Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 248 of 284
Found at i:83208918 original size:20 final size:20
Alignment explanation
Indices: 83208879--83208918 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
83208869 AAACTTCTTC
* *
83208879 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
83208899 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
83208919 TAATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:83209294 original size:55 final size:53
Alignment explanation
Indices: 83209151--83209359 Score: 179
Period size: 55 Copynumber: 3.9 Consensus size: 53
83209141 ATCCTTTTGA
* * *
83209151 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTACCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG
* * *
83209204 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTACCTTAT-G
* * * * *** * *
83209258 TAGCTTATCAATGCCATGTCTTGACGTGGTCTTACATGATTTCTTTGCCTTA-G
1 -AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG
* * * *
83209311 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 -AA-CTCACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTTA
83209360 AACCCTAATG
Statistics
Matches: 124, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.36
54 8 0.06
55 68 0.55
56 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTACCTTATG
Found at i:83219388 original size:48 final size:48
Alignment explanation
Indices: 83219226--83219636 Score: 357
Period size: 48 Copynumber: 8.6 Consensus size: 48
83219216 CATCAAGTCG
* * * *
83219226 ATGCCATGTCCCAGACATGGTCTTACACTAACTA--TCGAAATCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAAC-ACCTCTATA-CG-TGCCA
* * * * * * * *
83219275 ACGCCATGTCCCAGGCATGGTGTTACACTAGCTCTCACATATTCGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACAC-CTC-TATACGTGCCA
83219325 ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACGTGCCA
* * *
83219373 ATTCCATGTCCCAGACATGGTCTTACATTGACACCTCTATACGTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACGTGCCA
* *
83219421 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGTGTCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACGTGCCA
* * *
83219469 ATGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-CGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACGT-GCCA
** * *
83219515 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATC-ACAAC--GCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAAC--ACCTCTA-TACGTGCCA
* * *
83219561 AT-ACATGTCCCAGACAT-GTCTTACACTAGCTACCATCTCA-A--TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAAC-ACC-TCT-ATACGTGCCA
*
83219607 ATGCCATGTCCCAGACTTGGTCTTACACTA
1 ATGCCATGTCCCAGACATGGTCTTACACTA
83219637 GCACACAAAT
Statistics
Matches: 310, Mismatches: 35, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
44 12 0.04
45 20 0.06
46 50 0.16
47 13 0.04
48 147 0.47
49 31 0.10
50 33 0.11
51 3 0.01
52 1 0.00
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACCTCTATACGTGCCA
Found at i:83219571 original size:46 final size:45
Alignment explanation
Indices: 83219473--83219635 Score: 179
Period size: 46 Copynumber: 3.6 Consensus size: 45
83219463 GTGTCAATGC
* * *
83219473 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTACATCTC-AAGCCGATA
* *
83219518 CATGTCCCAGACAT-GTCTTACACTGGCTTACATCACAACGCCAATA
1 CATGTCCCAGACATGGTCTTACACTGGC-TACATCTCAA-GCCGATA
* *
83219564 CATGTCCCAGACAT-GTCTTACACTAGCTACCATCTCAATGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGGCTA-CATCTCAA-GCCGAT-A
*
83219611 CATGTCCCAGACTTGGTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
83219636 AGCACACAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 9
0.83 0.09 0.07
Matches are distributed among these distances:
44 12 0.12
45 17 0.17
46 49 0.49
47 13 0.13
48 10 0.10
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGGCTACATCTCAAGCCGATA
Found at i:83222967 original size:17 final size:17
Alignment explanation
Indices: 83222945--83222977 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83222935 TAGTTGGAGT
*
83222945 GAGTAAATGCAATGAGC
1 GAGTAAATACAATGAGC
83222962 GAGTAAATACAATGAG
1 GAGTAAATACAATGAG
83222978 TGAGGTACAT
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:0.45, C:0.09, G:0.27, T:0.18
Consensus pattern (17 bp):
GAGTAAATACAATGAGC
Found at i:83224340 original size:29 final size:29
Alignment explanation
Indices: 83224298--83224356 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
83224288 GTCGTGAATG
83224298 TAAGAAAGAAAACAAAAAAAAAGTGTCCA
1 TAAGAAAGAAAACAAAAAAAAAGTGTCCA
83224327 TAAGAAAGAAAACAAAAAAAAAGTGTCCA
1 TAAGAAAGAAAACAAAAAAAAAGTGTCCA
83224356 T
1 T
83224357 CTTTCTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.64, C:0.10, G:0.14, T:0.12
Consensus pattern (29 bp):
TAAGAAAGAAAACAAAAAAAAAGTGTCCA
Found at i:83225874 original size:79 final size:81
Alignment explanation
Indices: 83225738--83225922 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
83225728 TTGAATGATG
*
83225738 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
83225802 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
83225817 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
83225879 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
83225897 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
83225923 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:83225936 original size:40 final size:40
Alignment explanation
Indices: 83225739--83225922 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
83225729 TGAATGATGT
* * * *
83225739 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
83225779 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
83225819 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
83225857 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
83225898 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
83225923 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:83225944 original size:79 final size:79
Alignment explanation
Indices: 83225791--83225955 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
83225781 GGACTAAGAT
* **
83225791 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
83225856 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
83225870 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
83225933 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
83225949 CCGAAGG
1 CCGAAGG
83225956 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:83232070 original size:26 final size:24
Alignment explanation
Indices: 83232028--83232086 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
83232018 TCTTGTTTTA
*
83232028 ATATTTATTTTTATATTTTTAAAT
1 ATATTTATTTTTATATTTTAAAAT
83232052 ATATTTGATTTATTATATTTTAAAAT
1 ATATTT-ATTT-TTATATTTTAAAAT
*
83232078 -TTTTTATTT
1 ATATTTATTT
83232087 AATGAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 10 0.32
25 8 0.26
26 13 0.42
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTAAAAT
Found at i:83237518 original size:46 final size:48
Alignment explanation
Indices: 83237460--83237631 Score: 148
Period size: 46 Copynumber: 3.7 Consensus size: 48
83237450 GGGTTATTGT
83237460 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATG-A-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGA-GAAG
* * *
83237506 GAGCCAGTGTAAGACCATGTCTGGCACATGGCATC-G--GCATTGAGACAG
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTGAGA-AG
* * *
83237554 GTGCTAGTGTAAGA-ATGTCTGGGACATGCATCAG-C-C-TCGAGACG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGAGAAG
* * *
83237598 TAAGCTAGTGTAAGACAGGTTTGGGACATGCATC
1 -GAGCTAGTGTAAGACATGTCTGGGACATGCATC
83237632 GGCTACGAGA
Statistics
Matches: 104, Mismatches: 12, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
44 1 0.01
45 27 0.26
46 44 0.42
47 15 0.14
48 17 0.16
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGAGAAG
Found at i:83245170 original size:47 final size:44
Alignment explanation
Indices: 83245058--83245185 Score: 143
Period size: 47 Copynumber: 2.8 Consensus size: 44
83245048 GAGTTATTGT
*
83245058 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT-TG-CACATTATGA
*
83245104 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATTG-ACATTGA-GA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTGCACATT-ATGA
*
83245149 CGAGTGCTAGTGTAAGACATGTCTAGGACATGCATTG
1 -GA--GCTAGTGTAAGACATGTCTGGGACATGCATTG
83245186 GCTACGAGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
45 7 0.10
46 22 0.31
47 28 0.39
48 15 0.21
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATTGCACATTATGA
Found at i:83247540 original size:32 final size:32
Alignment explanation
Indices: 83247499--83247564 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
83247489 TTGCCTTATG
83247499 CCTCTAGTGGGACAAAACACCTCACCCTCTTT
1 CCTCTAGTGGGACAAAACACCTCACCCTCTTT
83247531 CCTCTAGTGGGACAAAACACCTCACCCTCTTT
1 CCTCTAGTGGGACAAAACACCTCACCCTCTTT
83247563 CC
1 CC
83247565 CATTAACCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.24, C:0.39, G:0.12, T:0.24
Consensus pattern (32 bp):
CCTCTAGTGGGACAAAACACCTCACCCTCTTT
Found at i:83255617 original size:45 final size:45
Alignment explanation
Indices: 83255561--83255648 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
83255551 TGATATCATT
*
83255561 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
* *
83255606 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGATTAGTA
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTA
83255649 CTGTACGATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
Found at i:83262472 original size:575 final size:574
Alignment explanation
Indices: 83261559--83262604 Score: 1984
Period size: 575 Copynumber: 1.8 Consensus size: 574
83261549 GGTAATTAAA
* *
83261559 AGTATAATGATGTATGCAATATGTGGAACTAATGAATACTTGGAAATGCAATGGCAAAACAAGGG
1 AGTATAATGATATATGCAATATGTGGAACTAATGAATACTTGGAAATGCAATGGCAAAACAAAGG
83261624 TAGGAATGTAATGGCAATTATGAGAATAACTACACGAATTATATGCAACAAATAAATAAACGACT
66 TAGGAATGTAATGGCAATTATGAGAATAACTACACGAATTATATGCAACAAATAAATAAACGACT
* *
83261689 AGGAATGCTATGGCAAAGCTACTAGGGTAAAAATAACGGTTATGCATGCTGAGTGGGAAGGTTGG
131 AGGAATGCTATAGAAAAGCTACTAGGGTAAAAATAACGGTTATGCATGCTGAGTGGGAAGGTTGG
* *
83261754 GATTACAAATAATCTAATTTTTCCTATCAGAAATGCCTCAGGAAAATCATATTTAACCTACTGCT
196 GATTACAAATAATCTAATTTTTCCTATCAGAAATGCCTCAGAAAAATCATATTTAACCTACTGCC
*
83261819 TAGAAGAGTTCTAAAGTTGCTTGCTTCTTCCAAAAAGAGAAACCCCAAGTTACTTTTCCTGTGTC
261 TAGAAGAGTTCTAAAGTTGCTTGCTGCTTCCAAAAAGAGAAACCCCAAGTTACTTTTCCTGTGTC
*
83261884 TTAGGCCTTTAATATGGTACCCTGTAATGTTTTCCTTTTGTATGAATGCAACTCTATGTCTAGAG
326 TTAGGCCTTTAATATGGTACCCTGTAATGTTTTCCTTTTGTAGGAATGCAACTCTATGTCTAGAG
*
