Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 348 of 433
Found at i:109370875 original size:37 final size:37
Alignment explanation
Indices: 109370834--109370908 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
109370824 AAAATTAGGA
*
109370834 TTATAGTTTTTCTTGTGATAGATTAAAATTTTTTATG
1 TTATAGCTTTTCTTGTGATAGATTAAAATTTTTTATG
109370871 TTATAGCTTTTCTTGTGATAGATTAAAATTTTTTATG
1 TTATAGCTTTTCTTGTGATAGATTAAAATTTTTTATG
109370908 T
1 T
109370909 AAGATTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (37 bp):
TTATAGCTTTTCTTGTGATAGATTAAAATTTTTTATG
Found at i:109382742 original size:43 final size:43
Alignment explanation
Indices: 109382642--109382810 Score: 170
Period size: 42 Copynumber: 4.0 Consensus size: 43
109382632 TCGAAATGTG
* * * *
109382642 ATATTCGGGCCTC-GGCCTAGCAAGCTTTAA-GCTGGTGAATA
1 ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATA
109382683 ATATTATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGATA
1 ATA-T-TCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGA-ATA
*
109382729 ATATT-GGGCTTCGGGCCTAGCA-GCTATAATGCCGGTGAAATG
1 ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTG-AATA
* ** * *
109382771 ATA-TGGGGCTTCAAGCCTAGCTGGC-AAAATGCCGGTGAAT
1 ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAT
109382811 GAGTTCAGAC
Statistics
Matches: 111, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
41 7 0.06
42 46 0.41
43 28 0.25
44 16 0.14
45 8 0.07
46 6 0.05
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (43 bp):
ATATTCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAATA
Found at i:109387614 original size:25 final size:25
Alignment explanation
Indices: 109387586--109387633 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
109387576 TATAATATAG
* * *
109387586 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCGTTATACCCCTAGGTA
109387611 AAAATGACCGTTATACCCCTAGG
1 AAAATGACCGTTATACCCCTAGG
109387634 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
AAAATGACCGTTATACCCCTAGGTA
Found at i:109387696 original size:11 final size:10
Alignment explanation
Indices: 109387664--109387709 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
109387654 CATGAGATTT
109387664 TGATAT-ACA
1 TGATATGACA
*
109387673 TGATTTGACA
1 TGATATGACA
109387683 TGATATGCACA
1 TGATATG-ACA
*
109387694 TGATATG-TA
1 TGATATGACA
109387703 TGATATG
1 TGATATG
109387710 CGCATGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:109388102 original size:29 final size:30
Alignment explanation
Indices: 109388029--109388110 Score: 98
Period size: 29 Copynumber: 2.7 Consensus size: 30
109388019 CGTTTACAGT
109388029 AAAGGCTTCAGCCCAGTGATATGAATTATGA
1 AAAGGCTTCAGCCCAGT-ATATGAATTATGA
* *
109388060 AAAGGCTTCGGCCCAGTA-ATCG-TTTAATG-
1 AAAGGCTTCAGCCCAGTATAT-GAATT-ATGA
109388089 AAAGGCTTCAGCCCAGTATATG
1 AAAGGCTTCAGCCCAGTATATG
109388111 TTGAGACTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
29 22 0.49
30 7 0.16
31 16 0.36
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (30 bp):
AAAGGCTTCAGCCCAGTATATGAATTATGA
Found at i:109393463 original size:49 final size:49
Alignment explanation
Indices: 109393406--109393655 Score: 414
Period size: 49 Copynumber: 5.1 Consensus size: 49
109393396 TATGATATAC
* * * *
109393406 ATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
109393454 -TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
109393502 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
109393551 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
*
109393600 ATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
109393649 ATATATA
1 ATATATA
109393656 ATGTAAAATA
Statistics
Matches: 194, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 44 0.23
49 150 0.77
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGT
Found at i:109393805 original size:37 final size:37
Alignment explanation
Indices: 109393755--109393876 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
109393745 GGAATATGTT
*
109393755 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
109393792 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
109393829 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
109393866 CCGGGTAAGAC
1 CCGGGTAAGAC
109393877 TTCGTAATAA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:109399872 original size:11 final size:10
Alignment explanation
Indices: 109399840--109399885 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
109399830 CATGAGATTT
109399840 TGATAT-ACA
1 TGATATGACA
*
109399849 TGATTTGACA
1 TGATATGACA
109399859 TGATATGCACA
1 TGATATG-ACA
*
109399870 TGATATG-TA
1 TGATATGACA
109399879 TGATATG
1 TGATATG
109399886 CGCATGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:109410021 original size:27 final size:27
Alignment explanation
Indices: 109409987--109410040 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
109409977 GGTAAAAGTG
109409987 TGAATAAATGAAATGTGTGGGCTGCTA
1 TGAATAAATGAAATGTGTGGGCTGCTA
109410014 TGAATAAATGAAATGTGTGGGCTGCTA
1 TGAATAAATGAAATGTGTGGGCTGCTA
109410041 GGACATTGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (27 bp):
TGAATAAATGAAATGTGTGGGCTGCTA
Found at i:109411710 original size:13 final size:13
Alignment explanation
Indices: 109411692--109411718 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109411682 GCTCAGCAGG
109411692 GACACGCCCGTGT
1 GACACGCCCGTGT
109411705 GACACGCCCGTGT
1 GACACGCCCGTGT
109411718 G
1 G
109411719 CGATTGCTGA
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:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:109415602 original size:13 final size:13
Alignment explanation
Indices: 109415584--109415610 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
109415574 CGTGTAGGTG
109415584 CACACGGCCGTGT
1 CACACGGCCGTGT
109415597 CACACGGCCGTGT
1 CACACGGCCGTGT
109415610 C
1 C
109415611 TGTCTTCGTT
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:0.41, G:0.30, T:0.15
Consensus pattern (13 bp):
CACACGGCCGTGT
Found at i:109422487 original size:40 final size:39
Alignment explanation
Indices: 109422401--109422512 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 39
109422391 GCTGGTAATT
*
109422401 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGAC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
* *
109422440 TACATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-
1 -ACATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGAC
* * *
109422482 A-ATCCGAGTTAAGTCCCGAAGGCCTTTGTGC
1 ACATCCGGGTTAAGACCCGAAGGCATTTGTGC
109422513 GGGTTACCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
40 56 0.90
41 1 0.02
43 5 0.08
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ACATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC
Found at i:109424939 original size:19 final size:20
Alignment explanation
Indices: 109424900--109424939 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
109424890 GAGTTTTGAG
109424900 TAATGATTTTGTTTGTGATA
1 TAATGATTTTGTTTGTGATA
109424920 TAATG-TTTTGATTTGT-ATA
1 TAATGATTTTG-TTTGTGATA
109424939 T
1 T
109424940 GAATTTTCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.25, C:0.00, G:0.17, T:0.57
Consensus pattern (20 bp):
TAATGATTTTGTTTGTGATA
Found at i:109431128 original size:24 final size:24
Alignment explanation
Indices: 109431096--109431144 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
109431086 AAGAACCAGG
*
109431096 TATGTATGATACCTTTGTGGTAGA
1 TATGTATGATACCTTTGGGGTAGA
109431120 TATGTATGATACCTTTGGGGTAGA
1 TATGTATGATACCTTTGGGGTAGA
109431144 T
1 T
109431145 GATATTATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.27, T:0.41
Consensus pattern (24 bp):
TATGTATGATACCTTTGGGGTAGA
Found at i:109435454 original size:19 final size:19
Alignment explanation
Indices: 109435412--109435448 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
109435402 GGTTTAAACA
*
109435412 ATATTCAAAACAATTTACT
1 ATATTCAAAACAATTTAAT
109435431 ATATTCAAAACAATTTAA
1 ATATTCAAAACAATTTAA
109435449 ATTATTAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATTCAAAACAATTTAAT
Found at i:109436039 original size:994 final size:992
Alignment explanation
Indices: 109433638--109436398 Score: 4833
Period size: 994 Copynumber: 2.8 Consensus size: 992
109433628 GTTGAAAAAG
* * *** *
109433638 ATAATTGTAACACCCCTAAC-CTGAATCCAACACTGGGACAGGGCTCGAGGCATTACCGAAAATT
1 ATAAATGTAACACCCCTAGCTC-GAATCCAACAAAAGGACAGGG-TC-AGGCATTACCGAAACTT
109433702 TACACTCTCAGTATACTAACTTGGATCACAAAATTCATTTGAATTTAAAACCTTTCAATCATGAA
63 TACACTCTCAGTATACTAACTTGGATCACAAAATTCATTTGAATTTAAAACCTTTCAATCATGAA
* * *
109433767 CATCTCATCCCTTGTATAGGCCTTCGAGACCTATAACATATCGGGGAGCAATGCCGGAAAAATA-
128 CATCTCATCCCTCGTATAGGCCTTCGAGACCTATAACATATCGGGGAGCAATGCAGGACAAATAT
* * * * * *
109433831 CGGGCACGTTTGATTAACCTTGGGCTACTTAGAAAATTTTCCTTAACGTAAAGGAACACACGCTC
193 C-GGCACGTTCGATTAACCTTGGGCTACTCAAAAAATTTTCCTTAACATAAAGGGAGACACGCTC
* * * **
109433896 GTGTAGGTGGACCATGTGGACTCACACGTCCGTGGGCTCATCTCGTGTTGAAAACTTGAGCATTC
257 GTGTAGGTGGACCGTGTGGACTCACACGCCCGTGGGCTCATCACGTGTCCAAAACTTGAGCATTC
* * * * *
109433961 TGTTAAATAAACATGGCCAAGACAGACGCCCGTGTGTCCTACCCATGTGCTAATTTAGCTTAGAG
322 TGTTAAATTAACATGGCCAAGACACACGCCCGTGTGTCCTATCCGTCTGCTAATTTAGCTTAGAG
*
109434026 TTTTAGGTGCAAGGGACACACGGTCATGCCACACGCCCATGGGGATAGGCCGTGTGTCACACACG
387 TTTTAGGTGCAGGGGACACACGGTCATGCCACACGCCCATGGGGATAGGCCGTGTGTCACACACG
*
109434091 GCATTGATACACGCCCGTGTGTCTAACCATGTGGACTTTAATAGGCTATTTACCAAGCCTTTAAT
452 GCATTGACACACGCCCGTGTGTCTAACCATGTGGACTTTAATAGGCTATTTACCAAGCCTTTAAT
*
109434156 CACCCATTTCTACTTCTTTTTCCTAAAAGATACCAAATCCTAAGTAAAACATGATTATACACTTG
517 CACCCATTTCTACTTCTTTTTCCTAAAAGATACCAAATCCAAAGTAAAACATGATTATACACTTG
109434221 TAAATGATCTTGATGGAATTAGTTGTATGGAAACCTCATATCATTGGTTTCATTCAAAAATGTTA
582 TAAATGATCTTGATGGAATTAGTTGTATGGAAACCTCATATCATTGGTTTCATTCAAAAATGTTA
*
109434286 TTTCCCATCTACTATTTATGGGTTCTTATGTTACTGTAACACATTCAAAACTTGGCTCGTTTTTG
647 TTTCCCATCTACTATTTATGGGTTCTTATGTTATTGTAACACATTCAAAACTTGGCTCGTTTTTG
109434351 AACTCATTGCCACTTGAAGCAACCCATCATAATGGAGCATAAACATGCATATAAAGGCAGGTTTA
712 AACTCATTGCCACTTGAAGCAACCCATCATAATGGAGCATAAACATGCATATAAAGGCAGGTTTA
109434416 AACAATATTCAAAACAATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTTTTTGATCT
777 AACAATATTCAAAACAATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTTTTTGATCT
109434481 TGTGCTTGGTTGGAAGACATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTCACACTA
842 TGTGCTTGGTTGGAAGACATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTCACACTA
109434546 TCAACACTCAAACAATGGCATGTATAGCAAACTTTAACAATCCTCTACGGTAGTCTAGAACCGAC
907 TCAACACTCAAACAATGGCATGTATAGCAAACTTTAACAATCCTCTACGGTAGTCTAGAACCGAC
* *
109434611 TAAACCGTAGCTCTGATGCCA
