Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 47 of 320
Found at i:13485500 original size:46 final size:46
Alignment explanation
Indices: 13485440--13485710 Score: 436
Period size: 46 Copynumber: 5.9 Consensus size: 46
13485430 TTTGACGTGA
* * * * * *
13485440 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* *
13485486 TGCCATGGTATCTTTCAGCCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13485532 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
13485578 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCTGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13485624 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
13485670 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
13485711 TAGAGAGCAC
Statistics
Matches: 212, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 3 0.01
46 209 0.99
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:13490087 original size:40 final size:42
Alignment explanation
Indices: 13490043--13490123 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 42
13490033 ACAGTACCAT
13490043 TTGGTGTGTAGGGCT-GGATGGGTCGATTTTA-TCCC-CATAC
1 TTGGTGTGTAGGGCTAGG-TGGGTCGATTTTATTCCCGCATAC
13490083 TTGGTGTGTAGGGCTAGGTGGGTCGATTTTATTCCCGCATA
1 TTGGTGTGTAGGGCTAGGTGGGTCGATTTTATTCCCGCATA
13490124 GTGTGTTGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
40 28 0.74
41 6 0.16
42 4 0.11
ACGTcount: A:0.15, C:0.16, G:0.33, T:0.36
Consensus pattern (42 bp):
TTGGTGTGTAGGGCTAGGTGGGTCGATTTTATTCCCGCATAC
Found at i:13493273 original size:249 final size:247
Alignment explanation
Indices: 13492815--13493310 Score: 753
Period size: 249 Copynumber: 2.0 Consensus size: 247
13492805 CTACATCAGT
* * * *
13492815 GCTTCTGATTCTGTAGGCTTATCGGTTAAGGACATCCGTGCTGTGAAGGATTTTCTAGGTGTTTT
1 GCTTCTGATTCTGTAGGCTTATCGGTCAAGGACATCCGTGCTATGAAGGATTTTCCAGATGTTTT
* * * * * *
13492880 TCATAGGAACTAGTAGGATTGCCTCCGGGCCGTGAGGTAGAATTCGAGATTGAGTTGATTCCTGT
66 CCAAAGGAACTACTAGGATTACCTCCGGGCCATGAGGTAAAATTCGAGATTGAGTTGATTCCTGT
* * *
13492945 ATAGCTCCGGTGTCTATCGCCCCTTATCGAATGGCATCGAAAGAGTTGACAGAACTTAAGGCTCA
131 ACAACTCCGGTGTCTATCGCCCCTTATCGAATGGCATCCAAAGAGTTGACAGAACTTAAGGCTCA
* * *
13493010 GTTTCAGAAGCTGTTGGATCGTGGGTTTATTCG-TCTTAGTGTGTCTCCATGG
196 GATTCAGAAGCTGTTGGATCATGGGTTTATTCGTTC-TAGTATGTCTCCATGG
*
13493062 GCTTCTGATTCTGTAGGCTTATCGGTCAATGACATCCGTGCTATGAAGGATTTTCCAGATGGTTT
1 GCTTCTGATTCTGTAGGCTTATCGGTCAAGGACATCCGTGCTATGAAGGATTTTCCAGAT-GTTT
*
13493127 TCCAAAGGAACTACTAGGATTACCTCCGGGCCATGAGGTAAAATTCGGGATTGAGTTGATTCCTG
65 TCCAAAGGAACTACTAGGATTACCTCCGGGCCATGAGGTAAAATTCGAGATTGAGTTGATTCCT-
*
13493192 GTACAACTCCGGTGTCTATCGCCCCTTATCGAATGGCA-CCAAAGGAGTTGACGGAACTTAAGGC
129 GTACAACTCCGGTGTCTATCGCCCCTTATCGAATGGCATCCAAA-GAGTTGACAGAACTTAAGGC
* *
13493256 TCAGATTCAGGAGCTGTTGGATCATGGGTTTATTCGTTCTAGTATGTCTCTATGG
193 TCAGATTCAGAAGCTGTTGGATCATGGGTTTATTCGTTCTAGTATGTCTCCATGG
13493311 AAAGCACCGG
Statistics
Matches: 224, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
247 55 0.25
248 65 0.29
249 102 0.46
250 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (247 bp):
GCTTCTGATTCTGTAGGCTTATCGGTCAAGGACATCCGTGCTATGAAGGATTTTCCAGATGTTTT
CCAAAGGAACTACTAGGATTACCTCCGGGCCATGAGGTAAAATTCGAGATTGAGTTGATTCCTGT
ACAACTCCGGTGTCTATCGCCCCTTATCGAATGGCATCCAAAGAGTTGACAGAACTTAAGGCTCA
GATTCAGAAGCTGTTGGATCATGGGTTTATTCGTTCTAGTATGTCTCCATGG
Found at i:13496308 original size:743 final size:742
Alignment explanation
Indices: 13494880--13496369 Score: 2766
Period size: 743 Copynumber: 2.0 Consensus size: 742
13494870 CCAGTAAGGA
* *
13494880 TACCAATGTGGAAATGGGAGTGAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
1 TACCAATATGGAAATGGGAGCGAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
* *
13494945 AAGAAGGACTCTGTTTGGGTCGTTGTGGATTGGTTGACCAAGTCTGTATATTTCATCCCTGTTAG
66 AAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGACCAAGTCTGCATATTTCATCCCTGTTAG
* *
13495010 GACATACTTCTCTTTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTGCATGGGT
131 GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTGCATGGGT
*
13495075 ACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCGATTTTGGAGAAAGCTTCATG
196 ACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGGAGAAAGCTTCATG
13495140 AGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGAG
261 AGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGAG
13495205 AGGGTGATTCAGATATTGGAGGAAATGTTGAGGGGTTGTGTAATAGATTTCTGAGGCAGTTGGGA
326 AGGGTGATTCAGATATTGGAGGAAATGTTGAGGGGTTGTGTAATAGATTTCTGAGGCAGTTGGGA
13495270 GGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCGC
391 GGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCGC
13495335 CATATGAGGCACTTTATGGTCATAAGTGTCGCATTCCTTTGTGCTGGACTAAGTTGGGTGAGTAG
456 CATATGAGGCACTTTATGGTCATAAGTGTCGCATTCCTTTGTGCTGGACTAAGTTGGGTGAGTAG
13495400 CGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGATAAGGTCCATTTGATTCGTGACCGACT
521 CGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGATAAGGTCCATTTGATTCGTGACCGACT
*
13495465 GAAAGTGGCTTCTGATATATAGAAGTCCTATGCGGATTTGAAAAGAAAGGACATCGAGTATTCTG
586 GAAAGTGGCTTCTGATATATAGAAGTCCTATGCGGATTTGAAAAGAAAGGACATCGAGTATTCAG
* *
13495530 TGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAGAAGGTTAT-AAGATTTGGTTGTAAGGG
651 TGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAAAAGGTTATGAA-ATTTGGTCGTAAGGG
* *
13495594 TAAGCTGAGTCCTTGATTTATTGGGTCG
715 TAAGCTGAGTCCTTAATTTATTGGGCCG
13495622 TACCAATATGGAAATGGGAGCGAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
1 TACCAATATGGAAATGGGAGCGAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
* *
13495687 CAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGGCCAAGTCTGCATATTTCATCCCTGTTAG
66 AAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGACCAAGTCTGCATATTTCATCCCTGTTAG
13495752 GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTGCATGGGG
131 GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTGCAT-GGG
* *
13495817 TACCTGTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGGGGAAAGCTTCAT
195 TACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGGAGAAAGCTTCAT
**
13495882 GAGGCTTTGGGTTCTTGTCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGA
260 GAGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGA
13495947 GAGGGTGATTCAGATATTGGAGGAAATGTTGAGGGGTTGTGTAATAGATTTCTGAGGCAGTTGGG
325 GAGGGTGATTCAGATATTGGAGGAAATGTTGAGGGGTTGTGTAATAGATTTCTGAGGCAGTTGGG
13496012 AGGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCG
390 AGGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCG
13496077 CCATATGAGGCACTTTATGGTCATAAGTGTCGCATTCCTTTGTGCTGGACTAAGTTGGGTGAGTA
455 CCATATGAGGCACTTTATGGTCATAAGTGTCGCATTCCTTTGTGCTGGACTAAGTTGGGTGAGTA
13496142 GCGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGATAAGGTCCATTTGATTCGTGACCGAC
520 GCGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGATAAGGTCCATTTGATTCGTGACCGAC
13496207 TGAAAGTGGCTTCTGATATATAGAAGTCCTATGCGGATTTGAAAAGAAAGGACATCGAGTATTCA
585 TGAAAGTGGCTTCTGATATATAGAAGTCCTATGCGGATTTGAAAAGAAAGGACATCGAGTATTCA
** *
13496272 GTGGGAGACATGGTTTTTCTTAAGGTCTTGCCAAAGAAAAAGGTTCTGAAATTTGGTCGTAAGGG
650 GTGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAAAAGGTTATGAAATTTGGTCGTAAGGG
13496337 TAAGCTGAGTCCTTAATTTATTGGGCCG
715 TAAGCTGAGTCCTTAATTTATTGGGCCG
13496365 TACCA
1 TACCA
13496370 GATTCTGAAG
Statistics
Matches: 725, Mismatches: 21, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
742 183 0.25
743 540 0.74
744 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (742 bp):
TACCAATATGGAAATGGGAGCGAGTAACGATGGACTTCATTAGTGGGTTGCCCCTAACACCCACT
AAGAAGGACTCTGTTTGGGTCGTTGTGGATCGGTTGACCAAGTCTGCATATTTCATCCCTGTTAG
GACAGACTTCTCTCTTCAAAAATTGGCCAAGCTATACATTTCTGAGATAGTGAGACTGCATGGGT
ACCTCTCTCGATCATTTCTGATAGGGATCCTCGTTTCACGTCTCAATTTTGGAGAAAGCTTCATG
AGGCTTTGGGTTCTCATCTTGACTTCAGTACTGCTTTTCATCCTTAGACAGATGGACAGTCGGAG
AGGGTGATTCAGATATTGGAGGAAATGTTGAGGGGTTGTGTAATAGATTTCTGAGGCAGTTGGGA
GGAGTTCTTTCCTTTAGCTGAGTTCGCTTACAACAACAGTTATCAGTCTAGTATATAGATGGCGC
CATATGAGGCACTTTATGGTCATAAGTGTCGCATTCCTTTGTGCTGGACTAAGTTGGGTGAGTAG
CGTGTTCTGGGTCCAGAGTTGGTTTTAGAGACTGAGGATAAGGTCCATTTGATTCGTGACCGACT
GAAAGTGGCTTCTGATATATAGAAGTCCTATGCGGATTTGAAAAGAAAGGACATCGAGTATTCAG
TGGGAGACATGGTTTTTCTTAAGGTCTCACCAAAGAAAAAGGTTATGAAATTTGGTCGTAAGGGT
AAGCTGAGTCCTTAATTTATTGGGCCG
Found at i:13498327 original size:38 final size:38
Alignment explanation
Indices: 13498231--13498327 Score: 140
Period size: 40 Copynumber: 2.5 Consensus size: 38
13498221 TTTTACAGTA
*
13498231 CCACTTGGTGTGTAGGGCTGGATGGGTCGATTTTATCC
1 CCACTTGGTGTGTAGGGTTGGATGGGTCGATTTTATCC
*
13498269 CCATACTTGGTGTGTAGGGTTGGGTGGGTCGATTTTATCC
1 CC--ACTTGGTGTGTAGGGTTGGATGGGTCGATTTTATCC
* *
13498309 CCACATGGTGTGTTGGGTT
1 CCACTTGGTGTGTAGGGTT
13498328 AGACGGAGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
38 17 0.32
40 36 0.68
ACGTcount: A:0.12, C:0.16, G:0.35, T:0.36
Consensus pattern (38 bp):
CCACTTGGTGTGTAGGGTTGGATGGGTCGATTTTATCC
Found at i:13498551 original size:43 final size:44
Alignment explanation
Indices: 13498457--13498561 Score: 103
Period size: 43 Copynumber: 2.5 Consensus size: 44
13498447 TAGCGGCGTT
* * *
13498457 TTTTAT-AAAAGTGCCGCT-AAAGTTCTTGGTTTATAGCAGCGT
1 TTTTATAAAAAGCGCCGCTAAAAGTTCCTGGTTTATAGCAGCGC
*
13498499 TTTTTTAAAAAGCGCCGCTAAAAG-TCCTGGTCTT-TAGC-GACGC
1 TTTTATAAAAAGCGCCGCTAAAAGTTCCTGGT-TTATAGCAG-CGC
* *
13498542 TTTTATAAAAAACGTCGCTA
1 TTTTATAAAAAGCGCCGCTA
13498562 TAGACCAAGA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
42 6 0.12
43 40 0.77
44 6 0.12
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (44 bp):
TTTTATAAAAAGCGCCGCTAAAAGTTCCTGGTTTATAGCAGCGC
Found at i:13498642 original size:41 final size:41
Alignment explanation
Indices: 13498580--13498657 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
13498570 GAACTATAAA
* *
13498580 AGCGCCGCTAAAGGTCCTGGTCTTTGGCGGCGTTTTTTAAG
1 AGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTAAG
*
13498621 AGCGTCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTT
1 AGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTT
13498658 ATAAAAAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.31, T:0.32
Consensus pattern (41 bp):
AGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTTAAG
Found at i:13498648 original size:112 final size:114
Alignment explanation
Indices: 13498460--13498665 Score: 301
Period size: 112 Copynumber: 1.8 Consensus size: 114
13498450 CGGCGTTTTT
* * *
13498460 TATAAAAGTGCCGCTAAAGTTCTTGGTTTATAGCAGCGTTTTTTTAAAAAGCGCCGCTAAAAGTC
1 TATAAAAGCGCCGCTAAAGGTCCTGGTTTATAGCAGCGTTTTTTTAAAAAGCGCCGCTAAAAGTC
13498525 CTGGTCTTTAGCGACGCTTTTATAAAAAACGTCGCTATAGACCAAGAAC
66 CTGGTCTTTAGCGACGCTTTTATAAAAAACGTCGCTATAGACCAAGAAC
* * * * *
13498574 TATAAAAGCGCCGCTAAAGGTCCTGGTCTT-TGGCGGCG-TTTTTT-AAGAGCGTCGCTAAAGGT
1 TATAAAAGCGCCGCTAAAGGTCCTGGT-TTATAGCAGCGTTTTTTTAAAAAGCGCCGCTAAAAGT
*
13498636 CCTGGTCTTTAGCGGCGCTTTTATAAAAAA
65 CCTGGTCTTTAGCGACGCTTTTATAAAAAA