83261949 TCTACTACAAGTATCTATCGAGTACTTGCCCATATCATTCAACCATGGTCCAACTAATCTAACCC
391 TCTACTACAAGTATCTATCGAGAACTTGCCCATATCATTCAACCATGGTCCAACTAATCTAACCC
83262014 TTTTAGAATTTAGATTAATTTAAGGGTATGTTGCATAGTCGACTATCTCTAAGGATTGCTCAAAT
456 TTTTAGAATTTAGATTAATTTAAGGGTATGTTGCATAGTCGACTATCTCTAAGGATTGCTCAAAT
83262079 ACATTGTAAAGAATAAAATAATTGAATGAAAGCTAGTTAAAGTTAGTTAAAGTT
521 ACATTGTAAAGAATAAAATAATTGAATGAAAGCTAGTTAAAGTTAGTTAAAGTT
83262133 AGTATAATGATATATGCAATATGTGGAACTAATGAATACTTGGAAATGCAATGGCAAAACAAAGG
1 AGTATAATGATATATGCAATATGTGGAACTAATGAATACTTGGAAATGCAATGGCAAAACAAAGG
*
83262198 TAGGAATGTAATGGCAATTATGAGAATAACTACATGAATTATATGCAACAAATAAATAAACGACT
66 TAGGAATGTAATGGCAATTATGAGAATAACTACACGAATTATATGCAACAAATAAATAAACGACT
*
83262263 AGGAATGCTATAGAAAAGCTACTAGGGTAAAGATAACGGTTATGCGATGCTGAGTGGGAAGGTTG
131 AGGAATGCTATAGAAAAGCTACTAGGGTAAAAATAACGGTTATGC-ATGCTGAGTGGGAAGGTTG
83262328 GGATTACAAATAATCTAATTTTTCCTATCAGAAATGCCTCAGAAAAATCATATTTAACCTACTGC
195 GGATTACAAATAATCTAATTTTTCCTATCAGAAATGCCTCAGAAAAATCATATTTAACCTACTGC
83262393 CTAGAAGAGTTCTAAAGTTGCTTGCTGCTTCCAAAAAGAGAAACCCCAAGTTACTTTTCCTGTGT
260 CTAGAAGAGTTCTAAAGTTGCTTGCTGCTTCCAAAAAGAGAAACCCCAAGTTACTTTTCCTGTGT
83262458 CTTAGGCCTTTAATATGGTACCCTGTAATGTTTTCCTTTTGTAGGAATGCAACTCTATGTCTAGA
325 CTTAGGCCTTTAATATGGTACCCTGTAATGTTTTCCTTTTGTAGGAATGCAACTCTATGTCTAGA
83262523 GTCTACTACAAGTATCTATCGAGAACTTGCCCATATCATTCAACCATGGTCCAACTAATCTAACC
390 GTCTACTACAAGTATCTATCGAGAACTTGCCCATATCATTCAACCATGGTCCAACTAATCTAACC
83262588 CTTTTAGAATTTAGATT
455 CTTTTAGAATTTAGATT
83262605 TGTACTGCAT
Statistics
Matches: 460, Mismatches: 11, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
574 169 0.37
575 291 0.63
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (574 bp):
AGTATAATGATATATGCAATATGTGGAACTAATGAATACTTGGAAATGCAATGGCAAAACAAAGG
TAGGAATGTAATGGCAATTATGAGAATAACTACACGAATTATATGCAACAAATAAATAAACGACT
AGGAATGCTATAGAAAAGCTACTAGGGTAAAAATAACGGTTATGCATGCTGAGTGGGAAGGTTGG
GATTACAAATAATCTAATTTTTCCTATCAGAAATGCCTCAGAAAAATCATATTTAACCTACTGCC
TAGAAGAGTTCTAAAGTTGCTTGCTGCTTCCAAAAAGAGAAACCCCAAGTTACTTTTCCTGTGTC
TTAGGCCTTTAATATGGTACCCTGTAATGTTTTCCTTTTGTAGGAATGCAACTCTATGTCTAGAG
TCTACTACAAGTATCTATCGAGAACTTGCCCATATCATTCAACCATGGTCCAACTAATCTAACCC
TTTTAGAATTTAGATTAATTTAAGGGTATGTTGCATAGTCGACTATCTCTAAGGATTGCTCAAAT
ACATTGTAAAGAATAAAATAATTGAATGAAAGCTAGTTAAAGTTAGTTAAAGTT
Found at i:83279208 original size:26 final size:26
Alignment explanation
Indices: 83279144--83279216 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
83279134 ATATTTCTCG
* *
83279144 AAATTTTACTAGGGGCAAAAGCATCA
1 AAATTTTACTAGGGGTAAAATCATCA
83279170 AAATTTTACTAGGGGTAAAATCATCA
1 AAATTTTACTAGGGGTAAAATCATCA
** *
83279196 AAATTTTGTTAGGGTTAAAAT
1 AAATTTTACTAGGGGTAAAAT
83279217 AGGGATGAGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.32
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCATCA
Found at i:83280534 original size:16 final size:16
Alignment explanation
Indices: 83280513--83280551 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
83280503 ATGAAATAGC
83280513 ATAAAT-AAACAATTAA
1 ATAAATCAAA-AATTAA
83280529 ATAAATCAAAAATTAA
1 ATAAATCAAAAATTAA
83280545 ATTAAAT
1 A-TAAAT
83280552 TGGGAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAATCAAAAATTAA
Found at i:83282161 original size:103 final size:104
Alignment explanation
Indices: 83281942--83282207 Score: 383
Period size: 103 Copynumber: 2.6 Consensus size: 104
83281932 TGTATATAAA
** * * * *
83281942 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATAT
*
83282006 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* ***
83282046 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCATTGTATATT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATATT
83282111 TGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* * *
83282149 AGGGGTTGCTAAGTGATGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
83282208 ATAACGGTTA
Statistics
Matches: 143, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
103 82 0.57
104 60 0.42
105 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATATT
TGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:83289605 original size:104 final size:104
Alignment explanation
Indices: 83289425--83289856 Score: 776
Period size: 104 Copynumber: 4.2 Consensus size: 104
83289415 TGTATATAAA
** * * * * *
83289425 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTCATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
83289489 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
83289529 AGGGGTTGCTAAGTGCTCATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTCATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
83289594 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
83289633 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTCATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
83289698 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
83289737 AGGGGTTGCTAAGTGCTCATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTCATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
83289802 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
83289841 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
83289857 GATATCCATT
Statistics
Matches: 318, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
104 317 1.00
105 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTCATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:83289908 original size:71 final size:72
Alignment explanation
Indices: 83289775--83289926 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
83289765 TCATTGGTGG
* *
83289775 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
83289840 GAGGGGT
66 GAGGGGT
***
83289847 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
83289911 GAGGGGT
66 GAGGGGT
83289918 TGCTAAGTG
1 TGCTAAGTG
83289927 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:83290554 original size:81 final size:81
Alignment explanation
Indices: 83290419--83290579 Score: 295
Period size: 81 Copynumber: 2.0 Consensus size: 81
83290409 TTGAGTCTAT
*
83290419 TTTTATTAGAAACAAGAAAACCCATTTTTCAAATTTTGTACAGAGAGTAAAATAAATTTTAGTGA
1 TTTTATTAGAAACAAGAAAACCCATATTTCAAATTTTGTACAGAGAGTAAAATAAATTTTAGTGA
83290484 GGAAGGGTCAGAACCA
66 GGAAGGGTCAGAACCA
*
83290500 TTTTATTAGAAACAAGAAAATCCATATTTCAAATTTTGTACAGAGAGTAAAATAAATTTTAGTGA
1 TTTTATTAGAAACAAGAAAACCCATATTTCAAATTTTGTACAGAGAGTAAAATAAATTTTAGTGA
*
83290565 GGAAGGTTCAGAACC
66 GGAAGGGTCAGAACC
83290580 GTTGGGCAGT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.30
Consensus pattern (81 bp):
TTTTATTAGAAACAAGAAAACCCATATTTCAAATTTTGTACAGAGAGTAAAATAAATTTTAGTGA
GGAAGGGTCAGAACCA
Found at i:83293035 original size:25 final size:25
Alignment explanation
Indices: 83293007--83293054 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
83292997 AAGCTTTTTC
83293007 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* **
83293032 GAGCCATGTAATGGGAAGCTCAT
1 GAGCCATATAACAGGAAGCTCAT
83293055 AAGAGCCGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:83293060 original size:25 final size:23
Alignment explanation
Indices: 83293020--83293102 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
83293010 CCATATAACA
**
83293020 GGAAGCTCATGTGAGCCATGTAATG
1 GGAAGCTCATAAGAGCC--GTAATG
83293045 GGAAGCTCATAAGAGCCGTAATTG
1 GGAAGCTCATAAGAGCCGTAA-TG
* * *
83293069 GGAGGCTAATAAAAGCCGTAATCG
1 GGAAGCTCATAAGAGCCGTAAT-G
*
83293093 GAAAGCTCAT
1 GGAAGCTCAT
83293103 GCGAGCTAGT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
23 5 0.10
24 28 0.58
25 15 0.31
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (23 bp):
GGAAGCTCATAAGAGCCGTAATG
Found at i:83293131 original size:25 final size:25
Alignment explanation
Indices: 83293095--83293159 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 25
83293085 CGTAATCGGA
* *
83293095 AAGC-TCATGCGAGCTAGTATCGAG
1 AAGCTTCAAGCGAGCCAGTATCGAG
* * *
83293119 AAGGTTCAAGCGAGCCATTATCGAT
1 AAGCTTCAAGCGAGCCAGTATCGAG
*
83293144 AAGCTTC-AGAGAGCCA
1 AAGCTTCAAGCGAGCCA
83293160 TTAACTGGAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
24 11 0.33
25 22 0.67
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (25 bp):
AAGCTTCAAGCGAGCCAGTATCGAG
Found at i:83293162 original size:24 final size:25
Alignment explanation
Indices: 83293112--83293162 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
83293102 TGCGAGCTAG
* *
83293112 TATCGAGAAGGTTCAAGCGAGCCAT
1 TATCGAGAAGCTTCAAGAGAGCCAT
*
83293137 TATCGATAAGCTTC-AGAGAGCCAT
1 TATCGAGAAGCTTCAAGAGAGCCAT
83293161 TA
1 TA
83293163 ACTGGAAGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (25 bp):
TATCGAGAAGCTTCAAGAGAGCCAT
Found at i:83293336 original size:25 final size:24
Alignment explanation
Indices: 83293296--83293354 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
83293286 GAGTTATTCG
*
83293296 CGGGAAGCTCGCAAGAACCATATAA
1 CGGGAAGCTCACAAGAACCA-ATAA
* * *
83293321 CGGGAAGCTCATAAGAGCTAATAA
1 CGGGAAGCTCACAAGAACCAATAA
*
83293345 CGGGATGCTC
1 CGGGAAGCTC
83293355 TTTCGAGCTG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.36, C:0.22, G:0.27, T:0.15
Consensus pattern (24 bp):
CGGGAAGCTCACAAGAACCAATAA
Found at i:83293659 original size:21 final size:21
Alignment explanation
Indices: 83293631--83293685 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
83293621 GATCTATACG
*
83293631 AATA-AATTTAACA-TCAATTT
1 AATACAATTT-ACATTCAATTC
83293651 AATACAATTTACATTCAATTC
1 AATACAATTTACATTCAATTC
* *
83293672 AATCCAATTCACAT
1 AATACAATTTACAT
83293686 CTTAGGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (21 bp):
AATACAATTTACATTCAATTC
Found at i:83293869 original size:11 final size:12
Alignment explanation
Indices: 83293839--83293869 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
83293829 ACAAAAATTA
83293839 GAATTTTTCCAT
1 GAATTTTTCCAT
83293851 GAATTTTTCCAT
1 GAATTTTTCCAT
83293863 GAATTTT
1 GAATTTT
83293870 ACATCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.52
Consensus pattern (12 bp):
GAATTTTTCCAT
Found at i:83304845 original size:80 final size:79
Alignment explanation
Indices: 83304761--83304932 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
83304751 GGACTAAGAT
*
83304761 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
83304825 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
83304841 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
83304906 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
83304920 CCGAAGGCATTTG
1 CCGAAGGCATTTG
83304933 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:83304912 original size:39 final size:39
Alignment explanation
Indices: 83304708--83304930 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