972 TAAACCGTAGCTCTAATACCA
* *
109434632 ATAAATGTAACACCCCTAGCTTGAATCCAACAAAAGGACAGGGTCAGGGATTACCGAAACTTTAC
1 ATAAATGTAACACCCCTAGCTCGAATCCAACAAAAGGACAGGGTCAGGCATTACCGAAACTTTAC
*
109434697 ACTCTCAGTATACTAACTTGGATCACAAAATTCATTTGAATTTAAAACCTTTCAATCATGAGCAT
66 ACTCTCAGTATACTAACTTGGATCACAAAATTCATTTGAATTTAAAACCTTTCAATCATGAACAT
*
109434762 CTCATCTCTCGTATAGGCCTTCGAGACCTATAACATATCGGGGAGCAATGCAGGACAAATATCGG
131 CTCATCCCTCGTATAGGCCTTCGAGACCTATAACATATCGGGGAGCAATGCAGGACAAATATCGG
*
109434827 CACGTTCGATTAACCTTGGGCTACTCAAAAAATTTTCCTGAACATAAAGGGAGACACGCTCGTGT
196 CACGTTCGATTAACCTTGGGCTACTCAAAAAATTTTCCTTAACATAAAGGGAGACACGCTCGTGT
*
109434892 AGGTAGACCGTGTGGACTCACACGCCCGTGGGCTCATCACGTGTCCAAAACTTGAGCATTCTGTT
261 AGGTGGACCGTGTGGACTCACACGCCCGTGGGCTCATCACGTGTCCAAAACTTGAGCATTCTGTT
109434957 AAATTAACATGGCCAAGACACACGCCCGTGTGTCCTATCCGTCTGCTAATTTAGCTTAGAGTTTT
326 AAATTAACATGGCCAAGACACACGCCCGTGTGTCCTATCCGTCTGCTAATTTAGCTTAGAGTTTT
*
109435022 AGGTGCAGGGGACACACGGTCATGCCACACGCCCATGTGGATAGGCCGTGTGTCACACACGGCAT
391 AGGTGCAGGGGACACACGGTCATGCCACACGCCCATGGGGATAGGCCGTGTGTCACACACGGCAT
109435087 TGACACACGCCCGTGTGTCTAACCATGTGGACTTTAATAGGCTATTTACCAAGCCTTTAATCACC
456 TGACACACGCCCGTGTGTCTAACCATGTGGACTTTAATAGGCTATTTACCAAGCCTTTAATCACC
109435152 CATTTCTACTTCTTTTTCCTAAAAGATACCAAATCCAAAGTAAAACATGATTATACACTTGTAAA
521 CATTTCTACTTCTTTTTCCTAAAAGATACCAAATCCAAAGTAAAACATGATTATACACTTGTAAA
109435217 TGATCTTGATGGAATTAGTTGTATGGAAACCTCATATCATTGGTTTCATTCAAAAATGTTATTTC
586 TGATCTTGATGGAATTAGTTGTATGGAAACCTCATATCATTGGTTTCATTCAAAAATGTTATTTC
109435282 CCATCTACTATTTATGGGTTCTTATGTTATTGTAACACATTCAAAACTTGGCTCGTTTTTGAACT
651 CCATCTACTATTTATGGGTTCTTATGTTATTGTAACACATTCAAAACTTGGCTCGTTTTTGAACT
*
109435347 CATTGCCACTTGAAGCAACCCATCACAATGGAGCATAAACATGCATATAAAGGCAGGTTTAAACA
716 CATTGCCACTTGAAGCAACCCATCATAATGGAGCATAAACATGCATATAAAGGCAGGTTTAAACA
** * *
109435412 ATATTCAAAACAATTTACTATATTCAAAACAATTTAAATTATTAGGAGATGTTTTTTTATCTTGT
781 ATATTCAAAACAATTTACTATATTCAAAACAATTTAAACAATTAGGAGACG-TTTTTGATCTTGT
109435477 GCTTGGTTGGAAGACATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTCACACTATCA
845 GCTTGGTTGGAAGACATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTCACACTATCA
* *
109435542 ACACTCAAACAATGGCGTGTATAGCGAACTTTAACAATCCTCTACGGTAGTCCTAGAACCGACTA
910 ACACTCAAACAATGGCATGTATAGCAAACTTTAACAATCCTCTACGGTAGT-CTAGAACCGACTA
109435607 AACCGTAGCTCTAATACCA
974 AACCGTAGCTCTAATACCA
109435626 ATAAATGTAACACCCCTAGCTCGAATCCAACAAAAGGACAGGGTCAGGCATTACCGAAACTTTAC
1 ATAAATGTAACACCCCTAGCTCGAATCCAACAAAAGGACAGGGTCAGGCATTACCGAAACTTTAC
* * * *
109435691 ACTCTTAGTATACTAACTTGGAGCACAAAATTCATTTAAATTTAAAACTTTTCAATCATGAACAT
66 ACTCTCAGTATACTAACTTGGATCACAAAATTCATTTGAATTTAAAACCTTTCAATCATGAACAT
* *
109435756 CTCATCCCTCGTATAGGCTTTCGAGACCTATAACATATCGGGGAGCAATGCGGGACAAATATCGG
131 CTCATCCCTCGTATAGGCCTTCGAGACCTATAACATATCGGGGAGCAATGCAGGACAAATATCGG
* *
109435821 CACGTTCGATTAACCTTGGGCTACTCAAAAAATTTTCCTTAACATAAAGGGAGACATGCCCGTGT
196 CACGTTCGATTAACCTTGGGCTACTCAAAAAATTTTCCTTAACATAAAGGGAGACACGCTCGTGT
109435886 AGGTGGACCGTGTGGACTCACACGCCCGTGGGCTCATCACGTGTCCAAAACTTGAGCATTCTGTT
261 AGGTGGACCGTGTGGACTCACACGCCCGTGGGCTCATCACGTGTCCAAAACTTGAGCATTCTGTT
109435951 AAATTAACATGGCCAAGACACACGCCCGTGTGTCCTATCCGTCTGCTAATTTAGCTTAGAGTTTT
326 AAATTAACATGGCCAAGACACACGCCCGTGTGTCCTATCCGTCTGCTAATTTAGCTTAGAGTTTT
* *
109436016 AGGTGCAGGGGACACATGGTCATGCCACACGTCCATGGGGATAGGCCGTGTGTCACACACGGCAT
391 AGGTGCAGGGGACACACGGTCATGCCACACGCCCATGGGGATAGGCCGTGTGTCACACACGGCAT
*
109436081 TGACACATGCCCGTGTGTCTAACCATGTGGACTTTAATAGGCTATTTACCAAGCCTTTAATCACC
456 TGACACACGCCCGTGTGTCTAACCATGTGGACTTTAATAGGCTATTTACCAAGCCTTTAATCACC
* *
109436146 CTTTTCTACTTCTTTTTCTTAAAAGATACCAAATCCAAAGTAAAACATGATTATACACTTGTAAA
521 CATTTCTACTTCTTTTTCCTAAAAGATACCAAATCCAAAGTAAAACATGATTATACACTTGTAAA
* *
109436211 TGATCTTGATGAAATTAGTTGTATGGAAACCTCATATCATTGGTTTCATTCAAAAAGGTTATTTC
586 TGATCTTGATGGAATTAGTTGTATGGAAACCTCATATCATTGGTTTCATTCAAAAATGTTATTTC
* * * * *
109436276 CCATATACTATTTATGGGTTGTTATGTTATTGCAACACATTTAAAACTTGGCTCATTTTTGAACT
651 CCATCTACTATTTATGGGTTCTTATGTTATTGTAACACATTCAAAACTTGGCTCGTTTTTGAACT
* * * *
109436341 CATTGCCACTTGAAGTAACCCATCATAAAGAAGCATAAACATGCATATAAAGGTAGGT
716 CATTGCCACTTGAAGCAACCCATCATAATGGAGCATAAACATGCATATAAAGGCAGGT
109436399 CATAGCCTAC
Statistics
Matches: 1686, Mismatches: 77, Indels: 8
0.95 0.04 0.00
Matches are distributed among these distances:
992 750 0.44
993 129 0.08
994 807 0.48
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (992 bp):
ATAAATGTAACACCCCTAGCTCGAATCCAACAAAAGGACAGGGTCAGGCATTACCGAAACTTTAC
ACTCTCAGTATACTAACTTGGATCACAAAATTCATTTGAATTTAAAACCTTTCAATCATGAACAT
CTCATCCCTCGTATAGGCCTTCGAGACCTATAACATATCGGGGAGCAATGCAGGACAAATATCGG
CACGTTCGATTAACCTTGGGCTACTCAAAAAATTTTCCTTAACATAAAGGGAGACACGCTCGTGT
AGGTGGACCGTGTGGACTCACACGCCCGTGGGCTCATCACGTGTCCAAAACTTGAGCATTCTGTT
AAATTAACATGGCCAAGACACACGCCCGTGTGTCCTATCCGTCTGCTAATTTAGCTTAGAGTTTT
AGGTGCAGGGGACACACGGTCATGCCACACGCCCATGGGGATAGGCCGTGTGTCACACACGGCAT
TGACACACGCCCGTGTGTCTAACCATGTGGACTTTAATAGGCTATTTACCAAGCCTTTAATCACC
CATTTCTACTTCTTTTTCCTAAAAGATACCAAATCCAAAGTAAAACATGATTATACACTTGTAAA
TGATCTTGATGGAATTAGTTGTATGGAAACCTCATATCATTGGTTTCATTCAAAAATGTTATTTC
CCATCTACTATTTATGGGTTCTTATGTTATTGTAACACATTCAAAACTTGGCTCGTTTTTGAACT
CATTGCCACTTGAAGCAACCCATCATAATGGAGCATAAACATGCATATAAAGGCAGGTTTAAACA
ATATTCAAAACAATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTTTTTGATCTTGTG
CTTGGTTGGAAGACATTTACTATATTCAAAACAATTTAAACAATTAGGAGACGTCACACTATCAA
CACTCAAACAATGGCATGTATAGCAAACTTTAACAATCCTCTACGGTAGTCTAGAACCGACTAAA
CCGTAGCTCTAATACCA
Found at i:109439677 original size:45 final size:45
Alignment explanation
Indices: 109439613--109439743 Score: 162
Period size: 45 Copynumber: 3.0 Consensus size: 45
109439603 TATCGTATAG
* *
109439613 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
109439658 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCCGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
109439703 TGA-TA-CCGGG-CTTCGAGCCTAGCAGGC-AAAATGCTGGTGAA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAA
109439744 TGAATTCAGG
Statistics
Matches: 77, Mismatches: 8, Indels: 5
0.86 0.09 0.06
Matches are distributed among these distances:
42 11 0.14
43 16 0.21
44 4 0.05
45 45 0.58
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:109452314 original size:45 final size:44
Alignment explanation
Indices: 109452249--109452365 Score: 159
Period size: 45 Copynumber: 2.7 Consensus size: 44
109452239 TATCGTACAG
* *
109452249 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGA-A
*
109452294 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCCGTGAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAA
109452338 -A-TGATGTCGGG-CTTCGAGCCTAGCAGGC
1 TACT-AT-TCGGGCCTTCGAGCCTAGCAGGC
109452366 AAAATGCTGG
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
42 1 0.01
43 20 0.30
44 6 0.09
45 40 0.60
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (44 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAA
Found at i:109464517 original size:40 final size:40
Alignment explanation
Indices: 109464462--109464671 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
109464452 AACATTGGAA
109464462 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
109464502 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
109464542 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
109464582 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
109464621 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
109464662 CTATATCCGG
1 ATATATCCGG
109464672 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:109470884 original size:29 final size:27
Alignment explanation
Indices: 109470850--109470952 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
109470840 TACTCAATCA
*
109470850 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
109470879 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
109470908 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
109470937 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
109470953 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:109478677 original size:29 final size:27
Alignment explanation
Indices: 109478643--109478745 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
109478633 TACTCAATCA
*
109478643 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
109478672 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
109478701 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
109478730 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
109478746 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:109485878 original size:7 final size:7
Alignment explanation
Indices: 109485866--109485896 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
109485856 CCGTGTTTTA
109485866 CTTTATG
1 CTTTATG
109485873 CTTTATG
1 CTTTATG
109485880 CTTTATG
1 CTTTATG
109485887 CTTTATG
1 CTTTATG
109485894 CTT
1 CTT
109485897 CACATTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.13, T:0.58
Consensus pattern (7 bp):
CTTTATG
Found at i:109489194 original size:50 final size:50
Alignment explanation
Indices: 109489121--109489506 Score: 284
Period size: 50 Copynumber: 7.7 Consensus size: 50
109489111 TAAGATTGTT
* ** *
109489121 TTAGGTCACATGTGTAGTACTAAGTGTGGGCTACTTCGTGTACCAAATAG
1 TTAGGTCATATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
* * * * *
109489171 TTAGGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCGTACGCGACA-AC
1 TTAGGTCATATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AAATAG
* * * * *
109489222 TTCA-ATTATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGG
1 TT-AGGTCATATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
** * *
109489272 TTAGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG
1 TTAGGTCATATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
* * * * *
109489322 TTAGGTCGCT-TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAT-C
1 TTAGGTC-ATATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC-AAATAG
* * * * * * *
109489373 TTCA-ATCACATGTGTAGTACTATGTGCAGGCTACTACGTATATCAGATGG
1 TT-AGGTCATATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
* * * ** *
109489423 TTAGGTCACT-TGTGTAGTGCTAAGTGCAGGC-ACTACATGTATCGGATTG
1 TTAGGTCA-TATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
** **
109489472 -CCGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TTAGGTCATATGTGTAGTACTAAGTGCAGGCTACTA
109489507 TGCATACCAG
Statistics
Matches: 265, Mismatches: 56, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
48 24 0.09
49 25 0.09
50 139 0.52
51 70 0.26
52 7 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TTAGGTCATATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
