Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 29 of 103
Found at i:10953320 original size:21 final size:19
Alignment explanation
Indices: 10953284--10953324 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
10953274 ACATGTTGAG
10953284 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
10953303 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
10953324 T
1 T
10953325 GTTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:10956864 original size:19 final size:19
Alignment explanation
Indices: 10956840--10956877 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
10956830 CCATTTAACT
*
10956840 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
10956859 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
10956878 GGTTTGGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:10967825 original size:28 final size:27
Alignment explanation
Indices: 10967789--10967841 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
10967779 ATATCCTGGT
*
10967789 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
10967816 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
10967842 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:10967909 original size:20 final size:20
Alignment explanation
Indices: 10967886--10967931 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10967876 CTTCTAAACC
10967886 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
10967906 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
10967926 TCAAAT
1 TCAAAT
10967932 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:10968313 original size:81 final size:80
Alignment explanation
Indices: 10968178--10968330 Score: 263
Period size: 81 Copynumber: 1.9 Consensus size: 80
10968168 TAAATTTTTC
*
10968178 GAGACTCTCCTAGCATGCAATCATGCTATCATCACATGTATGTCATGAATAGTATTTTATAAGGT
1 GAGACTCTCCTAGCATGCAAACATGCTATCATCACATGTATGTCATGAATAGTATTTTATAAGGT
10968243 CGGGCTTTACACTTT
66 CGGGCTTTACACTTT
*
10968258 GAGACTCTCCTAGCATGCAAACATGTTATCCATCACATGTATGTCATGACA-AGTATTTTATAAG
1 GAGACTCTCCTAGCATGCAAACATGCTAT-CATCACATGTATGTCATGA-ATAGTATTTTATAAG
10968322 GTCGGGCTT
64 GTCGGGCTT
10968331 AACAGCACTA
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
80 27 0.39
81 41 0.59
82 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (80 bp):
GAGACTCTCCTAGCATGCAAACATGCTATCATCACATGTATGTCATGAATAGTATTTTATAAGGT
CGGGCTTTACACTTT
Found at i:10970982 original size:97 final size:96
Alignment explanation
Indices: 10970810--10971002 Score: 359
Period size: 97 Copynumber: 2.0 Consensus size: 96
10970800 CCACGGCACA
*
10970810 GTGGTTGTTGGAGTTTACTTAATCAATGTTATTCATCTATATTTAAGGTTACTACACTAATCATT
1 GTGGCTGTTGGAGTTTACTTAATCAATGTTATTCATCTATATTTAAGGTTACTACACTAATCATT
*
10970875 CTCAATCGTTTGGTTTCCCTCCAAGCTTACNG
66 CTCAACCGTTTGGTTTCCCTCCAAGCTTAC-G
10970907 GTGGCTGTTGGAGTTTACTTAATCAATGTTATTCATCTATATTTAAGGTTACTACACTAATCATT
1 GTGGCTGTTGGAGTTTACTTAATCAATGTTATTCATCTATATTTAAGGTTACTACACTAATCATT
10970972 CTCAACCGTTTGGTTTCCCTCCAAGCTTACG
66 CTCAACCGTTTGGTTTCCCTCCAAGCTTACG
10971003 TCACAATTTC
Statistics
Matches: 94, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
96 1 0.01
97 93 0.99
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (96 bp):
GTGGCTGTTGGAGTTTACTTAATCAATGTTATTCATCTATATTTAAGGTTACTACACTAATCATT
CTCAACCGTTTGGTTTCCCTCCAAGCTTACG
Found at i:10972688 original size:22 final size:22
Alignment explanation
Indices: 10972656--10972746 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 22
10972646 TTAAAACAAT
*
10972656 TTTAAACCCAAAAACTCTAATC
1 TTTAAAACCAAAAACTCTAATC
*
10972678 TTTAAAACCAAAGGCTCTATACTCTGATC
1 TTTAAAACCAAA------A-ACTCTAATC
* * *
10972707 TTTAAAATCAAAAGCTCTTATC
1 TTTAAAACCAAAAACTCTAATC
*
10972729 TTTAAAACCAAAAGCTCT
1 TTTAAAACCAAAAACTCT
10972747 TATACCAATC
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
22 35 0.62
23 1 0.02
28 1 0.02
29 19 0.34
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (22 bp):
TTTAAAACCAAAAACTCTAATC
Found at i:10972711 original size:29 final size:29
Alignment explanation
Indices: 10972669--10972724 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
10972659 AAACCCAAAA
*
10972669 ACTCTAATCTTTAAAACCAAAGGCTCTAT
1 ACTCTAATCTTTAAAACCAAAAGCTCTAT
* *
10972698 ACTCTGATCTTTAAAATCAAAAGCTCT
1 ACTCTAATCTTTAAAACCAAAAGCTCT
10972725 TATCTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (29 bp):
ACTCTAATCTTTAAAACCAAAAGCTCTAT
Found at i:10972747 original size:22 final size:22
Alignment explanation
Indices: 10972699--10972749 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
10972689 AGGCTCTATA
* *
10972699 CTCTGATCTTTAAAATCAAAAG
1 CTCTTATCTTTAAAACCAAAAG
10972721 CTCTTATCTTTAAAACCAAAAG
1 CTCTTATCTTTAAAACCAAAAG
10972743 CTCTTAT
1 CTCTTAT
10972750 ACCAATCTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.22, G:0.06, T:0.35
Consensus pattern (22 bp):
CTCTTATCTTTAAAACCAAAAG
Found at i:10977655 original size:13 final size:13
Alignment explanation
Indices: 10977637--10977672 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
10977627 ATAACAAAAT
10977637 TATTTTAAATATA
1 TATTTTAAATATA
*
10977650 TATTTTTAATATA
1 TATTTTAAATATA
10977663 TATTCTTAAA
1 TATT-TTAAA
10977673 AGTTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTAAATATA
Found at i:10977982 original size:14 final size:14
Alignment explanation
Indices: 10977963--10978001 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
10977953 TAATGTGGCT
*
10977963 TATATTAATATATA
1 TATATTTATATATA
10977977 TATATTTATATATA
1 TATATTTATATATA
10977991 TATATTTATAT
1 TATATTTATAT
10978002 GTATGAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TATATTTATATATA
Found at i:10986744 original size:29 final size:28
Alignment explanation
Indices: 10986704--10986845 Score: 160
Period size: 28 Copynumber: 4.9 Consensus size: 28
10986694 GACAACTTTG
10986704 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
*
10986732 ACATGTTTGGTCTTAATTTAGACAAAAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* *
10986761 ATATGTTTGCCTTAATTTAAGACAAGAAAA
1 ACATGTTTGTCTTAATTT-AGACAAG-AAA
* * *
10986791 ATATTTTTTGTCTTAATTTAGTCAA-AAA
1 ACA-TGTTTGTCTTAATTTAGACAAGAAA
* *
10986819 AGCATATTTGTCTCAATTTAGACAAGA
1 A-CATGTTTGTCTTAATTTAGACAAGA
10986846 TAAAATATTT
Statistics
Matches: 97, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
28 39 0.40
29 34 0.35
30 11 0.11
31 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:10986817 original size:59 final size:58
Alignment explanation
Indices: 10986704--10986858 Score: 204
Period size: 59 Copynumber: 2.7 Consensus size: 58
10986694 GACAACTTTG
* * *
10986704 ACATGTTTGTCTTAATTTAGACAAG-AAAACATGTTTGGTCTTAATTTAGACAAAAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAAAAA
* * *
10986761 ATATGTTTGCCTTAATTTAAGACAAGAAAAATATTTTTTGTCTTAATTTAGTCAAAAAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAAAAA
* * *
10986820 GCATATTTGTCTCAATTTAGACAAGATAAAATATTTTTT
1 ACATGTTTGTCTTAATTTAGACAAGA-AAAATATTTTTT
10986859 TTATCTTAAT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
57 16 0.19
58 15 0.18
59 53 0.63
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (58 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAAATATTTTTTGTCTTAATTTAGACAAAAAA
Found at i:10992459 original size:13 final size:13
Alignment explanation
Indices: 10992438--10992470 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
10992428 TGATTTTCAA
10992438 AAAGAAAAAAAAG
1 AAAGAAAAAAAAG
*
10992451 AAAGGAAAAAAAG
1 AAAGAAAAAAAAG
10992464 AAA-AAAA
1 AAAGAAAA
10992471 TTAAAATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 3 0.17
13 15 0.83
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAAAG
Found at i:10996667 original size:28 final size:28
Alignment explanation
Indices: 10996635--10996692 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
10996625 AAGTGTTAGC
10996635 GTTGCTGTGATATACTTTTGTTATGAGA
1 GTTGCTGTGATATACTTTTGTTATGAGA
10996663 GTTGCTGTGATATACTTTTGTTATGAGA
1 GTTGCTGTGATATACTTTTGTTATGAGA
10996691 GT
1 GT
10996693 AAATGTCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.47
Consensus pattern (28 bp):
GTTGCTGTGATATACTTTTGTTATGAGA
Found at i:10996814 original size:28 final size:29
Alignment explanation
Indices: 10996767--10996836 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
10996757 CTATCCCAAG
* *
10996767 AGCACTTTTCAAATGCTTGGTTTG-GGAA
1 AGCACTTTTCAAATGCTTGGTCTGAGAAA
* * *
10996795 AGCACTTTTGAACTGGTTGGTCTGATGAAA
1 AGCACTTTTCAAATGCTTGGTCTGA-GAAA
10996825 AGCACTTTTCAA
1 AGCACTTTTCAA
10996837 CGTCAAAAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 20 0.59
30 14 0.41
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (29 bp):
AGCACTTTTCAAATGCTTGGTCTGAGAAA
Found at i:10997455 original size:261 final size:260
Alignment explanation
Indices: 10996873--10997651 Score: 1192
Period size: 261 Copynumber: 3.0 Consensus size: 260
10996863 TGAAGAATGC
10996873 GTTGAGGTTGCTGTTAAAAGCAGCTTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTC
1 GTTGAGGTTGCTGTTAAAAGCAGCTTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTC
** *
10996938 ACCTTTAGAGTGGTGACTCAATGCAAAAACTATGAAAGACCATGATTGTTTCAATATCGTCCACT
66 ACCTTTAGAGTGGTGACTCAATGCAAAAACTACAAAAGACCATGATTGCTTCAATATCGTCCACT
* *
10997003 AGGATTGGACTTTTTGTAGGCTGTAACTGGGTTATGACCTATTTTCA-TGAACTTGAAATAAGGT
131 AGGATTGTAC-TTTTGTAGGCTGTAAGTGGGTTATGACCTATTTTCATTG-ACTTGAAATAA-GT
*
10997067 TCTTTCACTGTT-G---GGCATTTGCTAACTCCTGAGCTAGTCCATTTTTAACATGGATCATGTT
193 TCTTGCACTGTTGGTTTGGCATTTGCTAACTCCTGAGCTAGTCCATTTTTAACATGGATCATGTT
10997128 GAG
258 GAG
10997131 GTTGAGGTTGCTGTTAAAAGCAGCTTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTC
1 GTTGAGGTTGCTGTTAAAAGCAGCTTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTC
* *
10997196 CCCTTTAGAGTGGTGACTCAATGCAAAAACTACAAAAGACCATGGTTGCTTCAATATCGTCCACT
66 ACCTTTAGAGTGGTGACTCAATGCAAAAACTACAAAAGACCATGATTGCTTCAATATCGTCCACT
* *
10997261 AGGATTGTACTTATTGTAGGCTGTAAGTGGGTTATGACCTATTTTCATTGACATGTAATAAGTTC
131 AGGATTGTACTT-TTGTAGGCTGTAAGTGGGTTATGACCTATTTTCATTGACTTGAAATAAGTTC
* *
10997326 TTGCTCTGTTGGTTTGGCATTTGCTAACTCCTGAGCTAGTCCAGTTTTAACATGGATCATGTTGA
195 TTGCACTGTTGGTTTGGCATTTGCTAACTCCTGAGCTAGTCCATTTTTAACATGGATCATGTTGA
*
10997391 T
260 G
* * *
10997392 GTTGAGGTTGCTGTTAAAAGCAGCTTTTAATTGCAAAACCACTTTCCAACCTCAATACCAAACTC
1 GTTGAGGTTGCTGTTAAAAGCAGCTTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTC
* * * * * *
10997457 ACCTTGAGGGTGATGACTGAATGCAAAAGCTACAAAAGACCATGATTGCTTCAATATTGTCCACT
66 ACCTTTAGAGTGGTGACTCAATGCAAAAACTACAAAAGACCATGATTGCTTCAATATCGTCCACT
* * *
10997522 AGGATTGTACTTTTGGTAGGCTTTAAGTGGGTTGTGACCTATTTTCATT-ATCTTGAAATAAAAT
131 AGGATTGTACTTTT-GTAGGCTGTAAGTGGGTTATGACCTATTTTCATTGA-CTTGAAAT-AAGT
* * * *
10997586 TCTTGCGCTGTTGGTTTGGCATTTGCTAACTCCTGAGATAGTCCATTTTTAACATGTATCTTGTT
193 TCTTGCACTGTTGGTTTGGCATTTGCTAACTCCTGAGCTAGTCCATTTTTAACATGGATCATGTT
10997651 G
258 G
10997652 GGTGTCATAT
Statistics
Matches: 478, Mismatches: 34, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
257 14 0.03
258 177 0.37
259 2 0.00
260 3 0.01
261 218 0.46
262 64 0.13
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (260 bp):
GTTGAGGTTGCTGTTAAAAGCAGCTTTTGATTGCAAAAGCACTTTCCAACCTCAATGCCAAACTC
ACCTTTAGAGTGGTGACTCAATGCAAAAACTACAAAAGACCATGATTGCTTCAATATCGTCCACT
AGGATTGTACTTTTGTAGGCTGTAAGTGGGTTATGACCTATTTTCATTGACTTGAAATAAGTTCT
TGCACTGTTGGTTTGGCATTTGCTAACTCCTGAGCTAGTCCATTTTTAACATGGATCATGTTGAG
Found at i:11004125 original size:39 final size:39
Alignment explanation
Indices: 11004062--11004153 Score: 139
Period size: 39 Copynumber: 2.4 Consensus size: 39
11004052 CAAGATTCAA
* * *
11004062 TCTCGCTGTAGCGAAATTGTAACCCAGAAACAGAATGTT
1 TCTCGCTGCAGCGAAATTGTAACCCAGAAACAAAAAGTT
*
11004101 TCTCACTGCAGCGAAATTGTAACCCAGAAACAAAAAGTT
1 TCTCGCTGCAGCGAAATTGTAACCCAGAAACAAAAAGTT
*
11004140 TCTCGCTACAGCGA
1 TCTCGCTGCAGCGA
11004154 TAATGTATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (39 bp):
TCTCGCTGCAGCGAAATTGTAACCCAGAAACAAAAAGTT
Found at i:11004576 original size:43 final size:43
Alignment explanation
Indices: 11004528--11004646 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
11004518 TCACCAGCTC
** * **
11004528 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATC-CTCGACTT
11004571 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
* *
11004614 ATGCGCACTCCCTACTCGCACATAGCCGAGTCA
1 ATGCGCACTCCCTACTCGCACATAACCGGGTCA
11004647 ATATAATTAC
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.20, C:0.38, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCGGGTCATCCTCGACTT
Found at i:11007698 original size:28 final size:28
Alignment explanation
Indices: 11007667--11007734 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
11007657 TTTTCGATGA
11007667 TAAGGGCAAAATAGTCATTTTGCCACCC
1 TAAGGGCAAAATAGTCATTTTGCCACCC
*
11007695 TAAGGGCAAAATAGTCATTTTGCCACCG
1 TAAGGGCAAAATAGTCATTTTGCCACCC
*
11007723 TAGGGGCAAAAT
1 TAAGGGCAAAAT
11007735 GGTAATTCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (28 bp):
TAAGGGCAAAATAGTCATTTTGCCACCC
Found at i:11019559 original size:26 final size:26
Alignment explanation
Indices: 11019530--11019588 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
11019520 ATTTTCTAGT
* *
11019530 TTTCCTTTGT-TTTTCTCTTTTCTTCC
1 TTTCCTTTCTATTTTCTCTCTTCTT-C
* *
11019556 TTTCCTCTCTATTTTCTCTCTTGTTC
1 TTTCCTTTCTATTTTCTCTCTTCTTC
11019582 TTTCCTT
1 TTTCCTT
11019589 ATGGCCGGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.02, C:0.29, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTCCTTTCTATTTTCTCTCTTCTTC
Found at i:11022569 original size:217 final size:216
Alignment explanation
Indices: 11022194--11022626 Score: 848
Period size: 217 Copynumber: 2.0 Consensus size: 216
11022184 ATGAGGTTAG
11022194 ACAACTTTTGGAGATTCAAGAAGTTAGAAGTGGAGGTTGAAACTTGGAGAGCAAGGTTGCAAATA
1 ACAACTTTTGGAGATTCAAGAAGTTAGAAGTGGAGGTTGAAACTTGGAGAGCAAGGTTGCAAATA
11022259 TTTGTTTTGTTTCTTCCTTAGTTTTTATTTCTCTTGTTACTCTGCATGGTTGAAATTTATATAAT
66 TTTGTTTTGTTTCTTCCTTAGTTTTTATTTCTCTTGTTACTCTGCATGGTTGAAATTTATATAAT
11022324 GTTATTTGTCTTTGCAATTAGGAGTAGCTAATTTTCTTTTTCTAGGATTGCAATTGAACTCACAT
131 GTTATTTGTCTTTGCAATTAGGAGTAGCTAATTTTCTTTTTCTAGGATTGCAATTGAACTCACAT
11022389 GTAATCTAAATTTGTAATCTC
196 GTAATCTAAATTTGTAATCTC
11022410 NACAACTTTTGGAGATTCAAGAAGTTAGAAGTGGAGGTTGAAACTTGGAGAGCAAGGTTGCAAAT
1 -ACAACTTTTGGAGATTCAAGAAGTTAGAAGTGGAGGTTGAAACTTGGAGAGCAAGGTTGCAAAT
11022475 ATTTGTTTTGTTTCTTCCTTAGTTTTTATTTCTCTTGTTACTCTGCATGGTTGAAATTTATATAA
65 ATTTGTTTTGTTTCTTCCTTAGTTTTTATTTCTCTTGTTACTCTGCATGGTTGAAATTTATATAA
11022540 TGTTATTTGTCTTTGCAATTAGGAGTAGCTAATTTTCTTTTTCTAGGATTGCAATTGAACTCACA
130 TGTTATTTGTCTTTGCAATTAGGAGTAGCTAATTTTCTTTTTCTAGGATTGCAATTGAACTCACA
*
11022605 TGTAATCTAAATTTTTAATCTC
195 TGTAATCTAAATTTGTAATCTC
11022627 TTTCTTGCTT
Statistics
Matches: 215, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 215 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (216 bp):
ACAACTTTTGGAGATTCAAGAAGTTAGAAGTGGAGGTTGAAACTTGGAGAGCAAGGTTGCAAATA
TTTGTTTTGTTTCTTCCTTAGTTTTTATTTCTCTTGTTACTCTGCATGGTTGAAATTTATATAAT
GTTATTTGTCTTTGCAATTAGGAGTAGCTAATTTTCTTTTTCTAGGATTGCAATTGAACTCACAT
GTAATCTAAATTTGTAATCTC
Found at i:11024894 original size:20 final size:20
Alignment explanation
Indices: 11024869--11024914 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11024859 ATTTGTCCCC
11024869 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
11024889 ATTTGACTTATTGGAGTATG
1 ATTTGACTTATTGGAGTATA
11024909 ATTTGA
1 ATTTGA
11024915 GGTTTATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:11028182 original size:21 final size:22
Alignment explanation
Indices: 11028132--11028182 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
11028122 CAAAAAAATT
11028132 TCAAATATCCTTAATATCAAGAA
1 TCAAA-ATCCTTAATATCAAGAA
*
11028155 TCAAAATCCTTAAT-TCAAGTA
1 TCAAAATCCTTAATATCAAGAA
*
11028176 TCTAAAT
1 TCAAAAT
11028183 TTATTATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 12 0.46
22 9 0.35
23 5 0.19
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (22 bp):
TCAAAATCCTTAATATCAAGAA
Found at i:11030682 original size:17 final size:19
Alignment explanation
Indices: 11030647--11030687 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
11030637 AACAAAAAGA
*
11030647 AGAGAAAGTCGAGCGTGAG
1 AGAGAAAGTCGAGCATGAG
11030666 AGAGAAAGT-GAG-ATGAG
1 AGAGAAAGTCGAGCATGAG
*
11030683 GGAGA
1 AGAGA
11030688 GAGCTGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.40
18 3 0.15
19 9 0.45
ACGTcount: A:0.41, C:0.05, G:0.44, T:0.10
Consensus pattern (19 bp):
AGAGAAAGTCGAGCATGAG
Found at i:11031162 original size:15 final size:14
Alignment explanation
Indices: 11031116--11031166 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
11031106 GAAAGAAAGG
11031116 AAGAAAGAAAAGAA
1 AAGAAAGAAAAGAA
11031130 AAGAAAAGAAAAGAA
1 AAG-AAAGAAAAGAA
11031145 AAGAAAGTAACAAGAA
1 AAGAAAG-AA-AAGAA
*
11031161 AGGAAA
1 AAGAAA
11031167 ATGGGCATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
14 7 0.21
15 16 0.48
16 10 0.30
ACGTcount: A:0.75, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
AAGAAAGAAAAGAA
Found at i:11031166 original size:5 final size:5
Alignment explanation
Indices: 11031119--11031150 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11031109 AGAAAGGAAG
11031119 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
11031151 GTAACAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:11040796 original size:2 final size:2
Alignment explanation
Indices: 11040791--11040825 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
11040781 TATAAAATAA
* *
11040791 AT AT AT AC AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11040826 CACATATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:11040806 original size:10 final size:10
Alignment explanation
Indices: 11040791--11040833 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
11040781 TATAAAATAA
11040791 ATATATACAT
1 ATATATACAT
**
11040801 ATATATGTAT
1 ATATATACAT
*
11040811 ATATATATAT
1 ATATATACAT
*
11040821 ATATACACAT
1 ATATATACAT
11040831 ATA
1 ATA
11040834 CCACCACCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (10 bp):
ATATATACAT
Found at i:11040928 original size:36 final size:36
Alignment explanation