83304698 TTGAATGCTG
* * * * *
83304708 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
83304748 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
83304787 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
83304828 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
83304868 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
83304907 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
83304931 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:83304950 original size:79 final size:80
Alignment explanation
Indices: 83304788--83304965 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
83304778 AGATACAAAT
* * * *
83304788 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
83304853 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
83304868 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
83304932 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
83304947 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
83304966 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:83307123 original size:64 final size:64
Alignment explanation
Indices: 83307008--83307135 Score: 177
Period size: 64 Copynumber: 2.0 Consensus size: 64
83306998 ACTTATAACT
* * * *
83307008 ATTCAAGTGGGAATTAACCAATTATTATCATTCTCAACTATAGTTAAACATCTCTTCTTTGGAA
1 ATTCAAGTGGGAATTAACCAATTATTATCATTATCAACTACAGGTAAACATCCCTTCTTTGGAA
* * *
83307072 ATTCGAGTGGGAGTTAACTC-ATTATTATCATTATCAACTACAGGTAGACATCCCTTCTTTGGAA
1 ATTCAAGTGGGAATTAAC-CAATTATTATCATTATCAACTACAGGTAAACATCCCTTCTTTGGAA
83307136 CACACTGGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
64 55 0.98
65 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (64 bp):
ATTCAAGTGGGAATTAACCAATTATTATCATTATCAACTACAGGTAAACATCCCTTCTTTGGAA
Found at i:83311750 original size:81 final size:81
Alignment explanation
Indices: 83311615--83311934 Score: 622
Period size: 81 Copynumber: 4.0 Consensus size: 81
83311605 GTGAGATAGG
83311615 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
1 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
83311680 AAGTATGAGTCCCAGA
66 AAGTATGAGTCCCAGA
83311696 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
1 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
83311761 AAGTATGAGTCCCAGA
66 AAGTATGAGTCCCAGA
83311777 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
1 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
83311842 AAGTATGAGTCCCAGA
66 AAGTATGAGTCCCAGA
*
83311858 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGTGAC
1 CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
*
83311923 AACTATGAGTCC
66 AAGTATGAGTCC
83311935 TGTGTTTCGA
Statistics
Matches: 237, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 237 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (81 bp):
CATAAGACTGAATTGGACAAAATAAAACCATACCTTTGCTAATAAGGTCAAGTATTCTCTGCGAC
AAGTATGAGTCCCAGA
Found at i:83316456 original size:36 final size:36
Alignment explanation
Indices: 83316409--83316481 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
83316399 TTATTCTTTA
83316409 ACTTAGAATAATTAAATCTTTGTTCATGTTGTTACG
1 ACTTAGAATAATTAAATCTTTGTTCATGTTGTTACG
83316445 ACTTAGAATAATTAAATCTTTGTTCATGTTGTTACG
1 ACTTAGAATAATTAAATCTTTGTTCATGTTGTTACG
83316481 A
1 A
83316482 ATAATTTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.44
Consensus pattern (36 bp):
ACTTAGAATAATTAAATCTTTGTTCATGTTGTTACG
Found at i:83321287 original size:16 final size:17
Alignment explanation
Indices: 83321266--83321298 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
83321256 CCCTTCACCT
*
83321266 ATTCATTTC-ACACATC
1 ATTCATTCCTACACATC
83321282 ATTCATTCCTACACATC
1 ATTCATTCCTACACATC
83321299 TTTCTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTCATTCCTACACATC
Found at i:83326315 original size:48 final size:47
Alignment explanation
Indices: 83326220--83326322 Score: 152
Period size: 48 Copynumber: 2.2 Consensus size: 47
83326210 TGATAAGTAT
* *
83326220 TATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCAGAGTACC
1 TATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAATACC
* * *
83326267 TATACCATGGCCCGTAGCCAAATCAAAGGTAACTCCTCTCTGAATACC
1 TATACCATGGCCCGTAGCCAAATC-AAGGTAACTCATCCCAGAATACC
83326315 TATACCAT
1 TATACCAT
83326323 AGGTCGCAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 24 0.48
48 26 0.52
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (47 bp):
TATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAGAATACC
Found at i:83334147 original size:37 final size:37
Alignment explanation
Indices: 83334095--83334239 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
83334085 ACCTTTAGCT
* * *
83334095 CGGACGTAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
* *
83334132 CGGACAAAATTTCCACACGTAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
83334169 CGGACATAATCTACACACGTAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
83334206 CGGACATAATCTCCACACGTAGTCATCGGGTCTT
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTT
83334240 TAGAGCTCGG
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:83334436 original size:47 final size:47
Alignment explanation
Indices: 83334358--83334582 Score: 274
Period size: 47 Copynumber: 4.7 Consensus size: 47
83334348 CCCTTCGGGA
* * * * * * *
83334358 CTTATCACATTTATACACTTTCTCATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
83334405 C-CAGTCACATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83334452 CTTATCACATATATACACTTTCACATTCATCACCTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83334499 CTTATCACATATATATACACTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
83334548 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
83334583 AGAATCCTAA
Statistics
Matches: 156, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
46 2 0.01
47 109 0.70
48 1 0.01
49 44 0.28
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:83334552 original size:96 final size:94
Alignment explanation
Indices: 83334358--83334580 Score: 288
Period size: 96 Copynumber: 2.4 Consensus size: 94
83334348 CCCTTCGGGA
* * * * *
83334358 CTTATCACATTTATACACTTTCTCATCCATCACGTTGGCCACTCGGCCCAGTCACATACATACAC
1 CTTATCACATATATACACTTTCACATCCATCACCTCGGCCACTAGGCCCAGTCACATACATACAC
83334423 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * *
83334452 CTTATCACATATATACACTTTCACATTCATCACCTCGGCCATTAGGCCTTA-TCACATATATATA
1 CTTATCACATATATACACTTTCACATCCATCACCTCGGCCACTAGGCC-CAGTCAC--ATACATA
*
83334516 CACTTTCACATTCATCACATCGTCCATTAGGC
63 CACTTTCACATTCATCACATCGGCCATTAGGC
* *
83334548 CTTATCTCATATATGCA-TGTTCACATCCATCAC
1 CTTATCACATATATACACT-TTCACATCCATCAC
83334581 ATAGAATCCT
Statistics
Matches: 112, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
94 45 0.40
95 2 0.02
96 65 0.58
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATCCATCACCTCGGCCACTAGGCCCAGTCACATACATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:83338506 original size:40 final size:39
Alignment explanation
Indices: 83338443--83338874 Score: 585
Period size: 40 Copynumber: 10.8 Consensus size: 39
83338433 CCAGCATGAT
* * *
83338443 TGCTCTTCGGAACCTAGCCCGGATATAACACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
*** * *
83338483 TGCTCTTCGGGGTTTAGCACGGATATATCTCTAGCACGAA
1 TGCTCTTCGGAACTTAGC-CGGATACATCACTAGCACGAA
*
83338523 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCGCGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
83338563 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
* * *
83338603 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
*
83338643 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
* * *
83338683 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
*
83338723 TGCTCTTCGGAACTTATTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTA-GCCGGATACATCACTAGCACGAA
83338763 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
*
83338803 TGCTCTTCGGAACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAG-CCGGATACATCACTAGCACGAA
* *
83338843 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAG-CCGGATACATCACT
83338875 CTCAATTCTC
Statistics
Matches: 351, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.00
40 349 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
TGCTCTTCGGAACTTAGCCGGATACATCACTAGCACGAA
Found at i:83338586 original size:80 final size:80
Alignment explanation
Indices: 83338443--83338874 Score: 668
Period size: 80 Copynumber: 5.4 Consensus size: 80
83338433 CCAGCATGAT
* * ***
83338443 TGCTCTTCGGAACCTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGGGTTTAG-CACGGAT
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGAT
* *
83338507 ATATCTCTAGCACGAA
65 ACATCACTAGCACGAA
* * *
83338523 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCGCGAATGCTCTTCGGAACTTAGTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
83338588 CATCACTAGCACGAA
66 CATCACTAGCACGAA
* * *
83338603 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
83338668 CATCACTAGCACGAA
66 CATCACTAGCACGAA
* * *
83338683 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTATTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
83338748 CATCACTAGCACGAA
66 CATCACTAGCACGAA
* * *
83338763 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTTCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
83338828 CATCACTAGCACGAA
66 CATCACTAGCACGAA
*
83338843 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGAACTTAGCCCGGATATATCACT
83338875 CTCAATTCTC
Statistics
Matches: 324, Mismatches: 27, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
80 323 1.00
81 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATA
CATCACTAGCACGAA
Found at i:83338656 original size:120 final size:120
Alignment explanation
Indices: 83338443--83338874 Score: 684
Period size: 120 Copynumber: 3.6 Consensus size: 120
83338433 CCAGCATGAT
* * * ** *
83338443 TGCTCTTCGGAACCTAGCCCGGATATAACACTAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
83338508 TATCTCTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCGCGAA
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
83338563 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGATTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
83338628 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* * * * **
83338683 TGCTCTTCGGGATTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGAACTTATTCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
83338748 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
**
83338803 TGCTCTTCGGAACTTAGTTCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
83338868 TATCACT
66 TATCACT