Found at i:109489352 original size:151 final size:151
Alignment explanation
Indices: 109489075--109489514 Score: 564
Period size: 151 Copynumber: 2.9 Consensus size: 151
109489065 ATTGTGAGAA
* * * *
109489075 CACATGTGTAGTACTATGTGCATGCTACTATGTGT-TTAAGATTGTTTTAGGTCACATGTGTAGT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAA-A-TG-GTTAGGTCACATGTGTAGT
** * *
109489139 ACTAAGTGTGGGCTACTTCGTGTACCAAATAGTTAGGTCG-TATGTGTAGTACTAAGTGCAGGCT
63 ACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCT-TGTGTAGTACTAAGTGCAGGCT
*
109489203 ACTATGCGTACGCGACAACTTCAAT
127 ACTATGCGTACCCGACAACTTCAAT
* ** * *
109489228 TATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACT
*
109489293 AAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTA
*
109489358 TGCGTACCCGACATCTTCAAT
131 TGCGTACCCGACAACTTCAAT
* * * *
109489379 CACATGTGTAGTACTATGTGCAGGCTACTACGTATATCAGATGGTTAGGTCACTTGTGTAGTGCT
1 CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACT
* * * * ** *
109489444 AAGTGCAGGC-ACTACATGTATCGGATTG-CCGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTA
*
109489507 TGCATACC
131 TGCGTACC
109489515 AGATAGCTTC
Statistics
Matches: 252, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
149 39 0.15
150 14 0.06
151 163 0.65
152 3 0.01
153 30 0.12
154 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCCGACAACTTCAAT
Found at i:109489387 original size:101 final size:100
Alignment explanation
Indices: 109489277--109489457 Score: 281
Period size: 101 Copynumber: 1.8 Consensus size: 100
109489267 AATGGTTAGG
* * *
109489277 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCTTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGGTCACTTGTGTAGTAC
109489342 TAAGTGCAGGCTACTATGCGTACCCGACATCTTCAA
66 TAAGTGCAGGC-ACTATGCGTACCCGACATCTTCAA
* * * * *
109489378 TCACATGTGTAGTACTATGTGCAGGCTACTACGTATATCAGATGGTTAGGTCACTTGTGTAGTGC
1 TCACATGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGGTCACTTGTGTAGTAC
109489443 TAAGTGCAGGCACTA
66 TAAGTGCAGGCACTA
109489458 CATGTATCGG
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 4 0.06
101 68 0.94
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAAGCTACTACGTATACCAGATAGTTAGGTCACTTGTGTAGTAC
TAAGTGCAGGCACTATGCGTACCCGACATCTTCAA
Found at i:109489736 original size:16 final size:15
Alignment explanation
Indices: 109489715--109489744 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
109489705 GAATGGAGTA
109489715 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
109489731 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
109489745 TAAAATAGTT
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:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:109490852 original size:113 final size:112
Alignment explanation
Indices: 109490697--109490924 Score: 447
Period size: 113 Copynumber: 2.0 Consensus size: 112
109490687 ATGTGAAGAT
109490697 ATGATTATGTTTGTTTGTCAGCATGGTTGGCAATATTTCATGTGTGTTGAATGCATGTTTTATGA
1 ATGATTATGTTTGTTTGTCAGCATGGTTGGCAATATTTCATGTGTGTTGAATGCATGTTTTATGA
109490762 CCATGAATTAAATGTGTAATATGGAGATAAATAATAATGCTTTAAAC
66 CCATGAATTAAATGTGTAATATGGAGATAAATAATAATGCTTTAAAC
109490809 ATGATTATGTTTGTTTGTCATGCATGGTTGGCAATATTTCATGTGTGTTGAATGCATGTTTTATG
1 ATGATTATGTTTGTTTGTCA-GCATGGTTGGCAATATTTCATGTGTGTTGAATGCATGTTTTATG
109490874 ACCATGAATTAAATGTGTAATATGGAGATAAATAATAATGCTTTAAAC
65 ACCATGAATTAAATGTGTAATATGGAGATAAATAATAATGCTTTAAAC
109490922 ATG
1 ATG
109490925 GAACTTTGAT
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
112 20 0.17
113 95 0.83
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (112 bp):
ATGATTATGTTTGTTTGTCAGCATGGTTGGCAATATTTCATGTGTGTTGAATGCATGTTTTATGA
CCATGAATTAAATGTGTAATATGGAGATAAATAATAATGCTTTAAAC
Found at i:109494956 original size:45 final size:45
Alignment explanation
Indices: 109494881--109495013 Score: 164
Period size: 46 Copynumber: 2.9 Consensus size: 45
109494871 CATTGGGTGG
* *
109494881 TATGTGAGCTAGTGTAAGACATGTCTGGGACATGCACCGGCCACAT
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CAT
* *
109494927 TATGAGAGCCAGTGTAAGA-ATGTCTGGGACATGCATCGG--TAT
1 TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCAT
*
109494969 TGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 T---ATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
109495014 TTAGGATATA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
42 3 0.04
45 35 0.47
46 37 0.49
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
TATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCAT
Found at i:109495006 original size:46 final size:44
Alignment explanation
Indices: 109494886--109495013 Score: 161
Period size: 45 Copynumber: 2.8 Consensus size: 44
109494876 GGTGGTATGT
* *
109494886 GAGCTAGTGTAAGACATGTCTGGGACATGCACCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTACGA
* *
109494932 GAGCCAGTGTAAGA-ATGTCTGGGACATGCATCGG-TATTGAGACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATT---ACGA
109494977 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
109495014 TTAGGATATA
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.04
45 35 0.49
46 33 0.46
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATTACGA
Found at i:109495130 original size:48 final size:49
Alignment explanation
Indices: 109495072--109495201 Score: 165
Period size: 48 Copynumber: 2.7 Consensus size: 49
109495062 TGTTGTGTGT
*
109495072 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CAATAGACAAGA-C
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATAGACAAAAGC
* * ** * *
109495120 CAGTGTAAGACCTATCTGGGACATGGCATCGGCCTTGATATACAAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGACAAAAGC
*
109495169 CAGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
109495202 TTTAATGTAC
Statistics
Matches: 70, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.01
48 39 0.56
49 30 0.43
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGACAAAAGC
Found at i:109497657 original size:45 final size:44
Alignment explanation
Indices: 109497588--109497760 Score: 170
Period size: 45 Copynumber: 3.9 Consensus size: 44
109497578 TGTTCAAGGA
* * * *
109497588 TGCCATAGTGCCTTTCAGCCATGGTCTTATTTATTTCTGACATT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGACATT
* *
109497632 ATTCCATAGTGTCTTTCAACTATGGTCTTATTCATTTC-CATCATGT
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGA-CAT-T
* * * *
109497678 TGCTATTGTGTCTTTCAATTATGGTCTTATTCATTT-TCGATATT
1 TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCT-GACATT
* * *
109497722 GTGCTATAGTGTCTTTTAACTATGGTCTTAATCATTTCT
1 -TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCT
109497761 CAAGCCGATA
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
44 2 0.02
45 101 0.95
46 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (44 bp):
TGCCATAGTGTCTTTCAACTATGGTCTTATTCATTTCTGACATT
Found at i:109502582 original size:55 final size:55
Alignment explanation
Indices: 109502451--109502583 Score: 171
Period size: 55 Copynumber: 2.4 Consensus size: 55
109502441 ACACTTAAAA
* *
109502451 TTTT-AAGTCAATGTTGTACACGGGCAGGCCACACAGGCGTATGCCATGGCCGTG
1 TTTTAAAGTCAGTGTTGTACATGGGCAGGCCACACAGGCGTATGCCATGGCCGTG
* ** * *
109502505 TTATAAAGTCAGTGTTGTACATGGGTCA-GCCACATGGGCGTGTGCCATGGCTGTG
1 TTTTAAAGTCAGTGTTGTACATGGG-CAGGCCACACAGGCGTATGCCATGGCCGTG
*
109502560 TTTTAAAGTCAGTGTTGCACATGG
1 TTTTAAAGTCAGTGTTGTACATGG
109502584 ACTAAGGGCA
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
54 3 0.04
55 63 0.93
56 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (55 bp):
TTTTAAAGTCAGTGTTGTACATGGGCAGGCCACACAGGCGTATGCCATGGCCGTG
Found at i:109507553 original size:29 final size:29
Alignment explanation
Indices: 109507491--109507639 Score: 210
Period size: 29 Copynumber: 5.2 Consensus size: 29
109507481 TACATACAAA
* *
109507491 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
109507519 CATATGGCCTATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
109507548 CGTATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
** * * *
109507577 TGTATGGTCCATTAGGCCAAAATCCCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
109507606 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
109507635 CATAT
1 CATAT
109507640 ACATGCTTTC
Statistics
Matches: 106, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
28 17 0.16
29 89 0.84
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:109510859 original size:40 final size:40
Alignment explanation
Indices: 109510836--109511000 Score: 201
Period size: 40 Copynumber: 4.1 Consensus size: 40
109510826 AGTGGCTAAT
*
109510836 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTATA
*
109510876 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTATA
* * * *
109510916 TCCGGGTTAAGTCCCGAAGGCGTTTGTA-CGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCG-AGCGAGCTACTATA
* * *
109510956 ACCGGGCTATGTCCCGAAGGCATAT-GAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCAT-TCGAGCGAGCTA-CTATA
109510996 TCCGG
1 TCCGG
109511001 TTAAATTCCG
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 107 0.96
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGCTACTATA
Found at i:109510995 original size:80 final size:79
Alignment explanation
Indices: 109510793--109511014 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 79
109510783 TGTTCGGATG
* * * *
109510793 ATAACCGGGCTAAATCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCA-TTGAGCGAGTAGCTATA-TCCGGGTTAAGTCCCGAAGG
*
109510856 CATTCGTGCGAGCTACT
63 CATTCGTACGAGCTACT
* *
109510873 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTA-CTATATCCGGGTTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATT-GAGCGAG-TAGCTATATCCGGGTTAAGTCCCGAAGGC
* * *
109510937 GTTTGTACGAGTTACT
64 ATTCGTACGAGCTACT
* * * *
109510953 ATAACCGGGCTATGTCCCGAAGGCATATGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCAT-TGAGCGAGTAGCTATATCCGGGTTAAGTCCCGAAGG
109511015 TACGTGATTT
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
79 18 0.15
80 97 0.81
81 5 0.04
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTGAGCGAGTAGCTATATCCGGGTTAAGTCCCGAAGGCAT
TCGTACGAGCTACT
Found at i:109519170 original size:40 final size:40
Alignment explanation
Indices: 109519011--109519153 Score: 241
Period size: 40 Copynumber: 3.6 Consensus size: 40
109519001 AGTGGCTAAT
109519011 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
109519051 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
* * *
109519091 TCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
* *
109519131 ACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCAT
109519154 ATGAATGAGT
