Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 140 of 216
Found at i:44427891 original size:65 final size:65
Alignment explanation
Indices: 44427787--44427932 Score: 283
Period size: 65 Copynumber: 2.2 Consensus size: 65
44427777 ACGAGACATG
44427787 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
*
44427852 TTTGGTGTGTTGGAGAGTGTTAGCTTTATGCTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
1 TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
44427917 TTTGGTGTGTTGGAGA
1 TTTGGTGTGTTGGAGA
44427933 TCCGTGTATC
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 80 1.00
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (65 bp):
TTTGGTGTGTTGGAGAGTGTTAGCTTTATACTTCACTTTTGGGATATGTTCGACTCTATGAGTCA
Found at i:44430675 original size:15 final size:15
Alignment explanation
Indices: 44430646--44430685 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
44430636 CCAAGCCAGT
44430646 AAATATTTA--ATAA
1 AAATATTTACGATAA
44430659 AAATATTTACGATAA
1 AAATATTTACGATAA
44430674 AAATATTTACGA
1 AAATATTTACGA
44430686 ATTGATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (15 bp):
AAATATTTACGATAA
Found at i:44441654 original size:21 final size:22
Alignment explanation
Indices: 44441625--44441667 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44441615 ACCAAGCATA
*
44441625 ATAGGAAAA-CAACAAAAAATC
1 ATAGCAAAACCAACAAAAAATC
*
44441646 ATAGCAAAACCAACATAAAATC
1 ATAGCAAAACCAACAAAAAATC
44441668 TACCACATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.63, C:0.19, G:0.07, T:0.12
Consensus pattern (22 bp):
ATAGCAAAACCAACAAAAAATC
Found at i:44452244 original size:60 final size:60
Alignment explanation
Indices: 44452149--44452264 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
44452139 AATTATATAG
* * * *
44452149 TTTTCATCATAAGGCATTCCTTGTGTCTTCAACCGCCATCGTTTCATCTTCTCCTCGTGT
1 TTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCGTTCCATCTTCTCCTCGTGT
* *
44452209 TTTTCATCACAAGGAATTCATTGTGTCTTCGACCGCCATTGTTCCATCTTCTCCTC
1 TTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCGTTCCATCTTCTCCTC
44452265 ATCATGAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.16, C:0.30, G:0.13, T:0.41
Consensus pattern (60 bp):
TTTTCATCACAAGGAATTCATTGTGTCTTCAACCGCCATCGTTCCATCTTCTCCTCGTGT
Found at i:44457732 original size:35 final size:36
Alignment explanation
Indices: 44457683--44457754 Score: 119
Period size: 35 Copynumber: 2.0 Consensus size: 36
44457673 TTCAACGAGT
44457683 TAGTAGAGGAACCAATTAGACATATGT-GTTGAGGC
1 TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
* *
44457718 TAGTGGAGGGACCAATTAGACATATGTGGTTGAGGC
1 TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
44457754 T
1 T
44457755 CAAATGATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
35 25 0.74
36 9 0.26
ACGTcount: A:0.31, C:0.11, G:0.32, T:0.26
Consensus pattern (36 bp):
TAGTAGAGGAACCAATTAGACATATGTGGTTGAGGC
Found at i:44459331 original size:28 final size:28
Alignment explanation
Indices: 44459269--44459350 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
44459259 AAAATAATTT
*
44459269 TAAAAATTTCATAAAATTTATAAAAAAA
1 TAAAATTTTCATAAAATTTATAAAAAAA
*
44459297 TCCAAATTTTCAT-AAATTT-TAAAAATATA
1 T-AAAATTTTCATAAAATTTATAAAAA-A-A
* *
44459326 TAAAATTTT-AAAAAAATTA-AAAAAA
1 TAAAATTTTCATAAAATTTATAAAAAA
44459351 TTCTAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
27 8 0.18
28 25 0.57
29 11 0.25
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (28 bp):
TAAAATTTTCATAAAATTTATAAAAAAA
Found at i:44459348 original size:18 final size:18
Alignment explanation
Indices: 44459310--44459347 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
44459300 AAATTTTCAT
*
44459310 AAATTTTAAAAATATATA
1 AAATTTTAAAAAAATATA
44459328 AAATTTTAAAAAAAT-TA
1 AAATTTTAAAAAAATATA
44459345 AAA
1 AAA
44459348 AAATTCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATTTTAAAAAAATATA
Found at i:44464911 original size:50 final size:50
Alignment explanation
Indices: 44464834--44464933 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
44464824 TTCTTTCCCT
* *
44464834 ATAGCCATGTCCTAAGACTTGTGTGAATTTAACATCTTAAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
*
44464884 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTGAATAAGCTTCA
1 ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
44464934 GCTTTCTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (50 bp):
ATAGCCATGTCCTAAAACTTGTATGAATTTAACATCTTAAATAAGCTTCA
Found at i:44464986 original size:26 final size:26
Alignment explanation
Indices: 44464957--44465043 Score: 68