83338875 CTCAATTCTC
Statistics
Matches: 284, Mismatches: 28, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 284 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (120 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:83340329 original size:47 final size:47
Alignment explanation
Indices: 83340253--83340391 Score: 197
Period size: 47 Copynumber: 3.0 Consensus size: 47
83340243 CTTCGGGACT
* * * * *
83340253 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
83340300 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
*
83340347 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
83340392 NNNNNNNNNN
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:83346036 original size:37 final size:37
Alignment explanation
Indices: 83345983--83346122 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
83345973 CGAATAGTCC
* *
83345983 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
83346020 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
83346057 CCACATGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
83346094 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
83346123 ATATATTTCC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:83346350 original size:48 final size:48
Alignment explanation
Indices: 83346295--83347037 Score: 1222
Period size: 48 Copynumber: 15.5 Consensus size: 48
83346285 GCCGAATCAC
83346295 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
83346343 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
83346391 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
83346439 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
* * * ** *
83346487 TAGCCATTCGGCTTTACCACATAT-CATATTTCACAC-TA-GCCGAATCAC
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTC--A-CAT
* **
83346535 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTTGCAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
* *
83346583 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
* * * *
83346631 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATCTTTCACAC
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
* * *
83346679 TAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
* * * *
83346727 TAGCCATTCGGCTTTACCACGTAAACATATCTCATACATATTTCACAC
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
*
83346775 TAGCCATTCGGCTTTACCACGTATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
83346823 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
83346871 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
83346919 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
*
83346967 TAGCCATTCGGCTTTACCACATATACACATCTCATACATGTTTCACAT
1 TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
83347015 TAGCCATTCGGCTTTACCACATA
1 TAGCCATTCGGCTTTACCACATA
83347038 CATATATATT
Statistics
Matches: 664, Mismatches: 25, Indels: 12
0.95 0.04 0.02
Matches are distributed among these distances:
45 1 0.00
46 2 0.00
47 10 0.02
48 639 0.96
49 10 0.02
50 2 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACAT
Found at i:83349728 original size:29 final size:29
Alignment explanation
Indices: 83349676--83349805 Score: 122
Period size: 29 Copynumber: 4.6 Consensus size: 29
83349666 TGGTTTCGCA
* * *
83349676 CACACATAGCG-CTCGATTATAGAACTCG
1 CACACATAGTGCCTCAATTAAAGAACTCG
* *
83349704 TACACATAGTGCCTCAATTAAAGAACGCG
1 CACACATAGTGCCTCAATTAAAGAACTCG
* *
83349733 CACACATAGTGCCTCAATTACCA-ATCTCG
1 CACACATAGTGCCTCAATTA-AAGAACTCG
* * * *
83349762 CACACATAGCG-CTCGATTGAAGAACTTG
1 CACACATAGTGCCTCAATTAAAGAACTCG
*
83349790 CACACACAGTGCCTCA
1 CACACATAGTGCCTCA
83349806 TAATTCCAGC
Statistics
Matches: 80, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
27 1 0.01
28 28 0.35
29 50 0.62
30 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.21
Consensus pattern (29 bp):
CACACATAGTGCCTCAATTAAAGAACTCG
Found at i:83349887 original size:40 final size:40
Alignment explanation
Indices: 83349813--83350247 Score: 653
Period size: 40 Copynumber: 10.9 Consensus size: 40
83349803 TCATAATTCC
* *
83349813 AGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCG-GGACTTAGCCCGGCTATATCACT
*
83349852 AGCACGAATGCTCTTTGGGACTTAGCCCGGCTATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
*
83349892 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
*
83349932 AGCACGAATGCTCTTTGGGACTTAGCCCGGCTATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
*
83349972 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
*
83350012 AGCACGAATGCTCTTTGGGACTTAGCCCGGCTATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
*
83350052 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
* * * * *
83350092 AGCACGAATGCTATTCGGGACTTGGCCCAGAC-ATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCC-GGCTATATCACT
*
83350132 AGCACGAATGCTCTTCGGTACTTAGCCCGGCTATATCACT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
* * *
83350172 AGCACGAATGCTCTTCGGGACTTAGCCCGAAC-ATAACACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCG-GCTATATCACT
*
83350212 AGCACGGATGCTCTTCGGGACTTAGCCCGGCTATAT
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATAT
83350248 AACTCTCAAT
Statistics
Matches: 358, Mismatches: 32, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.04
40 340 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGCTATATCACT
Found at i:83351576 original size:37 final size:37
Alignment explanation
Indices: 83351523--83351662 Score: 235
Period size: 37 Copynumber: 3.8 Consensus size: 37
83351513 CGAATAGTCC
* *
83351523 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
83351560 CCACACGTAGTCATCGGGTCATACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
* *
83351597 CCACACGTAGTTATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
83351634 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
83351663 ATATATTTCC
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 95 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:83351886 original size:48 final size:48
Alignment explanation
Indices: 83351832--83352673 Score: 1630
Period size: 48 Copynumber: 17.5 Consensus size: 48
83351822 CTAGCCGAAT
*
83351832 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATCTTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83351880 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
** *
83351928 CACTAGCCATTCGAATTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83351976 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352024 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352072 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352120 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352168 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352216 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352264 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352312 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352360 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352408 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352456 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352504 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
83352552 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
83352600 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATGTTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
83352648 CATTAGCCATTCGGCTTTACCACATA
1 CACTAGCCATTCGGCTTTACCACATA
83352674 CATATATATT
Statistics
Matches: 785, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 785 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:83362628 original size:27 final size:27
Alignment explanation
Indices: 83362598--83362649 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
83362588 GTCCTTAGGC
83362598 TGTGTGGCAAATTAAATTCAAAAATGT
1 TGTGTGGCAAATTAAATTCAAAAATGT
83362625 TGTGTGGCAAATTAAATTCAAAAAT
1 TGTGTGGCAAATTAAATTCAAAAAT
83362650 TAGGTGCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (27 bp):
TGTGTGGCAAATTAAATTCAAAAATGT
Found at i:83362724 original size:13 final size:13
Alignment explanation
Indices: 83362706--83362739 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
83362696 CTATGTCCCT
83362706 CACACGGTCGAGA
1 CACACGGTCGAGA
*
83362719 CACACGGCCGAGA
1 CACACGGTCGAGA
83362732 CACACGGT
1 CACACGGT
83362740 AAAGTCTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.35, G:0.29, T:0.06
Consensus pattern (13 bp):
CACACGGTCGAGA
Found at i:83363907 original size:42 final size:42
Alignment explanation
Indices: 83363859--83363952 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
83363849 ATCCCAGATA
* * * * *
83363859 TGGTCTTATACAAATTCTCATTTCGACGCCATGTCCCAAACG
1 TGGTCTTACACAAAATCTCATATCAACGCCATATCCCAAACG
* * **
83363901 TGGTCTTACACAAAATCTCGTATCAACGCCATATCCCAGATA
1 TGGTCTTACACAAAATCTCATATCAACGCCATATCCCAAACG
83363943 TGGTCTTACA
1 TGGTCTTACA
83363953 TGATAACTCA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (42 bp):
TGGTCTTACACAAAATCTCATATCAACGCCATATCCCAAACG
Found at i:83374192 original size:24 final size:24
Alignment explanation
Indices: 83374154--83374210 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
83374144 CTTCAATTTG
*
83374154 ATTCAATTCCAGAACTAAACATTA
1 ATTCAGTTCCAGAACTAAACATTA
* *
83374178 ATTTAGTTCCCGAACTAAACATTA
1 ATTCAGTTCCAGAACTAAACATTA
83374202 ATTCAGTTC
1 ATTCAGTTC
83374211 AATTTATCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (24 bp):
ATTCAGTTCCAGAACTAAACATTA
Found at i:83394640 original size:2 final size:2
Alignment explanation
Indices: 83394633--83394680 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
83394623 CTATGTTTAG
*
83394633 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
83394675 GT GA GA
1 GA GA GA
83394681 ACAGCCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.48, T:0.02
Consensus pattern (2 bp):
GA
Found at i:83407474 original size:256 final size:256
Alignment explanation
Indices: 83407008--83407516 Score: 964
Period size: 256 Copynumber: 2.0 Consensus size: 256
83406998 ATCATCTTCT
83407008 CCATCCAGCCGAAACTAGCATGGACACCATGTCTAGGGTTTGGTAAGCTCATTTGTAAGTGATCC
1 CCATCCAGCCGAAACTAGCATGGACACCATGTCTAGGGTTTGGTAAGCTCATTTGTAAGTGATCC
83407073 TAAGCCCCGTTTTTAATGTTCTTTACATTTTTTATGTACGAGTAACATGGTCTACTCATTTCTAC
66 TAAGCCCCGTTTTTAATGTTCTTTACATTTTTTATGTACGAGTAACATGGTCTACTCATTTCTAC
*
83407138 CATTATTTTGAGCTAGGGTTTATGCTAAAAAATTTACCCATGAGTTACATGCTTGTATTTTGATG
131 CATTATTTTGAGCTAGGGTTTATGCTAAAAAATTTACCCATGAGTGACATGCTTGTATTTTGATG
*
83407203 TCTAATGGGAGAAAATGAGTGTTAGGTGTTAAATAAATGACTTTTACTAAGCAATTTTCGG
196 TCTAATGGGAGAAAATGAGTGTTAGGTGTTAAAAAAATGACTTTTACTAAGCAATTTTCGG
83407264 CCATCCAGCCGAAACTAGCATGGACACCATGTCTAGGGTTTGGTAAGCTCATTTGTAAGTGATCC