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.22, C:0.27, G:0.29, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATA
Found at i:109519170 original size:80 final size:80
Alignment explanation
Indices: 109519011--109519175 Score: 226
Period size: 80 Copynumber: 2.1 Consensus size: 80
109519001 AGTGGCTAAT
*
109519011 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTC
**
109519076 GTGCGAGCTACTATA
66 GAACGAGCTACTATA
* * * *
109519091 TCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCAT-T
*
109519156 -GAATGAG-TAGCTATA
65 CGAACGAGCTA-CTATA
109519171 TCCGG
1 TCCGG
109519176 TTAAATTCCG
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
79 2 0.03
80 72 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGCTACTATA
Found at i:109527485 original size:21 final size:21
Alignment explanation
Indices: 109527439--109527478 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
109527429 ACTCAAATCT
*
109527439 TATAATTCACATATAACATCA
1 TATAATACACATATAACATCA
109527460 TATAATACACATATAACAT
1 TATAATACACATATAACAT
109527479 TTAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (21 bp):
TATAATACACATATAACATCA
Found at i:109528500 original size:19 final size:18
Alignment explanation
Indices: 109528478--109528555 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 18
109528468 TTTTTCTCAC
109528478 TTTATGTATTTTTGAATTT
1 TTTATGTA-TTTTGAATTT
*
109528497 TTTATCTATTTT--ATTT
1 TTTATGTATTTTGAATTT
*
109528513 ATTTATTTATTTTGAA-TT
1 -TTTATGTATTTTGAATTT
*
109528531 TCTATGTAGTTTTAGAATATT
1 TTTATGTA-TTTT-GAAT-TT
109528552 TTTA
1 TTTA
109528556 GAATTTTTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.09
17 17 0.36
18 10 0.21
19 11 0.23
21 5 0.11
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (18 bp):
TTTATGTATTTTGAATTT
Found at i:109529455 original size:54 final size:54
Alignment explanation
Indices: 109529373--109529480 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
109529363 CAGTGGAAGT
*
109529373 GTCTACATTGTTAAATTATGTCTTGTTGGAATTAAGATAATTATTTTGAAATGA
1 GTCTACATTGTTAAATTATGTCCTGTTGGAATTAAGATAATTATTTTGAAATGA
109529427 GTCTACATTGTTAAATTATGTCCTGTTGGAATTAAGATAATTATTTTGAAATGA
1 GTCTACATTGTTAAATTATGTCCTGTTGGAATTAAGATAATTATTTTGAAATGA
109529481 TTACACTACC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (54 bp):
GTCTACATTGTTAAATTATGTCCTGTTGGAATTAAGATAATTATTTTGAAATGA
Found at i:109531301 original size:15 final size:17
Alignment explanation
Indices: 109531270--109531302 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
109531260 GTTCATGACC
109531270 GAAACATAAATAAGAAA
1 GAAACATAAATAAGAAA
109531287 GAAA-ATAAA-AAGAAA
1 GAAACATAAATAAGAAA
109531302 G
1 G
109531303 CTAGGGTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 5 0.31
17 4 0.25
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.09
Consensus pattern (17 bp):
GAAACATAAATAAGAAA
Found at i:109540269 original size:43 final size:43
Alignment explanation
Indices: 109540196--109540328 Score: 207
Period size: 43 Copynumber: 3.1 Consensus size: 43
109540186 GATAAATCTC
* *
109540196 GCAGGCCTAGTGCTGGT-AT-TGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
109540237 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
109540280 GCAGGCTTTGTACCAGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
109540323 GCAGGC
1 GCAGGC
109540329 GTAATACCGG
Statistics
Matches: 85, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
41 15 0.18
42 2 0.02
43 68 0.80
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:109557094 original size:18 final size:18
Alignment explanation
Indices: 109557071--109557107 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
109557061 TAATTTGATG
109557071 CCATATAAAATTTTTAAA
1 CCATATAAAATTTTTAAA
109557089 CCATATAAAATTTTTAAA
1 CCATATAAAATTTTTAAA
109557107 C
1 C
109557108 AACTTGGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
CCATATAAAATTTTTAAA
Found at i:109565645 original size:19 final size:19
Alignment explanation
Indices: 109565621--109565660 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
109565611 TTGATGAAAA
109565621 CCTTTAGCGACTAATCGCC
1 CCTTTAGCGACTAATCGCC
*
109565640 CCTTTAGTGACTAATCGCC
1 CCTTTAGCGACTAATCGCC
109565659 CC
1 CC
109565661 CACGGTATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.38, G:0.15, T:0.28
Consensus pattern (19 bp):
CCTTTAGCGACTAATCGCC
Found at i:109569509 original size:46 final size:45
Alignment explanation
Indices: 109569459--109569632 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
109569449 ATGGTTGAGC
109569459 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
109569504 TATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-G-C
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAA
109569552 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** *
109569597 CGCTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 ATC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
109569633 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 3 0.03
46 64 0.59
47 33 0.31
48 2 0.02
49 2 0.02
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:109569616 original size:93 final size:93
Alignment explanation
Indices: 109569457--109569627 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
109569447 GGATGGTTGA
*
109569457 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATATCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGATCCGAACTCGTTGAGT
109569522 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
109569550 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT-CGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GATCCGAACTCGTTGAG
109569614 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
109569628 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGATCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:109600276 original size:16 final size:16
Alignment explanation
Indices: 109600257--109600287 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
109600247 TATTCTTTTG
109600257 TTTCTTAACTCTTTAA
1 TTTCTTAACTCTTTAA
109600273 TTTCTTAACTCTTTA
1 TTTCTTAACTCTTTA
109600288 TGTGCGATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTCTTAACTCTTTAA
Found at i:109600633 original size:27 final size:27
Alignment explanation
Indices: 109600595--109600646 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
109600585 TTCCACTTTT
109600595 TCTTCGGTCTCTCTAATCAAATTAATC
1 TCTTCGGTCTCTCTAATCAAATTAATC
*
109600622 TCTTCGGTCTCTCTGATCAAATTAA
1 TCTTCGGTCTCTCTAATCAAATTAA
109600647 CCCCGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (27 bp):
TCTTCGGTCTCTCTAATCAAATTAATC
Found at i:109601511 original size:12 final size:13
Alignment explanation
Indices: 109601494--109601531 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
109601484 ACCCTAGAAT
109601494 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
109601506 ATTAAGAACACATA
1 ATTAAGAACA-AGA
109601520 ATTAAGAACAAG
1 ATTAAGAACAAG
109601532 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:109625082 original size:40 final size:39
Alignment explanation
Indices: 109625023--109625167 Score: 112
Period size: 40 Copynumber: 3.6 Consensus size: 39
109625013 AAATTGAATG
* * *
109625023 ATATCCGGGCTAAGCCCCGAGGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAGG-CAATTATGCTAGAAACT
* * ***
109625063 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCG-AGGCAATTATGCTAGAAACT
* * ** *
109625103 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCG-AGGCAATT-ATGCTAGAAACT
*
109625143 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCG-AGGCA
109625168 TTTGTGCACG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 82 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAGGCAATTATGCTAGAAACT
Found at i:109625168 original size:40 final size:39
Alignment explanation
Indices: 109625062--109625190 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
109625052 TGCTGGAAAT
* * *
109625062 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
109625102 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
109625142 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
109625182 TATATCCGG
1 TATATCCGG
109625191 TTATATTCTA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:109627105 original size:40 final size:40
Alignment explanation
Indices: 109627060--109627227 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
109627050 CGGAATATAA
109627060 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
109627100 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
109627140 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
109627180 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
109627220 CCGGATAT
1 CCGGATAT
109627228 CATTCATTTC
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:109635112 original size:40 final size:40
Alignment explanation
Indices: 109635067--109635234 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
109635057 CGGAATATAA
109635067 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
109635107 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
109635147 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
109635187 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
109635227 CCGGATAT
1 CCGGATAT
109635235 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:109636839 original size:28 final size:29
Alignment explanation
Indices: 109636807--109636905 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
109636797 ATAATAAGCC
*
109636807 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
109636835 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
109636863 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
109636892 CGCACACTTAGTGC
1 CGCACACTTAGTGC
109636906 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:109644823 original size:28 final size:29
Alignment explanation
Indices: 109644791--109644889 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
109644781 ATAATAAGCC
*
109644791 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
109644819 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
109644847 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
109644876 CGCACACTTAGTGC
1 CGCACACTTAGTGC
109644890 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:109649349 original size:2 final size:2
Alignment explanation
Indices: 109649342--109649405 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
109649332 GGTGATAAGG
109649342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109649384 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
109649406 CTTGTATGGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109656467 original size:29 final size:29