13498666 ACGCCGTTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
112 44 0.54
113 6 0.07
114 30 0.37
115 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (114 bp):
TATAAAAGCGCCGCTAAAGGTCCTGGTTTATAGCAGCGTTTTTTTAAAAAGCGCCGCTAAAAGTC
CTGGTCTTTAGCGACGCTTTTATAAAAAACGTCGCTATAGACCAAGAAC
Found at i:13503417 original size:42 final size:43
Alignment explanation
Indices: 13503343--13503444 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
13503333 TATTCCTGAT
* * * *
13503343 ATGGTCTTACATGAAAT-ATCATATCGACGCCATGTCCTC-GAC
1 ATGGTCTTATACGAAATCATCATACCGACGCCATATCC-CGGAC
* *
13503385 ATGGTCTTATACGAAATCA-CATACCGAGGCCATATCCCGGAT
1 ATGGTCTTATACGAAATCATCATACCGACGCCATATCCCGGAC
*
13503427 ATGGTCTTATACGGAATC
1 ATGGTCTTATACGAAATC
13503445 TTAATAACCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
41 1 0.02
42 49 0.96
43 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGGTCTTATACGAAATCATCATACCGACGCCATATCCCGGAC
Found at i:13504963 original size:25 final size:25
Alignment explanation
Indices: 13504935--13505045 Score: 104
Period size: 24 Copynumber: 4.5 Consensus size: 25
13504925 AACTCATCAC
* * *
13504935 GTATCATTTGGAAGGCCTTTGTGGT
1 GTATCATCTGAAAGACCTTTGTGGT
13504960 GTATCATCTGAAAGACCTTTGTGGCT
1 GTATCATCTGAAAGACCTTTGTGG-T
* * *
13504986 -AATC-TGCAGAAAG-CCTTTGTGGC
1 GTATCAT-CTGAAAGACCTTTGTGGT
* *
13505009 ATATCATCTGAAA-ACCTTTGTGGC
1 GTATCATCTGAAAGACCTTTGTGGT
13505033 GTATCATCTGAAA
1 GTATCATCTGAAA
13505046 AGCTTTTGTG
Statistics
Matches: 72, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
24 40 0.56
25 31 0.43
26 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.33
Consensus pattern (25 bp):
GTATCATCTGAAAGACCTTTGTGGT
Found at i:13505007 original size:24 final size:24
Alignment explanation
Indices: 13504969--13505125 Score: 105
Period size: 24 Copynumber: 6.4 Consensus size: 24
13504959 TGTATCATCT
13504969 GAAAGACCTTTGTGGCTA-ATCTGCA
1 GAAAG-CCTTTGTGGCTACATCTG-A
13504994 GAAAGCCTTTGTGGCATATCATCTGA
1 GAAAGCCTTTGTGGC-TA-CATCTGA
13505020 -AAA-CCTTTGTGGCGTATCATCTGA
1 GAAAGCCTTTGTGGC-TA-CATCTGA
* *
13505044 -AAAGCTTTTGTGGCTA-ATTTGCA
1 GAAAGCCTTTGTGGCTACATCTG-A
* *
13505067 AAAAGCCTTTGTAGTG-TATCAACTG-
1 GAAAGCCTTTGT-G-GCTA-CATCTGA
* *
13505092 GAAAGCGTTTGTGGCTA-ATTTGTA
1 GAAAGCCTTTGTGGCTACATCTG-A
13505116 GAAAGCCTTT
1 GAAAGCCTTT
13505126 ATGGTGTGTT
Statistics
Matches: 108, Mismatches: 11, Indels: 27
0.74 0.08 0.18
Matches are distributed among these distances:
22 7 0.06
23 2 0.02
24 57 0.53
25 32 0.30
26 2 0.02
27 8 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (24 bp):
GAAAGCCTTTGTGGCTACATCTGA
Found at i:13505048 original size:49 final size:50
Alignment explanation
Indices: 13504934--13505057 Score: 148
Period size: 49 Copynumber: 2.5 Consensus size: 50
13504924 GAACTCATCA
* * * **
13504934 CGTATCATTTGGAAGGCCTTTGTGGTGTATCATCTGAAAGACCTTTGTGG
1 CGTATCATCTGAAAAGCCTTTGTGGCATATCATCTGAAAGACCTTTGTGG
13504984 C-TA--ATCTGCAGAAAGCCTTTGTGGCATATCATCTGAAA-ACCTTTGTGG
1 CGTATCATCTG-A-AAAGCCTTTGTGGCATATCATCTGAAAGACCTTTGTGG
*
13505032 CGTATCATCTGAAAAGCTTTTGTGGC
1 CGTATCATCTGAAAAGCCTTTGTGGC
13505058 TAATTTGCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
47 4 0.06
48 11 0.17
49 41 0.65
50 2 0.03
51 5 0.08
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (50 bp):
CGTATCATCTGAAAAGCCTTTGTGGCATATCATCTGAAAGACCTTTGTGG
Found at i:13505076 original size:49 final size:49
Alignment explanation
Indices: 13505019--13505125 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 49
13505009 ATATCATCTG
* * *
13505019 AAAA-CCTTTGTGGCGTATCATCTGAAAAGCTTTTGTGGCTAATTTGCA
1 AAAAGCCTTTGTAGCGTATCAACTGAAAAGCGTTTGTGGCTAATTTGCA
* * *
13505067 AAAAGCCTTTGTAGTGTATCAACTGGAAAGCGTTTGTGGCTAATTTGTA
1 AAAAGCCTTTGTAGCGTATCAACTGAAAAGCGTTTGTGGCTAATTTGCA
*
13505116 GAAAGCCTTT
1 AAAAGCCTTT
13505126 ATGGTGTGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 4 0.08
49 47 0.92
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (49 bp):
AAAAGCCTTTGTAGCGTATCAACTGAAAAGCGTTTGTGGCTAATTTGCA
Found at i:13505087 original size:73 final size:74
Alignment explanation
Indices: 13504950--13505106 Score: 201
Period size: 73 Copynumber: 2.1 Consensus size: 74
13504940 ATTTGGAAGG
* * *
13504950 CCTTTGTGGTGTATCATCTGAAAGACCTTTGTGGCTAATCTGCAGAAAGCCTTTGTGGCATATCA
1 CCTTTGTGGCGTATCATCTGAAAGACCTTTGTGGCTAATCTGCAAAAAGCCTTTGTAGCATATCA
*
13505015 TCT-GAAAA
66 ACTGGAAAA
* * **
13505023 CCTTTGTGGCGTATCATCTGAAA-AGCTTTTGTGGCTAATTTGCAAAAAGCCTTTGTAGTGTATC
1 CCTTTGTGGCGTATCATCTGAAAGA-CCTTTGTGGCTAATCTGCAAAAAGCCTTTGTAGCATATC
*
13505087 AACTGGAAAG
65 AACTGGAAAA
*
13505097 CGTTTGTGGC
1 CCTTTGTGGC
13505107 TAATTTGTAG
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
72 1 0.01
73 58 0.81
74 13 0.18
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (74 bp):
CCTTTGTGGCGTATCATCTGAAAGACCTTTGTGGCTAATCTGCAAAAAGCCTTTGTAGCATATCA
ACTGGAAAA
Found at i:13508424 original size:20 final size:19
Alignment explanation
Indices: 13508394--13508432 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
13508384 CCAAAATTAG
13508394 AAAGAAAAGAAAGAAAGAA
1 AAAGAAAAGAAAGAAAGAA
*
13508413 AAAGAGAAAGAAGGAAAGAA
1 AAAGA-AAAGAAAGAAAGAA
13508433 GCAGACGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAGAAAGAA
Found at i:13510284 original size:44 final size:45
Alignment explanation
Indices: 13510189--13510296 Score: 132
Period size: 44 Copynumber: 2.4 Consensus size: 45
13510179 GCAACGGTAG
*
13510189 CAGTACCAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAAT
** * *
13510234 TTGTAACAGTAAC-GATAACAGTATTC-ACACATAAAGTG-TCGAAT
1 CAGTAACAGTAACAG-TAACAGTATTCAACACACAAAGTGCT-AAAT
13510278 CAGTAACAGTAACAGTAAC
1 CAGTAACAGTAACAGTAAC
13510297 TGTAACAGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.02
44 30 0.57
45 22 0.42
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTAAAT
Found at i:13510289 original size:6 final size:6
Alignment explanation
Indices: 13510278--13510312 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
13510268 AGTGTCGAAT
*
13510278 CAGTAA CAGTAA CAGTAA CTGTAA CAGTAA CAGTA
1 CAGTAA CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
13510313 GTCGGCACAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (6 bp):
CAGTAA
Found at i:13510570 original size:22 final size:22
Alignment explanation
Indices: 13510526--13510570 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13510516 GTAATTTCAT
*
13510526 AGTTCAATGCAGTACACATAAC
1 AGTTCAATGCAGTACACAAAAC
* *
13510548 AGTTCAATTCAGTACTCAAAAC
1 AGTTCAATGCAGTACACAAAAC
13510570 A
1 A
13510571 ATATTCAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.24
Consensus pattern (22 bp):
AGTTCAATGCAGTACACAAAAC
Found at i:13511367 original size:17 final size:17
Alignment explanation
Indices: 13511345--13511377 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13511335 CTTTTAGCTT
*
13511345 TGTTTTCTTTTGTTTTA
1 TGTTTTCTTTTCTTTTA
13511362 TGTTTTCTTTTCTTTT
1 TGTTTTCTTTTCTTTT
13511378 TATTTCATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.09, G:0.09, T:0.79
Consensus pattern (17 bp):
TGTTTTCTTTTCTTTTA
Found at i:13511692 original size:25 final size:23
Alignment explanation
Indices: 13511648--13511708 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 23
13511638 ATTTTGATTT
*
13511648 ATTTAATAATATAATATCATTATA
1 ATTTAATTATATAATATCA-TATA
13511672 ATTTAATTATCATAA-ATTCATATA
1 ATTTAATTAT-ATAATA-TCATATA
*
13511696 ATATAAATTATAT
1 AT-TTAATTATAT
13511709 TTAAATATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 18 0.56
25 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (23 bp):
ATTTAATTATATAATATCATATA
Found at i:13511711 original size:35 final size:35
Alignment explanation
Indices: 13511656--13511735 Score: 103
Period size: 35 Copynumber: 2.3 Consensus size: 35
13511646 TTATTTAATA
* *
13511656 ATATAATAT-CATTATAATTTAATTATCATAAATT
1 ATATAATATAAATTATAATTTAAATATCATAAATT
*
13511690 CATATAATATAAATTAT-ATTTAAATATCATTAATT
1 -ATATAATATAAATTATAATTTAAATATCATAAATT
13511725 ATATAAT-TAAA
1 ATATAATATAAA
13511736 AAAATAAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 25 0.61
36 5 0.12
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
ATATAATATAAATTATAATTTAAATATCATAAATT
Found at i:13513837 original size:18 final size:20
Alignment explanation
Indices: 13513795--13513831 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13513785 ATATTTTATG
*
13513795 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
13513814 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
13513832 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:13516046 original size:46 final size:46
Alignment explanation
Indices: 13515994--13516266 Score: 352
Period size: 46 Copynumber: 6.0 Consensus size: 46
13515984 AGTGTGCTCT
* *
13515994 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13516040 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC-AC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
13516085 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
13516131 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
13516177 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
13516223 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
13516267 TCATGTCAAA
Statistics
Matches: 205, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
45 45 0.22
46 160 0.78
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:13516150 original size:91 final size:92
Alignment explanation
Indices: 13515994--13516266 Score: 395
Period size: 91 Copynumber: 3.0 Consensus size: 92
13515984 AGTGTGCTCT
* * * *
13515994 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
13516059 ACCATGGTTGAAAGATACCATGGCA-C
66 ACCATGGTTGAAAGATACCATGGCAGC
* * * *
13516085 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
13516150 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * ** *
13516177 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
* * *
13516242 ACCATAGTTGAAAGACACTATGGCA
66 ACCATGGTTGAAAGATACCATGGCA
13516267 TCATGTCAAA
Statistics
Matches: 161, Mismatches: 20, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 82 0.51
92 79 0.49
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAGC
Found at i:13516282 original size:137 final size:136
Alignment explanation
Indices: 13516009--13516289 Score: 377
Period size: 137 Copynumber: 2.1 Consensus size: 136
13515999 ATGAAATGTG
* **
13516009 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * * *
13516074 TACCATGGCACCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
66 TACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGAC-GA
13516139 AAATAAA
130 AAATAAA
* *
13516146 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * *
13516211 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC-
66 TACCATGGC-ACATGACATG-AAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACG
13516274 AAAGATAAA
129 AAA-ATAAA
13516283 TAAGACC
1 TAAGACC
13516290 GTGGATGGAA
Statistics