1 CCATCCAGCCGAAACTAGCATGGACACCATGTCTAGGGTTTGGTAAGCTCATTTGTAAGTGATCC
83407329 TAAGCCCCGTTTTTAATGTTCTTTACATTTTTTATGTACGAGTAACATGGTCTACTCATTTCTAC
66 TAAGCCCCGTTTTTAATGTTCTTTACATTTTTTATGTACGAGTAACATGGTCTACTCATTTCTAC
*
83407394 CATTATTTTGAGCTAGGGTTTATGTTAAAAAATTTACCCATGAGTGACATGCTTGTATTTTGATG
131 CATTATTTTGAGCTAGGGTTTATGCTAAAAAATTTACCCATGAGTGACATGCTTGTATTTTGATG
* * *
83407459 TTTAATGGTAGAAAATGAGTGTTAGGTGTTAAAAAAATGACTTTTACTAAGCGATTTT
196 TCTAATGGGAGAAAATGAGTGTTAGGTGTTAAAAAAATGACTTTTACTAAGCAATTTT
83407517 TGACGAAAAC
Statistics
Matches: 247, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
256 247 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (256 bp):
CCATCCAGCCGAAACTAGCATGGACACCATGTCTAGGGTTTGGTAAGCTCATTTGTAAGTGATCC
TAAGCCCCGTTTTTAATGTTCTTTACATTTTTTATGTACGAGTAACATGGTCTACTCATTTCTAC
CATTATTTTGAGCTAGGGTTTATGCTAAAAAATTTACCCATGAGTGACATGCTTGTATTTTGATG
TCTAATGGGAGAAAATGAGTGTTAGGTGTTAAAAAAATGACTTTTACTAAGCAATTTTCGG
Found at i:83408205 original size:46 final size:46
Alignment explanation
Indices: 83408138--83408229 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
83408128 GAAAAGAGAA
83408138 AATCCCGGTTGAATAAAAAGGGATGTCAGATGGATAAATCATTGTT
1 AATCCCGGTTGAATAAAAAGGGATGTCAGATGGATAAATCATTGTT
* *
83408184 AATCCCGGTTGAATAAAAAGGGATGTCCGATGGATAAATTATTGTT
1 AATCCCGGTTGAATAAAAAGGGATGTCAGATGGATAAATCATTGTT
83408230 TATATAACAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (46 bp):
AATCCCGGTTGAATAAAAAGGGATGTCAGATGGATAAATCATTGTT
Found at i:83434655 original size:116 final size:116
Alignment explanation
Indices: 83434449--83434669 Score: 379
Period size: 116 Copynumber: 1.9 Consensus size: 116
83434439 AAATTGAATG
*
83434449 AAATAATTGTATAGACCGGAAATTGGATCAAACCAGAGATAATCAGGGAAAAGCAAAAATTTTAA
1 AAATAATTGTATAGACCGGAAATTGGATCAAACCAGAGATAATCAGGGAAAACCAAAAATTTTAA
83434514 ATTAGTCCTTAAAGTTTAAAATTGTTTGCTATTTTTCCCATATAGGTTCAT
66 ATTAGTCCTTAAAGTTTAAAATTGTTTGCTATTTTTCCCATATAGGTTCAT
* * * *
83434565 AAATAATTGTATAGACTGGTAATTGGATCAAATCAGAGATAATCAGGGAAAACCAAAAATTTTAG
1 AAATAATTGTATAGACCGGAAATTGGATCAAACCAGAGATAATCAGGGAAAACCAAAAATTTTAA
* *
83434630 ATTAGTCCTTAAAGTTTCAACTTGTTTGCTATTTTTCCCA
66 ATTAGTCCTTAAAGTTTAAAATTGTTTGCTATTTTTCCCA
83434670 GGTATGTTCA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 98 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (116 bp):
AAATAATTGTATAGACCGGAAATTGGATCAAACCAGAGATAATCAGGGAAAACCAAAAATTTTAA
ATTAGTCCTTAAAGTTTAAAATTGTTTGCTATTTTTCCCATATAGGTTCAT
Found at i:83438241 original size:25 final size:25
Alignment explanation
Indices: 83438194--83438242 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
83438184 AAACTAAAAA
*
83438194 TACTGTAGATAGTATATTCTGAAAC
1 TACTGTAGATAGTATACTCTGAAAC
* *
83438219 TACTGTAGGTAGTATACTGTGAAA
1 TACTGTAGATAGTATACTCTGAAA
83438243 ACACTCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (25 bp):
TACTGTAGATAGTATACTCTGAAAC
Found at i:83445571 original size:17 final size:17
Alignment explanation
Indices: 83445549--83445589 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
83445539 TGAATTCTAG
83445549 TAGCTATAACAATCAAA
1 TAGCTATAACAATCAAA
**
83445566 TAGCTATAATGATCAAA
1 TAGCTATAACAATCAAA
83445583 TAGCTAT
1 TAGCTAT
83445590 GGAATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (17 bp):
TAGCTATAACAATCAAA
Found at i:83450776 original size:39 final size:39
Alignment explanation
Indices: 83450682--83450841 Score: 171
Period size: 39 Copynumber: 4.1 Consensus size: 39
83450672 TATTACAGAT
* *
83450682 TATAATGAGATCTAGCATTTGTTGCAGA-TCATCGAGTAA
1 TATAATGAGATCTAGCCTTTGTTGCAGATTC-TCGGGTAA
** *
83450721 TATAACAAGATCTAGCCTTTGTTGCAGATTCTTGGGTAA
1 TATAATGAGATCTAGCCTTTGTTGCAGATTCTCGGGTAA
* * * **
83450760 TATAATGAGATCTAGCCTCTATTGCAAATTCTTAGGTAA
1 TATAATGAGATCTAGCCTTTGTTGCAGATTCTCGGGTAA
* **
83450799 TATAATGAGATCTAACCCTTT-TTGTGGATTCTCGGGTAA
1 TATAATGAGATCT-AGCCTTTGTTGCAGATTCTCGGGTAA
83450838 TATA
1 TATA
83450842 TGACATAGGT
Statistics
Matches: 101, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 94 0.93
40 7 0.07
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (39 bp):
TATAATGAGATCTAGCCTTTGTTGCAGATTCTCGGGTAA
Found at i:83455526 original size:46 final size:46
Alignment explanation
Indices: 83455377--83455737 Score: 184
Period size: 48 Copynumber: 7.6 Consensus size: 46
83455367 TTTGTGTGCT
* * *
83455377 AGTGTAAAACATGTCTGGG-CATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * ** * *
83455422 AGTGTAAGACCATGTTTGGGACATGTCATCAGTATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTCGAGATGAGAGCC
83455470 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * * * * * *
83455516 AGTTTAAGACATGCCTGGGACAAGCATTGG-CTACAAGAT--GTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * * *
83455560 AGTGTAAGACCATGTTTGGGATATGGCATCGACACGT-GTAGA-G-GTGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-C-TCG-AGATGAGAGCC
* * * *
83455608 AGCGTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGA--TGAGAGCC
* * ** * *
83455658 AGTGTAAGACTATGTCTGGGACATGACGTCGGCCTTGATTTCGATAGTC
1 AGTGTAAGAC-ATGTCTGGGACATG-CATCGGCCTCGAGAT-GAGAGCC
*
83455707 AGTGTAAGACCATGTTTGGGACATGACATCG
1 AGTGTAAGA-CATGTCTGGGACATG-CATCG
83455738 ACTTGATGGA
Statistics
Matches: 245, Mismatches: 47, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
44 10 0.04
45 20 0.08
46 62 0.25
47 20 0.08
48 63 0.26
49 37 0.15
50 33 0.13
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:83455765 original size:47 final size:49
Alignment explanation
Indices: 83455611--83455783 Score: 169
Period size: 49 Copynumber: 3.6 Consensus size: 49
83455601 AGGTGTCAGC
* * *
83455611 GTAAGACCATGTCTGGGACATGGCATCGGCAC-GGATATGTGA-GAGCTAGT
1 GTAAGACCATGTCTGGGACATGACATCGG-ACTTGAT-T-CGATGAGCTAGT
* * *
83455661 GTAAGACTATGTCTGGGACATGACGTCGGCCTTGATTTCGAT-AG-TCAGT
1 GTAAGACCATGTCTGGGACATGACATCGGACTTGA-TTCGATGAGCT-AGT
* *
83455710 GTAAGACCATGTTTGGGACATGACATC-GACTTGA-TGGATGAGCTAGT
1 GTAAGACCATGTCTGGGACATGACATCGGACTTGATTCGATGAGCTAGT
* *
83455757 GTAAGACCATGTCTGGTACATGGCATC
1 GTAAGACCATGTCTGGGACATGACATC
83455784 AGCATCATAC
Statistics
Matches: 103, Mismatches: 14, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
46 4 0.04
47 29 0.28
48 8 0.08
49 32 0.31
50 29 0.28
51 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGACATCGGACTTGATTCGATGAGCTAGT
Found at i:83457344 original size:35 final size:35
Alignment explanation
Indices: 83457303--83457369 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
83457293 ACATACATAG
*
83457303 ATTCACAATATAACATTTATAATTATTTAAACTAA
1 ATTCACAATATAACATTTATAATGATTTAAACTAA
83457338 ATTCACAATATAACATTTATAATGATTTAAAC
1 ATTCACAATATAACATTTATAATGATTTAAAC
83457370 ATAATTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (35 bp):
ATTCACAATATAACATTTATAATGATTTAAACTAA
Found at i:83463673 original size:40 final size:40
Alignment explanation
Indices: 83463600--83463679 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
83463590 ACACACTATG
* * *
83463600 TGGGGATAAAATCGACCCACCCATCCCTGCACACCGTAAA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATAAA
* **
83463640 TGGGGATATAATCGACCCATTCAACCCTACACACCATAAA
1 TGGGGATAAAATCGACCCACCCAACCCTACACACCATAAA
83463680 GTACCGCATC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAACCCTACACACCATAAA
Found at i:83470875 original size:8 final size:8
Alignment explanation
Indices: 83470862--83470886 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
83470852 TGGTTAAGAT
83470862 GTGTGTTG
1 GTGTGTTG
83470870 GTGTGTTG
1 GTGTGTTG
83470878 GTGTGTTG
1 GTGTGTTG
83470886 G
1 G
83470887 AGGTCTAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (8 bp):
GTGTGTTG
Found at i:83475039 original size:27 final size:27
Alignment explanation
Indices: 83475009--83475154 Score: 274
Period size: 27 Copynumber: 5.4 Consensus size: 27
83474999 AAGTTAAAAT
* *
83475009 GAATCTTCTAAAGCTCCAAACAACTTC
1 GAATCATCTTAAGCTCCAAACAACTTC
83475036 GAATCATCTTAAGCTCCAAACAACTTC
1 GAATCATCTTAAGCTCCAAACAACTTC
83475063 GAATCATCTTAAGCTCCAAACAACTTC
1 GAATCATCTTAAGCTCCAAACAACTTC
83475090 GAATCATCTTAAGCTCCAAACAACTTC
1 GAATCATCTTAAGCTCCAAACAACTTC
83475117 GAATCATCTTAAGCTCCAAACAACTTC
1 GAATCATCTTAAGCTCCAAACAACTTC
83475144 GAATCATCTTA
1 GAATCATCTTA
83475155 GGACCTTTGT
Statistics
Matches: 117, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.27
Consensus pattern (27 bp):
GAATCATCTTAAGCTCCAAACAACTTC
Found at i:83475519 original size:16 final size:16
Alignment explanation
Indices: 83475498--83475535 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
83475488 ATTTTTCTCA
*
83475498 TAAAAATAT-TAATATT
1 TAAAAATATAAAATA-T
83475514 TAAAAATATAAAATAT
1 TAAAAATATAAAATAT
83475530 TAAAAA
1 TAAAAA
83475536 CTTTTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAAATATAAAATAT
Found at i:83475572 original size:23 final size:23
Alignment explanation
Indices: 83475530--83475576 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
83475520 TATAAAATAT
83475530 TAAAAACTTTTATAAAATTATAAA
1 TAAAAAC-TTTATAAAATTATAAA
83475554 TAAAAAC-TTATAAATATTATAAA
1 TAAAAACTTTATAAA-ATTATAAA
83475577 AACTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.32
23 8 0.36
24 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (23 bp):
TAAAAACTTTATAAAATTATAAA
Found at i:83475577 original size:19 final size:18
Alignment explanation
Indices: 83475553--83475614 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
83475543 AAAATTATAA
83475553 ATAAAAACTTATAAATATT
1 ATAAAAACTTATAAA-ATT
83475572 ATAAAAAC-TATAAAATT
1 ATAAAAACTTATAAAATT
* *
83475589 CTAATAAA-TTATAAAAAT
1 ATAA-AAACTTATAAAATT
*
83475607 AAAAAAAC
1 ATAAAAAC
83475615 CATATTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
17 9 0.25
18 19 0.53
19 8 0.22
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAAAACTTATAAAATT
Found at i:83475844 original size:22 final size:20
Alignment explanation
Indices: 83475803--83475845 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
83475793 TTGCTTTTCC
*
83475803 TTTTTTCTTTTTTTTGCTAT
1 TTTTTTCTTTTTTTTACTAT
*
83475823 TTTTTTGTTATTTTTTCACTAT
1 TTTTTTCTT-TTTTTT-ACTAT
83475845 T
1 T
83475846 ATGTTGGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTACTAT
Found at i:83476232 original size:10 final size:9
Alignment explanation
Indices: 83476201--83476355 Score: 55
Period size: 9 Copynumber: 16.3 Consensus size: 9
83476191 AAACATCTCC
83476201 ATTAT-AAA
1 ATTATAAAA
*
83476209 GTTA-AAAA
1 ATTATAAAA
83476217 ATTATAAAA
1 ATTATAAAA
**
83476226 ATATATATTA
1 AT-TATAAAA
**
83476236 ATTATTAGTA
1 ATTA-TAAAA
83476246 ATTATAAAA
1 ATTATAAAA
*
83476255 CTTATAAAA
1 ATTATAAAA
* *