Indices: 11040888--11040980 Score: 123
Period size: 36 Copynumber: 2.6 Consensus size: 36
11040878 TAGCTGAAGT
*
11040888 CATCGTGTGCACCCCCACATCACGCACAGCTAATAC
1 CATCGTGTGCACCCCCACATCACACACAGCTAATAC
** * * *
11040924 CATCGTGTGCACATCTACATCGCACACAGCTAATGC
1 CATCGTGTGCACCCCCACATCACACACAGCTAATAC
*
11040960 CATCGTGTGCATCCCCACATC
1 CATCGTGTGCACCCCCACATC
11040981 GTGCACAGGC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 47 1.00
ACGTcount: A:0.26, C:0.39, G:0.15, T:0.20
Consensus pattern (36 bp):
CATCGTGTGCACCCCCACATCACACACAGCTAATAC
Found at i:11046178 original size:17 final size:19
Alignment explanation
Indices: 11046137--11046178 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
11046127 ATATATATAT
11046137 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
11046158 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
11046175 ATGA
1 ATGA
11046179 TATTGACCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:11046227 original size:49 final size:48
Alignment explanation
Indices: 11046173--11046270 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 48
11046163 TAATGTTGTG
* *
11046173 TGATGATATTGACCCGACTACGTGCAAGTAGGGAGTGTGCATAAGCCGA
1 TGATGATATTGACCCGACTACGTGCAAGTA-AGAGTGCGCATAAGCCGA
* * *
11046222 TGATGATATTGACCCGACTATGTGCGAGTAAGAGTGCGCATAAGTCGA
1 TGATGATATTGACCCGACTACGTGCAAGTAAGAGTGCGCATAAGCCGA
11046270 T
1 T
11046271 ACTGACCAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 16 0.36
49 28 0.64
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (48 bp):
TGATGATATTGACCCGACTACGTGCAAGTAAGAGTGCGCATAAGCCGA
Found at i:11046349 original size:43 final size:43
Alignment explanation
Indices: 11046177--11046352 Score: 176
Period size: 42 Copynumber: 4.0 Consensus size: 43
11046167 GTTGTGTGAT
* * * *
11046177 GATATTGACCCGACTACGTGCAAGTAGGGAGTGTGCATAAGCC
1 GATACTGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCC
* * *
11046220 GATGATGATATTGACCCGACTATGTGCGAGTA-AGAGTGCGCATAAGTC
1 ------GATACTGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCC
* *
11046268 GATACTGACCAGACTATTTGCGAGT-GGGAGTGCGCATAAGCC
1 GATACTGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCC
* * *
11046310 GATGCTGACCCGGCTATGTGCGAGTAGGGAGTGGGCATAAGCC
1 GATACTGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCC
11046353 AATGATGATG
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
42 57 0.52
43 16 0.15
48 13 0.12
49 24 0.22
ACGTcount: A:0.26, C:0.20, G:0.32, T:0.22
Consensus pattern (43 bp):
GATACTGACCCGACTATGTGCGAGTAGGGAGTGCGCATAAGCC
Found at i:11046654 original size:21 final size:21
Alignment explanation
Indices: 11046628--11046681 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
11046618 CAGCCCTGTT
* * *
11046628 TCTCGCTATAGCGAGAATGAA
1 TCTCGCTACAGCGAAAATAAA
11046649 TCTCGCTACAGCGAAAATAAA
1 TCTCGCTACAGCGAAAATAAA
*
11046670 TCTCGCTGCAGC
1 TCTCGCTACAGC
11046682 TAGAAACTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (21 bp):
TCTCGCTACAGCGAAAATAAA
Found at i:11048602 original size:21 final size:20
Alignment explanation
Indices: 11048534--11048603 Score: 70
Period size: 21 Copynumber: 3.5 Consensus size: 20
11048524 ACCAGAGAGT
* *
11048534 TTCTCGCTACAGCGAGATTTA
1 TTCTCGCTGCAGCAAGA-TTA
* *
11048555 TTTTCGCTGCAGCAAAATT-
1 TTCTCGCTGCAGCAAGATTA
*
11048574 TCCTCGCTGCAGCAAGATTCA
1 TTCTCGCTGCAGCAAGATT-A
11048595 TTCTCGCTG
1 TTCTCGCTG
11048604 TAGTGAGAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 16 0.41
20 2 0.05
21 21 0.54
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
TTCTCGCTGCAGCAAGATTA
Found at i:11048832 original size:32 final size:32
Alignment explanation
Indices: 11048796--11048859 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
11048786 ATTGTCAATG
*
11048796 TGTTCACTTTGATGTGCAATATGAATATTATA
1 TGTTCACTTTGATATGCAATATGAATATTATA
**
11048828 TGTTCACTTTGATATGCAATATGGTTATTATA
1 TGTTCACTTTGATATGCAATATGAATATTATA
11048860 CATATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.45
Consensus pattern (32 bp):
TGTTCACTTTGATATGCAATATGAATATTATA
Found at i:11048980 original size:43 final size:43
Alignment explanation
Indices: 11048922--11049056 Score: 191
Period size: 43 Copynumber: 3.2 Consensus size: 43
11048912 AGCTAGGTCA
11048922 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
* *
11048965 TCATCATCGGCTTATGCGCACTCCCTACTTGCACATAGCCAGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
** * * * *
11049008 TCATCATCATCTCATGTGCACTCCC-ACACGCACATAGCTGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
11049050 TCATCAT
1 TCATCAT
11049057 TATCACATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
42 20 0.24
43 62 0.76
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.25
Consensus pattern (43 bp):
TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCCGGG
Found at i:11052411 original size:22 final size:22
Alignment explanation
Indices: 11052381--11052438 Score: 107
Period size: 22 Copynumber: 2.6 Consensus size: 22
11052371 AATTCACAAG
*
11052381 CTTTCACCAAGCTTTACAATGA
1 CTTTTACCAAGCTTTACAATGA
11052403 CTTTTACCAAGCTTTACAATGA
1 CTTTTACCAAGCTTTACAATGA
11052425 CTTTTACCAAGCTT
1 CTTTTACCAAGCTT
11052439 AGGCAAAACC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.29, C:0.26, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTTTACCAAGCTTTACAATGA
Found at i:11060872 original size:42 final size:42
Alignment explanation
Indices: 11060811--11060923 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
11060801 TATTGACTTG
*
11060811 GCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGCTGACCCG
1 GCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGCTGACCCA
* * * *
11060853 GTTATGTGCGAGTGGGAGTGCGCATAAGTCGTTGCTGACCCA
1 GCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGCTGACCCA
*
11060895 GCTATGTGTGAGTAGGAGTGCGCATAAGC
1 GCTATGTGCGAGTAGGAGTGCGCATAAGC
11060924 TGTTGCATAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.21, C:0.19, G:0.35, T:0.24
Consensus pattern (42 bp):
GCTATGTGCGAGTAGGAGTGCGCATAAGCCATTGCTGACCCA
Found at i:11060977 original size:2 final size:2
Alignment explanation
Indices: 11060970--11061004 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11060960 ATGATGATTG
11060970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11061005 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11070984 original size:2 final size:2
Alignment explanation
Indices: 11070977--11071013 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11070967 CATTATGTTG
11070977 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11071014 CGAATAATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11077597 original size:36 final size:36
Alignment explanation
Indices: 11077538--11077613 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
11077528 CTTGCATTTA
*
11077538 GCTTAGGAAAATATTTTACCTTGATAT-ATTATTTTT
1 GCTTAGGAAAATATGTTACCTTGAT-TCATTATTTTT
* *
11077574 GCTTAGGAATATATGTTATCTTGATTCATTATTTTT
1 GCTTAGGAAAATATGTTACCTTGATTCATTATTTTT
11077610 GCTT
1 GCTT
11077614 GCACTTCACC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 1 0.03
36 35 0.97
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.51
Consensus pattern (36 bp):
GCTTAGGAAAATATGTTACCTTGATTCATTATTTTT
Found at i:11077676 original size:46 final size:47
Alignment explanation
Indices: 11077624--11077755 Score: 230
Period size: 47 Copynumber: 2.8 Consensus size: 47
11077614 GCACTTCACC
*
11077624 TAGGAAAATATTTTTACTTTG-TCTATTATTTGTTCATTACTTGACT
1 TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGACT
*
11077670 TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGAGT
1 TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGACT
*
11077717 TAGGAAAATATCTTTACTTTGATTTATTATTTGTTCATT
1 TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATT
11077756 TGAATTTATT
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
46 21 0.26
47 61 0.74
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.53
Consensus pattern (47 bp):
TAGGAAAATATTTTTACTTTGATTTATTATTTGTTCATTACTTGACT
Found at i:11077710 original size:24 final size:24
Alignment explanation
Indices: 11077683--11077755 Score: 60
Period size: 24 Copynumber: 3.1 Consensus size: 24
11077673 GAAAATATTT
11077683 TTACTTTGATTTATTATTTGTTCA
1 TTACTTTGATTTATTATTTGTTCA
* ** ** * *
11077707 TTAC-TTGAGTTAGGAAAAT-ATCT
1 TTACTTTGATTTA-TTATTTGTTCA
11077730 TTACTTTGATTTATTATTTGTTCA
1 TTACTTTGATTTATTATTTGTTCA
11077754 TT
1 TT
11077756 TGAATTTATT
Statistics
Matches: 32, Mismatches: 14, Indels: 6
0.62 0.27 0.12
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.25, C:0.08, G:0.11, T:0.56
Consensus pattern (24 bp):
TTACTTTGATTTATTATTTGTTCA
Found at i:11078473 original size:17 final size:17
Alignment explanation
Indices: 11078451--11078483 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11078441 AATTAATGAC
11078451 ATGTTTGAAAGATTCAT
1 ATGTTTGAAAGATTCAT
11078468 ATGTTTGAAAGATTCA
1 ATGTTTGAAAGATTCA
11078484 CTAATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.39
Consensus pattern (17 bp):
ATGTTTGAAAGATTCAT
Found at i:11081792 original size:19 final size:19
Alignment explanation