Alignment explanation
Indices: 109656411--109656468 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
109656401 TTAACGTAAG
* *
109656411 TGACTAAAATGTAACATTTTAAACATAAA
1 TGACTAAAATGTAACATATGAAACATAAA
*
109656440 TGACTAAAATGTAATATGATGAAA-ATAAA
1 TGACTAAAATGTAACAT-ATGAAACATAAA
109656469 AGTTACTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.29
Consensus pattern (29 bp):
TGACTAAAATGTAACATATGAAACATAAA
Found at i:109663086 original size:30 final size:30
Alignment explanation
Indices: 109663039--109663139 Score: 121
Period size: 30 Copynumber: 3.4 Consensus size: 30
109663029 GAAGTGGACA
* * *
109663039 CCTTCGTAGCTAACTGATGTTGTGTGGATG
1 CCTTTGTAGCTATCTGATGTTATGTGGATG
* * *
109663069 CCCTTGTGGCTATCTGATGTTATGTAGATG
1 CCTTTGTAGCTATCTGATGTTATGTGGATG
* * *
109663099 CCTTTGCAGCTATTTGATGTTATGTGGACG
1 CCTTTGTAGCTATCTGATGTTATGTGGATG
109663129 CCTTTGTAGCT
1 CCTTTGTAGCT
109663140 CTACGTGGAC
Statistics
Matches: 58, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.40
Consensus pattern (30 bp):
CCTTTGTAGCTATCTGATGTTATGTGGATG
Found at i:109664602 original size:40 final size:39
Alignment explanation
Indices: 109664521--109664752 Score: 134
Period size: 40 Copynumber: 5.6 Consensus size: 39
109664511 AGAGCGAGCA
109664521 TTAGCGGCGCTTTTTAAAAACGCCGCTATATGTACACCT
1 TTAGCGGCGCTTTTTAAAAACGCCGCTATATGTACACCT
* ** *
109664560 TTAGCGGCACTTTTTAGAAAACGCCGCTA-ATGCTTGATCT
1 TTAGCGGCGCTTTTTA-AAAACGCCGCTATATG-TACACCT
* * *
109664600 TTAGCGGCGTTTTTTAAAAAACGCCGCAAAAAAAT-TA-AGCCTTTGGTGGCT
1 TTAGCGGCGCTTTTT-AAAAACGCCGC---TATATGTACA--C--------CT
* *
109664651 TTAGCGGCGCTTTTTAAAAACGCCGCTA-AAG-ATCGA-GT
1 TTAGCGGCGCTTTTTAAAAACGCCGCTATATGTA-C-ACCT
* *
109664689 ATTAACGGCGCTTTTTTAAAAACGCCGCAATATGTACACCT
1 -TTAGCGGCGC-TTTTTAAAAACGCCGCTATATGTACACCT
109664730 TTAGCGGCGCTTTTTAGAAAACG
1 TTAGCGGCGCTTTTTA-AAAACG
109664753 TCGCAAATTA
Statistics
Matches: 148, Mismatches: 18, Indels: 53
0.68 0.08 0.24
Matches are distributed among these distances:
38 1 0.01
39 33 0.22
40 72 0.49
41 6 0.04
42 2 0.01
43 1 0.01
44 2 0.01
46 2 0.01
47 1 0.01
49 1 0.01
50 11 0.07
51 16 0.11
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCTATATGTACACCT
Found at i:109664703 original size:130 final size:135
Alignment explanation
Indices: 109664521--109664871 Score: 371
Period size: 130 Copynumber: 2.6 Consensus size: 135
109664511 AGAGCGAGCA
* *
109664521 TTAGCGGCGCTTTTTAAAAACGCCGCTATATG-TAC-ACCT-TTAGCGGCACTTTTTAGAAAACG
1 TTAGCGGCGCTTTTTAAAAACGCCGCTA-AAGAT-CGA-GTATTAGCGGCACTTTTTA-AAAACG
** * *
109664583 CCGCTA-ATGCTTGATCTTTAGCGGCGTTTTTTAAAAAACGCCGCAAA-AA-AAT-T-AA-GCC-
62 CCGCTATATG-TACACCTTTAGCGGCGCTTTTTAAAAAACGCCGCAAATAATAATGTAAACGCCA
*
109664641 TTTGGTGGCT
126 TTTAGTGGCT
* *
109664651 TTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTATTAACGGCGCTTTTTTAAAAACGCCG
1 TTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCAC-TTTTTAAAAACGCCG
* * * **
109664716 CAATATGTACACCTTTAGCGGCGCTTTTTAGAAAACGTCGCAAATTAATTTTGTAAAACGCCGAA
65 CTATATGTACACCTTTAGCGGCGCTTTTTAAAAAACGCCGCAAA-TAATAATGT-AAACGCC--A
109664781 TTTAGTGGCT
126 TTTAGTGGCT
* *
109664791 TTAGCGGCGCTTTTTAAAATCGCCGCTAAAGATCGAGTATTAGCGGCATTTTTTTAAGAAACGCC
1 TTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCA-CTTTTTAA-AAACGCC
*
109664856 GCTATAAGTACACCTT
64 GCTATATGTACACCTT
109664872 CAGCATTAGC
Statistics
Matches: 184, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
129 4 0.02
130 80 0.43
131 9 0.05
132 2 0.01
133 1 0.01
134 1 0.01
136 2 0.01
137 3 0.02
140 61 0.33
141 21 0.11
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (135 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCGAGTATTAGCGGCACTTTTTAAAAACGCCGC
TATATGTACACCTTTAGCGGCGCTTTTTAAAAAACGCCGCAAATAATAATGTAAACGCCATTTAG
TGGCT
Found at i:109665066 original size:19 final size:17
Alignment explanation
Indices: 109665025--109665057 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
109665015 AGAGACAGTG
109665025 TTAATTTTAAAATATTA
1 TTAATTTTAAAATATTA
109665042 TTAATTTTAAAATATT
1 TTAATTTTAAAATATT
109665058 GAATTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATTTTAAAATATTA
Found at i:109665147 original size:7 final size:7
Alignment explanation
Indices: 109665132--109665176 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
109665122 ACTATTGTAA
109665132 GGTTTAT
1 GGTTTAT
*
109665139 GGATTAT
1 GGTTTAT
*
109665146 GGGTTTAG
1 -GGTTTAT
*
109665154 GGATTAT
1 GGTTTAT
109665161 GGTTTAT
1 GGTTTAT
109665168 GGTTTAT
1 GGTTTAT
109665175 GG
1 GG
109665177 GTTAAAGGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
7 26 0.84
8 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.47
Consensus pattern (7 bp):
GGTTTAT
Found at i:109665152 original size:15 final size:15
Alignment explanation
Indices: 109665132--109665179 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
109665122 ACTATTGTAA
109665132 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
109665147 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
*
109665161 GGTTTATGGTTTATG
1 GGTTTATGGATTATG
109665176 GGTT
1 GGTT
109665180 AAAGGTTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 12 0.41
15 17 0.59
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:109665192 original size:21 final size:21
Alignment explanation
Indices: 109665168--109665237 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
109665158 TATGGTTTAT
* *
109665168 GGTTTATGGGTTAAAGGTTAG
1 GGTTTAAGGTTTAAAGGTTAG
* * *
109665189 GGTTTAAGTTTTAAGGGGTTGG
1 GGTTTAAGGTTTAA-AGGTTAG
* *
109665211 GGTTTAAGGTTTAGAGGTTAA
1 GGTTTAAGGTTTAAAGGTTAG
109665232 GGTTTA
1 GGTTTA
109665238 TGTTTTATGG
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGTTTAAAGGTTAG
Found at i:109665221 original size:7 final size:7
Alignment explanation
Indices: 109665147--109665258 Score: 57
Period size: 7 Copynumber: 15.9 Consensus size: 7
109665137 ATGGATTATG
*
109665147 GGTTTAG
1 GGTTTAA
* *
109665154 GGATTAT
1 GGTTTAA
*
109665161 GGTTTAT
1 GGTTTAA
*
109665168 GGTTTATG
1 GGTTTA-A
*
109665176 GGTTAAA
1 GGTTTAA
*
109665183 GG-TTAG
1 GGTTTAA
109665189 GGTTTAA
1 GGTTTAA
*
109665196 GTTTTAA
1 GGTTTAA
* **
109665203 GGGGTTGG
1 -GGTTTAA
109665211 GGTTTAA
1 GGTTTAA
109665218 GGTTTAGA
1 GGTTTA-A
109665226 GG-TTAA
1 GGTTTAA
*
109665232 GGTTTAT
1 GGTTTAA
* *
109665239 GTTTTAT
1 GGTTTAA
109665246 GGTTTAA
1 GGTTTAA
109665253 GGTTTA
1 GGTTTA
109665259 GGGGTTAGGG
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
6 7 0.09
7 61 0.77
8 11 0.14
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:109665258 original size:14 final size:14
Alignment explanation
Indices: 109665132--109665258 Score: 60
Period size: 14 Copynumber: 8.9 Consensus size: 14
109665122 ACTATTGTAA
* *
109665132 GGTTTATGGATTAT
1 GGTTTAAGGTTTAT
* *
109665146 GGGTTTAGGGATTAT
1 -GGTTTAAGGTTTAT
*
109665161 GGTTTATGGTTTAT
1 GGTTTAAGGTTTAT
* *
109665175 GGGTTAAAGG-TTAG
1 -GGTTTAAGGTTTAT
* *
109665189 GGTTTAAGTTTTAAG
1 GGTTTAAGGTTT-AT
* ** *
109665204 GGGTTGGGGTTTAA
1 GGTTTAAGGTTTAT
*
109665218 GGTTTAGAGG-TTAA
1 GGTTTA-AGGTTTAT
* *
109665232 GGTTTATGTTTTAT
1 GGTTTAAGGTTTAT
109665246 GGTTTAAGGTTTA
1 GGTTTAAGGTTTA
109665259 GGGGTTAGGG
Statistics
Matches: 86, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
13 8 0.09
14 46 0.53
15 32 0.37
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (14 bp):
GGTTTAAGGTTTAT
Found at i:109666387 original size:52 final size:52
Alignment explanation
Indices: 109666304--109666412 Score: 173
Period size: 52 Copynumber: 2.1 Consensus size: 52
109666294 TCCAGTTAGA
* * *
109666304 CTCTAAGATAGAAGAGATGGCAGTGAACCAGACGGCGGTGTTGAAGGTGGGG
1 CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
*
109666356 CTCTGAGATAGAAGAGATGGTAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
1 CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
*
109666408 TTCTG
1 CTCTG
109666413 TCTATTGGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.15, G:0.39, T:0.19
Consensus pattern (52 bp):
CTCTGAGATAGAAGAGATGGCAGTGAACCAGACGCCGGCGTTGAAGGTGGGG
Found at i:109670621 original size:20 final size:21
Alignment explanation
Indices: 109670569--109670629 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
109670559 AAATTTCAAG
109670569 AATTAAACATAATATAATATTTA
1 AATTAAA-ATAA-ATAATATTTA
* *
109670592 AAATAGAAATAAATATTATTT-
1 AATTA-AAATAAATAATATTTA
109670613 AATTAAAATAAAATAAT
1 AATTAAAAT-AAATAAT
109670630 TTTTTAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
20 4 0.12
21 10 0.31
22 8 0.25
23 8 0.25
24 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTAAAATAAATAATATTTA
Found at i:109670791 original size:43 final size:43
Alignment explanation
Indices: 109670647--109670789 Score: 180
Period size: 43 Copynumber: 3.3 Consensus size: 43
109670637 AAGGTTATGT
* **
109670647 TTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCGTGTT
1 TTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
*
109670690 TTTTAGCGGTGTTTGTGGGAAAAA-CGCCGCTAAAGGTCATGAC
1 TTTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGGTCATGAC
* * ** * *
109670733 CTTTAGCGGCGTTTTTGTTAAAAGCGCTGCTAAAGATCATGAC
1 TTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
109670776 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
109670790 TTTTTCATAA
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 5 0.06
43 74 0.86
44 7 0.08
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (43 bp):
TTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGAC
Found at i:109686861 original size:25 final size:25
Alignment explanation
Indices: 109686833--109686927 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
109686823 CTCTTTTAAT
*
109686833 AACTGTGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
109686858 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
109686883 AACTGGGGCAAAG-CCTTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTT-GATA
*
109686908 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
109686928 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
24 6 0.10
25 50 0.81
26 6 0.10
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:109686863 original size:50 final size:50
Alignment explanation
Indices: 109686820--109686927 Score: 141
Period size: 50 Copynumber: 2.2 Consensus size: 50
109686810 CTGGAGGCCT
*
109686820 AGCCTCTTTT-AAT-AACTGTGGCAAAGCCCTTTTT-GATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAG-CCTTTTTCGATAAACTGGGGCAA
** *
109686869 AGCCCTTTTCGGTAAACTGGGGCAAAGCCTTTTTCGATAAACTAGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAAAGCCTTTTTCGATAAACTGGGGCAA
109686919 AGCCCTTTT
1 AGCCCTTTT