Matches: 126, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
136 2 0.02
137 82 0.65
138 42 0.33
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGAA
AATAAA
Found at i:13519555 original size:18 final size:18
Alignment explanation
Indices: 13519532--13519571 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13519522 GTTCATACTT
* *
13519532 TTCAATTTCATAATTCAA
1 TTCAATATCACAATTCAA
*
13519550 TTCAATATCCCAATTCAA
1 TTCAATATCACAATTCAA
13519568 TTCA
1 TTCA
13519572 TGTTCAAAAA
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:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (18 bp):
TTCAATATCACAATTCAA
Found at i:13520310 original size:35 final size:35
Alignment explanation
Indices: 13520262--13520334 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
13520252 CAAATTCAAT
13520262 CATGTAAGATTAACCAAACCATTTACAATTATGAA
1 CATGTAAGATTAACCAAACCATTTACAATTATGAA
*
13520297 CATGTAAGTTTAACCAAACCATTTACAATTATGAA
1 CATGTAAGATTAACCAAACCATTTACAATTATGAA
13520332 CAT
1 CAT
13520335 CACATACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (35 bp):
CATGTAAGATTAACCAAACCATTTACAATTATGAA
Found at i:13521769 original size:42 final size:42
Alignment explanation
Indices: 13521658--13521761 Score: 163
Period size: 42 Copynumber: 2.5 Consensus size: 42
13521648 ATGCTAATGG
* * *
13521658 CCCAGCTATGGTCTTACACGAAATCTCATATCGATGTCATAT
1 CCCAGATATGGTCTTACACGAAATCTCACATCGATGCCATAT
* *
13521700 CCCAGATATGGTATTATACGAAATCTCACATCGATGCCATAT
1 CCCAGATATGGTCTTACACGAAATCTCACATCGATGCCATAT
13521742 CCCAGATATGGTCTTACACG
1 CCCAGATATGGTCTTACACG
13521762 TAGTCTCAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAATCTCACATCGATGCCATAT
Found at i:13527408 original size:30 final size:29
Alignment explanation
Indices: 13527372--13527432 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
13527362 AAACGGAAGT
*
13527372 TTTGGCACTAAGTGTGTGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
13527402 TTTGGCACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
13527431 TT
1 TT
13527433 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:13527947 original size:30 final size:30
Alignment explanation
Indices: 13527911--13527979 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
13527901 TGTAAATATT
13527911 TGAAGTATGGCATGTATAGGCTAGTAGTTG
1 TGAAGTATGGCATGTATAGGCTAGTAGTTG
13527941 TGAAGTATGGCATGTATAGGCTAGTAGTTG
1 TGAAGTATGGCATGTATAGGCTAGTAGTTG
13527971 TGAAGTATG
1 TGAAGTATG
13527980 TTTTGGGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.33
Consensus pattern (30 bp):
TGAAGTATGGCATGTATAGGCTAGTAGTTG
Found at i:13533942 original size:42 final size:42
Alignment explanation
Indices: 13533821--13533942 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 42
13533811 TATCGTACCA
* * **
13533821 ATGTCTTATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCACATCG
* * * * * *
13533863 ATGCCAATAACCCAGCTATGGTCTTATACGAAATCTCACATTG
1 ATGTC-ATATCCCAGATATGGTCTTACACGTAATCTCACATCG
*
13533906 ATGTCATATCCCAGATATGGTCTTACACGTAGTCTCA
1 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCA
13533943 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 31 0.49
43 32 0.51
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGTCATATCCCAGATATGGTCTTACACGTAATCTCACATCG
Found at i:13536106 original size:9 final size:9
Alignment explanation
Indices: 13536089--13536161 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
13536079 CCTAATTTCC
13536089 CTTTC-TTT
1 CTTTCTTTT
13536097 CTTTCTTTT
1 CTTTCTTTT
13536106 CTTTC-TTT
1 CTTTCTTTT
**
13536114 CTCCCCTGTTT
1 CT-TTCT-TTT
13536125 CATTTCTTTCT
1 C-TTTCTTT-T
*
13536136 CTTTTTTTT
1 CTTTCTTTT
*
13536145 CTTTTTTTT
1 CTTTCTTTT
*
13536154 ATTTCTTT
1 CTTTCTTT
13536162 ATTTTACTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
8 10 0.19
9 25 0.48
10 8 0.15
11 8 0.15
12 1 0.02
ACGTcount: A:0.03, C:0.23, G:0.01, T:0.73
Consensus pattern (9 bp):
CTTTCTTTT
Found at i:13536108 original size:13 final size:13
Alignment explanation
Indices: 13536090--13536115 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13536080 CTAATTTCCC
13536090 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
13536103 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
13536116 CCCCTGTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:13536933 original size:21 final size:20
Alignment explanation
Indices: 13536905--13536943 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
13536895 GCATGTTTTT
13536905 TGAAGCTTCTTAATAGATTA
1 TGAAGCTTCTTAATAGATTA
* *
13536925 TGAATGCTTGTTGATAGAT
1 TGAA-GCTTCTTAATAGAT
13536944 ATACAAGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (20 bp):
TGAAGCTTCTTAATAGATTA
Found at i:13537595 original size:29 final size:29
Alignment explanation
Indices: 13537561--13537641 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
13537551 AATTATACCA
* *
13537561 ATTTGGATTCGGGCCATGAATATCGGTTG
1 ATTTGGCTTCGGGCCATGAATATCGGCTG
* **
13537590 ATTTGGCTTCGGGACATGAATATTTGCTG
1 ATTTGGCTTCGGGCCATGAATATCGGCTG
13537619 ATTTGGCTTCGGGCCATG-ATATC
1 ATTTGGCTTCGGGCCATGAATATC
13537642 AGTATTTCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 4 0.09
29 41 0.91
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (29 bp):
ATTTGGCTTCGGGCCATGAATATCGGCTG
Found at i:13540926 original size:22 final size:22
Alignment explanation
Indices: 13540898--13541009 Score: 118
Period size: 22 Copynumber: 5.0 Consensus size: 22
13540888 TACAACAGGT
* *
13540898 ACTGTAGTACAAATCAGAAGGC
1 ACTGTAGTGCAAATCAGTAGGC
* *
13540920 ACTGTAGTACAAAACAGTAGGC
1 ACTGTAGTGCAAATCAGTAGGC
** *
13540942 ACCATAGTGCACAATTAGTAGGC
1 ACTGTAGTGCA-AATCAGTAGGC
* *
13540965 ACCGAAGTGCAGAA-CAGTAGGC
1 ACTGTAGTGCA-AATCAGTAGGC
13540987 ACTGTAGTGCAAATCAGTAGGC
1 ACTGTAGTGCAAATCAGTAGGC
13541009 A
1 A
13541010 TCGAATTGCA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
21 2 0.03
22 53 0.71
23 20 0.27
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (22 bp):
ACTGTAGTGCAAATCAGTAGGC
Found at i:13540965 original size:23 final size:22
Alignment explanation
Indices: 13540847--13541009 Score: 100
Period size: 22 Copynumber: 7.4 Consensus size: 22
13540837 AAACCACACT
*
13540847 AGTAGGCACCATAGTGTAAATC
1 AGTAGGCACCATAGTGCAAATC
* *
13540869 AATAGGCACCGA-AGTGC-AGTAC
1 AGTAGGCACC-ATAGTGCAAAT-C
** * ** *
13540891 AACAGGTACTGTAGTACAAATC
1 AGTAGGCACCATAGTGCAAATC
* ** * *
13540913 AGAAGGCACTGTAGTACAAAAC
1 AGTAGGCACCATAGTGCAAATC
*
13540935 AGTAGGCACCATAGTGCACAATT
1 AGTAGGCACCATAGTGCA-AATC
13540958 AGTAGGCACCGA-AGTGCAGAA-C
1 AGTAGGCACC-ATAGTGCA-AATC
**
13540980 AGTAGGCACTGTAGTGCAAATC
1 AGTAGGCACCATAGTGCAAATC
13541002 AGTAGGCA
1 AGTAGGCA
13541010 TCGAATTGCA
Statistics
Matches: 110, Mismatches: 23, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
21 4 0.04
22 82 0.75
23 23 0.21
24 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (22 bp):
AGTAGGCACCATAGTGCAAATC
Found at i:13541000 original size:89 final size:88
Alignment explanation
Indices: 13540847--13541009 Score: 236
Period size: 89 Copynumber: 1.8 Consensus size: 88
13540837 AAACCACACT
* * *
13540847 AGTAGGCACCATAGTGTAAATCAATAGGCACCGAAGTGCAGTACAACAGGTACTGTAGTACAAAT
1 AGTAGGCACCATAGTGCAAATCAATAGGCACCGAAGTGCAGAACAACAGGCACTGTAGTACAAAT
13540912 CAGAAGGCACTGTAGTACAAAAC
66 CAGAAGGCACTGTAGTACAAAAC
* * ** *
13540935 AGTAGGCACCATAGTGCACAATTAGTAGGCACCGAAGTGCAGAACAGTAGGCACTGTAGTGCAAA
1 AGTAGGCACCATAGTGCA-AATCAATAGGCACCGAAGTGCAGAACAACAGGCACTGTAGTACAAA
*
13541000 TCAGTAGGCA
65 TCAGAAGGCA
13541010 TCGAATTGCA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 17 0.26
89 48 0.74
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (88 bp):
AGTAGGCACCATAGTGCAAATCAATAGGCACCGAAGTGCAGAACAACAGGCACTGTAGTACAAAT
CAGAAGGCACTGTAGTACAAAAC
Found at i:13541019 original size:22 final size:22
Alignment explanation
Indices: 13540934--13541023 Score: 78
Period size: 22 Copynumber: 4.0 Consensus size: 22
13540924 TAGTACAAAA
*
13540934 CAGTAGGCACCATAGTGCACAAT
1 CAGTAGGCACGA-AGTGCACAAT
* *
13540957 TAGTAGGCACCGAAGTGCAGAA-
1 CAGTAGGCA-CGAAGTGCACAAT
*
13540979 CAGTAGGCACTGTAGTGCA-AAT
1 CAGTAGGCAC-GAAGTGCACAAT
*
13541001 CAGTAGGCATCGAATTGCA-AAT
1 CAGTAGGCA-CGAAGTGCACAAT
13541023 C
1 C
13541024 CCGTACACAT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
21 3 0.05
22 34 0.61
23 17 0.30
24 2 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (22 bp):
CAGTAGGCACGAAGTGCACAAT
Found at i:13546955 original size:16 final size:14
Alignment explanation
Indices: 13546929--13546974 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
13546919 GTATACTGTA
13546929 TATTTTTATATTATT
1 TATTTTTATA-TATT
13546944 TATTTTTAATATATT
1 TATTTTT-ATATATT
*
13546959 TATTTTT-TAAATT
1 TATTTTTATATATT
13546972 TAT
1 TAT
13546975 AAAATGAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 8 0.28
15 18 0.62
16 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TATTTTTATATATT
Found at i:13555830 original size:18 final size:17
Alignment explanation
Indices: 13555797--13555835 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
13555787 TTGTATAAAT
13555797 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
13555815 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
13555832 TGTG
1 TGTG
13555836 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:13555967 original size:8 final size:8
Alignment explanation
Indices: 13555954--13555982 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13555944 CACTAGAGAC
13555954 CAGTGTTA
1 CAGTGTTA
13555962 CAGTGTTA
1 CAGTGTTA
13555970 CAGTGTTA
1 CAGTGTTA
13555978 CAGTG
1 CAGTG
13555983 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:13556095 original size:23 final size:23
Alignment explanation
Indices: 13556068--13556140 Score: 103
Period size: 23 Copynumber: 3.2 Consensus size: 23
13556058 AGTGTTATTG
*
13556068 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
13556091 TTCAGTGGTAACTAT-GGCTACAT
1 ATCAGTGGTAGCT-TCGGCTACAT
13556114 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13556137 ATCA
1 ATCA
13556141 ATTGGCACTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
22 1 0.02
23 41 0.95
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13569458 original size:8 final size:8
Alignment explanation
Indices: 13569445--13569473 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13569435 AAAAATTGAA
13569445 TATAAAAT
1 TATAAAAT
13569453 TATAAAAT
1 TATAAAAT
13569461 TATAAAAT
1 TATAAAAT
13569469 TATAA
1 TATAA
13569474 TATCCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATAAAAT
Found at i:13570301 original size:16 final size:16
Alignment explanation
Indices: 13570280--13570314 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
13570270 TTAACAAACT
13570280 TATTAAAAATTTAAAA
1 TATTAAAAATTTAAAA
13570296 TATT-AAAATTTAAAA
1 TATTAAAAATTTAAAA
13570311 -ATTA
1 TATTA
13570315 GTACACTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.17
15 11 0.61