83476264 ACTCATCATAA
1 A-TTAT-AAAA
* *
83476275 GTTCTAATAA
1 ATTATAA-AA
83476285 ATTATAAAAA
1 ATTAT-AAAA
*
83476295 ATTGTAAAA
1 ATTATAAAA
*
83476304 TTTATAATAAA
1 ATTAT-A-AAA
83476315 ATTATAAAA
1 ATTATAAAA
83476324 TATTA-AAACTA
1 -ATTATAAA--A
* *
83476335 AATATAGAA
1 ATTATAAAA
*
83476344 TTTATAAAA
1 ATTATAAAA
83476353 ATT
1 ATT
83476356 CATATACTGG
Statistics
Matches: 106, Mismatches: 27, Indels: 27
0.66 0.17 0.17
Matches are distributed among these distances:
8 9 0.08
9 42 0.40
10 40 0.38
11 15 0.14
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (9 bp):
ATTATAAAA
Found at i:83476317 original size:20 final size:19
Alignment explanation
Indices: 83476286--83476353 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
83476276 TTCTAATAAA
*
83476286 TTATAAAAAATTGTAAAAT
1 TTATAAAAAATTATAAAAT
83476305 TTATAATAAAATTATAAAAT
1 TTATAA-AAAATTATAAAAT
*
83476325 ATTA-AAACTAAA-TATAGAAT
1 -TTATAAA--AAATTATAAAAT
83476345 TTATAAAAA
1 TTATAAAAA
83476354 TTCATATACT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
18 2 0.05
19 10 0.24
20 24 0.57
21 6 0.14
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.35
Consensus pattern (19 bp):
TTATAAAAAATTATAAAAT
Found at i:83477056 original size:9 final size:9
Alignment explanation
Indices: 83477042--83477275 Score: 62
Period size: 9 Copynumber: 25.7 Consensus size: 9
83477032 TAAACGATTT
83477042 TTTTTATAA
1 TTTTTATAA
*
83477051 TTTTTATAC
1 TTTTTATAA
**
83477060 TTTTTA-GC
1 TTTTTATAA
*
83477068 TTTTTATGA
1 TTTTTATAA
*
83477077 TTTATTAGAA
1 TTT-TTATAA
*
83477087 TTTATAT-A
1 TTTTTATAA
83477095 TTATTTATAA
1 TT-TTTATAA
* **
83477105 ATTTTAGTGG
1 TTTTTA-TAA
*
83477115 TTTTTTTAA
1 TTTTTATAA
83477124 GTTTTTATAAA
1 -TTTTTAT-AA
* *
83477135 ATTTTAAATA
1 TTTTTATA-A
83477145 TGTTTTATAAA
1 T-TTTTAT-AA
*
83477156 TTGTATCATAA
1 TT-T-TTATAA
*
83477167 TTTAT-TAA
1 TTTTTATAA
83477175 TTTTTATAAA
1 TTTTTAT-AA
*
83477185 TTTTTGTAA
1 TTTTTATAA
* *
83477194 TATTTACAA
1 TTTTTATAA
*
83477203 TTTTT-T-C
1 TTTTTATAA
83477210 TTTTTATAA
1 TTTTTATAA
*
83477219 CTTTATATCAA
1 -TTTTTAT-AA
83477230 -TTTTAT--
1 TTTTTATAA
83477236 TTTTTAT--
1 TTTTTATAA
83477243 TTTTT-T-A
1 TTTTTATAA
83477250 TTTTTA-ACA
1 TTTTTATA-A
83477259 TTTTTATGATA
1 TTTTTAT-A-A
83477270 TTTTTA
1 TTTTTA
83477276 ATGATTTCTA
Statistics
Matches: 165, Mismatches: 35, Indels: 48
0.67 0.14 0.19
Matches are distributed among these distances:
6 1 0.01
7 21 0.13
8 18 0.11
9 55 0.33
10 42 0.25
11 24 0.15
12 4 0.02
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:83477282 original size:21 final size:20
Alignment explanation
Indices: 83477248--83477288 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
83477238 TTTATTTTTT
*
83477248 TATTTTTAACATTTTTATGA
1 TATTTTTAACATTTCTATGA
*
83477268 TATTTTTAATGATTTCTATGA
1 TATTTTTAA-CATTTCTATGA
83477289 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (20 bp):
TATTTTTAACATTTCTATGA
Found at i:83482330 original size:14 final size:14
Alignment explanation
Indices: 83482311--83482345 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
83482301 AAATGGTTTT
*
83482311 TGCAAATGGATGTA
1 TGCAAATGGATGAA
*
83482325 TGCAAATGTATGAA
1 TGCAAATGGATGAA
83482339 TGCAAAT
1 TGCAAAT
83482346 ACACTAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (14 bp):
TGCAAATGGATGAA
Found at i:83484859 original size:20 final size:20
Alignment explanation
Indices: 83484834--83484874 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
83484824 GTGACCACAC
83484834 TCCCTACCCACACGGGCGTG
1 TCCCTACCCACACGGGCGTG
* *
83484854 TCCCTATCCACACGGGTGTG
1 TCCCTACCCACACGGGCGTG
83484874 T
1 T
83484875 AGCCCTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.39, G:0.24, T:0.22
Consensus pattern (20 bp):
TCCCTACCCACACGGGCGTG
Found at i:83493362 original size:60 final size:60
Alignment explanation
Indices: 83493223--83493411 Score: 183
Period size: 59 Copynumber: 3.2 Consensus size: 60
83493213 ATCAGTCACA
* * ***
83493223 GCCGTGTGTCCCGTAACACACGCCCGTGTGGAATCCCTAGGCCT-CAAATCA-TTCACACG
1 GCCGTGTGTCCCATAACACACGCCCGTGTGGAAGCCCTAATTCTCCAAATCAGTT-ACACG
* * * *
83493282 GCCGTCTATCCCGA-AGCACACGCCCGTGTGGGAA-CCCTAATTTTCCAAATCAGTTACACG
1 GCCGTGTGTCCC-ATAACACACGCCCGTGT-GGAAGCCCTAATTCTCCAAATCAGTTACACG
* * * *
83493342 GCCTTGTGTCCCATAACACACGCCCGTATGGAAGCCTTAATTGC-CCAAA-CAGTCACACG
1 GCCGTGTGTCCCATAACACACGCCCGTGTGGAAGCCCTAATT-CTCCAAATCAGTTACACG
83493401 GCCGTGTGTCC
1 GCCGTGTGTCC
83493412 AATGGACATG
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
59 54 0.51
60 50 0.47
61 2 0.02
ACGTcount: A:0.23, C:0.34, G:0.21, T:0.21
Consensus pattern (60 bp):
GCCGTGTGTCCCATAACACACGCCCGTGTGGAAGCCCTAATTCTCCAAATCAGTTACACG
Found at i:83496358 original size:34 final size:34
Alignment explanation
Indices: 83496319--83496393 Score: 134
Period size: 34 Copynumber: 2.2 Consensus size: 34
83496309 CAACATTCAA
83496319 GCATACAAAACCTTACTAG-GACAACTATCAACAT
1 GCATACAAAACCTTACTAGTG-CAACTATCAACAT
83496353 GCATACAAAACCTTACTAGTGCAACTATCAACAT
1 GCATACAAAACCTTACTAGTGCAACTATCAACAT
83496387 GCATACA
1 GCATACA
83496394 CAAATAATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.43, C:0.27, G:0.09, T:0.21
Consensus pattern (34 bp):
GCATACAAAACCTTACTAGTGCAACTATCAACAT
Found at i:83498344 original size:18 final size:18
Alignment explanation
Indices: 83498323--83498357 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83498313 TTTCACTTTC
83498323 ATTTTTCAATTTTTTTTT
1 ATTTTTCAATTTTTTTTT
**
83498341 ATTTTTTTATTTTTTTT
1 ATTTTTCAATTTTTTTT
83498358 ACTTTTAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (18 bp):
ATTTTTCAATTTTTTTTT
Found at i:83513646 original size:17 final size:18
Alignment explanation
Indices: 83513624--83513658 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
83513614 AATTAGGTTG
83513624 TGTGGG-CCACACGGGCA
1 TGTGGGCCCACACGGGCA
83513641 TGTGGGCCCACACGGGCA
1 TGTGGGCCCACACGGGCA
83513659 GGCCACATAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.17, C:0.31, G:0.40, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACACGGGCA
Found at i:83514132 original size:41 final size:41
Alignment explanation
Indices: 83514075--83514156 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
83514065 TGTTACTGAT
* ** * *
83514075 TAATGTATATCTGATACTGTTACTATAATGGGCTTAGGCCC
1 TAATGCATATCTGATACTGAAACTAAAATGGGCTCAGGCCC
*
83514116 TAATGCATATTTGATACTGAAACTAAAATGGGCTCAGGCCC
1 TAATGCATATCTGATACTGAAACTAAAATGGGCTCAGGCCC
83514157 GAACTTTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (41 bp):
TAATGCATATCTGATACTGAAACTAAAATGGGCTCAGGCCC
Found at i:83517499 original size:144 final size:144
Alignment explanation
Indices: 83517251--83517533 Score: 374
Period size: 144 Copynumber: 2.0 Consensus size: 144
83517241 TGTCAAGGTC
* * *
83517251 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCGTCTCAATACCGATGCCATGTCCCAAAC
1 GATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCGACACAATACCGATGCCATGTCCCAAAC
* * *
83517316 ATGGTCTTACACTGGCTCTCATAATGTAGCCAATACCATGTCCTAGGCATCATCTTACACTAGCA
66 ATGGTCTTACACTGGCTCTCATAATGTAGCCAACACCATGTCCCAGACATCATCTTACACTAGCA
83517381 CACATATCAATGCT
131 CACATATCAATGCT
* * * * *
83517395 GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTC-ACAACATTGCCGATGCCATGTTCCAAA
1 GATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCGAC-ACAATACCGATGCCATGTCCCAAA
* * **
83517459 CATGGTCTTACACTGGCTCTCATATCATG-A-CCGACGCCATGTCCCAGACATGGTCTTACACTA
65 CATGGTCTTACACTGGCTCTCATA--ATGTAGCCAACACCATGTCCCAGACATCATCTTACACTA
*
83517522 GCGCACATATCA
128 GCACACATATCA
83517534 CCCAAATGTC
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
143 1 0.01
144 115 0.96
145 1 0.01
146 3 0.03
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (144 bp):
GATGCCATGTCCCAAACATAGTCTTACACTAGCTCTCGACACAATACCGATGCCATGTCCCAAAC
ATGGTCTTACACTGGCTCTCATAATGTAGCCAACACCATGTCCCAGACATCATCTTACACTAGCA
CACATATCAATGCT
Found at i:83517521 original size:96 final size:97
Alignment explanation
Indices: 83517203--83517523 Score: 316
Period size: 96 Copynumber: 3.3 Consensus size: 97
83517193 GTAAATTGTT
** * * * *
83517203 GATGCCATGTCCCAAACATGGTCTTGTACTGGCT-T-ACATGTCA-AGGTCGATGCCATGTCCCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACA--ACATA-GCCGATGCCATGTTCCA
* *
83517265 GACATAGTCTTACACTAGCTCTCGTCTCAAT-ACC
63 GACATAGTCTTACACTAGCTCTCATATCAATGACC
* * ** * * *
83517299 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTAGCCAATACCATG-TCCTAGG
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATAGCCGATGCCATGTTCC-AGA
* * *
83517363 CATCA-TCTTACACTAGCACACATATCAATG-CT
65 CAT-AGTCTTACACTAGCTCTCATATCAATGACC
* * *
83517395 GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATTGCCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATAGCCGATGCCATGTTCCAGAC
* *
83517460 ATGGTCTTACACTGGCTCTCATATC-ATGACC
66 ATAGTCTTACACTAGCTCTCATATCAATGACC
* *
83517491 GACGCCATGTCCCAGACATGGTCTTACACTAGC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGC
83517524 GCACATATCA
Statistics
Matches: 182, Mismatches: 34, Indels: 18
0.78 0.15 0.08
Matches are distributed among these distances:
95 5 0.03
96 169 0.93
97 6 0.03
98 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (97 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATAGCCGATGCCATGTTCCAGAC
ATAGTCTTACACTAGCTCTCATATCAATGACC
Found at i:83517531 original size:48 final size:48
Alignment explanation
Indices: 83517203--83517533 Score: 287
Period size: 48 Copynumber: 6.9 Consensus size: 48
83517193 GTAAATTGTT
** * * * **
83517203 GATGCCATGTCCCAAACATGGTCTTGTACTGGCT-TACATGTCAAGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CATATCATGACC
* * * *
83517251 GATGCCATGTCCCAGACATAGTCTTACACTAGCTCTCGTCTCAAT-ACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-ATGACC
*
83517299 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA--ATGTAGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATG-A-CC
* * * ** ** * * *
83517347 AATACCATGTCCTAGGCATCATCTTACACTAGCACACATATCAATG-CT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-ATGACC
* * *
83517395 GATGCTATGTCCCAAACATGGTCTTACACTAGCTCTCACAACATTG-CC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA-TGACC
* *
83517443 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGACC
* * * *
83517491 GACGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
83517534 CCCAAATGTC
Statistics
Matches: 223, Mismatches: 50, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
45 2 0.01
47 4 0.02
48 212 0.95
49 2 0.01
51 3 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGACC
Found at i:83522839 original size:42 final size:42
Alignment explanation