Indices: 11081764--11081808 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
11081754 TTTGGGCCAC
11081764 TTGT-CATTATAACCATTA
1 TTGTACATTATAACCATTA
11081782 TTGTACATTATAACCATTA
1 TTGTACATTATAACCATTA
11081801 TTGTACAT
1 TTGTACAT
11081809 CATGGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (19 bp):
TTGTACATTATAACCATTA
Found at i:11083621 original size:28 final size:29
Alignment explanation
Indices: 11083580--11083639 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
11083570 GTCTATGGGC
*
11083580 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
11083608 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
11083638 AA
1 AA
11083640 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:11089042 original size:22 final size:20
Alignment explanation
Indices: 11089017--11089058 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 20
11089007 TTTATGTTTT
11089017 TGTGTATATATGAATATATATA
1 TGTGTATATAT--ATATATATA
11089039 TGTGTATATATATATATATA
1 TGTGTATATATATATATATA
11089059 ATTACCTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
22 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (20 bp):
TGTGTATATATATATATATA
Found at i:11095232 original size:20 final size:20
Alignment explanation
Indices: 11095199--11095236 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11095189 GTTTTCACTT
11095199 GATTTGTCCATTGTCCATTC
1 GATTTGTCCATTGTCCATTC
11095219 GATTT-TCCATTTGTCCAT
1 GATTTGTCCA-TTGTCCAT
11095237 GGTTAAGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.47
Consensus pattern (20 bp):
GATTTGTCCATTGTCCATTC
Found at i:11096738 original size:2 final size:2
Alignment explanation
Indices: 11096731--11096807 Score: 64
Period size: 2 Copynumber: 35.5 Consensus size: 2
11096721 TATAATGTTG
* * *
11096731 AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT GT CAT AA AT GGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT -AT AT AT -AT
*
11096774 ACC ACT NAT AT AT AT AT AT AT AT AT AT AT AT AT A
1 A-T A-T -AT AT AT AT AT AT AT AT AT AT AT AT AT A
11096808 CTATGTCATA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
2 54 0.87
3 7 0.11
4 1 0.02
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:11096806 original size:50 final size:49
Alignment explanation
Indices: 11096731--11096829 Score: 189
Period size: 50 Copynumber: 2.0 Consensus size: 49
11096721 TATAATGTTG
11096731 ATATATATATATATATATATATATATACTATGTCATAAATGGTACCACT
1 ATATATATATATATATATATATATATACTATGTCATAAATGGTACCACT
11096780 NATATATATATATATATATATATATATACTATGTCATAAATGGTACCACT
1 -ATATATATATATATATATATATATATACTATGTCATAAATGGTACCACT
11096830 GCGTGACAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.40
Consensus pattern (49 bp):
ATATATATATATATATATATATATATACTATGTCATAAATGGTACCACT
Found at i:11096980 original size:40 final size:40
Alignment explanation
Indices: 11096936--11097028 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
11096926 GATGTGGGGG
**
11096936 GGGGGGATGCATGCGATGACTCCGACTATGTGCACGATGT
1 GGGGGGATGCACACGATGACTCCGACTATGTGCACGATGT
11096976 GGGGGGATGCACACGATGACTCCGACTATGTGCACGATGT
1 GGGGGGATGCACACGATGACTCCGACTATGTGCACGATGT
11097016 GGGGGGATGCACA
1 GGGGGGATGCACA
11097029 TGAGCTGGGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.22, C:0.20, G:0.39, T:0.19
Consensus pattern (40 bp):
GGGGGGATGCACACGATGACTCCGACTATGTGCACGATGT
Found at i:11097327 original size:22 final size:22
Alignment explanation
Indices: 11097270--11097328 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
11097260 CCAGCCCTAT
* *
11097270 TTCTTACTGCAGCAAAAAAGAA
1 TTCTCACTGCAGCGAAAAAGAA
* * * * *
11097292 TTTTCTCTGTAGCGAAAATGGA
1 TTCTCACTGCAGCGAAAAAGAA
11097314 TTCTCACTGCAGCGA
1 TTCTCACTGCAGCGA
11097329 GAAACTCTTG
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (22 bp):
TTCTCACTGCAGCGAAAAAGAA
Found at i:11098732 original size:38 final size:38
Alignment explanation
Indices: 11098681--11098773 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
11098671 CTAACTCAGC
* * * *
11098681 TCATGTCCACTCCCTACAGGCATAAGGCAATATCATCA
1 TCATGTGCTCTCCCTACACGCACAAGGCAATATCATCA
* *** *
11098719 TCATGTGCTCTCCCTACTCGCACATTTCCATATCATCA
1 TCATGTGCTCTCCCTACACGCACAAGGCAATATCATCA
11098757 TCATGTGCTCTCCCTAC
1 TCATGTGCTCTCCCTAC
11098774 TCACATTTCA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.24, C:0.35, G:0.11, T:0.30
Consensus pattern (38 bp):
TCATGTGCTCTCCCTACACGCACAAGGCAATATCATCA
Found at i:11098788 original size:36 final size:37
Alignment explanation
Indices: 11098708--11098796 Score: 153
Period size: 38 Copynumber: 2.4 Consensus size: 37
11098698 AGGCATAAGG
11098708 CAATATCATCATCATGTGCTCTCCCTACTCGCACATTT
1 CAATATCATCATCATGTGCTCTCCCTACTC-CACATTT
*
11098746 CCATATCATCATCATGTGCTCTCCCTACT-CACATTT
1 CAATATCATCATCATGTGCTCTCCCTACTCCACATTT
11098782 CAATATCATCATCAT
1 CAATATCATCATCAT
11098797 CATCATGTGT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 21 0.43
38 28 0.57
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.35
Consensus pattern (37 bp):
CAATATCATCATCATGTGCTCTCCCTACTCCACATTT
Found at i:11098812 original size:42 final size:42
Alignment explanation
Indices: 11098712--11098836 Score: 147
Period size: 38 Copynumber: 3.0 Consensus size: 42
11098702 ATAAGGCAAT
*
11098712 ATCATCATCATGTGCTCTCCCTACTCGCACATTTC----CAT-
1 ATCATCATCATGTGCTCTCCCTACT-ACACATTTCAATTCATC
11098750 ATCATCATCATGTGCTCTCCCTACT-CACATTTCAATATCATC
1 ATCATCATCATGTGCTCTCCCTACTACACATTTCAAT-TCATC
11098792 ATCATCATCATGTG-TACTCCCTACTAACACATTTCAATCTCATC
1 ATCATCATCATGTGCT-CTCCCTACT-ACACATTTCAAT-TCATC
11098836 A
1 A
11098837 CACAATGATG
Statistics
Matches: 77, Mismatches: 1, Indels: 12
0.86 0.01 0.13
Matches are distributed among these distances:
36 8 0.10
38 25 0.32
41 4 0.05
42 23 0.30
44 17 0.22
ACGTcount: A:0.26, C:0.34, G:0.06, T:0.34
Consensus pattern (42 bp):
ATCATCATCATGTGCTCTCCCTACTACACATTTCAATTCATC
Found at i:11100551 original size:2 final size:2
Alignment explanation
Indices: 11100539--11100580 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
11100529 AACACTTTAC
* *
11100539 AT AT AT GT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AGT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
11100581 CACAAACAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (2 bp):
AT
Found at i:11101721 original size:13 final size:13
Alignment explanation
Indices: 11101703--11101728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11101693 TTTCTCTTTC
11101703 TTTCTCTTTTTTT
1 TTTCTCTTTTTTT
11101716 TTTCTCTTTTTTT
1 TTTCTCTTTTTTT
11101729 CCTCTTGAGT
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:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTCTCTTTTTTT
Found at i:11101727 original size:11 final size:11
Alignment explanation
Indices: 11101691--11101734 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
11101681 CTTCTTTCAG
11101691 TTTTTCTCTTT
1 TTTTTCTCTTT
* *
11101702 CTTTCTCTTTTT
1 -TTTTTCTCTTT
11101714 TTTTTCTCTTT
1 TTTTTCTCTTT
*
11101725 TTTTCCTCTT
1 TTTTTCTCTT
11101735 GAGTGGAGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCTCTTT
Found at i:11108567 original size:25 final size:25
Alignment explanation
Indices: 11108522--11108576 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11108512 AACGGTTGTA
*
11108522 ACCACATATATCAACTGGTGG-CTT
1 ACCACACATATCAACTGGTGGCCTT
* *
11108546 AGCCACACATATCAATTTGTGGCCTT
1 A-CCACACATATCAACTGGTGGCCTT
11108572 ACCAC
1 ACCAC
11108577 GTTATATCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 21 0.81
26 4 0.15
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (25 bp):
ACCACACATATCAACTGGTGGCCTT
Found at i:11110416 original size:12 final size:13
Alignment explanation
Indices: 11110391--11110423 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11110381 CTTTCCTTCA
11110391 TTTCTCTCTTTTC
1 TTTCTCTCTTTTC
11110404 TTTCTCT-TTTTC
1 TTTCTCTCTTTTC
*
11110416 TTCCTCTC
1 TTTCTCTC
11110424 GGGTGGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTCTCTCTTTTC
Found at i:11115761 original size:34 final size:35
Alignment explanation
Indices: 11115690--11115765 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 35
11115680 TAGAGCCAGG
* * * *
11115690 CTTAACATAATCAAACATAAATATCTCAAATATCAA
1 CTTAA-ATAATCAAAAACAAATATCTCAAACAACAA
*
11115726 CTTAAATAATTAAAAACAAATAT-TCAAACAACAA
1 CTTAAATAATCAAAAACAAATATCTCAAACAACAA
11115760 CTTAAA
1 CTTAAA
11115766 CATTACAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 15 0.43
35 15 0.43
36 5 0.14
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (35 bp):
CTTAAATAATCAAAAACAAATATCTCAAACAACAA
Found at i:11117272 original size:2 final size:2
Alignment explanation
Indices: 11117265--11117298 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11117255 TTATGACGTA
11117265 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11117299 CTCAACATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11123919 original size:136 final size:136
Alignment explanation
Indices: 11123672--11123961 Score: 490
Period size: 136 Copynumber: 2.1 Consensus size: 136
11123662 GTAAACTCAT
* *