16 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATTAAAAATTTAAAA
Found at i:13570597 original size:15 final size:15
Alignment explanation
Indices: 13570560--13570598 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
13570550 AATTATAAAA
*
13570560 TATATAAATTATTAT
1 TATATAATTTATTAT
*
13570575 TATA-AATTTATTTT
1 TATATAATTTATTAT
13570589 TATATAATTT
1 TATATAATTT
13570599 TTTAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATAATTTATTAT
Found at i:13570778 original size:11 final size:11
Alignment explanation
Indices: 13570764--13570800 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
13570754 TTTTTTAATA
13570764 TTTTAAAGAAT
1 TTTTAAAGAAT
13570775 TTTTAAAGAAT
1 TTTTAAAGAAT
13570786 TTTTAAAGAAT
1 TTTTAAAGAAT
13570797 TTTT
1 TTTT
13570801 TATTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (11 bp):
TTTTAAAGAAT
Found at i:13571292 original size:75 final size:74
Alignment explanation
Indices: 13571200--13571337 Score: 217
Period size: 75 Copynumber: 1.9 Consensus size: 74
13571190 GAATTATCTG
**
13571200 TATGTAAGATTTGTTTTATATTTATTCTT-ATTTAGGTTTTATTTATGGCATTGTTCAGATATTA
1 TATGTAAGATTTGTTTTATATTTATT-TTGATTTAGGTTTTATGCATGGCATTGTTCAGATATTA
13571264 ACGGGTAAAT
65 ACGGGTAAAT
13571274 TATGTAATGACTTT-TTTTATATTTATTTTGATTTAGGTTTTATGCATGGCATTGTTCAGATATT
1 TATGTAA-GA-TTTGTTTTATATTTATTTTGATTTAGGTTTTATGCATGGCATTGTTCAGATATT
13571338 TTGTAGTTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
74 9 0.15
75 47 0.80
76 3 0.05
ACGTcount: A:0.25, C:0.06, G:0.16, T:0.53
Consensus pattern (74 bp):
TATGTAAGATTTGTTTTATATTTATTTTGATTTAGGTTTTATGCATGGCATTGTTCAGATATTAA
CGGGTAAAT
Found at i:13573428 original size:19 final size:19
Alignment explanation
Indices: 13573386--13573464 Score: 58
Period size: 19 Copynumber: 4.3 Consensus size: 19
13573376 TTTTTATATT
*
13573386 TAAAATAAT-TAAAAAATCA
1 TAAAAAAATATAAAAAAT-A
13573405 T--AAAAATATAAAAAATA
1 TAAAAAAATATAAAAAATA
**
13573422 TAAAAAACCATAAAAAAT-
1 TAAAAAAATATAAAAAATA
* * *
13573440 TATGAAAATTATAAAATATA
1 TA-AAAAAATATAAAAAATA
13573460 TAAAA
1 TAAAA
13573465 TGTGAAAATG
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
17 7 0.15
18 10 0.21
19 28 0.60
20 2 0.04
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (19 bp):
TAAAAAAATATAAAAAATA
Found at i:13573465 original size:9 final size:9
Alignment explanation
Indices: 13573386--13573464 Score: 72
Period size: 9 Copynumber: 8.6 Consensus size: 9
13573376 TTTTTATATT
13573386 TAAAATAAT-
1 TAAAA-AATA
13573395 TAAAAAATCA
1 TAAAAAAT-A
13573405 T-AAAAATA
1 TAAAAAATA
13573413 TAAAAAATA
1 TAAAAAATA
*
13573422 TAAAAAACCA
1 TAAAAAA-TA
13573432 TAAAAAATTA
1 TAAAAAA-TA
* *
13573442 TGAAAATTA
1 TAAAAAATA
*
13573451 TAAAATATA
1 TAAAAAATA
13573460 TAAAA
1 TAAAA
13573465 TGTGAAAATG
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.09
9 38 0.66
10 15 0.26
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (9 bp):
TAAAAAATA
Found at i:13573528 original size:19 final size:20
Alignment explanation
Indices: 13573506--13573543 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13573496 ACAAAATTTA
*
13573506 TATAAATTATA-AAAAATAT
1 TATAAATTAAAGAAAAATAT
13573525 TATAAATTAAAGAAAAATA
1 TATAAATTAAAGAAAAATA
13573544 AAAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TATAAATTAAAGAAAAATAT
Found at i:13573580 original size:10 final size:10
Alignment explanation
Indices: 13573558--13573609 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
13573548 AAAAATTTGT
13573558 AAAAATAT-G
1 AAAAATATAG
13573567 -AAAATATAG
1 AAAAATATAG
*
13573576 AAAAATAT-T
1 AAAAATATAG
*
13573585 AAAAATATTAT
1 AAAAATA-TAG
13573596 AAAAATATAG
1 AAAAATATAG
13573606 AAAA
1 AAAA
13573610 GTGCAAAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 7 0.19
9 8 0.22
10 14 0.38
11 8 0.22
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (10 bp):
AAAAATATAG
Found at i:13573589 original size:39 final size:39
Alignment explanation
Indices: 13573509--13573609 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 39
13573499 AAATTTATAT
*
13573509 AAATTATAAAAAATATTATAAATTAAAGAAAAATAAAAAAA
1 AAATTAT-AAAAATATGA-AAATTAAAGAAAAATAAAAAAA
* * **
13573550 AAATTTGTAAAAATATGAAAA-TATAGAAAAATATTAAAA
1 AAA-TTATAAAAATATGAAAATTAAAGAAAAATAAAAAAA
*
13573589 ATATTATAAAAATATAGAAAA
1 AAATTATAAAAATAT-GAAAA
13573610 GTGCAAAACT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
38 11 0.22
39 22 0.43
40 3 0.06
41 12 0.24
42 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (39 bp):
AAATTATAAAAATATGAAAATTAAAGAAAAATAAAAAAA
Found at i:13573693 original size:19 final size:19
Alignment explanation
Indices: 13573671--13573716 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
13573661 CAAGATATTC
*
13573671 AAAAATAATA-GAAAATTTA
1 AAAAATAATATG-AAATTAA
*
13573690 AAAAATTATATGAAATTAA
1 AAAAATAATATGAAATTAA
13573709 AAAAATAA
1 AAAAATAA
13573717 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 22 0.96
20 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (19 bp):
AAAAATAATATGAAATTAA
Found at i:13580300 original size:23 final size:23
Alignment explanation
Indices: 13580274--13580346 Score: 121
Period size: 23 Copynumber: 3.2 Consensus size: 23
13580264 AGTGCCACAT
13580274 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
13580297 TGATATGTAGCC-ATAGCTACCAC
1 TGATATGTAGCCGA-AGCTACCAC
*
13580320 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
13580343 TGAT
1 TGAT
13580347 CAATAACACT
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.02
23 44 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:13580446 original size:8 final size:8
Alignment explanation
Indices: 13580433--13580461 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13580423 ACCCGGGACT
13580433 CACTGTAA
1 CACTGTAA
13580441 CACTGTAA
1 CACTGTAA
13580449 CACTGTAA
1 CACTGTAA
13580457 CACTG
1 CACTG
13580462 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:13597483 original size:73 final size:74
Alignment explanation
Indices: 13597359--13597504 Score: 215
Period size: 73 Copynumber: 2.0 Consensus size: 74
13597349 CTTTCCAAGG
**
13597359 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
13597423 TTTTTAAAA
66 GTTTTAAAA
* * *
13597432 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGAGGCACGCCGAGGTATTTTTAGTTTA
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
13597496 TGTTTTAAA
65 TGTTTTAAA
13597505 TTGACTCATA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
72 1 0.02
73 56 0.86
74 8 0.12
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTTAAAA
Found at i:13597536 original size:69 final size:69
Alignment explanation
Indices: 13597359--13597536 Score: 205
Period size: 73 Copynumber: 2.5 Consensus size: 69
13597349 CTTTCCAAGG
* ** *
13597359 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
13597424 TTTT
66 TTTT
* * * *
13597428 AAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGAGGCACGCCGAGGTATTTTTAGT
1 ----AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAAT
13597493 TTATGTTTT
62 TT-TGTTTT
** *
13597502 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
13597537 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
69 31 0.34
73 56 0.61
74 5 0.05
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTTG
TTTT
Found at i:13597748 original size:72 final size:72
Alignment explanation
Indices: 13597540--13598895 Score: 1042
Period size: 72 Copynumber: 18.2 Consensus size: 72
13597530 TAAGCCTTTT
* * *
13597540 AATTTTTGTTTTTC-AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
13597604 GTAATTTC
65 GTAATTTC
* * * *
13597612 AATTTCTGTTGTTAAAAAAAAAT-AACTCATATCGCGAGAAATGAGTTGAGCCTTAGGACACGCT
1 AATTTCTGTT-TT---CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
13597676 GAGGTAATTTC
62 GAGGTAATTTC
* * *
13597687 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
13597752 TAATTTC
66 TAATTTC
* * * *
13597759 AATTTCTATTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
13597824 TAATTTC
66 TAATTTC
* * * * *
13597831 AATTTCTGTTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
*
13597896 TATTTTC
66 TAATTTC
* *
13597903 AATTTCTGTTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
1 AATTTCTGTTTTC-----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG---ACA
* * *
13597967 TGCTGAGGTATTTTT
58 CGCTGAGGTAATTTC
* * * * *
13597982 AATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTACACACT
1 AATTTCTGTTTT--CAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG--GACACGCT
* *
13598047 GTGGT-ATTTT
62 GAGGTAATTTC
*** *** * * * * ** * * *
13598057 AATTTC--AACTCATATTGTGAGAGGTGA-GTT--GAG-CCTCAGGTCA-CAC-CGAGGTATTTT
1 AATTTCTGTTTTCA-AAAATCA-A-CTCATATTGCGAGAAGTGAGTTGAGC-CTC-AGG-A----
** ***
13598114 C-CATTTCTGT--TTTC
56 CACGCTGAGGTAATTTC
* * * * * **
13598128 ATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTG
1 AAT-TTCTG-TTTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
13598193 AGGTAATTTC
63 AGGTAATTTC
* * * * *
13598203 AATTTCTGTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
*
13598268 TATTTTC
66 TAATTTC
* *
13598275 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
13598340 GTAATTTC
65 GTAATTTC
* * * **
13598348 AATTTCTGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAG
1 AATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
*
13598413 GTATTTTC
65 GTAATTTC
* * *
13598421 AATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTG
1 AATTTCTG-TTTTC-A-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
13598486 AGGTATTTTCAATTCCTGTTC
63 AGG-----T-AA----T-TTC
* *
13598507 AATTTATGTTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
13598571 GTAATTTC
65 GTAATTTC
* * * *
13598579 AATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAG
1 AATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
*
13598644 GTATTTTC
65 GTAATTTC
** * *
13598652 AAATTT-TACTTTCAAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGGCTCACG-T
1 -AATTTCTGTTTTC-AAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTCAGG-ACACGCT
* *
13598713 GTTGAGTCACTTTC
62 G-AG-GT-AATTTC
** * *
13598727 AATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
1 AATTTCTG---TT-T-TC------AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
* *
13598792 GCACGCTGAGGTATTTTC
55 ACACGCTGAGGTAATTTC
* * * * * *
13598810 AATTACTGTTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAG
1 AATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
*
13598875 GTATTTTC
65 GTAATTTC
*
13598883 CATTTCTGTTTTC
1 AATTTCTGTTTTC
13598896 CAATTTATGT
Statistics
Matches: 1066, Mismatches: 138, Indels: 160
0.78 0.10 0.12
Matches are distributed among these distances:
69 3 0.00
70 7 0.01
71 16 0.02
72 310 0.29
73 306 0.29
74 30 0.03
75 131 0.12
76 55 0.05
77 46 0.04
78 4 0.00
79 31 0.03
80 5 0.00
81 1 0.00
83 61 0.06
84 2 0.00
85 38 0.04
86 20 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (72 bp):
AATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTC
Found at i:13598333 original size:73 final size:72
Alignment explanation
Indices: 13598138--13598895 Score: 725
Period size: 73 Copynumber: 10.1 Consensus size: 72
13598128 ATTATTATGT
* * * ** *
13598138 TTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTC
1 TTTTCAAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
13598203 AATTTCTG
65 AATTTCTG
* * * * *
13598211 TTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
13598276 ATTTCTG
66 ATTTCTG
* * *
13598283 CTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
13598348 AATTTCTG
65 AATTTCTG
* * * **
13598356 TTGTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTC
1 TTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
13598421 AATTTCTG
65 AATTTCTG
* * *
13598429 CTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 -TTTTC-A-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
13598494 TCAATTCCTGTTCAATTTATG
63 TCAA----T-TTC------TG
* *
13598515 TTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
13598579 AATTTCTG
65 AATTTCTG
* * * *
13598587 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTC
1 -TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
*
13598652 AAATTT-TA
65 -AATTTCTG
* * * *
13598660 CTTTCAAAAAATCAACTCATATTGCGA-AAGGTGAGTTGAGCCT-TGGCTCACG-TGTTGAGTCA
1 TTTTC-AAAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCTCAGG-ACACGCTG-AG-GT-A
*
13598722 CTTTCAATTTCTG
60 TTTTCAATTTCTG
** * * *
13598735 TTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 ---TT-T-TC------AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTG
*
13598800 AGGTATTTTCAATTACTG
55 AGGTATTTTCAATTTCTG
* * * * *
13598818 TTTGGCAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTC
1 TTT-TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTC
*
13598883 CATTTCTG
65 AATTTCTG
13598891 TTTTC
1 TTTTC
13598896 CAATTTATGT
Statistics
Matches: 591, Mismatches: 57, Indels: 75
0.82 0.08 0.10
Matches are distributed among these distances:
72 81 0.14
73 292 0.49
74 18 0.03
75 63 0.11
78 4 0.01
79 6 0.01
80 7 0.01
83 69 0.12
84 2 0.00
85 37 0.06
86 12 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (72 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
ATTTCTG
Found at i:13598594 original size:304 final size:293
Alignment explanation
Indices: 13597554--13598702 Score: 1010
Period size: 304 Copynumber: 3.9 Consensus size: 293
13597544 TTTGTTTTTC
* ** * ** *
13597554 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
* * * * *
13597619 GTTGTTAAAAAAAAAT-AACTCATATCGCGAGAAATGAGTTGAGCCTTAGGACACGCTGAGGTAA
66 GTT-TT---CAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAA
* *
13597683 TTTCAATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
127 TTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGC
* * * *
13597747 TGAGGTAATTTC-AATTTCTATTTTC-AAAATTCAACTTATATTGCGAGAA-ATGAGTTGAGCCT
192 CGAGGTAATTTCAAATTT-TACTTTCAAAAAATCAACTCATATTGCGA-AAGATGAGTTGAGCCT
* ** *
13597809 CAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-A-
255 CAAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAG
* * * * *
13597845 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
* * ** * *
13597910 GTTTTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAG
66 GTTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGAG
* * * ** *
13597974 GTATTTTTAATTTCTG-TTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGA
123 GTAATTTCAATTTCTGCTTTT--CAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG-
* * * * * * * *
13598038 TTACACACTGTGG-----T---ATTTTA-ATT-------TCAACTCATATTGTGAGAGGTGAGTT
185 -GACACGCCGAGGTAATTTCAAATTTTACTTTCAAAAAATCAACTCATATTGCGAAAGATGAGTT
* * ** *
13598087 GAGCCTCAGGTCACACCGAGGTATTTTCCATTTCTG-TTTTCATTATTATGTTTTTG
249 GAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGCTTTTC---A--A-------G
13598143 AAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTT
1 -AA-AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTT
* * * *
13598208 CTGTTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTT
64 ATGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATT
* *
13598273 TCAATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
129 TCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCG
*
13598338 AGGTAATTTC-AATTTCT-GTTGTCAAAAAATCAACTCATATTGCGAGAA-ATGAGTTGAGCCTC
194 AGGTAATTTCAAATTT-TACTT-TCAAAAAATCAACTCATATTGCGA-AAGATGAGTTGAGCCTC
13598400 AAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAG
256 AAGACACATTGAGGTATTTTCAATTTCTGCTTTTCAAG
** *
13598438 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTCCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGG-----T-AA----T
** *
13598503 GTTCAATTTATGTTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
56 -TTCAATTTATG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
* ** *
13598567 TGAGGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
119 TGAGGTAATTTCAATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * *
13598632 GGGCACGCCGAGGTATTTTCAAATTTTACTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTT
184 GGACACGCCGAGGTAATTTCAAATTTTACTTTCAAAAAATCAACTCATATTGCGAAAGATGAGTT
13598697 GAGCCT
249 GAGCCT
13598703 TGGCTCACGT
Statistics
Matches: 706, Mismatches: 86, Indels: 119
0.77 0.09 0.13
Matches are distributed among these distances:
283 1 0.00
284 56 0.08
290 14 0.02
291 62 0.09
292 48 0.07
293 95 0.13
294 7 0.01
295 62 0.09
296 1 0.00
297 39 0.06
298 3 0.00
299 14 0.02
300 65 0.09
302 1 0.00
303 3 0.00
304 161 0.23
305 16 0.02
306 52 0.07
307 6 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (293 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTAT
GTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
AATTTCTGCTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCCGAG
GTAATTTCAAATTTTACTTTCAAAAAATCAACTCATATTGCGAAAGATGAGTTGAGCCTCAAGAC
ACATTGAGGTATTTTCAATTTCTGCTTTTCAAG
Found at i:13598614 original size:231 final size:226
Alignment explanation
Indices: 13598147--13598895 Score: 905
Period size: 231 Copynumber: 3.3 Consensus size: 226
13598137 TTTTTGAAAG
* *
13598147 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
* * **
13598212 TTTC-AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
66 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
* **
13598276 A---T-TTC----TGCTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
131 ATTCTGTTCTTTATGTTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
13598333 CGCTGAGGTAATTTCAATTTCTG-TTGTCAAAA
195 CGCTGAGGTAATTTCAATTTCTGTTTGTC-AAA
*
13598365 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCTGC
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTG-
13598430 TTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
65 TTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
13598495 CAATTCCTGTTCAATTTATGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
129 CAATT-CTGTTC--TTTATGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
13598560 GACACGCTGAGGTAATTTCAATTTCTGTTTTTCAAA
191 GACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
** ** * * * *
13598596 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTT-TA
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTC-AATTTCTG
* * ** * *
13598660 CTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCT-TGGCTCACGTGTTGA-GTCAC
65 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-ACAC--GTTGAGGT-AT
*
13598723 TTTCAATTTCTGTT-TTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
126 TTTCAA-TTCTGTTCTTTATG--T-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * * * *
13598787 TCGGGGCACGCTGAGGTATTTTCAATTACTGTTTGGCAAA
187 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTTGTCAAA
* * ** * ** *
13598827 AACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTTCTGT
1 AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
13598892 TTTC
66 TTTC
13598896 CAATTTATGT
Statistics
Matches: 466, Mismatches: 40, Indels: 37
0.86 0.07 0.07
Matches are distributed among these distances:
218 63 0.14
219 5 0.01
220 1 0.00
221 56 0.12
225 1 0.00
226 3 0.01
228 7 0.02
229 38 0.08
230 13 0.03
231 257 0.55
232 22 0.05
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (226 bp):
AATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTCTGTTCTTTATGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GCTGAGGTAATTTCAATTTCTGTTTGTCAAA
Found at i:13598666 original size:158 final size:154
Alignment explanation
Indices: 13597536--13599149 Score: 719
Period size: 158 Copynumber: 10.6 Consensus size: 154
13597526 GAGTTAAGCC
* * * *
13597536 TTTT-AATTTTTGTTTTTC--AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
* * * *** * **
13597598 GCTGAGGTAATTTC-AA-TTTCTGT---TGTTAAAAAAAAAT-AACTCATATCGCGAGAAATGAG
66 GCTGAGGTATTTTCAAATTTTATTTCAATGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAG
*
13597657 TTGAGCCTTAGGACACGCTGAGGTA
130 TTGAGCCTCAGGACACGCTGAGGTA
* * * ** * *
13597682 ATTTCAATTTCTG-TTTTC-AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
* * * * **
13597745 GCTGAGGTAATTTC--A----ATTTC--TATTTTCAAAATTCAACTTATATTGCGAGAAATGAGT
66 GCTGAGGTATTTTCAAATTTTATTTCAATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
13597802 TGAGCCTCAGGACACGCTGAGGTA
131 TGAGCCTCAGGACACGCTGAGGTA
* * * ** ** *
13597826 ATTTCAATTTCTG-TTTTC-AAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
* * *** *
13597889 GTTGAGGTATTTTC-AATTTCTGTTTTCAA----AAAAAAAATCAACTTATATTGCGAGAGGTGA
66 GCTGAGGTATTTTCAAATTT-T-ATTTCAATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
*
13597949 GTTGAGCCTC-GGTTCACATGCTGAGGTA
129 GTTGAGCCTCAGG---ACACGCTGAGGTA
* ** * ***
13597977 TTTTTAATTTCTGTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATTAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGGC
* * * ** * * * * ** * * *** *
13598042 ACACTGTGGTATTTT--AATTTCAACTC-ATATTGTGAGAGGT-GAGT--TGA--GCCTCAGGTC
64 ACGCTGAGGTATTTTCAAATTTTATTTCAATGTTTTCAAAAATCAACTCAT-ATTGCGAGAGGTG
* * ** *** *
13598099 A---CA-CC-GAGGTATTTTC-CAT-TTCTG
128 AGTTGAGCCTCAGG-A--CACGC-TGAGGTA
* * * * ** ** *
13598123 TTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
1 TTTTCAAT-TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
** * * * **
13598188 CATTGAGGTAATTTC--A----ATTTC--TGTTTTCAAAATTCAACTCATATTGTGAGAAATGAG
65 CGCTGAGGTATTTTCAAATTTTATTTCAATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* *
13598245 TTGAGCCTCAAGACACGTTGAGGTA
130 TTGAGCCTCAGGACACGCTGAGGTA
* * ** * *
13598270 TTTTCAATTTCTGCTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
* * **
13598334 GCTGAGGTAATTTC--A----ATTTC--TGTTGTCAAAAAATCAACTCATATTGCGAGAAATGAG
66 GCTGAGGTATTTTCAAATTTTATTTCAATGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAG
* **
13598391 TTGAGCCTCAAGACACATTGAGGTA
130 TTGAGCCTCAGGACACGCTGAGGTA
* ** *
13598416 TTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCA
* *
13598481 CGTTGAGGTATTTTCAATTCCTGTTCAATTT--ATGTTTTTC-AAAATCAACTCATATTGCGAGA