109686928 AGCACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
48 5 0.10
49 12 0.23
50 35 0.67
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAGCCTTTTTCGATAAACTGGGGCAA
Found at i:109687190 original size:53 final size:53
Alignment explanation
Indices: 109687133--109687298 Score: 212
Period size: 53 Copynumber: 3.1 Consensus size: 53
109687123 GGGCAAAATG
* * * *
109687133 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTA-CTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAAGGGTAT-TCGGTAATTCTACCCTACAGGGGTATTTCA
* *
109687186 GTAATTCTACCTTACAAGGGTAATTCGGTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGT-ATTCGGTAATTCTACCCTACAGGGGTATTTCA
109687240 GTAATTCTA-CCTAC-AGGAGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGG-GTA-TTCGGTAATTCTACCCTACAGGGGTATTTCA
*
109687293 ATAATT
1 GTAATT
109687299 TTGTAAATCG
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
52 4 0.04
53 71 0.71
54 25 0.25
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTCGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:109687270 original size:80 final size:80
Alignment explanation
Indices: 109687132--109687287 Score: 204
Period size: 80 Copynumber: 1.9 Consensus size: 80
109687122 GGGGCAAAAT
* * * * *
109687132 GGTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACTTACAGGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCTACAGGAGTATTTCAGTAATTCTACC
*
109687197 TTACAAGGGTAATTC
66 CTACAAGGGTAATTC
* * * * *
109687212 GGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCTACAGGAGTATTTCGGTAATTCTACC
1 GGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCTACAGGAGTATTTCAGTAATTCTACC
*
109687277 CTACAGGGGTA
66 CTACAAGGGTA
109687288 TTTCAATAAT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (80 bp):
GGTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCTACAGGAGTATTTCAGTAATTCTACC
CTACAAGGGTAATTC
Found at i:109687297 original size:27 final size:27
Alignment explanation
Indices: 109687133--109687298 Score: 183
Period size: 27 Copynumber: 6.2 Consensus size: 27
109687123 GGGCAAAATG
* * * * *
109687133 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
109687160 GTAATTCTA-CTTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
109687186 GTAATTCTACCTTACAAGGGTAATTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
109687213 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
109687240 GTAATTCTA-CCTACAGGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
109687266 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
109687293 ATAATT
1 GTAATT
109687299 TTGTAAATCG
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
26 43 0.37
27 72 0.63
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:109687313 original size:27 final size:27
Alignment explanation
Indices: 109687283--109687542 Score: 106
Period size: 27 Copynumber: 9.6 Consensus size: 27
109687273 TACCCTACAG
*
109687283 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
** * *
109687310 GGGTAAAAT-GGTAATTCTGTAAATCCG-
1 GGGT-ATTTCAGTAATTTTGTAAAT-CGA
* *
109687337 GGTTACTTT-GGTAATTTT-TACAAGTCGA
1 GGGTA-TTTCAGTAATTTTGTA-AA-TCGA
**
109687365 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
* *
109687392 GGGTATTTCAGTAATTTTGCAAA-CTAA
1 GGGTATTTCAGTAATTTTGTAAATC-GA
* ***
109687419 GGGT-TTTC-GAAAATTTCACAAATC-A
1 GGGTATTTCAG-TAATTTTGTAAATCGA
** ** *
109687444 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
** * *
109687471 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
109687499 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
*
109687526 GGGTATTTTAGTAATTT
1 GGGTATTTCAGTAATTT
109687543 CACAAATTAG
Statistics
Matches: 188, Mismatches: 29, Indels: 32
0.76 0.12 0.13
Matches are distributed among these distances:
25 2 0.01
26 22 0.12
27 141 0.75
28 22 0.12
29 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCGA
Found at i:109687547 original size:27 final size:27
Alignment explanation
Indices: 109687343--109687646 Score: 234
Period size: 27 Copynumber: 11.4 Consensus size: 27
109687333 TCCGGGTTAC
*
109687343 TTTGGTAATTTTTACAAGTCGAGGGTAT
1 TTTGGTAA-TTTTACAAATCGAGGGTAT
**
109687371 TTCAGTAATTTTACAAATCGAGGGTAT
1 TTTGGTAATTTTACAAATCGAGGGTAT
** * *
109687398 TTCAGTAATTTTGCAAA-CTAAGGGT-T
1 TTTGGTAATTTTACAAATC-GAGGGTAT
* ** *
109687424 TTCGAAAATTTCACAAATC-AGGGGTAT
1 TTTGGTAATTTTACAAATCGA-GGGTAT
*
109687451 TTTGGTAATTTTACAAA-CCAGGGGTAT
1 TTTGGTAATTTTACAAATCGA-GGGTAT
** * *
109687478 TTTGGTAATTTTGTAAACCAAGGGTAT
1 TTTGGTAATTTTACAAATCGAGGGTAT
*
109687505 TTTGGTAATTTTACAAGTCGAGGGTAT
1 TTTGGTAATTTTACAAATCGAGGGTAT
* * *
109687532 TTTAGTAATTTCACAAAT-TAGGGGTAT
1 TTTGGTAATTTTACAAATCGA-GGGTAT
* *
109687559 TTTGGTAATTTCACAAA-CTAGGGGTA-
1 TTTGGTAATTTTACAAATCGA-GGGTAT
*
109687585 ---GGTAATTTTACAAA-CTAGGGGTAT
1 TTTGGTAATTTTACAAATCGA-GGGTAT
* *
109687609 TTTGGTAATTTTACAAATTGAGGGCAT
1 TTTGGTAATTTTACAAATCGAGGGTAT
*
109687636 TTTAGTAATTT
1 TTTGGTAATTT
109687647 GGTAAACTAA
Statistics
Matches: 231, Mismatches: 32, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
23 22 0.10
25 1 0.00
26 20 0.09
27 179 0.77
28 9 0.04
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
TTTGGTAATTTTACAAATCGAGGGTAT
Found at i:109687584 original size:81 final size:83
Alignment explanation
Indices: 109687343--109687656 Score: 303
Period size: 81 Copynumber: 3.9 Consensus size: 83
109687333 TCCGGGTTAC
* * *
109687343 TTTGGTAATTTTTACAAGTCGA-GGGTATTTCAGTAATTTTACAAA-TCGAGGGTATTTCAGTAA
1 TTTGGTAA-TTTTACAAGTCGAGGGGTATTTTAGTAATTTTACAAATTAGAGGGTATTTTAGTAA
109687406 TTTTGCAAACTAAGGGT-T
65 TTTTGCAAACTAAGGGTAT
* ** * * * ** *
109687424 TTCGAAAATTTCACAAATC-AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTGGTAAT
1 TTTGGTAATTTTACAAGTCGAGGGGTATTTTAGTAATTTTACAAATTAGAGGGTATTTTAGTAAT
* *
109687487 TTTGTAAACCAAGGGTAT
66 TTTGCAAACTAAGGGTAT
* *
109687505 TTTGGTAATTTTACAAGTCGA-GGGTATTTTAGTAATTTCACAAATTAG-GGGTATTTTGGTAAT
1 TTTGGTAATTTTACAAGTCGAGGGGTATTTTAGTAATTTTACAAATTAGAGGGTATTTTAGTAAT
** *
109687568 TTCACAAACTAGGGGTA-
66 TTTGCAAACTAAGGGTAT
* * * *
109687585 ---GGTAATTTTACAA-ACTAGGGGTATTTTGGTAATTTTACAAATT-GAGGGCATTTTAGTAAT
1 TTTGGTAATTTTACAAGTCGAGGGGTATTTTAGTAATTTTACAAATTAGAGGGTATTTTAGTAAT
* *
109687645 TTGGTAAACTAA
66 TTTGCAAACTAA
109687657 AGTATTCTAA
Statistics
Matches: 190, Mismatches: 37, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
76 3 0.02
77 57 0.30
79 1 0.01
80 57 0.30
81 71 0.37
82 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (83 bp):
TTTGGTAATTTTACAAGTCGAGGGGTATTTTAGTAATTTTACAAATTAGAGGGTATTTTAGTAAT
TTTGCAAACTAAGGGTAT
Found at i:109687592 original size:23 final size:24
Alignment explanation
Indices: 109687536--109687608 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 24
109687526 GGGTATTTTA
*
109687536 GTAATTTCACAAATTAGGGGTATTTTG
1 GTAATTTCACAAACTAGGGGTA---TG
109687563 GTAATTTCACAAACTAGGGGTA-G
1 GTAATTTCACAAACTAGGGGTATG
*
109687586 GTAATTTTACAAACTAGGGGTAT
1 GTAATTTCACAAACTAGGGGTAT
109687609 TTTGGTAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 22 0.51
27 21 0.49
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.34
Consensus pattern (24 bp):
GTAATTTCACAAACTAGGGGTATG
Found at i:109691853 original size:40 final size:40
Alignment explanation
Indices: 109691792--109691867 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
109691782 CGGTACTTTA
*
109691792 TGGTGTGTAGGATTGGATGGGTCGATTTTATCCCCATATT
1 TGGTGTGCAGGATTGGATGGGTCGATTTTATCCCCATATT
* *
109691832 TGGTGTGCAGGGA-TGGGTGGGTCTATTTTATCCCCA
1 TGGTGTGCA-GGATTGGATGGGTCGATTTTATCCCCA
109691868 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 29 0.91
41 3 0.09
ACGTcount: A:0.16, C:0.14, G:0.33, T:0.37
Consensus pattern (40 bp):
TGGTGTGCAGGATTGGATGGGTCGATTTTATCCCCATATT
Found at i:109695272 original size:40 final size:40
Alignment explanation
Indices: 109695206--109695309 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
109695196 AAATTGAATG
* * *
109695206 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
* * ***
109695245 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
109695285 ATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
109695310 TTCGTGCGAT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
39 13 0.24
40 42 0.76
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTAGAAACT
Found at i:109703717 original size:39 final size:40
Alignment explanation
Indices: 109703594--109703759 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
109703584 AAATTGAATG
* * *
109703594 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
109703633 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
109703673 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
109703712 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
109703752 ATATCCGG
1 ATATCCGG
109703760 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:109703726 original size:79 final size:79
Alignment explanation
Indices: 109703594--109703743 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
109703584 AAATTGAATG
*
109703594 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
109703659 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
109703673 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
109703736 ATTTGTGC
64 AATTGTGC
109703744 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:109711653 original size:40 final size:40
Alignment explanation
Indices: 109711587--109711753 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
109711577 AAATTGAATG
* * *
109711587 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
109711626 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
109711666 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
109711706 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
109711746 ATATCCGG
1 ATATCCGG
109711754 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:109721339 original size:24 final size:24
Alignment explanation
Indices: 109721266--109721340 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
109721256 AACATGCATT
*
109721266 TGTGTGATAAGGCCGAATGGCCAA
1 TGTGTGATAATGCCGAATGGCCAA
*
109721290 --TGTGATGAATG-TGAACAT-G-CATA
1 TGTGTGAT-AATGCCG-A-ATGGCCA-A
109721313 TGTGTGATAATGCCGAATGGCCAA
1 TGTGTGATAATGCCGAATGGCCAA
109721337 TGTG
1 TGTG
109721341 ATGAATATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 18
0.65 0.05 0.30
Matches are distributed among these distances:
22 9 0.23
23 8 0.21
24 13 0.33
25 9 0.23
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (24 bp):
TGTGTGATAATGCCGAATGGCCAA
Found at i:109721436 original size:22 final size:22
Alignment explanation
Indices: 109721361--109721483 Score: 69