Indices: 83522782--83522869 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
83522772 GAGGTAAGCT
83522782 TCTCTATCCCTTCTGGCCTGACTCATTGTCACGGGCCCACTC
1 TCTCTATCCCTTCTGGCCTGACTCATTGTCACGGGCCCACTC
*
83522824 TCTCTATCCCTTCTGGCCTGGCTCATTGTCACGGGCCCACTC
1 TCTCTATCCCTTCTGGCCTGACTCATTGTCACGGGCCCACTC
83522866 TCTC
1 TCTC
83522870 CTGGCTCGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.10, C:0.41, G:0.17, T:0.32
Consensus pattern (42 bp):
TCTCTATCCCTTCTGGCCTGACTCATTGTCACGGGCCCACTC
Found at i:83524844 original size:144 final size:143
Alignment explanation
Indices: 83524595--83524874 Score: 382
Period size: 144 Copynumber: 2.0 Consensus size: 143
83524585 TTGAAGCCGG
* * *
83524595 TGCCATATCCCAGATATGGTCTTACACTAGTCTCGTCACAATGTCGATGCCATGTCCCAGACATG
1 TGCCATATCCCAGATATGGTCTTACACTAGTCTCATCACAATGCCGATGCCATGTCCCAAACATG
* *
83524660 ATCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAGACATGGTCCTACACTAGCACAC
66 ATCTTACACTAGCTCTCATAATATGGCCGACGCCATGTCCCAGACATGGTCCTACACTAGCACAC
83524725 ATATCAATGCTGA
131 ATATCAATGCTGA
* * * * *
83524738 TGCCATGTCCCAGATATTGTCTTACACTGGCTCTCATCACATTGCCGATGCCATGTTCCAAACAT
1 TGCCATATCCCAGATATGGTCTTACACTAG-TCTCATCACAATGCCGATGCCATGTCCCAAACAT
* * * * * * *
83524803 GGTCTTACATTAGCTCTCAT-ATCGTGGCCGACGTCATGTCCCAGGCATGGTCTTACACTAGCGC
65 GATCTTACACTAGCTCTCATAAT-ATGGCCGACGCCATGTCCCAGACATGGTCCTACACTAGCAC
83524867 ACATATCA
129 ACATATCA
83524875 CCCAAATGTC
Statistics
Matches: 118, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
143 29 0.25
144 89 0.75
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (143 bp):
TGCCATATCCCAGATATGGTCTTACACTAGTCTCATCACAATGCCGATGCCATGTCCCAAACATG
ATCTTACACTAGCTCTCATAATATGGCCGACGCCATGTCCCAGACATGGTCCTACACTAGCACAC
ATATCAATGCTGA
Found at i:83524872 original size:48 final size:48
Alignment explanation
Indices: 83524545--83524874 Score: 282
Period size: 48 Copynumber: 6.9 Consensus size: 48
83524535 GTAAATTACT
* * *
83524545 GATGCCATGTCCCAAACATGGTCTTACAC-AGGCTCACATGT--TGAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTA-GCTCTCATATCATG--GCC
* * * * *
83524593 GGTGCCATATCCCAGATATGGTCTTACACTAG-TCTCGTCA-CAAT-GTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATC-ATGGCC
* *
83524640 GATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATAAT-ATGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCC
* * * *
83524688 GATGCCATGTCCCAGACATGGTCCTACACTAGCACACATATCAAT-GCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * * *
83524736 GATGCCATGTCCCAGATATTGTCTTACACTGGCTCTCATCA-CATTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-ATCATGGCC
* * * *
83524784 GATGCCATGTTCCAAACATGGTCTTACATTAGCTCTCATATCGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
* * * * *
83524832 GACGTCATGTCCCAGGCATGGTCTTACACTAGCGCACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
83524875 CCCAAATGTC
Statistics
Matches: 223, Mismatches: 46, Indels: 26
0.76 0.16 0.09
Matches are distributed among these distances:
47 40 0.18
48 178 0.80
49 4 0.02
50 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCATGGCC
Found at i:83529201 original size:17 final size:17
Alignment explanation
Indices: 83529181--83529215 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
83529171 AAAATACATG
*
83529181 TTTTTATAATTTATAAT
1 TTTTTATAATTTAAAAT
*
83529198 TTTTTATATTTTAAAAT
1 TTTTTATAATTTAAAAT
83529215 T
1 T
83529216 ATATATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTTATAATTTAAAAT
Found at i:83530131 original size:22 final size:21
Alignment explanation
Indices: 83530097--83530139 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
83530087 TTATTTTATT
83530097 ATTAAATTAAATTTAAAATTA
1 ATTAAATTAAATTTAAAATTA
*
83530118 ATTATAATTTAATTTAAAATTA
1 ATTA-AATTAAATTTAAAATTA
83530140 TTAGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTAAATTAAATTTAAAATTA
Found at i:83531605 original size:37 final size:38
Alignment explanation
Indices: 83531559--83531663 Score: 124
Period size: 36 Copynumber: 2.7 Consensus size: 38
83531549 AATTCAAAGT
** *
83531559 AGTAAATTGACACCTAGTGTCTCATCGGTTAAA-CTGA
1 AGTAAATTGACACCTAGTGTCTCATCGAATAAATCCGA
*
83531596 AGTAAATTGACA-CTAGTGCCTCATCGAATAAATCCGA
1 AGTAAATTGACACCTAGTGTCTCATCGAATAAATCCGA
*
83531633 AGTAATAAATTGACACCAAGTGTCTCATCGA
1 AG---TAAATTGACACCTAGTGTCTCATCGA
83531664 CTCGAAGTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
36 17 0.30
37 17 0.30
40 10 0.18
41 13 0.23
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (38 bp):
AGTAAATTGACACCTAGTGTCTCATCGAATAAATCCGA
Found at i:83532553 original size:4 final size:4
Alignment explanation
Indices: 83532544--83532579 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
83532534 TGTCTTTCTC
83532544 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
83532580 TTATTATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
CTTT
Found at i:83534832 original size:19 final size:20
Alignment explanation
Indices: 83534808--83534857 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
83534798 ATTCGGGACT
* *
83534808 AATTTGAAACAAA-TCAGAA
1 AATTTGAAAAAAAGTCACAA
*
83534827 AATTTGAGAAAAAAGTTACAA
1 AATTTGA-AAAAAAGTCACAA
83534848 AATTTGAAAA
1 AATTTGAAAA
83534858 CATAGGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 11 0.42
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (20 bp):
AATTTGAAAAAAAGTCACAA
Found at i:83536337 original size:35 final size:35
Alignment explanation
Indices: 83536298--83536376 Score: 149
Period size: 35 Copynumber: 2.2 Consensus size: 35
83536288 CAAGTCTGCT
83536298 TATATTAAAACAATATAGTAAATAATCAATTTAAC
1 TATATTAAAACAATATAGTAAATAATCAATTTAAC
83536333 TATATTAAAACAATATAGTAAATAATCAATTTAAC
1 TATATTAAAACAATATAGTAAATAATCAATTTAAC
83536368 TATCATTAA
1 TAT-ATTAA
83536377 TATGATTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 38 0.88
36 5 0.12
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.35
Consensus pattern (35 bp):
TATATTAAAACAATATAGTAAATAATCAATTTAAC
Found at i:83537725 original size:29 final size:29
Alignment explanation
Indices: 83537683--83537752 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
83537673 AAATTGTCTT
83537683 GGATGGATTCTTTTAAGCCATTCAATTTC
1 GGATGGATTCTTTTAAGCCATTCAATTTC
83537712 GGATGGATTCTTTTAAGCCATTCAATTTC
1 GGATGGATTCTTTTAAGCCATTCAATTTC
83537741 GGATGGATTCTT
1 GGATGGATTCTT
83537753 AGTCGTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (29 bp):
GGATGGATTCTTTTAAGCCATTCAATTTC
Found at i:83542492 original size:3 final size:3
Alignment explanation
Indices: 83542480--83542547 Score: 54
Period size: 3 Copynumber: 23.3 Consensus size: 3
83542470 TTATTTTGGC
* *
83542480 TAT T-T TAT TAT TA- AAT TAAT TAAT T-T TAT TAT TAT TAC TA- TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT TAT TAT TAT TAT TAT TAT TAT
* *
83542523 TAT TAC TAT TAC TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
83542548 CTCTAAATGG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
2 7 0.13
3 39 0.74
4 7 0.13
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:83542666 original size:3 final size:3
Alignment explanation
Indices: 83542651--83542688 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
83542641 AAAAGCTTAG
*
83542651 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
83542689 CCTTTTAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:83548217 original size:48 final size:48
Alignment explanation
Indices: 83548160--83548295 Score: 191
Period size: 48 Copynumber: 2.8 Consensus size: 48
83548150 CATGGTAGGG
* ** * *
83548160 TGCCAATGCCATATCCTGGATATGGTCTTACATGGGATCACATATCGA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGAGATCACATATCGA
*
83548208 TGCCAATGCCATGTCCCAGAAAAGGTCTTACATGAGATCACATATCGA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGAGATCACATATCGA
* * *
83548256 TGCTAATGCCATGTCCCAGACATGGTCATACATGAGATCA
1 TGCCAATGCCATGTCCCAGAAATGGTCTTACATGAGATCA
83548296 TAAATAACCC
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGAAATGGTCTTACATGAGATCACATATCGA
Found at i:83551526 original size:40 final size:40
Alignment explanation
Indices: 83551452--83551593 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
83551442 AACCCAAGTA
* * *
83551452 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
83551491 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
83551531 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
83551571 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
83551594 CATTCGAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 12 0.12
40 83 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:83559569 original size:40 final size:40
Alignment explanation
Indices: 83559495--83559636 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
83559485 AACCCAAGTA
* *
83559495 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
83559534 CCTTCGGGTCTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
83559574 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
83559614 CCTTCGGGACTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
83559637 CATTCGAATA
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 12 0.13
40 81 0.86
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:83568982 original size:44 final size:43
Alignment explanation
Indices: 83568935--83569125 Score: 127
Period size: 44 Copynumber: 4.3 Consensus size: 43
83568925 AGTTACAGAA
*
83568935 GAGCAGATTAAAGCTATAAACCATATCTCCCTAAAGTTGCAGTA
1 GAGCAGATTAAAGCTATAAACC-TATCTCCCTAAAGTTGCAGTG
* * * *
83568979 GAGCAGGTTGAAA-TTAAAAATCCTATCTCCCTGAAA-TTACAGTG
1 GAGCAGATT-AAAGCTATAAA-CCTATCTCCCT-AAAGTTGCAGTG
*** * * * *
83569023 GAGCAGATCGGAGATA-ACCAATCTTATCTCCTTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTATA--AA-CCTATCTCCCTAAAGTTGCAGTG
* * * * *
83569068 GAACAGATTGAAGCTACTAATCCTATCTCCTTGAAGTTGCAGTG
1 GAGCAGATTAAAGCTA-TAAACCTATCTCCCTAAAGTTGCAGTG
*
83569112 GAGCGGATTAAAGC
1 GAGCAGATTAAAGC
83569126 GACAAATCCT
Statistics
Matches: 115, Mismatches: 23, Indels: 18
0.74 0.15 0.12
Matches are distributed among these distances:
43 2 0.02
44 72 0.63
45 40 0.35
47 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (43 bp):
GAGCAGATTAAAGCTATAAACCTATCTCCCTAAAGTTGCAGTG
Found at i:83569067 original size:45 final size:44
Alignment explanation
Indices: 83568997--83569115 Score: 148
Period size: 45 Copynumber: 2.7 Consensus size: 44
83568987 TGAAATTAAA
* * * *
83568997 AATCCTATCTCCCTGAAATTACAGTGGAGCAGATCGGAGATAACC
1 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGAT-ACC
* * * * *
83569042 AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACT
1 AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGATACC
83569086 AATCCTATCTCCTTGAAGTTGCAGTGGAGC