65 CGCTGAGGTATTTTCAAAT--T-TT--ATTTCAATG-TTTTCAAAAATCAACTCATATTGCGAGA
13598543 GGTGAGTTGAGCCTCAGGACACGCTGAGGTA
124 GGTGAGTTGAGCCTCAGGACACGCTGAGGTA
*
13598574 ATTTCAATTTCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
1 TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
* *
13598638 GCCGAGGTATTTTCAAATTTTA---C-----TTTCAAAAAATCAACTCATATTGCGAAAGGTGAG
66 GCTGAGGTATTTTCAAATTTTATTTCAATGTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAG
* * *
13598695 TTGAGCCT-TGGCTCACG-TGTTGAGTCA
130 TTGAGCCTCAGG-ACACGCTG-AG-GT-A
* ***
13598722 CTTTCAATTTCTGTTTTTATGTCTGTTTTCTAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTCAATTTCTG--TTT-T-TC-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
13598787 TCGGGGCACGCTGAGGTATTTTC-AA--TTA---C--TGTTTGGCAAAAACCAACTCATACTGCG
57 TCGGGGCACGCTGAGGTATTTTCAAATTTTATTTCAATGTTT-TCAAAAATCAACTCATATTGCG
*
13598844 AGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTA
121 AGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * * * * *
13598878 TTTTCCATTTCTGTTTTCCAATTTATGTTTTCAAAAATCAATTCATATTGCTAGAGGTGAATGGA
1 TTTTCAATTTCTG-TTT----TTCA-------AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * * *
13598943 GCCTCAGGTCATACGCCGAGGTATTTTCAATAGATGTTT-TTTCCAATTTCTGCTTCTCAAAAAA
54 GCCTCGGGGC--ACGCTGAGGTATTTTC-A-A-AT-TTTATTT-CAA----TG-TTTTC---AAA
* ** * *
13599007 AATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTA
104 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA
* * *
13599058 TTTTCAAGTTCTGCTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGC
1 TTTTCAATTTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-
* *
13599123 TCGCACGCTGAGGTATTTTCAATTTTT
61 -GGCACGCTGAGGTATTTTCAAATTTT
13599150 CGTTTTTTCA
Statistics
Matches: 1149, Mismatches: 198, Indels: 220
0.73 0.13 0.14
Matches are distributed among these distances:
140 7 0.01
141 5 0.00
142 1 0.00
143 8 0.01
144 129 0.11
145 87 0.08
146 137 0.12
147 120 0.10
148 71 0.06
149 37 0.03
150 3 0.00
151 37 0.03
152 8 0.01
153 36 0.03
154 8 0.01
155 25 0.02
156 68 0.06
157 6 0.01
158 163 0.14
159 46 0.04
160 4 0.00
161 15 0.01
164 1 0.00
165 1 0.00
168 5 0.00
169 1 0.00
170 1 0.00
171 2 0.00
172 49 0.04
174 1 0.00
175 2 0.00
177 3 0.00
178 2 0.00
179 3 0.00
180 57 0.05
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (154 bp):
TTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC
GCTGAGGTATTTTCAAATTTTATTTCAATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTCAGGACACGCTGAGGTA
Found at i:13599039 original size:94 final size:86
Alignment explanation
Indices: 13598823--13599064 Score: 223
Period size: 86 Copynumber: 2.7 Consensus size: 86
13598813 TACTGTTTGG
* * * * *
13598823 CAAAAACCAACTCATACTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCCATTT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCCGAGGTATTTTCAATAT
*
13598888 CTGTTTTCCAATTTATGTTTT
66 CTGTTTTCCAATTTATGTTCT
* * * * *
13598909 CAAAAATCAATTCATATTGCTAGAGGTGAATGGAGCCTCAGGTCATACGCCGAGGTATTTTCAAT
1 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAT--GCCGAGGTATTTTCAAT
* * *
13598974 AGATGTTTTTTCCAATTTCTGCTTCT
64 --ATCTGTTTTCCAATTTATG-TTCT
* ** * * **
13599000 CAAAAAAAATTAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA
1 C---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCCGAGGTATTTTCAA
13599065 GTTCTGCTTT
Statistics
Matches: 122, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
86 39 0.32
88 15 0.12
90 15 0.12
91 4 0.03
92 14 0.11
94 35 0.29
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (86 bp):
CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCCGAGGTATTTTCAATAT
CTGTTTTCCAATTTATGTTCT
Found at i:13600045 original size:22 final size:22
Alignment explanation
Indices: 13600016--13600078 Score: 99
Period size: 22 Copynumber: 2.9 Consensus size: 22
13600006 GCAACCATGA
13600016 AGCAGCCCCATACCTCCACTAC
1 AGCAGCCCCATACCTCCACTAC
* *
13600038 AGCGGCCCCATACCCCCACTAC
1 AGCAGCCCCATACCTCCACTAC
*
13600060 AGCAGTCCCATACCTCCAC
1 AGCAGCCCCATACCTCCAC
13600079 AGCCCTCGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.25, C:0.51, G:0.11, T:0.13
Consensus pattern (22 bp):
AGCAGCCCCATACCTCCACTAC
Found at i:13605941 original size:29 final size:30
Alignment explanation
Indices: 13605890--13605955 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
13605880 CAAGGACCGG
*
13605890 ATCAAATTAGTCCATCTACTATT-AAATGA
1 ATCAAATTAGTCCATCTACTATTAAAAAGA
* * * *
13605919 ATCAATTTAGTCCTTGTATTATTAAAAAGA
1 ATCAAATTAGTCCATCTACTATTAAAAAGA
13605949 ATCAAAT
1 ATCAAAT
13605956 AACGTCAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (30 bp):
ATCAAATTAGTCCATCTACTATTAAAAAGA
Found at i:13617707 original size:6 final size:6
Alignment explanation
Indices: 13617698--13617750 Score: 61
Period size: 6 Copynumber: 8.3 Consensus size: 6
13617688 CCTCTAACGG
* *
13617698 CTCCAC CTCCAC CTCCAC CTCCAC TTCCCC GTTCTCCAC CTCCAC CTCCAC
1 CTCCAC CTCCAC CTCCAC CTCCAC CTCCAC ---CTCCAC CTCCAC CTCCAC
13617749 CT
1 CT
13617751 GGAATCTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 36 0.90
9 4 0.10
ACGTcount: A:0.13, C:0.62, G:0.02, T:0.23
Consensus pattern (6 bp):
CTCCAC
Found at i:13623322 original size:56 final size:57
Alignment explanation
Indices: 13623259--13623375 Score: 182
Period size: 56 Copynumber: 2.1 Consensus size: 57
13623249 TCTTTTTCAT
* *
13623259 TTTTCATTTTCATTTTGGAGAATACCATATTCATTTCCAAATATTTC-ATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCTATTTCTCCA
* *
13623315 TTTTCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTTTCTTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTC-TATTTCTCCA
13623373 TTT
1 TTT
13623376 CACCATCTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
56 43 0.78
58 12 0.22
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.50
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATATTTCTATTTCTCCA
Found at i:13626199 original size:25 final size:24
Alignment explanation
Indices: 13626146--13626199 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
13626136 AGTTACTGAT
*
13626146 TTCAGCTCGTATGACTTATCGATA
1 TTCAGCTCGTATGACTTATCCATA
*
13626170 CTCAGCTCGTATGAACTT-TCCATTA
1 TTCAGCTCGTATG-ACTTATCCA-TA
13626195 TTCAG
1 TTCAG
13626200 TTCGGAGGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (24 bp):
TTCAGCTCGTATGACTTATCCATA
Found at i:13631889 original size:16 final size:15
Alignment explanation
Indices: 13631868--13631898 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
13631858 AATATTTTAA
13631868 AAAATATTTAATATAT
1 AAAATATTTAA-ATAT
13631884 AAAATATTTAAATAT
1 AAAATATTTAAATAT
13631899 TTTAAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATATTTAAATAT
Found at i:13632202 original size:18 final size:19
Alignment explanation
Indices: 13632165--13632206 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
13632155 TTTCCTTTAG
*
13632165 TTTTTTTTGTTATATAAAT
1 TTTTTTTTATTATATAAAT
13632184 TATTTTTTTATTAT-T-AAT
1 T-TTTTTTTATTATATAAAT
13632202 TTTTT
1 TTTTT
13632207 ACTTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 4 0.19
18 4 0.19
19 2 0.10
20 11 0.52
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTTTTATTATATAAAT
Found at i:13639401 original size:23 final size:23
Alignment explanation
Indices: 13639375--13639424 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
13639365 TGATTTTTAA
*
13639375 ATTTTA-ATTTATTTAGTGATAAT
1 ATTTTAGA-TTATTTAATGATAAT
13639398 A-TTTAGGATTATTTAATGATAAT
1 ATTTTA-GATTATTTAATGATAAT
13639421 ATTT
1 ATTT
13639425 AGGAAAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
22 4 0.17
23 16 0.70
24 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (23 bp):
ATTTTAGATTATTTAATGATAAT
Found at i:13639402 original size:13 final size:13
Alignment explanation
Indices: 13639384--13639426 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
13639374 AATTTTAATT
13639384 TATTTAGTGATAA
1 TATTTAGTGATAA
13639397 TATTTAG-GAT--
1 TATTTAGTGATAA
*
13639407 TATTTAATGATAA
1 TATTTAGTGATAA
13639420 TATTTAG
1 TATTTAG
13639427 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 6 0.24
11 3 0.12
12 3 0.12
13 13 0.52
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:13639425 original size:23 final size:23
Alignment explanation
Indices: 13639383--13639428 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13639373 AAATTTTAAT
*
13639383 TTATTTAGTGATAATATTTAGGA
1 TTATTTAATGATAATATTTAGGA
13639406 TTATTTAATGATAATATTTAGGA
1 TTATTTAATGATAATATTTAGGA
13639429 AAAATCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (23 bp):
TTATTTAATGATAATATTTAGGA
Found at i:13643834 original size:16 final size:16
Alignment explanation
Indices: 13643815--13643848 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13643805 GTCTTTAGTG
13643815 TTATTATTAATTATTT
1 TTATTATTAATTATTT
* *
13643831 TTATTTTTATTTATTT
1 TTATTATTAATTATTT
13643847 TT
1 TT
13643849 CTTGGCACGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTATTAATTATTT
Found at i:13649047 original size:16 final size:16
Alignment explanation
Indices: 13649026--13649058 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13649016 AACGTTTACA
13649026 TGTCTTTTTGGCACAT
1 TGTCTTTTTGGCACAT
13649042 TGTCTTTTTGGCACAT
1 TGTCTTTTTGGCACAT
13649058 T
1 T
13649059 CACCTACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.52
Consensus pattern (16 bp):
TGTCTTTTTGGCACAT
Found at i:13651731 original size:10 final size:10
Alignment explanation
Indices: 13651716--13651775 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
13651706 AAATTTTAGG
13651716 ATTTAT-TTT
1 ATTTATCTTT
13651725 CATTTATCTTT
1 -ATTTATCTTT
13651736 ATTTATCTTT
1 ATTTATCTTT
*
13651746 AATTATCTTT
1 ATTTATCTTT
13651756 ATTTAT-TTGT
1 ATTTATCTT-T
13651766 ATTTATCTTT
1 ATTTATCTTT
13651776 TAGAATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:13652692 original size:12 final size:12
Alignment explanation
Indices: 13652675--13652707 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
13652665 CTACTTCCCC
13652675 TTTACTATTATT
1 TTTACTATTATT
13652687 TTTACTATTATT
1 TTTACTATTATT
13652699 TTTACTATT
1 TTTACTATT
13652708 TTATAGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTACTATTATT
Found at i:13654170 original size:23 final size:23
Alignment explanation
Indices: 13654144--13654187 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
13654134 TTGATTTTTA
*
13654144 AATTATTTAGTGATAATATTTGG
1 AATTATTTAATGATAATATTTGG
13654167 AATTATTTAATGATAATATTT
1 AATTATTTAATGATAATATTT
13654188 AACAAAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
AATTATTTAATGATAATATTTGG
Found at i:13657041 original size:28 final size:28
Alignment explanation
Indices: 13657008--13657070 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 28
13656998 ACAATTAAGT
13657008 AATATTTTAATATT-TTAAAGAATTA-AAA
1 AATATTTTAA-ATTATTAAA-AATTATAAA
*
13657036 ATTA-TTTAAATTATTAAAAATTATAAA
1 AATATTTTAAATTATTAAAAATTATAAA
13657063 AATATTTT
1 AATATTTT
