
*
57494897 TGCAATATGTCATGCATCGTA
1 TGCAATATATCATGCATCGTA
*
57494918 --CCATAATATCATGCAT-GTA
1 TGCAAT-ATATCATGCATCGTA
57494937 TGCAATATAT
1 TGCAATATAT
57494947 AGAAATGGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 7
0.70 0.09 0.21
Matches are distributed among these distances:
19 6 0.26
20 14 0.61
21 3 0.13
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (21 bp):
TGCAATATATCATGCATCGTA
Found at i:57501851 original size:16 final size:16
Alignment explanation
Indices: 57501830--57501862 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
57501820 TTTAGAGTAA
*
57501830 ATTGGAAGCTCGTTGG
1 ATTGGAAGCTCGGTGG
57501846 ATTGGAAGCTCGGTGG
1 ATTGGAAGCTCGGTGG
57501862 A
1 A
57501863 GATCACTCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.39, T:0.27
Consensus pattern (16 bp):
ATTGGAAGCTCGGTGG
Found at i:57506175 original size:38 final size:38
Alignment explanation
Indices: 57506124--57506206 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 38
57506114 AAGACAAGAG
*
57506124 TAAGTATACAATGATAATTATGAGAATGATTACATGAA
1 TAAGTATGCAATGATAATTATGAGAATGATTACATGAA
57506162 TAAGTATGCAATGATAATTATGAGAATGATTACATGAA
1 TAAGTATGCAATGATAATTATGAGAATGATTACATGAA
57506200 TAA-TATG
1 TAAGTATG
57506207 TAAACAACAA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 4 0.09
38 40 0.91
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.33
Consensus pattern (38 bp):
TAAGTATGCAATGATAATTATGAGAATGATTACATGAA
Found at i:57509021 original size:43 final size:42
Alignment explanation
Indices: 57508974--57509072 Score: 128
Period size: 42 Copynumber: 2.3 Consensus size: 42
57508964 TCCCAGATGT
*
57508974 GGTCTTACATGTAATCAAATATCGATG-CCACTATCCCAGACAG
1 GGTCTTACACGTAATCAAATA-CGATGTCCA-TATCCCAGACAG
* * * *
57509017 GGTCTTACACGAAATCAAATACGATGTCGATGTCCCAGACAT
1 GGTCTTACACGTAATCAAATACGATGTCCATATCCCAGACAG
57509059 GGTCTTACACGTAA
1 GGTCTTACACGTAA
57509073 ATCATAAGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGTAATCAAATACGATGTCCATATCCCAGACAG
Found at i:57509075 original size:43 final size:44
Alignment explanation
Indices: 57508955--57509076 Score: 137
Period size: 43 Copynumber: 2.8 Consensus size: 44
57508945 AGTTCATACA
** *
57508955 ATGCCAAC-GTCCCAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
57508998 ATGCCACTATCCCAGACAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
*
57509040 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATCA
1 ATG-CCACTGTCCCAGACATGGTCTTACACGTAAATCA
57509077 TAAGTTGATG
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
42 28 0.42
43 39 0.58
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:57511978 original size:25 final size:25
Alignment explanation
Indices: 57511950--57512028 Score: 60
Period size: 25 Copynumber: 3.3 Consensus size: 25
57511940 CGAATGACCA
57511950 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
57511975 ATGTG-TTAAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
57511997 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
57512022 GTGTGAT
1 ATGTGAT
57512029 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 14
0.62 0.15 0.23
Matches are distributed among these distances:
22 6 0.16
23 10 0.26
24 10 0.26
25 12 0.32
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:57511998 original size:47 final size:47
Alignment explanation
Indices: 57511924--57512049 Score: 207
Period size: 47 Copynumber: 2.7 Consensus size: 47
57511914 TTTTATGTGT
* *
57511924 ATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
57511971 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
57512018 ATATGTGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
57512050 AACATGTATG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:57512088 original size:48 final size:48
Alignment explanation
Indices: 57511972--57512162 Score: 210
Period size: 48 Copynumber: 4.0 Consensus size: 48
57511962 TGAACATGCA
* * * * *
57511972 TATATGTGTTAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-ACATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATGTATGAGATATG
* * *
57512017 CATATGTGTGATAAGGCCGAATGGCTAATGTGAAACATGTATGAGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
57512067 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * * *
57512115 TATATGTGGTGAAGCCGAATGGCTAGTGTGAAATATGTAGGCGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
57512163 CGTATATCGT
Statistics
Matches: 128, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
45 7 0.05
46 1 0.01
47 24 0.19
48 81 0.63
49 4 0.03
50 11 0.09
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:57512354 original size:37 final size:37
Alignment explanation
Indices: 57512304--57512412 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
57512294 ATATATTCCA
*
57512304 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
57512341 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
* *
57512378 GGTAAGACCCGATAACTTCGTGTGGAGATTTTGTC
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
57512413 TGAGCTAAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:57513599 original size:8 final size:8
Alignment explanation
Indices: 57513586--57513617 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
57513576 ATTAGCCCTC
57513586 ACATTTTG
1 ACATTTTG
57513594 ACATTTTTG
1 ACA-TTTTG
57513603 ACATTTTG
1 ACATTTTG
57513611 ACATTTT
1 ACATTTT
57513618 AGTCCCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.25, C:0.12, G:0.09, T:0.53
Consensus pattern (8 bp):
ACATTTTG
Found at i:57513603 original size:9 final size:9
Alignment explanation
Indices: 57513589--57513617 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
57513579 AGCCCTCACA
57513589 TTTTGACAT
1 TTTTGACAT
57513598 TTTTGACA-
1 TTTTGACAT
57513606 TTTTGACAT
1 TTTTGACAT
57513615 TTT
1 TTT
57513618 AGTCCCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.21, C:0.10, G:0.10, T:0.59
Consensus pattern (9 bp):
TTTTGACAT
Found at i:57517948 original size:24 final size:25
Alignment explanation
Indices: 57517913--57517971 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
57517903 TTAATCAGTA
*
57517913 TAAAATATTAA-TAATTCAAT-AAAT
1 TAAAAT-TTAATTAATTAAATAAAAT
57517937 TGAAAATTTAATTAATTAAATAAAAT
1 T-AAAATTTAATTAATTAAATAAAAT
57517963 TAAAATTTA