1 AATCCTATCTCCTTGAAGTTGCAGTGGAGC
83569116 GGATTAAAGC
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 30 0.48
45 33 0.52
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCCTATCTCCTTGAAGTTGCAGTGGAGCAGATCGAAGATACC
Found at i:83569134 original size:44 final size:44
Alignment explanation
Indices: 83569042--83569167 Score: 141
Period size: 44 Copynumber: 2.9 Consensus size: 44
83569032 GGAGATAACC
* * * * * *
83569042 AATCTTATCTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTACT
1 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCGACA
83569086 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCGACA
1 AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCGACA
*
83569130 AATCCTATAACT-C-TGAAGTTGCAGTAGGTG-GGATTAAA
1 AATCCTAT--CTCCTTGAAGTTGCAGT-GGAGCGGATTAAA
83569168 TATAATATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 66 0.92
45 4 0.06
46 2 0.03
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAGCGACA
Found at i:83569486 original size:17 final size:17
Alignment explanation
Indices: 83569464--83569498 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
83569454 ACCCAAAAAA
*
83569464 CCCAAACTAAACCCAAT
1 CCCAAACCAAACCCAAT
83569481 CCCAAACCAAACCCAAT
1 CCCAAACCAAACCCAAT
83569498 C
1 C
83569499 TAAGCAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.46, G:0.00, T:0.09
Consensus pattern (17 bp):
CCCAAACCAAACCCAAT
Found at i:83570662 original size:18 final size:19
Alignment explanation
Indices: 83570641--83570680 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
83570631 TATTAAATTA
*
83570641 ATTAATT-TTATTATTACT
1 ATTAATTGTTACTATTACT
83570659 ATT-ATTGTTACTATTACT
1 ATTAATTGTTACTATTACT
83570677 ATTA
1 ATTA
83570681 TTATTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (19 bp):
ATTAATTGTTACTATTACT
Found at i:83570663 original size:12 final size:12
Alignment explanation
Indices: 83570648--83570688 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
83570638 TTAATTAATT
83570648 TTATTATTACTA
1 TTATTATTACTA
*
83570660 TTATTGTTACTA
1 TTATTATTACTA
* *
83570672 TTACTATTATTA
1 TTATTATTACTA
83570684 TTATT
1 TTATT
83570689 CTCTAAATGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.61
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:83578215 original size:38 final size:38
Alignment explanation
Indices: 83578173--83578262 Score: 99
Period size: 38 Copynumber: 2.4 Consensus size: 38
83578163 GCAAGGCATT
* *
83578173 AAGCCTGAATAACATCGGCGCTAAGCCTACTAAACACA
1 AAGCCTGAATAACACCGGCACTAAGCCTACTAAACACA
** * * **
83578211 AAGCCCAAATAACACCGGCACTAGGCCTGCTAGGCACA
1 AAGCCTGAATAACACCGGCACTAAGCCTACTAAACACA
*
83578249 AAACCTGAATAACA
1 AAGCCTGAATAACA
83578263 GTATAATTCA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.40, C:0.30, G:0.17, T:0.13
Consensus pattern (38 bp):
AAGCCTGAATAACACCGGCACTAAGCCTACTAAACACA
Found at i:83582471 original size:42 final size:41
Alignment explanation
Indices: 83582424--83582508 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 41
83582414 TTGAAAGATA
83582424 AACTAAACCTAATCTGTCTAAGTTCGTAAAATTGAGATCGG
1 AACTAAACCTAATCTGTCTAAGTTCGTAAAATTGAGATCGG
*
83582465 NAACTAAACCTAATCTGTCTAAGTTCGTAAAATTGAGGTCGG
1 -AACTAAACCTAATCTGTCTAAGTTCGTAAAATTGAGATCGG
83582507 AA
1 AA
83582509 GATAAAATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.28
Consensus pattern (41 bp):
AACTAAACCTAATCTGTCTAAGTTCGTAAAATTGAGATCGG
Found at i:83588911 original size:42 final size:42
Alignment explanation
Indices: 83588834--83588994 Score: 128
Period size: 45 Copynumber: 3.7 Consensus size: 42
83588824 TTTTATCAAA
* *
83588834 TCACCGGCATTTAGCCTGCTAGGTTTAAAAACCTGAATTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTCAAAAACCTGAATTCAT
* * *
83588876 TCACCGGCATTTCGCCTGCTAGGCTCGAAAGCCTGAATAGT-AT
1 TCACCGGCATTTAGCCTGCTAGGCTCAAAAACCTGAAT--TCAT
* * * ** *
83588919 CTCATCGGTATTATAGCCTTCTAGGCTCAAAGGCCCGAATAGT-AT
1 -TCACCGGCATT-TAGCCTGCTAGGCTCAAAAACCTGAAT--TCAT
*
83588964 CTCACCGGCATTATAGCCTACTAGGCTCAAA
1 -TCACCGGCATT-TAGCCTGCTAGGCTCAAA
83588995 GGCCCGAATA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
42 33 0.33
43 2 0.02
44 10 0.10
45 55 0.55
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (42 bp):
TCACCGGCATTTAGCCTGCTAGGCTCAAAAACCTGAATTCAT
Found at i:83588945 original size:45 final size:45
Alignment explanation
Indices: 83588876--83589004 Score: 181
Period size: 45 Copynumber: 2.9 Consensus size: 45
83588866 CTGAATTCAT
* * *
83588876 TCACCGGCATT-TCGCCTGCTAGGCTCGAAA-GCCTGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTC-AAAGGCCCGAATAGTATC
* * *
83588920 TCATCGGTATTATAGCCTTCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
83588965 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATA
83589005 ATACTGTGCG
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
44 12 0.16
45 63 0.84
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
Found at i:83589869 original size:47 final size:47
Alignment explanation
Indices: 83589813--83589955 Score: 259
Period size: 47 Copynumber: 3.0 Consensus size: 47
83589803 AAATTTTTCT
* *
83589813 TTAACTAAGTAACTTATCCAGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
83589860 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
*
83589907 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
83589954 TT
1 TT
83589956 TAAATTCAGC
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGGGCAAATTTAACAAGC
Found at i:83591054 original size:50 final size:50
Alignment explanation
Indices: 83590995--83591094 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
83590985 CTAATACTAC
83590995 TTGTCTTTCTGTACTAAAATCTGACCATGTAATATCGCTTAGTATTAGTT
1 TTGTCTTTCTGTACTAAAATCTGACCATGTAATATCGCTTAGTATTAGTT
83591045 TTGTCTTTCTGTACTAAAATCTGACCATGTAATATCGCTTAGTATTAGTT
1 TTGTCTTTCTGTACTAAAATCTGACCATGTAATATCGCTTAGTATTAGTT
83591095 AACATTAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (50 bp):
TTGTCTTTCTGTACTAAAATCTGACCATGTAATATCGCTTAGTATTAGTT
Found at i:83610545 original size:25 final size:25
Alignment explanation
Indices: 83610500--83610639 Score: 122
Period size: 25 Copynumber: 5.6 Consensus size: 25
83610490 GAATCGATAT
*
83610500 GCTCTTACGAGCT--ATAAATGGTAA
1 GCTCCTACGAGCTGAAT-AATGGTAA
* * *
83610524 GTTCCTATGAGCTGCATAATGGTAA
1 GCTCCTACGAGCTGAATAATGGTAA
*
83610549 GCTCCTCCGAGCTGAATAATGGTAA
1 GCTCCTACGAGCTGAATAATGGTAA
* ** * **
83610574 GCTCATGTGAGCTGAGTAACAGTAA
1 GCTCCTACGAGCTGAATAATGGTAA
* * *
83610599 GCTCATACGAGCTGAGTAACGGTAA
1 GCTCCTACGAGCTGAATAATGGTAA
*
83610624 GCTCATACGAGCTGAA
1 GCTCCTACGAGCTGAA
83610640 ATCGGTAACG
Statistics
Matches: 97, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
24 10 0.10
25 85 0.88
26 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (25 bp):
GCTCCTACGAGCTGAATAATGGTAA
Found at i:83610585 original size:50 final size:50
Alignment explanation
Indices: 83610500--83610638 Score: 140
Period size: 50 Copynumber: 2.8 Consensus size: 50
83610490 GAATCGATAT
* * * **
83610500 GCTCTTACGAGCT--ATAAATGGTAAGTTCCTATGAGCTGCA-TAATGGTAA
1 GCTCATACGAGCTGAAT-AATGGTAAGCTCATATGAGCTG-AGTAACAGTAA
* * *
83610549 GCTCCTCCGAGCTGAATAATGGTAAGCTCATGTGAGCTGAGTAACAGTAA
1 GCTCATACGAGCTGAATAATGGTAAGCTCATATGAGCTGAGTAACAGTAA
* * *
83610599 GCTCATACGAGCTGAGTAACGGTAAGCTCATACGAGCTGA
1 GCTCATACGAGCTGAATAATGGTAAGCTCATATGAGCTGA
83610639 AATCGGTAAC
Statistics
Matches: 74, Mismatches: 13, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
49 12 0.16
50 60 0.81
51 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGCTGAATAATGGTAAGCTCATATGAGCTGAGTAACAGTAA
Found at i:83611449 original size:20 final size:19
Alignment explanation
Indices: 83611420--83611459 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
83611410 TAAAAGATGA
83611420 TATCTTTAATATATTTTAT
1 TATCTTTAATATATTTTAT
*
83611439 TATCATTTAATATGTTTTAT
1 TATC-TTTAATATATTTTAT
83611459 T
1 T
83611460 TTAATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (19 bp):
TATCTTTAATATATTTTAT
Found at i:83616355 original size:16 final size:15
Alignment explanation
Indices: 83616334--83616363 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
83616324 CAACCGAAAT
83616334 TAATTATTTTCATTAA
1 TAATTATTTT-ATTAA
83616350 TAATTATTTTATTA
1 TAATTATTTTATTA
83616364 CTTTAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATTATTTTATTAA
Found at i:83616592 original size:17 final size:17
Alignment explanation
Indices: 83616570--83616628 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
83616560 TACAAGTGGA
83616570 AAATATAATTATATAAT
1 AAATATAATTATATAAT
83616587 AAATAT-ATT-TATAA-
1 AAATATAATTATATAAT
* * *
83616601 AAATTTGATATAAATAAT
1 AAATATAAT-TATATAAT
*
83616619 AAATACAATT
1 AAATATAATT
83616629 TTAGTTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 5 0.15
15 7 0.21
16 4 0.12
17 11 0.33
18 6 0.18
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATATAATTATATAAT
Found at i:83617595 original size:15 final size:14
Alignment explanation
Indices: 83617568--83617594 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83617558 CTCTAAAAAT
83617568 AAAAAATTATTTTA
1 AAAAAATTATTTTA
83617582 AAAAAATTATTTT
1 AAAAAATTATTTT
83617595 TTGTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAAAATTATTTTA
Found at i:83624359 original size:23 final size:24
Alignment explanation
Indices: 83624315--83624359 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
83624305 AACTAATTTA
* *
83624315 AAATTAAATAGAAATAAGTAATGC
1 AAATTAAATACAAATAAATAATGC
83624339 AAATTAAAT-CAAATAAATAAT
1 AAATTAAATACAAATAAATAAT
83624360 CAATAGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (24 bp):
AAATTAAATACAAATAAATAATGC
Found at i:83624369 original size:23 final size:23
Alignment explanation
Indices: 83624326--83624369 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
83624316 AATTAAATAG
* *
83624326 AAATAAGTAATGCAAATTAAATC
1 AAATAAATAATGCAAAGTAAATC
83624349 AAATAAATAAT-CAATAGTAAA
1 AAATAAATAATGCAA-AGTAAA
83624370 ACCTTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.61, C:0.07, G:0.07, T:0.25
Consensus pattern (23 bp):
AAATAAATAATGCAAAGTAAATC
Found at i:83624633 original size:14 final size:14
Alignment explanation
Indices: 83624614--83624665 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
83624604 AATTGATAGC
83624614 TAATTAAAGTACAA
1 TAATTAAAGTACAA
* *
83624628 TAATTAAATTGATAA
1 TAATTAAAGT-ACAA
*
83624643 CTAATTAAAGTACGA
1 -TAATTAAAGTACAA
83624658 TAATTAAA
1 TAATTAAA
83624666 TTGTAAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 17 0.55
15 5 0.16
16 9 0.29
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (14 bp):
TAATTAAAGTACAA
Done.