13657071 TATTCTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 8 0.27
27 16 0.53
28 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
AATATTTTAAATTATTAAAAATTATAAA
Found at i:13657045 original size:19 final size:19
Alignment explanation
Indices: 13657021--13657059 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13657011 ATTTTAATAT
13657021 TTTAAAGAATTAAAAATTA
1 TTTAAAGAATTAAAAATTA
**
13657040 TTTAAATTATTAAAAATTA
1 TTTAAAGAATTAAAAATTA
13657059 T
1 T
13657060 AAAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TTTAAAGAATTAAAAATTA
Found at i:13657058 original size:10 final size:10
Alignment explanation
Indices: 13657029--13657065 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
13657019 ATTTTAAAGA
13657029 ATTAAAAATT
1 ATTAAAAATT
*
13657039 ATT-TAAATT
1 ATTAAAAATT
13657048 ATTAAAAATT
1 ATTAAAAATT
13657058 A-TAAAAAT
1 ATTAAAAAT
13657066 ATTTTTATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 15 0.62
10 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:13657065 original size:19 final size:19
Alignment explanation
Indices: 13657029--13657065 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13657019 ATTTTAAAGA
**
13657029 ATTAAAAATTATTTAAATT
1 ATTAAAAATTATAAAAATT
13657048 ATTAAAAATTATAAAAAT
1 ATTAAAAATTATAAAAAT
13657066 ATTTTTATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTAAAAATTATAAAAATT
Found at i:13669191 original size:23 final size:22
Alignment explanation
Indices: 13669140--13669191 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
13669130 CCTCGTCTTT
*
13669140 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
13669162 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
13669185 TTCTTTT
1 TTCTTTT
13669192 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:13685397 original size:155 final size:155
Alignment explanation
Indices: 13685186--13685501 Score: 560
Period size: 155 Copynumber: 2.0 Consensus size: 155
13685176 ACCTTAAGAC
*
13685186 ATTGAATTCCTGTACTCTTTTATTTAAAAAATTTTGATCCTTTCATCCAATTTGCAATTATAAAA
1 ATTGAATTCCTGTACGCTTTTATTTAAAAAATTTTGATCCTTTCATCCAATTTGCAATTATAAAA
*
13685251 AAGACTAACTTTTTTATACCTTAATGTATATAGTTTTTAGTCAATTTAGTCCTTATTATACAATA
66 AAGACTAACTTTTTTATACCTTAATGTATATAGTTTTTAGTCAATTTAGTCCTTATTATAAAATA
13685316 TGATTATCGAAAAGAACTTTTTAAA
131 TGATTATCGAAAAGAACTTTTTAAA
* *
13685341 ATTGAATTCCTGTACGCTTTTATTTAAAAAATTTTTATCCTTTCGTCCAATTTGCAATTATAAAA
1 ATTGAATTCCTGTACGCTTTTATTTAAAAAATTTTGATCCTTTCATCCAATTTGCAATTATAAAA
* *
13685406 AAGACTAACTTTTTTATACCTTCATGTGTATAGTTTTTAGTCAATTTAGTCCTTATTATAAAATA
66 AAGACTAACTTTTTTATACCTTAATGTATATAGTTTTTAGTCAATTTAGTCCTTATTATAAAATA
* *
13685471 TGATTGTCTAAAAGAACTTTTTAAA
131 TGATTATCGAAAAGAACTTTTTAAA
13685496 ATTGAA
1 ATTGAA
13685502 GTGACAATTG
Statistics
Matches: 153, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
155 153 1.00
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.44
Consensus pattern (155 bp):
ATTGAATTCCTGTACGCTTTTATTTAAAAAATTTTGATCCTTTCATCCAATTTGCAATTATAAAA
AAGACTAACTTTTTTATACCTTAATGTATATAGTTTTTAGTCAATTTAGTCCTTATTATAAAATA
TGATTATCGAAAAGAACTTTTTAAA
Found at i:13685834 original size:85 final size:85
Alignment explanation
Indices: 13685691--13685861 Score: 279
Period size: 85 Copynumber: 2.0 Consensus size: 85
13685681 AATATAACCG
* *
13685691 ACATTATACCTCGAATCTAACATTGTCAAAAATTTATTACCGAAGTAGTCTTACATTCCTTGAAC
1 ACATTATACCTCAAATCTAACATTGTCAAAAATTTATTACCAAAGTAGTCTTACATTCCTTGAAC
13685756 CAAATGCACACTAATAGTAA
66 CAAATGCACACTAATAGTAA
** *
13685776 ACATTATACCTCAAATCTAACATTGTCATGATTTTATTACCAAAGTAGTCTTACATTCCTTGAAC
1 ACATTATACCTCAAATCTAACATTGTCAAAAATTTATTACCAAAGTAGTCTTACATTCCTTGAAC
* *
13685841 CAAATGTACTCTAATAGTAA
66 CAAATGCACACTAATAGTAA
13685861 A
1 A
13685862 ATGGTCCTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (85 bp):
ACATTATACCTCAAATCTAACATTGTCAAAAATTTATTACCAAAGTAGTCTTACATTCCTTGAAC
CAAATGCACACTAATAGTAA
Found at i:13688304 original size:8 final size:9
Alignment explanation
Indices: 13688280--13688304 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13688270 AACATAATAT
13688280 ATTAAAAAC
1 ATTAAAAAC
13688289 ATTAAAAAC
1 ATTAAAAAC
13688298 ATTAAAA
1 ATTAAAA
13688305 TAAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATTAAAAAC
Found at i:13688470 original size:22 final size:22
Alignment explanation
Indices: 13688444--13688501 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
13688434 ATATCCAAAT
13688444 AATAATAACAAAATAGT-AGTAA
1 AATAATAA-AAAATAGTCAGTAA
*
13688466 CATAATAATAAAAT-GTCAGTAA
1 AATAATAA-AAAATAGTCAGTAA
*
13688488 AACAATAAAAAATA
1 AATAATAAAAAATA
13688502 CAAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
21 7 0.23
22 23 0.77
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.22
Consensus pattern (22 bp):
AATAATAAAAAATAGTCAGTAA
Found at i:13697811 original size:18 final size:17
Alignment explanation
Indices: 13697790--13697823 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13697780 TTAAAAAATC
*
13697790 ATATTTTTTTTACATTTA
1 ATATATTTTTTA-ATTTA
13697808 ATATATTTTTTAATTT
1 ATATATTTTTTAATTT
13697824 CAAAATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATATTTTTTAATTTA
Found at i:13699524 original size:21 final size:21
Alignment explanation
Indices: 13699500--13699543 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
13699490 AAAAAGCTAA
*
13699500 CAAATCTCTCTAAGACTTAAT
1 CAAATCTCCCTAAGACTTAAT
13699521 CAAATCTCCCTAAGACTTAAT
1 CAAATCTCCCTAAGACTTAAT
13699542 CA
1 CA
13699544 TAATATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.30
Consensus pattern (21 bp):
CAAATCTCCCTAAGACTTAAT
Found at i:13701174 original size:6 final size:6
Alignment explanation
Indices: 13701163--13701189 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
13701153 GCTTTGCTGC
13701163 TTGGAG TTGGAG TTGGAG TTGGAG TTG
1 TTGGAG TTGGAG TTGGAG TTGGAG TTG
13701190 AGGTTAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (6 bp):
TTGGAG
Found at i:13710794 original size:26 final size:26
Alignment explanation
Indices: 13710740--13710796 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
13710730 TTTTTATTTT
*
13710740 TATTTTTAAAATTATTTAAAATATTA
1 TATTTTTAAAATTATTTAAAATATAA
13710766 TATTTTTAAATATTA-TTAAACATA-AA
1 TATTTTTAAA-ATTATTTAAA-ATATAA
13710792 TATTT
1 TATTT
13710797 AATTATTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TATTTTTAAAATTATTTAAAATATAA
Found at i:13710890 original size:13 final size:14
Alignment explanation
Indices: 13710874--13710915 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
13710864 TTTCAATTTT
13710874 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
13710887 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
13710902 ATTTTAAATAATAT
1 ATTTT-AATAATAT
13710916 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:13710900 original size:16 final size:16
Alignment explanation
Indices: 13710878--13710914 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
13710868 AATTTTATTT
13710878 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
13710895 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
13710910 TAATA
1 TAATA
13710915 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:13710967 original size:15 final size:15
Alignment explanation
Indices: 13710947--13711003 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
13710937 ATTCAATATT
13710947 AATATTTTAATAATA
1 AATATTTTAATAATA
*
13710962 AATATTTATTAAAATTATA
1 AATA-TT-TT--AATAATA
*
13710981 AATATATTAATAATA
1 AATATTTTAATAATA
*
13710996 AATGTTTT
1 AATATTTT
13711004 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:13712300 original size:23 final size:23
Alignment explanation
Indices: 13712274--13712319 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
13712264 AGTCATTTCT
*
13712274 TAATAAATATGTAGTTTGTATAG
1 TAATAAATATGTAGCTTGTATAG
13712297 TAATAAATATGTAGCTTGTATAG
1 TAATAAATATGTAGCTTGTATAG
13712320 ATAACATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (23 bp):
TAATAAATATGTAGCTTGTATAG
Found at i:13718751 original size:19 final size:20
Alignment explanation
Indices: 13718729--13718766 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13718719 TAATATTAAT
13718729 TTTTAAATAATT-TTTTATA
1 TTTTAAATAATTATTTTATA
*
13718748 TTTTAATTAATTATTTTAT
1 TTTTAAATAATTATTTTAT
13718767 TAAAACTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAAATAATTATTTTATA
Found at i:13718944 original size:18 final size:19
Alignment explanation
Indices: 13718915--13718954 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
13718905 ATAAATACAC
13718915 TAAATAAATAATACAAAG-A
1 TAAATAAATAATA-AAAGTA
13718934 TAAAT-AATAATAAAAGTA
1 TAAATAAATAATAAAAGTA
13718952 TAA
1 TAA
13718955 TTGCTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (19 bp):
TAAATAAATAATAAAAGTA
Found at i:13719667 original size:3 final size:3
Alignment explanation
Indices: 13719659--13719686 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13719649 ACATAAACTC
13719659 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13719687 TATCATTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13722262 original size:90 final size:90
Alignment explanation
Indices: 13722147--13722325 Score: 313
Period size: 90 Copynumber: 2.0 Consensus size: 90
13722137 GAATTCTTTA
* *
13722147 AATTAATGAATCTTCTAGTTCTTTAATAAATGTCCATATGAATTCTCAATTAATTTTCGCATCAT
1 AATTAAGGAAACTTCTAGTTCTTTAATAAATGTCCATATGAATTCTCAATTAATTTTCGCATCAT
*
13722212 ATATGATCTAGGATGGTCTAACTGC
66 ATATGATCCAGGATGGTCTAACTGC
* *
13722237 AATTAAGGAAACTTCTAGTTCTTTAATAAATGTCCATATGGATTTTCAATTAATTTTCGCATCAT
1 AATTAAGGAAACTTCTAGTTCTTTAATAAATGTCCATATGAATTCTCAATTAATTTTCGCATCAT
13722302 ATATGATCCAGGATGGTCTAACTG
66 ATATGATCCAGGATGGTCTAACTG
13722326 GTCACGCCAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 84 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (90 bp):
AATTAAGGAAACTTCTAGTTCTTTAATAAATGTCCATATGAATTCTCAATTAATTTTCGCATCAT
ATATGATCCAGGATGGTCTAACTGC
Found at i:13729440 original size:18 final size:18
Alignment explanation
Indices: 13729419--13729458 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13729409 TATTATTATT
13729419 TTTAATTATAAAAAATAA
1 TTTAATTATAAAAAATAA
* * *
13729437 TTTAATTTTTAATAATAA
1 TTTAATTATAAAAAATAA
13729455 TTTA
1 TTTA
13729459 GGATTAATTA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAATTATAAAAAATAA
Found at i:13730095 original size:20 final size:21
Alignment explanation
Indices: 13730072--13730110 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13730062 TGGTTGATAG
*
13730072 GTTT-TAAAATTATTTTTTTC
1 GTTTATAAAATGATTTTTTTC
13730092 GTTTATAAAATGATTTTTT
1 GTTTATAAAATGATTTTTT
13730111 ATGTAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (21 bp):
GTTTATAAAATGATTTTTTTC
Found at i:13735661 original size:19 final size:19
Alignment explanation
Indices: 13735637--13735674 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13735627 CATTGAAATT
*
13735637 TAATAATCTTTAGTAAAAA