Period size: 22 Copynumber: 5.3 Consensus size: 22
109721351 ACATGCACAT
*
109721361 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
109721383 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
109721407 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
*
109721430 ATGTGATAAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
109721454 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
109721477 ATGTGAT
1 ATGTGAT
109721484 GAACGTGGAA
Statistics
Matches: 78, Mismatches: 5, Indels: 36
0.66 0.04 0.30
Matches are distributed among these distances:
22 23 0.29
23 20 0.26
24 19 0.24
25 16 0.21
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:109721504 original size:141 final size:141
Alignment explanation
Indices: 109721196--109721520 Score: 447
Period size: 141 Copynumber: 2.3 Consensus size: 141
109721186 TTAGGATTTT
* * * *
109721196 ATGTGATG-ATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACA
* * * * * *
109721260 TGCATTTGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAATG
66 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGG
*
109721325 CCGAATGGCCA
131 CAGAATGGCCA
* * * * *
109721336 ATGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACA
109721401 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGG
66 TGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGG
109721466 CAGAATGGCCA
131 CAGAATGGCCA
* ** *
109721477 ATGTGATGAACGTGGAA-GTGTATATATGTGGGAAAGCCGAATGG
1 ATGTGATGAATGT-GAACGTGTATATATGTGATAAGGCCGAATGG
109721521 TTAATGCAAA
Statistics
Matches: 159, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
140 8 0.05
141 148 0.93
142 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (141 bp):
ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACA
TGCATATATGTGATAAGGCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGG
CAGAATGGCCA
Found at i:109721520 original size:47 final size:47
Alignment explanation
Indices: 109721196--109721486 Score: 431
Period size: 47 Copynumber: 6.2 Consensus size: 47
109721186 TTAGGATTTT
** * * * *
109721196 ATGTGATG-ATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109721242 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109721289 ATGTGATGAATGTGAACATGCATATGTGTGATAATGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109721336 ATGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109721383 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
109721430 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
109721477 ATGTGATGAA
1 ATGTGATGAA
109721487 CGTGGAAGTG
Statistics
Matches: 225, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
46 8 0.04
47 217 0.96
ACGTcount: A:0.35, C:0.11, G:0.27, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:109723064 original size:23 final size:23
Alignment explanation
Indices: 109723038--109723104 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
109723028 TTATATCCGG
109723038 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
* * * *
109723061 GCT-AGT----AA-TGTATCCGG
1 GCTAAGTCCCGAAGAGCATTCGT
109723078 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCCCGAAGAGCATTCGT
109723101 GCTA
1 GCTA
109723105 GTGATGTATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 5 0.17
22 5 0.17
23 12 0.40
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCGT
Found at i:109723086 original size:40 final size:40
Alignment explanation
Indices: 109723031--109723322 Score: 539
Period size: 40 Copynumber: 7.3 Consensus size: 40
109723021 CAGTATGTTA
*
109723031 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
109723071 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
109723111 TATCCGGGCTAAGTCCCGACGAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
109723151 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
109723191 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
109723231 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
* *
109723271 TATCCGGGCTAAGTCCCGAAAAGCATTCGTGCTAGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
109723311 TATCCGGGCTAA
1 TATCCGGGCTAA
109723323 ACCTTGAAGG
Statistics
Matches: 245, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 245 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
Found at i:109723453 original size:29 final size:29
Alignment explanation
Indices: 109723382--109723455 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
109723372 CTTCAACCGA
* *
109723382 GCACTATGTGTGCCAGATTAGTAGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
*
109723411 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
109723440 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
109723456 TTCTTTAATC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.30
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:109723464 original size:29 final size:29
Alignment explanation
Indices: 109723382--109723482 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 29
109723372 CTTCAACCGA
* * *
109723382 GCACTATGTGTGCCAGATTAGTAGTTGAG
1 GCACTATGTGTGCGAGATTTGTAATTGAG
*
109723411 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTTGTAATTGAG
* *
109723440 GCACTATGTGTGCGAG-TTCTTTAATCGA-
1 GCACTATGTGTGCGAGATT-TGTAATTGAG
*
109723468 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
109723483 AATCAGTCAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
28 16 0.25
29 48 0.75
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.32
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTTGTAATTGAG
Found at i:109724220 original size:2 final size:2
Alignment explanation
Indices: 109724213--109724242 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
109724203 CATGTATAAA
109724213 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109724243 TTTCATAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109727322 original size:22 final size:22
Alignment explanation
Indices: 109727297--109727373 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
109727287 CATGCATATG
109727297 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
***
109727319 TGTGATGAA-TATGAACAT-GCACATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
109727344 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
109727366 TGTGATAA
1 TGTGATAA
109727374 ATGTGAACAT
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
22 16 0.38
23 9 0.21
24 9 0.21
25 8 0.19
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:109727418 original size:22 final size:22
Alignment explanation
Indices: 109727390--109727465 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
109727380 ACATGCATAT
109727390 ATGTGATAAGGTAGAATGGCCA
1 ATGTGATAAGGTAGAATGGCCA
* *
109727412 ATGTGATAAATGT-GAACAT-GCATA
1 ATGTGAT-AAGGTAG-A-ATGGC-CA
*
109727436 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGTAGAATGGCCA
109727459 ATGTGAT
1 ATGTGAT
109727466 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGTAGAATGGCCA
Found at i:109727502 original size:47 final size:47
Alignment explanation
Indices: 109727151--109727468 Score: 465
Period size: 47 Copynumber: 6.8 Consensus size: 47
109727141 GTCAATGTGT
* * * *
109727151 ATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATTTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * * *
109727198 ATTTGTGTGATAAGGCTGAATGGCCAATGTGATGAATGTGAACATGT
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* * *
109727245 ACATATGTGATAAGGCCGAATGCCCAATATGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
109727292 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATATGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
109727339 ACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
** *
109727386 ATATATGTGATAAGGTAGAATGGCCAATGTGATAAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
109727433 ATATATGTGATAAGGCAGAATGGCCAATGTGATGAA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAA
109727469 CGTGGAAGTG
Statistics
Matches: 242, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 242 1.00
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:109727535 original size:46 final size:46
Alignment explanation
Indices: 109727482--109727572 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
109727472 GGAAGTGTAT
* * *
109727482 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
109727528 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
109727573 TGTATATATG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:109728790 original size:46 final size:47
Alignment explanation
Indices: 109728680--109728802 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 47
109728670 TGTCTTCGAC
** *
109728680 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTTATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
109728730 ATGGGCTTATATGGCTTATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTTATTCCTGTCTCCAAAGCCAATATATCTAAT
* *
109728776 ATGGACTTACATGGCTCATTTCTGTCT
1 ATGGACTTACATGGCTTATTCCTGTCT
109728803 TGTCCTGTCC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 33 0.52
50 30 0.48
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (47 bp):
ATGGACTTACATGGCTTATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:109736754 original size:31 final size:31
Alignment explanation
Indices: 109736712--109736775 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
109736702 CCTTTTCATA
*
109736712 TTTCATATTTCATAACACTGGGCCGAAGTCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
* **
109736743 TTTCATCTTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
109736774 TT
1 TT
109736776 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:109737046 original size:23 final size:23
Alignment explanation
Indices: 109736990--109737108 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
109736980 CCTAGCCTCT
*
109736990 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
109737013 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
109737037 TGTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
109737060 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
109737083 TTTAATAACTGGCGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
109737106 TTT
1 TTT
109737109 TGCACTTCCT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
23 69 0.76
24 22 0.24
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:109737184 original size:20 final size:20
Alignment explanation
Indices: 109737159--109737223 Score: 112
Period size: 20 Copynumber: 3.2 Consensus size: 20
109737149 ATGAATACAC
109737159 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
109737179 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
109737199 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