11123672 AAAATTACCGTTTTGCCTTTGGGACTCCAAAAATGTCAAAATTTAAAATTTTCACCTCTCAAACT
1 AAAATTACCATTTTGCCCTTGGGACTCCAAAAATGTCAAAATTTAAAATTTTCACCTCTCAAACT
* *
11123737 CAAATCATACTCTAATGAGTCAAATGTGATCAAAATCTTTTTTAAAAATTCCCATTTTGTCCTCA
66 CAAATCATACTCCAATGAGTCAAATGTGATCAAAATCTTTTCTAAAAATTCCCATTTTGTCCTCA
11123802 GGTGAC
131 GGTGAC
* **
11123808 AAAATTATCATTTTGCCCTTGGGACTCCAAAAATGTCGGAATTTAAAATTTTCACCTCTCAAACT
1 AAAATTACCATTTTGCCCTTGGGACTCCAAAAATGTCAAAATTTAAAATTTTCACCTCTCAAACT
* **
11123873 CAAATCATACTCCAATGAGTCAAATGTGATCAAAATCTTTTCTAAAAATTCCCATTTTTTCCTTG
66 CAAATCATACTCCAATGAGTCAAATGTGATCAAAATCTTTTCTAAAAATTCCCATTTTGTCCTCA
11123938 GGTGAC
131 GGTGAC
11123944 AAAATTACCATTTTGCCC
1 AAAATTACCATTTTGCCC
11123962 CTAAAACATG
Statistics
Matches: 143, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
136 143 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (136 bp):
AAAATTACCATTTTGCCCTTGGGACTCCAAAAATGTCAAAATTTAAAATTTTCACCTCTCAAACT
CAAATCATACTCCAATGAGTCAAATGTGATCAAAATCTTTTCTAAAAATTCCCATTTTGTCCTCA
GGTGAC
Found at i:11132623 original size:28 final size:27
Alignment explanation
Indices: 11132584--11132636 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
11132574 ATGTCCTGGT
*
11132584 GGTGGAAAATTACAATTTTGCCCTTGA
1 GGTGGAAAATTACAATTTTACCCTTGA
*
11132611 GGTGGCAAAATTACCATTTTACCCTT
1 GGTGG-AAAATTACAATTTTACCCTT
11132637 TTCTTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCTTGA
Found at i:11132705 original size:20 final size:20
Alignment explanation
Indices: 11132688--11132725 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11132678 CCTCAAATCT
11132688 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
*
11132708 TACTCTAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
11132726 GGGGCCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:11135832 original size:42 final size:42
Alignment explanation
Indices: 11135750--11135878 Score: 186
Period size: 42 Copynumber: 3.0 Consensus size: 42
11135740 ACCATCCCAC
* * * *
11135750 CATCATCAGCTTATGTGCACTTCCAACTCGCACATAGCTGGGT
1 CATCATCAGCTCATGTGCAC-TCCCACACACACATAGCTGGGT
* *
11135793 CATCATCAGCTCATGTTCACTCCCTCACACACATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACACACATAGCTGGGT
*
11135835 CATCATCAGCTCATGTGCACTCCCACACACAAATAGCTGGGT
1 CATCATCAGCTCATGTGCACTCCCACACACACATAGCTGGGT
11135877 CA
1 CA
11135879 CCATTATCAC
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 59 0.77
43 18 0.23
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (42 bp):
CATCATCAGCTCATGTGCACTCCCACACACACATAGCTGGGT
Found at i:11141492 original size:36 final size:35
Alignment explanation
Indices: 11141407--11141577 Score: 177
Period size: 36 Copynumber: 4.9 Consensus size: 35
11141397 TCCTTAAGAA
* *
11141407 GCCCAATAACTTAATTAAACAATTTAATTAATTAA
1 GCCCAATAACTTAATTAAACAATTTAATCAATTAG
* * *
11141442 GCCAAACAATTTAATTAAACAATTGTAATCAATTAG
1 GCCCAATAACTTAATTAAACAATT-TAATCAATTAG
* *
11141478 GCCCAATGACTTAATTAAACATATTTAATCAACTAG
1 GCCCAATAACTTAATTAAACA-ATTTAATCAATTAG
* * * *
11141514 GCCTAATGACTTAATTAAACAATTTAATTAATTTG
1 GCCCAATAACTTAATTAAACAATTTAATCAATTAG
* *
11141549 G---TACAACTTAATTAAACAACTTTAATCAA
1 GCCCAATAACTTAATTAAACAA-TTTAATCAA
11141578 GTACTTGAAA
Statistics
Matches: 115, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
32 15 0.13
33 8 0.07
35 33 0.29
36 56 0.49
37 3 0.03
ACGTcount: A:0.45, C:0.15, G:0.06, T:0.33
Consensus pattern (35 bp):
GCCCAATAACTTAATTAAACAATTTAATCAATTAG
Found at i:11148045 original size:21 final size:20
Alignment explanation
Indices: 11148021--11148068 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
11148011 ATCTTACCTT
*
11148021 TTTTTCACTTGTTTCCTTGAA
1 TTTTTCACTT-TTCCCTTGAA
*
11148042 TTTTCACACTTTTCCCTTGAA
1 TTTT-TCACTTTTCCCTTGAA
11148063 TTTTTC
1 TTTTTC
11148069 CACCTAGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTCACTTTTCCCTTGAA
Found at i:11148068 original size:22 final size:22
Alignment explanation
Indices: 11148026--11148066 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
11148016 ACCTTTTTTT
*
11148026 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
11148048 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
11148067 TCCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:11148383 original size:28 final size:28
Alignment explanation
Indices: 11148324--11148383 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
11148314 TGGGTGGTGT
* * * *
11148324 AAAATTACAATTTTGCCCTTAGGGTGGC
1 AAAATGACAATTTTGCCCTTAGGCTCGA
* *
11148352 AAAATGACTATTTTGCCCTTATGCTCGA
1 AAAATGACAATTTTGCCCTTAGGCTCGA
11148380 AAAA
1 AAAA
11148384 ATGTCGAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (28 bp):
AAAATGACAATTTTGCCCTTAGGCTCGA
Found at i:11162348 original size:35 final size:36
Alignment explanation
Indices: 11162309--11162400 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 36
11162299 TAGCCGGAGT
* *
11162309 CATCGTGT-TTACCCCACATTGCGCACAACTAATAC
1 CATCGTGTGCTACCCCACATCGCGCACAACTAATAC
* * *
11162344 CATCGTGTGCTCCCCCACATCGCGCACAGCTAATGC
1 CATCGTGTGCTACCCCACATCGCGCACAACTAATAC
* *
11162380 CATTGTGTGCTCCCCCACATC
1 CATCGTGTGCTACCCCACATC
11162401 ACACACAGGC
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
35 8 0.16
36 42 0.84
ACGTcount: A:0.22, C:0.39, G:0.15, T:0.24
Consensus pattern (36 bp):
CATCGTGTGCTACCCCACATCGCGCACAACTAATAC
Found at i:11162363 original size:36 final size:36
Alignment explanation
Indices: 11162320--11162400 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
11162310 ATCGTGTTTA
*
11162320 CCCCACATTGCGCACAACTAATACCATCGTGTGCTC
1 CCCCACATCGCGCACAACTAATACCATCGTGTGCTC
* * *
11162356 CCCCACATCGCGCACAGCTAATGCCATTGTGTGCTC
1 CCCCACATCGCGCACAACTAATACCATCGTGTGCTC
11162392 CCCCACATC
1 CCCCACATC
11162401 ACACACAGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.22, C:0.42, G:0.15, T:0.21
Consensus pattern (36 bp):
CCCCACATCGCGCACAACTAATACCATCGTGTGCTC
Found at i:11162408 original size:36 final size:36
Alignment explanation
Indices: 11162332--11162408 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
11162322 CCACATTGCG
* * *
11162332 CACAACTAATACCATCGTGTGCTCCCCCACATCGCG
1 CACAGCTAATACCATCGTGTGCTCCCCCACATCACA
* *
11162368 CACAGCTAATGCCATTGTGTGCTCCCCCACATCACA
1 CACAGCTAATACCATCGTGTGCTCCCCCACATCACA
11162404 CACAG
1 CACAG
11162409 GCAATATCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.40, G:0.14, T:0.19
Consensus pattern (36 bp):
CACAGCTAATACCATCGTGTGCTCCCCCACATCACA
Found at i:11165686 original size:10 final size:10
Alignment explanation
Indices: 11165632--11165686 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
11165622 TGTTGAGTAG
**
11165632 TTAATTTAAA
1 TTAATTTACT
*
11165642 TTAATTTAAT
1 TTAATTTACT
11165652 TTAATTTTACT
1 TTAA-TTTACT
* *
11165663 TTATTTTGCT
1 TTAATTTACT
11165673 TTAATTTACT
1 TTAATTTACT
11165683 TTAA
1 TTAA
11165687 GCATAGTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
10 30 0.79
11 8 0.21
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (10 bp):
TTAATTTACT
Found at i:11169314 original size:55 final size:55
Alignment explanation
Indices: 11169230--11169395 Score: 244
Period size: 55 Copynumber: 3.0 Consensus size: 55
11169220 TAAACATGTA
** * * *
11169230 ATCATCCACCGGTCATCAACTCATATGCACTCCCACACCGTATATAGCTAGAATC
1 ATCATCCACCGGTCATCAGGTCATGTGCACTCCCACACCGCACATAGCTAGAATC
* *
11169285 ATCATCCACCCGTCATCAGGTCATGTGCACTCCCACACCACACATAGCT-GAAATC
1 ATCATCCACCGGTCATCAGGTCATGTGCACTCCCACACCGCACATAGCTAG-AATC
*
11169340 ATCATCCACCGGTCATCAGGTCATGTGCACTCCTACACCGCACATAGCTAGAATC
1 ATCATCCACCGGTCATCAGGTCATGTGCACTCCCACACCGCACATAGCTAGAATC
11169395 A
1 A
11169396 CCTGTCATCA
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
54 1 0.01
55 97 0.98
56 1 0.01
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.22
Consensus pattern (55 bp):
ATCATCCACCGGTCATCAGGTCATGTGCACTCCCACACCGCACATAGCTAGAATC
Found at i:11178521 original size:55 final size:55
Alignment explanation
Indices: 11178440--11178550 Score: 168
Period size: 55 Copynumber: 2.0 Consensus size: 55
11178430 TAAACATGTA
* *
11178440 ATCATCCACCGATCATCAGCTTATGTGCACTCCCACATCGCACATAGCTGGAATC
1 ATCATCCACCGATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATC
* * * *
11178495 ATCATCCATCGGTCATTAGCTCATGTGCACTCCCACACCGTACATAGCTGGAATC
1 ATCATCCACCGATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATC
11178550 A
1 A
11178551 CCCATCATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (55 bp):
ATCATCCACCGATCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATC
Found at i:11178575 original size:49 final size:53
Alignment explanation
Indices: 11178462--11178588 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 53
11178452 TCATCAGCTT
* * *
11178462 ATGTGCACTCCCACATCGCACATAGCTGGAATCATCATCCATCGGTCATTAGCTC
1 ATGTGCACTCCCACACCGCACATAGCTGGAATCATCA-CCATCGATCA-TAGCGC
*
11178517 ATGTGCACTCCCACACCGTACATAGCTGGAATCA-C-CCATC-ATCA-A-CGGC
1 ATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCATCGATCATAGC-GC
*
11178566 ATGTGCACTCCCACACCGGACAT
1 ATGTGCACTCCCACACCGCACAT
11178589 GCGTGGTTAC
Statistics
Matches: 66, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