1 TAATAATCTTTAATAAAAA
*
13735656 TAATAATGTTTAATAAAAA
1 TAATAATCTTTAATAAAAA
13735675 AATGTCAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (19 bp):
TAATAATCTTTAATAAAAA
Found at i:13737726 original size:16 final size:16
Alignment explanation
Indices: 13737700--13737739 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
13737690 ACATAGTGAC
* *
13737700 GACAT-GAAAAATGTT
1 GACATGGAAAAAAGAT
13737715 GACATGGAAAAAAGAT
1 GACATGGAAAAAAGAT
13737731 GACATGGAA
1 GACATGGAA
13737740 GGTTTAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.50, C:0.07, G:0.25, T:0.17
Consensus pattern (16 bp):
GACATGGAAAAAAGAT
Found at i:13757520 original size:33 final size:32
Alignment explanation
Indices: 13757465--13757576 Score: 98
Period size: 33 Copynumber: 3.4 Consensus size: 32
13757455 TTGAACAGAA
* *
13757465 AGGAGTAGAATATGGAGGTGGATATGGGCCGGG
1 AGGAGTAGAGTACGGAGGTGGATA-GGGCCGGG
* * * *
13757498 AGGAGTAGAGTACGGCGATGGATACGGCTCTGG
1 AGGAGTAGAGTACGGAGGTGGATAGGGC-CGGG
* ** * *
13757531 AGGAGTTGAGTACATAGGTGGATACGAGCCGGA
1 AGGAGTAGAGTACGGAGGTGGATA-GGGCCGGG
13757564 AGGAGTAGAGTAC
1 AGGAGTAGAGTAC
13757577 TGAGATAAAT
Statistics
Matches: 61, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
32 3 0.05
33 56 0.92
34 2 0.03
ACGTcount: A:0.29, C:0.11, G:0.43, T:0.18
Consensus pattern (32 bp):
AGGAGTAGAGTACGGAGGTGGATAGGGCCGGG
Found at i:13758428 original size:15 final size:16
Alignment explanation
Indices: 13758408--13758439 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
13758398 ATATATAATA
13758408 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
13758423 ATATAAAAATTACATT
1 ATATAAAAATTACATT
13758439 A
1 A
13758440 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:13758655 original size:115 final size:113
Alignment explanation
Indices: 13758497--13758939 Score: 624
Period size: 115 Copynumber: 3.9 Consensus size: 113
13758487 ATACTAACAC
* * * *
13758497 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTTAAAAAAAATCACAATACATTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTAC--AAAAAAAATCACAATACACTAAT--A
*
13758561 CACTAAACCACTAAACACTAACAA-TATATAACCTAATATTAAATTACTAAT
62 CACTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
* *
13758612 AAAATAGCTATAAAAATATTTTTTTAAAATATATGACAAAAAAAAATTACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTAC-AAAAAAAATCACAATACACTAATACAC
*
13758677 TAAACCACTAAACACTAATAAATTATATAACCTAATCTTAAATTACTAAT
65 TAAACCACTAAACACTAA-CAATTATATAACCTAATCTTAAATTACTAAT
* * *
13758727 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACGCTAAT--ACT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACAAAAAAAATCACAATACACTAATACACT
*
13758790 AAACCACTAAATACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 AAACCACTAAACACTAACAA-TTATATAACCTAATCTTAAATTACTAAT
* * *
13758839 AAAATAGCTATAAAATTATTTTTTAAAAATATATTACTAAAAAAATCACAATACACTAATACACT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACAAAAAAAATCACAATACACTAATACACT
* * *
13758904 AAACTACTAAAAACTAACAATTTATATAACCAAATC
66 AAACCACTAAACACTAACAA-TTATATAACCTAATC
13758940 AACTATAATT
Statistics
Matches: 301, Mismatches: 21, Indels: 13
0.90 0.06 0.04
Matches are distributed among these distances:
111 2 0.01
112 103 0.34
113 22 0.07
114 59 0.20
115 106 0.35
116 9 0.03
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.31
Consensus pattern (113 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACAAAAAAAATCACAATACACTAATACACT
AAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAAT
Found at i:13758840 original size:112 final size:114
Alignment explanation
Indices: 13758497--13758939 Score: 619
Period size: 112 Copynumber: 3.9 Consensus size: 114
13758487 ATACTAACAC
* * * * *
13758497 AAAATAACTATAAAATTATTTTTTT-AAATACATTACTTAAAAAAAATCACAATACATTAATACA
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACAT-AAAAAAATCACAATACACTAAT--A
*
13758561 CACTAAACCACTAAACACTAACAA--TATATAACCTAATATTAAATTACTAAT
63 -ACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* * *
13758612 AAAATAGCTATAAAAATATTTTTTTAAAATATATGACAAAAAAAAATTACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACATAAAAAAATCACAATACACTAATA-AC
* *
13758677 TAAACCACTAAACACTAATAAATTATATAACCTAATCTTAAATTACTAAT
65 TAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
13758727 AAAATAGCTATAAAAATATTTTTTTAAAATATATTAC-TAAAAAAATTACAATACGCTAAT-ACT
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACATAAAAAAATCACAATACACTAATAACT
*
13758790 AAACCACTAAATACTAACAATTTATATAACCTAATCTTAAATTACTAAT
66 AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
* *
13758839 AAAATAGCTATAAAATTATTTTTTAAAAATATATTAC-TAAAAAAATCACAATACACTAATACAC
1 AAAATAGCTATAAAAATATTTTTTTAAAATATATTACATAAAAAAATCACAATACACTAATA-AC
* * *
13758903 TAAACTACTAAAAACTAACAATTTATATAACCAAATC
65 TAAACCACTAAACACTAACAATTTATATAACCTAATC
13758940 AACTATAATT
Statistics
Matches: 300, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
112 105 0.35
113 24 0.08
114 57 0.19
115 105 0.35
116 9 0.03
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.31
Consensus pattern (114 bp):
AAAATAGCTATAAAAATATTTTTTTAAAATATATTACATAAAAAAATCACAATACACTAATAACT
AAACCACTAAACACTAACAATTTATATAACCTAATCTTAAATTACTAAT
Found at i:13759215 original size:3 final size:3
Alignment explanation
Indices: 13759209--13759267 Score: 55
Period size: 3 Copynumber: 19.0 Consensus size: 3
13759199 ACCTTTTTTT
* **
13759209 TTC TTC TTC TTCC TTC TTC TTC TTC TCC TTC ACC TTCC TTC TTC TTC
1 TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TTC
* *
13759256 TCC TTC TCC TTC
1 TTC TTC TTC TTC
13759268 CTCTCCTTTC
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
3 38 0.86
4 6 0.14
ACGTcount: A:0.02, C:0.42, G:0.00, T:0.56
Consensus pattern (3 bp):
TTC
Found at i:13759268 original size:22 final size:22
Alignment explanation
Indices: 13759209--13759269 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
13759199 ACCTTTTTTT
*
13759209 TTCTTCTTCTTCCTT-CTTCTTC
1 TTCTCCTTC-TCCTTCCTTCTTC
*
13759231 TTCTCCTTCACCTTCCTTCTTC
1 TTCTCCTTCTCCTTCCTTCTTC
13759253 TTCTCCTTCTCCTTCCT
1 TTCTCCTTCTCCTTCCT
13759270 CTCCTTTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 4 0.11
22 31 0.89
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.56
Consensus pattern (22 bp):
TTCTCCTTCTCCTTCCTTCTTC
Found at i:13759278 original size:22 final size:22
Alignment explanation
Indices: 13759208--13759278 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
13759198 TACCTTTTTT
* * *
13759208 TTTCTTCTTCTTCCTTCTTCTTC
1 TTTCTCCTTC-TCCTTCCTCTCC
* *
13759231 -TTCTCCTTCACCTTCCT-TCT
1 TTTCTCCTTCTCCTTCCTCTCC
13759251 TCTTCTCCTTCTCCTTCCTCTCC
1 T-TTCTCCTTCTCCTTCCTCTCC
13759274 TTTCT
1 TTTCT
13759279 TTCTCACCCG
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
20 1 0.03
21 6 0.16
22 28 0.74
23 3 0.08
ACGTcount: A:0.01, C:0.42, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTCTCCTTCTCCTTCCTCTCC
Found at i:13769188 original size:19 final size:19
Alignment explanation
Indices: 13769164--13769203 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
13769154 ATTAATTTTG
13769164 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
13769183 ATCAAATAAATTAAAATTA
1 ATCAAATAAATTAAAATTA
13769202 AT
1 AT
13769204 ATGGTATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:13779265 original size:7 final size:7
Alignment explanation
Indices: 13779253--13779278 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13779243 TAGGTAGTAA
13779253 ATGCTAC
1 ATGCTAC
13779260 ATGCTAC
1 ATGCTAC
13779267 ATGCTAC
1 ATGCTAC
13779274 ATGCT
1 ATGCT
13779279 TAGAGACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (7 bp):
ATGCTAC
Found at i:13787167 original size:31 final size:31
Alignment explanation
Indices: 13787129--13787189 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
13787119 AACATCCCTT
*
13787129 TGACTTAAATAAATATTTTTGAATAGTTTAG
1 TGACTTAAATAAATACTTTTGAATAGTTTAG
* *
13787160 TGACTTAAATGAATACTTTTGAATATTTTA
1 TGACTTAAATAAATACTTTTGAATAGTTTA
13787190 ATTACCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (31 bp):
TGACTTAAATAAATACTTTTGAATAGTTTAG
Found at i:13788117 original size:29 final size:31
Alignment explanation
Indices: 13788045--13788120 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
13788035 AGTATAGAAA
*
13788045 TGGTCACTAAAGTATTAACTGTATTCTATTT
1 TGGTCACTAAACTATTAACTGTATTCTATTT
* * * *
13788076 TGGTTACTGAACTTTTAA-T-TTTTCTATTT
1 TGGTCACTAAACTATTAACTGTATTCTATTT
13788105 TGGTCACTAAACTATT
1 TGGTCACTAAACTATT
13788121 CAAAATTCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 22 0.59
30 1 0.03
31 14 0.38
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.49
Consensus pattern (31 bp):
TGGTCACTAAACTATTAACTGTATTCTATTT
Found at i:13790183 original size:5 final size:5
Alignment explanation
Indices: 13790173--13790197 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13790163 TTAAATATAA
13790173 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
13790198 ATAGCAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:13798869 original size:3 final size:3
Alignment explanation
Indices: 13798861--13798905 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
13798851 TCTAATATCC
13798861 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13798906 TTGATAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13799762 original size:7 final size:7
Alignment explanation
Indices: 13799735--13799783 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
13799725 TATTAATATC
13799735 AAATAAT
1 AAATAAT
13799742 AAA-AAT
1 AAATAAT
* *
13799748 -ATTATT
1 AAATAAT
*
13799754 AAATATT
1 AAATAAT
13799761 AAATAAT
1 AAATAAT
13799768 -AATAAT
1 AAATAAT
13799774 AAATAAT
1 AAATAAT
13799781 AAA
1 AAA
13799784 AGTAGAACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
5 1 0.03
6 11 0.31
7 23 0.66
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (7 bp):
AAATAAT
Found at i:13799774 original size:26 final size:25
Alignment explanation
Indices: 13799717--13799774 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 25
13799707 TCAAAAGAAA
13799717 AAAAATACTATTAATATCAAATAAT
1 AAAAATACTATTAATATCAAATAAT
* *
13799742 AAAAATATTATTAAATATTAAATAAT
1 AAAAATACTATT-AATATCAAATAAT
*
13799768 AATAATA
1 AAAAATA
13799775 AATAATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (25 bp):
AAAAATACTATTAATATCAAATAAT
Found at i:13800661 original size:21 final size:20
Alignment explanation
Indices: 13800637--13800702 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
13800627 ATTGAATGTT
13800637 TAAAATAAATATTTAATTAGA
1 TAAAATAAAT-TTTAATTAGA
*
13800658 TAAACATAAATTTTAA--AAA
1 TAAA-ATAAATTTTAATTAGA
*
13800677 CTAAGATAAATGTTTAATTAGA
1 -TAAAATAAAT-TTTAATTAGA
13800699 TAAA
1 TAAA
13800703 TAGAAATTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
19 8 0.22
20 8 0.22
21 12 0.33
22 8 0.22
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (20 bp):
TAAAATAAATTTTAATTAGA
Done.