109737219 CATGT
1 CATGT
109737224 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:109737190 original size:11 final size:11
Alignment explanation
Indices: 109737159--109737212 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
109737149 ATGAATACAC
109737159 CATGTGCATAT
1 CATGTGCATAT
*
109737170 CA--TACATAT
1 CATGTGCATAT
109737179 CATGTGCATAT
1 CATGTGCATAT
* *
109737190 CA--TACATGT
1 CATGTGCATAT
109737199 CATGTGCATAT
1 CATGTGCATAT
109737210 CAT
1 CAT
109737213 ACATACCATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (11 bp):
CATGTGCATAT
Found at i:109739747 original size:19 final size:18
Alignment explanation
Indices: 109739710--109739753 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
109739700 ATACTTACAG
109739710 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
109739727 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
109739746 TACTAATT
1 TAATAATT
109739754 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:109743641 original size:17 final size:19
Alignment explanation
Indices: 109743614--109743652 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
109743604 TAAATGAAAT
109743614 AAACATAAAAGAAT-AAGG
1 AAACATAAAAGAATAAAGG
109743632 AAAC-TAAAAGAATAAAGG
1 AAACATAAAAGAATAAAGG
109743650 AAA
1 AAA
109743653 GAAATGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.69, C:0.05, G:0.15, T:0.10
Consensus pattern (19 bp):
AAACATAAAAGAATAAAGG
Found at i:109744093 original size:17 final size:18
Alignment explanation
Indices: 109744071--109744104 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
109744061 TAAATGAGTT
109744071 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
109744088 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
109744105 AAAAGACATT
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:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:109756303 original size:13 final size:13
Alignment explanation
Indices: 109756285--109756309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109756275 TATGTGATAT
109756285 GTGTGAAAATTTC
1 GTGTGAAAATTTC
109756298 GTGTGAAAATTT
1 GTGTGAAAATTT
109756310 TATTGTTTGT
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:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:109763007 original size:28 final size:28
Alignment explanation
Indices: 109762893--109763013 Score: 95
Period size: 28 Copynumber: 4.4 Consensus size: 28
109762883 GGTATTACGT
* * * *
109762893 AAAGGCTTACTTTTACAGAGATAGCCAT
1 AAAGGCTTCCTTTAACAAAGATAGCCAC
* * * *
109762921 GAAGACTTCTTTTAACAAAGATAGCCAG
1 AAAGGCTTCCTTTAACAAAGATAGCCAC
* * * * * *
109762949 AAAAGCTT-CTTT--TAGAGTTAACTAC
1 AAAGGCTTCCTTTAACAAAGATAGCCAC
109762974 AAAGGCTTCCTTTAACAAAGATAGCCAC
1 AAAGGCTTCCTTTAACAAAGATAGCCAC
109763002 AAAGGCTTCCTT
1 AAAGGCTTCCTT
109763014 AGATTGTGCC
Statistics
Matches: 67, Mismatches: 23, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
25 14 0.21
26 4 0.06
27 3 0.04
28 46 0.69
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (28 bp):
AAAGGCTTCCTTTAACAAAGATAGCCAC
Found at i:109764748 original size:29 final size:30
Alignment explanation
Indices: 109764694--109764754 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
109764684 TACAGAAAAG
*
109764694 TAGTAACTCATGTAACTATATAAAAT-ACT
1 TAGTAACTCATATAACTATATAAAATAACT
109764723 TAGTAAGCTCATATAA-TATA-ACAAATAACT
1 TAGTAA-CTCATATAACTATATA-AAATAACT
109764753 TA
1 TA
109764755 CCTTAACCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.04
29 14 0.50
30 13 0.46
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (30 bp):
TAGTAACTCATATAACTATATAAAATAACT
Found at i:109768453 original size:45 final size:45
Alignment explanation
Indices: 109768372--109768530 Score: 211
Period size: 45 Copynumber: 3.6 Consensus size: 45
109768362 CTGGTATTTC
* *
109768372 GCCTGCTAGGCTC-GAAGCCCG-ATA-TCATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGT-ATCTCACCGGCATTATA
109768415 G-CTCGCTAGGCT-AGAAAGCCCGAATAGTATCTCACCGGCATTATA
1 GCCT-GCTAGGCTCA-AAAGCCCGAATAGTATCTCACCGGCATTATA
* *
109768460 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGACATTATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
*
109768505 GCCTTCTAGGCTCAAAAGCCCGAATA
1 GCCTGCTAGGCTCAAAAGCCCGAATA
109768531 ATACTGTGCG
Statistics
Matches: 103, Mismatches: 6, Indels: 12
0.85 0.05 0.10
Matches are distributed among these distances:
42 2 0.02
43 9 0.09
44 7 0.07
45 81 0.79
46 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:109769386 original size:47 final size:47
Alignment explanation
Indices: 109769335--109769431 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
109769325 TTAAAATTTT
* *
109769335 CTTAACTAAGTAACTTATCTGGAAATATTAAGGGCAAATTTAACAAG
1 CTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
109769382 CTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
1 CTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
109769429 CTT
1 CTT
109769432 TAAATTCAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.30
Consensus pattern (47 bp):
CTTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAG
Found at i:109769970 original size:18 final size:18
Alignment explanation
Indices: 109769947--109769982 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
109769937 GAAGAAGATG
109769947 AACCAAAACATTTTGTTT
1 AACCAAAACATTTTGTTT
109769965 AACCAAAACATTTTGTTT
1 AACCAAAACATTTTGTTT
109769983 TTTTTTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
AACCAAAACATTTTGTTT
Found at i:109771740 original size:30 final size:31
Alignment explanation
Indices: 109771706--109771763 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
109771696 CTTTTGTTTA
* *
109771706 CTTTCCGAATACACTTTTCTT-TTATCCTCT
1 CTTTCCGAACACACTCTTCTTGTTATCCTCT
* *
109771736 CTTTCTGAACACTCTCTTCTTGTTATCC
1 CTTTCCGAACACACTCTTCTTGTTATCC
109771764 ATTCATCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 17 0.74
31 6 0.26
ACGTcount: A:0.16, C:0.31, G:0.05, T:0.48
Consensus pattern (31 bp):
CTTTCCGAACACACTCTTCTTGTTATCCTCT
Found at i:109772542 original size:27 final size:27
Alignment explanation
Indices: 109772503--109772582 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
109772493 CCCTAATTGA
*
109772503 TAAAATGACTATTTTGTCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
*
109772530 TAAAATGATTATTTTGCCCTTATGTGG
1 TAAAATGACTATTTTGCCCTTATGTGG
* * * *
109772557 TAAGATGACTGTTTTACCCCTATGTG
1 TAAAATGACTATTTTGCCCTTATGTG
109772583 CAATATATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCTTATGTGG
Found at i:109779720 original size:15 final size:16
Alignment explanation
Indices: 109779700--109779730 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
109779690 TCTTTAACCG
109779700 AAAATAAAGAA-AAGA
1 AAAATAAAGAATAAGA
109779715 AAAATAAAGAATAAGA
1 AAAATAAAGAATAAGA
109779731 TCTAGGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (16 bp):
AAAATAAAGAATAAGA
Found at i:109781883 original size:25 final size:25
Alignment explanation
Indices: 109781838--109781885 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
109781828 TGGTGCAATG
* *
109781838 TATTAAATATTTATATGTGATTACT
1 TATTAAATATATATATATGATTACT
109781863 TATTAAAT-TATATAATATGATTA
1 TATTAAATATATAT-ATATGATTA
109781886 AATGATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (25 bp):
TATTAAATATATATATATGATTACT
Found at i:109788378 original size:6 final size:6
Alignment explanation
Indices: 109788367--109788399 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
109788357 TCCTCCTATC
*
109788367 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
109788400 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:109788405 original size:18 final size:18
Alignment explanation
Indices: 109788367--109788406 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
109788357 TCCTCCTATC
* **
109788367 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
109788385 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
109788403 TTTT
1 TTTT
109788407 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:109797337 original size:34 final size:33
Alignment explanation
Indices: 109797260--109797363 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 33
109797250 TTATGCATTT
109797260 TTGATATTG-TACTGAATTGGGCTAAGGCCCACA
1 TTGATATTGCTACTGAA-TGGGCTAAGGCCCACA
* * *
109797293 CT-ATTTTTGCTACTGTAATGGGCTAAGGCCCATA
1 TTGA-TATTGCTACTG-AATGGGCTAAGGCCCACA
* *
109797327 TTGATATTGCTATTGATATGGGCTTAA-GCCCAGA
1 TTGATATTGCTACTGA-ATGGGC-TAAGGCCCACA
109797361 TTG
1 TTG
109797364 TTCAGCAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
32 1 0.02
33 6 0.10
34 45 0.78
35 6 0.10
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (33 bp):
TTGATATTGCTACTGAATGGGCTAAGGCCCACA
Found at i:109804189 original size:43 final size:43
Alignment explanation
Indices: 109804124--109804259 Score: 150
Period size: 43 Copynumber: 3.2 Consensus size: 43
109804114 AGCTCGTACA
* * * * *
109804124 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTACCAGACATGGTCTTACACGTAATCAAATATCG
* * *
109804167 ATGCCACTGTACCAGACATGGTCTTACACGAAAGCAAATAT-G
1 ATGCCAATGTACCAGACATGGTCTTACACGTAATCAAATATCG
* *
109804209 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCATAA-GTCG
1 ATGCCAATGTACCAGACATGGTCTTACACGT-AATCA-AATATCG
109804253 ATGCCAA
1 ATGCCAA
109804260 CATCCCAAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 29 0.38
43 38 0.49
44 10 0.13
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTACCAGACATGGTCTTACACGTAATCAAATATCG
Found at i:109804225 original size:42 final size:43
Alignment explanation
Indices: 109804124--109804238 Score: 151
Period size: 43 Copynumber: 2.7 Consensus size: 43
109804114 AGCTCGTACA
* * * * * *
109804124 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAGCAAATATCG
* *
109804167 ATGCCACTGTACCAGACATGGTCTTACACGAAAGCAAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAGCAAATATCG
109804209 ATGCCAATGTCCCAGACATGGTCTTACACG
1 ATGCCAATGTCCCAGACATGGTCTTACACG
109804239 TAAATCATAA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAAGCAAATATCG
Found at i:109817075 original size:56 final size:56
Alignment explanation
Indices: 109817015--109817151 Score: 229
Period size: 56 Copynumber: 2.4 Consensus size: 56
109817005 CCCCGGACTG
* * * **
109817015 GGTCTTACTTGTACACATATATCGGAGTCACATATCGATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
109817071 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
109817127 GGTCTTACTCGCACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
109817152 TTCCATGGTC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 76 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACAT
Done.