48 1 0.02
49 24 0.36
51 3 0.05
52 5 0.08
54 1 0.02
55 32 0.48
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (53 bp):
ATGTGCACTCCCACACCGCACATAGCTGGAATCATCACCATCGATCATAGCGC
Found at i:11183488 original size:43 final size:43
Alignment explanation
Indices: 11183440--11183557 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
11183430 AAATTATATG
* *
11183440 GACTCGGCTATGTACGAGTAGGGAGTGCGCATAAGCCGATGAT
1 GACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAACCGATGAT
** * * * *
11183483 GACTCGATTATGTGCGAGTAAGGAGTGCGTAAAAACCGGTGAT
1 GACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAACCGATGAT
* * *
11183526 GACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 GACTCGGCTATGTGCGAGTAGGGAGTGCGCAT
11183558 GAGCTGGTGA
Statistics
Matches: 59, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.19, G:0.35, T:0.20
Consensus pattern (43 bp):
GACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAACCGATGAT
Found at i:11183567 original size:43 final size:43
Alignment explanation
Indices: 11183449--11183570 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
11183439 GGACTCGGCT
* * * **
11183449 ATGTACGAGTAGGGAGTGCGCATAAGCCGATGATGACTCGATT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCGACC
* * * *
11183492 ATGTGCGAGTAAGGAGTGCGTAAAAACCGGTGATGACCC-AGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCGA-CC
* *
11183535 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
11183571 TGGGATGGTG
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 1 0.02
43 62 0.98
ACGTcount: A:0.27, C:0.16, G:0.36, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCGACC
Found at i:11188516 original size:73 final size:74
Alignment explanation
Indices: 11188378--11188592 Score: 226
Period size: 73 Copynumber: 2.9 Consensus size: 74
11188368 AAATTCAAAT
* * * * *
11188378 TTTCAGATAG-AGAGCTCTTAGTCGACTAATG-TACTTCTTAGTTGATTAAGTTGGTTCTATCTT
1 TTTCAGGTAGTAG-GCTCTTAGTCGACTAACGATTCCTCTTAGTCGATTAAGTTGGTTCTAT-TT
*
11188441 CTGATCCCAG-
64 CTGAACCCAGC
*
11188451 TTTCAGGTAGTAGGCTCTTAGACGACTAACGATTCCTCTTAGTCGATTAAGTTGGTTCTATTTCT
1 TTTCAGGTAGTAGGCTCTTAGTCGACTAACGATTCCTCTTAGTCGATTAAGTTGGTTCTATTTCT
* *
11188516 GAACTCTGC
66 GAACCCAGC
* * * * *
11188525 TTT-TGGTAGTAAG-TACTTAGTCGACTAACAATAT-CTCTTAGTCGATTAAGTTGGTTTTGTTT
1 TTTCAGGTAGTAGGCT-CTTAGTCGACTAACGAT-TCCTCTTAGTCGATTAAGTTGGTTCTATTT
11188587 CTGAAC
64 CTGAAC
11188593 TGGCCATCTT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
72 1 0.01
73 89 0.73
74 32 0.26
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (74 bp):
TTTCAGGTAGTAGGCTCTTAGTCGACTAACGATTCCTCTTAGTCGATTAAGTTGGTTCTATTTCT
GAACCCAGC
Found at i:11197782 original size:19 final size:19
Alignment explanation
Indices: 11197755--11197792 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11197745 CCATTTGACT
11197755 TATTAGAGTACGATTTGAG
1 TATTAGAGTACGATTTGAG
* *
11197774 TATTGGAGTATGATTTGAG
1 TATTAGAGTACGATTTGAG
11197793 GTTAAGAAGT
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:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTAGAGTACGATTTGAG
Found at i:11202389 original size:19 final size:19
Alignment explanation
Indices: 11202365--11202463 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 19
11202355 TGCCCGTGTG
11202365 CACGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
**** *
11202384 CACGATG-GCACTGATTGTG
1 CACGATGTGGGGGGA-TGTA
*
11202403 CACGATGTGGGGGGATGCA
1 CACGATGTGGGGGGATGTA
* * ** *
11202422 CACAATGGTGCCGGCTATGTG
1 CACGAT-GTG-GGGGGATGTA
*
11202443 CAAGATGTGGGGGGATGTA
1 CACGATGTGGGGGGATGTA
11202462 CA
1 CA
11202464 TGAGCCGGGT
Statistics
Matches: 53, Mismatches: 23, Indels: 8
0.63 0.27 0.10
Matches are distributed among these distances:
18 3 0.06
19 32 0.60
20 9 0.17
21 9 0.17
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.21
Consensus pattern (19 bp):
CACGATGTGGGGGGATGTA
Found at i:11202403 original size:38 final size:40
Alignment explanation
Indices: 11202361--11202463 Score: 131
Period size: 38 Copynumber: 2.6 Consensus size: 40
11202351 ATAGTGCCCG
* *
11202361 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACAATGGTGC-CGGATA
* *
11202399 TGTGCACGATGTGGGGGGATGCACACAATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACAATGGTGCCGGATA
*
11202439 TGTGCAAGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
11202464 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 27 0.48
39 4 0.07
40 25 0.45
ACGTcount: A:0.21, C:0.16, G:0.41, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACAATGGTGCCGGATA
Found at i:11207898 original size:73 final size:73
Alignment explanation
Indices: 11207749--11207953 Score: 263
Period size: 73 Copynumber: 2.8 Consensus size: 73
11207739 TTTAGACAGA
* * * *
11207749 AAGCTCTTAGTCGACTAAC-ATACTTCTTAGTCGATTAAGTTGGTTCTGTCTTCT-AATCCCAGT
1 AAGCTCTTAGTCGACTAACAATTCCTCTTAGTCGATTAAGTTGGTTCTGT-TTCTGAA-CTCAGC
* *
11207812 TTCAGGTAGT
64 TTCACGCAGT
* * *
11207822 AAGCTTTTAGTTGACTAACAATTCCTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACTCGGCTT
1 AAGCTCTTAGTCGACTAACAATTCCTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACTCAGCTT
*
11207887 CCCGCAGT
66 CACGCAGT
*
11207895 AAGCGCTTAGTCGACTAACAATAT-CTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACT
1 AAGCTCTTAGTCGACTAACAAT-TCCTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACT
11207954 TGCCATCTTC
Statistics
Matches: 116, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
73 85 0.73
74 31 0.27
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (73 bp):
AAGCTCTTAGTCGACTAACAATTCCTCTTAGTCGATTAAGTTGGTTCTGTTTCTGAACTCAGCTT
CACGCAGT
Found at i:11208740 original size:28 final size:28
Alignment explanation
Indices: 11208704--11208912 Score: 186
Period size: 28 Copynumber: 7.3 Consensus size: 28
11208694 AATAAAGGTA
* * * *
11208704 AAACGTGTTATCTTCTCTATATTGAGAC
1 AAACATGTTTTCTTCTCTAAATTAAGAC
* *
11208732 AAACATGTTTTCTTATCTAGATTAAGAC
1 AAACATGTTTTCTTCTCTAAATTAAGAC
* * * *
11208760 AAAATATACTTTTCTTGTCTTAAATTAAGAG
1 -AAACAT-GTTTTCTTCTC-TAAATTAAGAC
*
11208791 AAACATGTTTTCTTCTCTAAATTAAGAG
1 AAACATGTTTTCTTCTCTAAATTAAGAC
* * * *
11208819 AAACATGTTTTGTTGTCTGAATTAAAAC
1 AAACATGTTTTCTTCTCTAAATTAAGAC
**
11208847 AAAACATGTTACCTTGC-CTTAAATTAAGAC
1 -AAACATGTTTTCTT-CTC-TAAATTAAGAC
* *
11208877 AAACATGTTTTCTTGTCTAAATTAACAC
1 AAACATGTTTTCTTCTCTAAATTAAGAC
11208905 AAACATGT
1 AAACATGT
11208913 AAAAGTGCCA
Statistics
Matches: 146, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
28 75 0.51
29 39 0.27
30 23 0.16
31 9 0.06
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (28 bp):
AAACATGTTTTCTTCTCTAAATTAAGAC
Found at i:11211640 original size:42 final size:43
Alignment explanation
Indices: 11211597--11211680 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
11211587 TAATGAGGAC
11211597 CCCA-TTATGTGCGGTGTGGG-GTGCACATGAGCTGATGATGA
1 CCCAGTTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGA
11211638 CCCAGTTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGA
1 CCCAGTTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGA
11211681 TGATATTGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
41 4 0.10
42 16 0.39
43 21 0.51
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (43 bp):
CCCAGTTATGTGCGGTGTGGGAGTGCACATGAGCTGATGATGA
Found at i:11211696 original size:46 final size:43
Alignment explanation
Indices: 11211589--11211680 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 43
11211579 TCTTGTGATA
* *
11211589 ATGAGGACCCCATTATGTGCGGTGTGGG-GTGCACATGAGCTG
1 ATGATGACCCAATTATGTGCGGTGTGGGAGTGCACATGAGCTG
*
11211631 ATGATGACCCAGTTATGTGCGGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAATTATGTGCGGTGTGGGAGTGCACATGAGCTG
11211674 ATGATGA
1 ATGATGA
11211681 TGATATTGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 25 0.54
43 21 0.46
ACGTcount: A:0.22, C:0.16, G:0.37, T:0.25
Consensus pattern (43 bp):
ATGATGACCCAATTATGTGCGGTGTGGGAGTGCACATGAGCTG
Found at i:11216109 original size:35 final size:35
Alignment explanation
Indices: 11216058--11216145 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
11216048 TGGTGATGTG
* * *
11216058 GTGTGGGAGTGCACATGATGATATTGCTGTGTGCA
1 GTGTAGGAGTGCACATGATGATATTACTGTGTACA
*
11216093 GTGTAGGAGTGCACATGATGATATTACTGTGTACG
1 GTGTAGGAGTGCACATGATGATATTACTGTGTACA
11216128 GTGTAGGAGTGCACATGA
1 GTGTAGGAGTGCACATGA
11216146 GCTGGGGTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.24, C:0.11, G:0.35, T:0.30
Consensus pattern (35 bp):
GTGTAGGAGTGCACATGATGATATTACTGTGTACA
Found at i:11216525 original size:62 final size:62
Alignment explanation
Indices: 11216404--11216572 Score: 185
Period size: 62 Copynumber: 2.7 Consensus size: 62
11216394 AACATCATTT
* * * * * * *
11216404 TCGCCACAGCCAAATTGATTTTTGTCACAGCGAGAAACTTTCTGCGTTAAGAGTTACTATTC
1 TCGCCATAGCCAAATTGATTTTAGCCGCGGCGAGAAACTTTCTGCCTTAAGAGTCACTATTC
* * * * * **
11216466 TTGCCGTAGCCAAATTGATTTTCGCCGCGGCGATAAACTTTTTGCCTTTGGAGTCACTATTC
1 TCGCCATAGCCAAATTGATTTTAGCCGCGGCGAGAAACTTTCTGCCTTAAGAGTCACTATTC
* *
11216528 TCGCCATAGCCAAATTTGATTCTAGCCGCGGCGAGAAACTCTCTG