1 TAAAATTTA
57517972 GGAGAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
24 5 0.16
25 21 0.68
26 5 0.16
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
TAAAATTTAATTAATTAAATAAAAT
Found at i:57518667 original size:22 final size:19
Alignment explanation
Indices: 57518628--57518669 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
57518618 TGCAAAGTTG
57518628 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
57518647 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
57518669 A
1 A
57518670 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:57523030 original size:2 final size:2
Alignment explanation
Indices: 57523025--57523052 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
57523015 TATATATATA
57523025 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57523053 ATTATATTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:57523922 original size:27 final size:27
Alignment explanation
Indices: 57523884--57523939 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
57523874 ATTTGTGTAT
*
57523884 ATGACTTGTAGCCGAATGGTTATAGAA
1 ATGACTTGTAGCCGAATGGTAATAGAA
57523911 ATGACTTGTAGCCGAATGGTAATAGAA
1 ATGACTTGTAGCCGAATGGTAATAGAA
57523938 AT
1 AT
57523940 CATGTTGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (27 bp):
ATGACTTGTAGCCGAATGGTAATAGAA
Found at i:57524144 original size:39 final size:38
Alignment explanation
Indices: 57524090--57524228 Score: 145
Period size: 39 Copynumber: 3.5 Consensus size: 38
57524080 TAATGGAGAA
*
57524090 TTATATCCGGGCTAAGTCTCAAAGGCATTCGTGCTGGTG
1 TTATAT-CGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
*
57524129 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATC-GGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
** * **
57524168 TTATATGCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGCA
1 TTATAT-CGGGCT-AAGTCCCAAAGGCATTCGTGCTGGTG
57524207 TTATATTCGGGCTTAAAGTCCC
1 TTATA-TCGGGC-T-AAGTCCC
57524229 GCATGCTTTG
Statistics
Matches: 89, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
38 1 0.01
39 65 0.73
40 23 0.26
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (38 bp):
TTATATCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
Found at i:57530326 original size:46 final size:45
Alignment explanation
Indices: 57530276--57530450 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
57530266 TGGTTGAGCA
*
57530276 TCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* * * *
57530322 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G
* *
57530367 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATG
* *
57530415 -CTCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTAGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
57530451 GGCGGGTTAC
Statistics
Matches: 107, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 6 0.06
46 59 0.55
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATG
Found at i:57530410 original size:93 final size:93
Alignment explanation
Indices: 57530273--57530443 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
57530263 GGATGGTTGA
* *
57530273 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATG-TCCGAACTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCT-CGAACTCGTTGAG
57530337 TTGAGTCCGAGTTCGTGAAATGTAACTAG
65 TTGAGTCCGAGTTCGTGAAATGTAACTAG
** *
57530366 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCGAACGCTCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
*
57530431 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
57530444 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTACGGATGCGAACGCTCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:57531873 original size:2 final size:2
Alignment explanation
Indices: 57531868--57531901 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
57531858 TATATATATA
*
57531868 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TT TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57531902 ATTATATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.47, T:0.53
Consensus pattern (2 bp):
TG
Found at i:57532985 original size:39 final size:39
Alignment explanation
Indices: 57532912--57533029 Score: 166
Period size: 40 Copynumber: 3.0 Consensus size: 39
57532902 TAATGGAGAA
* *
57532912 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTG
*
57532951 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
* *
57532990 TTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGTG
1 TTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGTG
57533030 ATTGGATTTG
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
39 35 0.49
40 36 0.51
ACGTcount: A:0.17, C:0.22, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTG
Found at i:57542941 original size:20 final size:19
Alignment explanation
Indices: 57542905--57542955 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
57542895 AAGGTCTATT
*
57542905 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
57542924 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
57542944 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
57542956 GTTTCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:57545439 original size:13 final size:13
Alignment explanation
Indices: 57545416--57545447 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
57545406 TGTATCTAGG
57545416 CTTGATATGTGAAA
1 CTTG-TATGTGAAA
57545430 CTTGTATGTGAAA
1 CTTGTATGTGAAA
57545443 CTTGT
1 CTTGT
57545448 GAAACTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (13 bp):
CTTGTATGTGAAA
Found at i:57560331 original size:27 final size:27
Alignment explanation
Indices: 57560287--57560402 Score: 126
Period size: 27 Copynumber: 4.3 Consensus size: 27
57560277 CAAAACAATC
* * * *
57560287 ATTTTACCCTATAGGGGTATGTCGGTC
1 ATTTTACACTATAAGGGTATTTCGGTA
*
57560314 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTATAAGGGTATTTCGGTA
* *
57560341 ATTTTACACCATAAGGGTATTTCGATA
1 ATTTTACACTATAAGGGTATTTCGGTA
* * *
57560368 ATTTTACA-AATCAGGGGTGTTTCGGTA
1 ATTTTACACTAT-AAGGGTATTTCGGTA
57560395 ATTTTACA
1 ATTTTACA
57560403 AATCGGGGGT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
26 2 0.03
27 74 0.97
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTTTACACTATAAGGGTATTTCGGTA
Done.