1 TCGCCATAGCCAAA-TTGATTTTAGCCGCGGCGAGAAACTTTCTG
11216573 TCTTGTTTGG
Statistics
Matches: 86, Mismatches: 20, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
62 61 0.71
63 25 0.29
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (62 bp):
TCGCCATAGCCAAATTGATTTTAGCCGCGGCGAGAAACTTTCTGCCTTAAGAGTCACTATTC
Found at i:11217895 original size:55 final size:56
Alignment explanation
Indices: 11217810--11218031 Score: 317
Period size: 55 Copynumber: 4.0 Consensus size: 56
11217800 ATGTATACAA
* *
11217810 CCACCGACTCATCAACTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
1 CCACCGACTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCAT
* *
11217866 CCACCGA-TCGTCAGCTCATGTGCACTCCCACACCGCACATAGCTGGAATCATCAT
1 CCACCGACTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCAT
* * *
11217921 CCACC-AGTCATCAGCTCATATGCACTCCCACACTGCACATAGCTAGAATCATCA-
1 CCACCGACTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCAT
* **
11217975 CCACTG-GGCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCACTCAT
1 CCACCGACTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCA-TCAT
11218031 C
1 C
11218032 ATCACCAGCA
Statistics
Matches: 152, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
54 47 0.31
55 97 0.64
56 8 0.05
ACGTcount: A:0.28, C:0.38, G:0.14, T:0.20
Consensus pattern (56 bp):
CCACCGACTCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCATCAT
Found at i:11218062 original size:49 final size:51
Alignment explanation
Indices: 11217827--11218062 Score: 228
Period size: 55 Copynumber: 4.5 Consensus size: 51
11217817 CTCATCAACT
* * *
11217827 CATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCG-ATCGTCAGC
1 CATGTGCACTCCCACACTGCACATAGCTAGAATCATCA-CCACTGCA-C--CAGC
* * * *
11217881 TCATGTGCACTCCCACACCGCACATAGCTGGAATCATCATCCACCAGTCATCAGC
1 -CATGTGCACTCCCACACTGCACATAGCTAGAATCATCA-CCA-CTG-CACCAGC
* *
11217936 TCATATGCACTCCCACACTGCACATAGCTAGAATCATCACCACTGGGCATCAGC
1 -CATGTGCACTCCCACACTGCACATAGCTAGAATCATCACCACT--GCACCAGC
* *
11217990 TCATGTGCACTCCCACACCGCACATAGCTAGAATCACTCATCA-T-CACCAG-
1 -CATGTGCACTCCCACACTGCACATAGCTAGAATCA-TCACCACTGCACCAGC
11218040 CATGTGCACTCCCACACTGCACA
1 CATGTGCACTCCCACACTGCACA
11218063 NNNNNNNNNN
Statistics
Matches: 164, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
49 22 0.13
51 5 0.03
53 1 0.01
54 45 0.27
55 88 0.54
56 2 0.01
58 1 0.01
ACGTcount: A:0.28, C:0.38, G:0.14, T:0.19
Consensus pattern (51 bp):
CATGTGCACTCCCACACTGCACATAGCTAGAATCATCACCACTGCACCAGC
Found at i:11218567 original size:2 final size:2
Alignment explanation
Indices: 11218560--11218600 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11218550 NNNNNNNNNN
11218560 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11218601 TGTCTAAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11219596 original size:63 final size:63
Alignment explanation
Indices: 11219495--11219649 Score: 206
Period size: 63 Copynumber: 2.5 Consensus size: 63
11219485 TACTGGCATG
* *
11219495 TGCACTGCCCAC-TCGGCACATGCACAGTTGTAAGTGTCACAACATCGTCATTCGACCGACATA
1 TGCACTGCCCACTTC-GCACATGCACGGTTGTAAGTGTCACAACATCGTCATTCAACCGACATA
* ** *
11219558 TGCACTGCCCACTTCGCATATGCACGGTTGT-AGTTGTCATTACATCGTCATTCAACCGGCATA
1 TGCACTGCCCACTTCGCACATGCACGGTTGTAAG-TGTCACAACATCGTCATTCAACCGACATA
* *
11219621 GGCACTGCCCACTCCGCACATGCACGGTT
1 TGCACTGCCCACTTCGCACATGCACGGTT
11219650 ACATCAATTA
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
62 2 0.02
63 77 0.95
64 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (63 bp):
TGCACTGCCCACTTCGCACATGCACGGTTGTAAGTGTCACAACATCGTCATTCAACCGACATA
Found at i:11221475 original size:14 final size:14
Alignment explanation
Indices: 11221456--11221505 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
11221446 AGAAAGAAGT
**
11221456 AAGAAAAGAAAGGA
1 AAGAAAAGAAAACA
*
11221470 AGGAAAAGAAAACA
1 AAGAAAAGAAAACA
*
11221484 AAGAAAAGAAAATGA
1 AAGAAAAGAAAA-CA
11221499 AAGAAAA
1 AAGAAAA
11221506 TTGATTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 22 0.73
15 8 0.27
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
AAGAAAAGAAAACA
Found at i:11221478 original size:19 final size:19
Alignment explanation
Indices: 11221456--11221504 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
11221446 AGAAAGAAGT
* *
11221456 AAGAAAAGAAAGGAAGGAA
1 AAGAAAAGAAAGAAAAGAA
*
11221475 AAGAAAACAAAGAAAAGAA
1 AAGAAAAGAAAGAAAAGAA
11221494 AATG-AAAGAAA
1 AA-GAAAAGAAA
11221505 ATTGATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 24 0.96
20 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.02
Consensus pattern (19 bp):
AAGAAAAGAAAGAAAAGAA
Found at i:11221983 original size:33 final size:33
Alignment explanation
Indices: 11221946--11222011 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
11221936 TTTGATACTG
11221946 AATAAAATATTAATAGTTTAATATTATTTTATT
1 AATAAAATATTAATAGTTTAATATTATTTTATT
11221979 AATAAAATATTAATAGTTTAATATTATTTTATT
1 AATAAAATATTAATAGTTTAATATTATTTTATT
11222012 CTAAAATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (33 bp):
AATAAAATATTAATAGTTTAATATTATTTTATT
Found at i:11221999 original size:19 final size:19
Alignment explanation
Indices: 11221946--11222001 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
11221936 TTTGATACTG
11221946 AATAAAATATTAATAGTTT
1 AATAAAATATTAATAGTTT
* *
11221965 AAT--ATTATT-TTA--TT
1 AATAAAATATTAATAGTTT
11221979 AATAAAATATTAATAGTTT
1 AATAAAATATTAATAGTTT
11221998 AATA
1 AATA
11222002 TTATTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
14 5 0.18
16 7 0.25
17 7 0.25
19 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
AATAAAATATTAATAGTTT
Found at i:11223234 original size:22 final size:22
Alignment explanation
Indices: 11223186--11223227 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
11223176 ACTACCAAAT
*
11223186 GTATCTTATACACTTTGAATAA
1 GTATCTTATACACTTTAAATAA
11223208 GTATCTTATACACTTTAAAT
1 GTATCTTATACACTTTAAAT
11223228 TATTATCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (22 bp):
GTATCTTATACACTTTAAATAA
Found at i:11226415 original size:25 final size:25
Alignment explanation
Indices: 11226384--11226443 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
11226374 GTGGTCACAA
* *
11226384 CCACGTATATCAACTAGTGGCCTAG
1 CCACGTATAACAACCAGTGGCCTAG
* * * *
11226409 CCTCGTAAAACAACCCGTGGCCTTG
1 CCACGTATAACAACCAGTGGCCTAG
11226434 CCACGTATAA
1 CCACGTATAA
11226444 TCCCAAATCG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (25 bp):
CCACGTATAACAACCAGTGGCCTAG
Found at i:11232619 original size:37 final size:37
Alignment explanation
Indices: 11232578--11232650 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
11232568 ATAATGTTGT
* **
11232578 ATGATGATAATGAGGTGTGCGAGTAGGGAGTGCACAC
1 ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACAC
*
11232615 ATGATGACATTGAAATGTGCGAGTAGGGAGTGCACA
1 ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACA
11232651 TATGGTGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.22
Consensus pattern (37 bp):
ATGATGACAATGAAATGTGCGAGTAGGGAGTGCACAC
Found at i:11236252 original size:28 final size:30
Alignment explanation
Indices: 11236194--11236253 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
11236184 TTTTTGAAAT
*
11236194 TTACACTTTTGCCCTCATAAAAGTCAAAAA
1 TTACACTTTTGCCCTCATAAAACTCAAAAA
* *
11236224 TTACATTTTTGCCC-CA-AAAACTGAAAAA
1 TTACACTTTTGCCCTCATAAAACTCAAAAA
11236252 TT
1 TT
11236254 GCTCATAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 12 0.44
29 2 0.07
30 13 0.48
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (30 bp):
TTACACTTTTGCCCTCATAAAACTCAAAAA
Found at i:11236616 original size:19 final size:20
Alignment explanation
Indices: 11236588--11236626 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11236578 ATTTTGGGAA
11236588 TTTAATATTCT-TAATTTGAT
1 TTTAATATTCTCT-ATTTGAT
11236608 TTTAA-ATTCTCTATTTGAT
1 TTTAATATTCTCTATTTGAT
11236627 CTAGTTCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTAATATTCTCTATTTGAT
Found at i:11238468 original size:21 final size:19
Alignment explanation
Indices: 11238432--11238472 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
11238422 ACATGTTGAG
11238432 TAGTTAATTTAAGTTATTT
1 TAGTTAATTTAAGTTATTT
*
11238451 TAGTTAAATTTTATGTTATTT
1 TAGTT-AA-TTTAAGTTATTT
11238472 T
1 T
11238473 GTCTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 2 0.11
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (19 bp):
TAGTTAATTTAAGTTATTT
Found at i:11239354 original size:28 final size:29
Alignment explanation
Indices: 11239313--11239372 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
11239303 GTCTATGGGC
*
11239313 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
11239341 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
11239371 AA
1 AA
11239373 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:11244516 original size:53 final size:53
Alignment explanation
Indices: 11244452--11244553 Score: 170
Period size: 54 Copynumber: 1.9 Consensus size: 53
11244442 AGAAAGCATG
*
11244452 GGTAGTGTAAAT-CACAAGATAAAATCACAAAATTTTACCTTTATTAGCTTAA
1 GGTAGTATAAATACACAAGATAAAATCACAAAATTTTACCTTTATTAGCTTAA
*
11244504 NGGTAGTATAAATACATAAGATAAAATCACAAAATTTTACCTTTATTAGC
1 -GGTAGTATAAATACACAAGATAAAATCACAAAATTTTACCTTTATTAGC
11244554 ATAATCCCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 11 0.24
54 35 0.76
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (53 bp):
GGTAGTATAAATACACAAGATAAAATCACAAAATTTTACCTTTATTAGCTTAA
Found at i:11248149 original size:43 final size:43
Alignment explanation
Indices: 11248051--11248155 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
11248041 CTCGACTATG
* * * * *
11248051 TGCGAGTAGGGAATACGCATAAGCCGATGATGACCTGGTCATG
1 TGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCTAGCCATA
*
11248094 TGCGAGTAGGGAGTGCGCATAA-CCTAGTGATGACCTAGCCATA
1 TGCGAGTAGGGAGTGCGCATAAGCCGA-TGATGACCTAGCCATA
11248137 TGCGAGTAGGGAGTGCGCA
1 TGCGAGTAGGGAGTGCGCA
11248156 AGAGTTGGGA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 3 0.05
43 52 0.95
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.20
Consensus pattern (43 bp):
TGCGAGTAGGGAGTGCGCATAAGCCGATGATGACCTAGCCATA
Found at i:11258079 original size:21 final size:20
Alignment explanation
Indices: 11258039--11258083 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
11258029 TTAAAGTAAT
11258039 TTAAAATAAAATAACATAAAA
1 TTAAAATAAAATAACAT-AAA
* **
11258060 TTAAACTAAAATAATTTAAA
1 TTAAAATAAAATAACATAAA
11258080 TTAA
1 TTAA
11258084 CTACTCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TTAAAATAAAATAACATAAA
Found at i:11259337 original size:21 final size:21
Alignment explanation
Indices: 11259297--11259339 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
11259287 TGAAAACTAT
**
11259297 GTCATCTATCGATAGGTGGGA
1 GTCATCTATCGATAAATGGGA
11259318 GTCATCTATCGATAAATGGGA
1 GTCATCTATCGATAAATGGGA
11259339 G
1 G
11259340 CAAATGGGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (21 bp):
GTCATCTATCGATAAATGGGA
Found at i:11285651 original size:69 final size:69
Alignment explanation
Indices: 11285502--11285673 Score: 166
Period size: 69 Copynumber: 2.5 Consensus size: 69
11285492 GGGTGTTATA
* * * * * *
11285502 GCCCAACTTAACCCTATCGTATTCTTACTCCCACACCGGGATCCATAAAGAGAGGAAAAGTTGTA
1 GCCCAACTTAACCCTATCGCATTCTTACCCCCACACCAGCATCCATAAAAAGAGGAAAAGTGGTA
11285567 CAAT
66 CAAT
*** * * * * *
11285571 ATGCAAATTAACCCTATGGCATTTTTACCCCCACACTAGCA-CTCATAAAAAGGGGAAAAGTGGT
1 GCCCAACTTAACCCTATCGCATTCTTACCCCCACACCAGCATC-CATAAAAAGAGGAAAAGTGGT
11285635 ACAAT
65 ACAAT
* * * *
11285640 GCCCAACTTAACCTTGTAGTATTCTTACCCCCAC
1 GCCCAACTTAACCCTATCGCATTCTTACCCCCAC
11285674 TCTAAAACTA
Statistics
Matches: 79, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
68 1 0.01
69 78 0.99
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (69 bp):
GCCCAACTTAACCCTATCGCATTCTTACCCCCACACCAGCATCCATAAAAAGAGGAAAAGTGGTA
CAAT
Found at i:11289296 original size:10 final size:10
Alignment explanation
Indices: 11289281--11289305 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11289271 TATTTCATAA
11289281 ACATATATAT
1 ACATATATAT
11289291 ACATATATAT
1 ACATATATAT
11289301 ACATA
1 ACATA
11289306 GATAAACACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (10 bp):
ACATATATAT
Found at i:11290298 original size:22 final size:21
Alignment explanation
Indices: 11290273--11290321 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
11290263 AAGGGCAGAA
*
11290273 GGAAGGAGAAGAAGAAGTTGCT
1 GGAAGGAGAA-AAGAAGCTGCT
* *
11290295 GGAAATGCGAAAAGAAGCTGCT
1 GG-AAGGAGAAAAGAAGCTGCT
11290317 GGAAG
1 GGAAG
11290322 CTGATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
21 2 0.09
22 14 0.64
23 6 0.27
ACGTcount: A:0.41, C:0.08, G:0.39, T:0.12
Consensus pattern (21 bp):
GGAAGGAGAAAAGAAGCTGCT
Found at i:11292227 original size:127 final size:128
Alignment explanation
Indices: 11292031--11292269 Score: 311
Period size: 130 Copynumber: 1.9 Consensus size: 128
11292021 CCAATCTTAC
* * * *
11292031 CCATATGTCCTCTATCTTTCCTGATCTCCAAGTTTCGAAATTTTGTCTTTTGTCTCTAAAAATCA
1 CCATATGTCCTCTACCTTTCCTAATCTCCAAGTTTCGAAATTTTGTCTTTAGTCTCCAAAAATCA
* *
11292096 A-TTCTTCTCCAAAAGTTAGTTCTTTGATCTTCCAAATTAGCATGCTGGATTTTTGGCTTTAT
66 ATTTCTTCTCCAAAAGTTAGTTCTTTAATCTTCAAAATTAGCATGCTGGATTTTTGGCTTTAT
* * * * *
11292158 CCATATGTCCTTTCCCTTTCTTAATCTCCAAG-TTCTAAATTTTGTCTTTAGTGCTCCAAGAATC
1 CCATATGTCCTCTACCTTTCCTAATCTCCAAGTTTCGAAATTTTGTCTTTAGT-CTCCAAAAATC
* * *
11292222 GATTCTTCTTCTCCAGAAGTTGGTTCTTTAATCTTCAAAATTAGCATG
65 -AAT-TTCTTCTCCAAAAGTTAGTTCTTTAATCTTCAAAATTAGCATG
11292270 TTGACTTCTT
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
126 18 0.19
127 36 0.38
128 1 0.01
130 39 0.41
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (128 bp):
CCATATGTCCTCTACCTTTCCTAATCTCCAAGTTTCGAAATTTTGTCTTTAGTCTCCAAAAATCA
ATTTCTTCTCCAAAAGTTAGTTCTTTAATCTTCAAAATTAGCATGCTGGATTTTTGGCTTTAT
Found at i:11294617 original size:23 final size:23
Alignment explanation
Indices: 11294553--11294619 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
11294543 TATTTTATTC
* *
11294553 TTTATTTTTAAAATATTAA-TAA
1 TTTATATTTAAAATATTAATTTA
*
11294575 TTTATAATTATAAATA-TAATTTA
1 TTTATATTTA-AAATATTAATTTA
11294598 TTTCA-ATTTAAAATATTAATTT
1 TTT-ATATTTAAAATATTAATTT
11294620 TTTGAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 16 0.43
23 20 0.54
24 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTATATTTAAAATATTAATTTA
Found at i:11299738 original size:18 final size:19
Alignment explanation
Indices: 11299709--11299744 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11299699 GAAGTTCAAG
*
11299709 TTTAATATTAATATGAAAA
1 TTTAATATTAATAAGAAAA
11299728 TTTAA-ATTAATAAGAAA
1 TTTAATATTAATAAGAAA
11299745 TTAAAGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.39
Consensus pattern (19 bp):
TTTAATATTAATAAGAAAA
Found at i:11302390 original size:22 final size:22
Alignment explanation
Indices: 11302362--11302423 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
11302352 CATGAATTAT
11302362 GCATTGCGTGACTGGTTTGTAG
1 GCATTGCGTGACTGGTTTGTAG
* **
11302384 GCATTGCTTGACTTCTTTGTAG
1 GCATTGCGTGACTGGTTTGTAG
*
11302406 GCATTGTGTGACTGGTTT
1 GCATTGCGTGACTGGTTT
11302424 TTAGTAATGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.13, C:0.15, G:0.31, T:0.42
Consensus pattern (22 bp):
GCATTGCGTGACTGGTTTGTAG
Found at i:11303500 original size:22 final size:22
Alignment explanation
Indices: 11303464--11303512 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11303454 GAGACATTGT
*
11303464 GTGACTAGTTTTTATGTATTAC
1 GTGACTAGTTGTTATGTATTAC
* *
11303486 GTGACTTGTTGTTATGTATTGC
1 GTGACTAGTTGTTATGTATTAC
11303508 GTGAC
1 GTGAC
11303513 GTTGGGCCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.47
Consensus pattern (22 bp):
GTGACTAGTTGTTATGTATTAC
Found at i:11303607 original size:189 final size:189
Alignment explanation
Indices: 11303336--11303701 Score: 515
Period size: 189 Copynumber: 1.9 Consensus size: 189
11303326 ACGGACAATG
* * *
11303336 CGTGACTGGGTATTTCGGCATAATGTGAGTCGATGTTAGGCATTGCATGACCTATTATTAGGTAT
1 CGTGACTGGGTATTTCGGCAAAACGTGAGTCGATATTAGGCATTGCATGACCTATTATTAGGTAT
*
11303401 TATGAGACTGAGTTATAGGCACTACGTGAATTGTGCAATGCATATCTTGTGTTGAGACATTGT-G
66 TACGAGACTGAGTTATAGGCACTACGTGAATTGTGCAATGCATATCTTGTGTTGAGACATT-TCG
* *
11303465 TGACTAGTTTTTATGTATTACGTGACTTG-TTGTTATGTATTGCGTGACGTTGGGCCAGTA
130 TGACTAGTTTTTAGGCATTACGTGAC-TGATTGTTATGTATTGCGTGACGTTGGGCCAGTA
* * * *
11303525 CGTGACTGGTTATGTT-GGCAAAACGTTAGTGGATATTAGGCATTG-AGTGACTTATTATTAGGT
1 CGTGACTGGGTAT-TTCGGCAAAACGTGAGTCGATATTAGGCATTGCA-TGACCTATTATTAGGT
* * *
11303588 ATTGCGAGACTGTGTTATAGGCACTGCGTGAATTGTGCAATGCATATCTTGTGTTGAGACATTTC
64 ATTACGAGACTGAGTTATAGGCACTACGTGAATTGTGCAATGCATATCTTGTGTTGAGACATTTC
* * * *
11303653 TTGACTATTTTTTAGGCATTGCGTGACTGATTTTTATGTATTGCGTGAC
129 GTGACTAGTTTTTAGGCATTACGTGACTGATTGTTATGTATTGCGTGAC
11303702 TTGTTATGTA
Statistics
Matches: 156, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
188 4 0.03
189 150 0.96
190 2 0.01
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.38
Consensus pattern (189 bp):
CGTGACTGGGTATTTCGGCAAAACGTGAGTCGATATTAGGCATTGCATGACCTATTATTAGGTAT
TACGAGACTGAGTTATAGGCACTACGTGAATTGTGCAATGCATATCTTGTGTTGAGACATTTCGT
GACTAGTTTTTAGGCATTACGTGACTGATTGTTATGTATTGCGTGACGTTGGGCCAGTA
Found at i:11303679 original size:22 final size:22
Alignment explanation
Indices: 11303661--11303702 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11303651 TCTTGACTAT
11303661 TTTTTAGGCATTGCGTGACTGA
1 TTTTTAGGCATTGCGTGACTGA
* *
11303683 TTTTTATGTATTGCGTGACT
1 TTTTTAGGCATTGCGTGACT
11303703 TGTTATGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.12, G:0.24, T:0.48
Consensus pattern (22 bp):
TTTTTAGGCATTGCGTGACTGA
Found at i:11307387 original size:23 final size:23
Alignment explanation
Indices: 11307357--11307412 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
11307347 TATACATATA
11307357 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
*
11307380 CCCATCATCTTCATGCACACCAT
1 CCCATCATCATCATGCACACCAT
11307403 CCCATCATCA
1 CCCATCATCA
11307413 CCAGCTCATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.29, C:0.45, G:0.04, T:0.23
Consensus pattern (23 bp):
CCCATCATCATCATGCACACCAT
Done.