Period size: 26 Copynumber: 3.2 Consensus size: 26
44464947 GCTATCTATC
44464957 TTTCAAATATAGTAGTGAAAATTAGT
1 TTTCAAATATAGTAGTGAAAATTAGT
** * * * *
44464983 TTTCAAACT-TTCTTGATTAATTATCTATT
1 TTTCAAA-TATAGTAG-TGAA-AAT-TAGT
*
44465012 TTTCAAATATAGTAGTGAGAATTAGT
1 TTTCAAATATAGTAGTGAAAATTAGT
44465038 TTTCAA
1 TTTCAA
44465044 CCTCTTGAAG
Statistics
Matches: 43, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
26 19 0.44
27 6 0.14
28 5 0.12
29 13 0.30
ACGTcount: A:0.36, C:0.08, G:0.11, T:0.45
Consensus pattern (26 bp):
TTTCAAATATAGTAGTGAAAATTAGT
Found at i:44465019 original size:55 final size:55
Alignment explanation
Indices: 44464935--44465043 Score: 182
Period size: 55 Copynumber: 2.0 Consensus size: 55
44464925 TAAGCTTCAG
*
44464935 CTTTCTTGATTAGCTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
1 CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
* * *
44464990 CTTTCTTGATTAATTATCTATTTTTCAAATATAGTAGTGAGAATTAGTTTTCAA
1 CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAA
44465044 CCTCTTGAAG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 50 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (55 bp):
CTTTCTTGATTAACTATCTATCTTTCAAATATAGTAGTGAAAATTAGTTTTCAAA
Found at i:44468970 original size:13 final size:13
Alignment explanation
Indices: 44468952--44468976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44468942 TAGACCAAAC
44468952 TTTTCAAAAGCAA
1 TTTTCAAAAGCAA
44468965 TTTTCAAAAGCA
1 TTTTCAAAAGCA
44468977 TTGTTAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAA
Found at i:44473741 original size:20 final size:21
Alignment explanation
Indices: 44473701--44473744 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
44473691 CAACCATATG
44473701 TTTATGTTTTTTTAATGATAAT
1 TTTATGTTTTTTT-ATGATAAT
*
44473723 TTTATGTTTTTTT-TTATAAT
1 TTTATGTTTTTTTATGATAAT
44473743 TT
1 TT
44473745 CAAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (21 bp):
TTTATGTTTTTTTATGATAAT
Found at i:44480743 original size:32 final size:32
Alignment explanation
Indices: 44480677--44480821 Score: 157
Period size: 32 Copynumber: 4.5 Consensus size: 32
44480667 GATATCCCAA
* ** *
44480677 ACTTAACAGACA-AGCTTGCGAACTTAATTCGC
1 ACTTAACAGACATA-CTTGTGAACACAGTTCGC
* *
44480709 ACTTAACAAACATACTTGTGAACACAGTTTGC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
* *
44480741 ACTTAACAGACATATTTGTGAACATAGTTCGC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
* * *
44480773 ATTTAACAGACATACTTGTGCACACAGTTCTC
1 ACTTAACAGACATACTTGTGAACACAGTTCGC
**
44480805 GTTTAACAGACATACTT
1 ACTTAACAGACATACTT
44480822 ACTAGAATAA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 95 0.99
33 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (32 bp):
ACTTAACAGACATACTTGTGAACACAGTTCGC
Found at i:44480748 original size:64 final size:64
Alignment explanation
Indices: 44480677--44480821 Score: 177
Period size: 64 Copynumber: 2.3 Consensus size: 64
44480667 GATATCCCAA
*
44480677 ACTTAACAGACA-AGCTTGCGAACTTAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
1 ACTTAACAGACATA-CTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
* * * * * *
44480741 ACTTAACAGACATATTTGTGAACATAGTTCGCATTTAACAGACATACTTGTGCACACAGTTCT-C
1 ACTTAACAGACATACTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTT-TGC
**
44480805 GTTTAACAGACATACTT
1 ACTTAACAGACATACTT
44480822 ACTAGAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
64 67 0.97
65 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (64 bp):
ACTTAACAGACATACTTGCGAACATAATTCGCACTTAACAAACATACTTGTGAACACAGTTTGC
Found at i:44481420 original size:18 final size:18
Alignment explanation
Indices: 44481411--44481445 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44481401 TATTATCATG
44481411 GGTTTGCATAATAACATA
1 GGTTTGCATAATAACATA
*
44481429 GGTTTGCAGAATAACAT
1 GGTTTGCATAATAACAT
44481446 GCAACATGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (18 bp):
GGTTTGCATAATAACATA
Found at i:44481452 original size:25 final size:25
Alignment explanation
Indices: 44481423--44481470 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
44481413 TTTGCATAAT
44481423 AACATAGGTTTGCAGAATAACATGC
1 AACATAGGTTTGCAGAATAACATGC
* *
44481448 AACATGGGTTTGCATAATAACAT
1 AACATAGGTTTGCAGAATAACAT
44481471 AGGTTCACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.27
Consensus pattern (25 bp):
AACATAGGTTTGCAGAATAACATGC
Found at i:44481468 original size:43 final size:43
Alignment explanation
Indices: 44481407--44481505 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
44481397 CACATATTAT
** *
44481407 CATGGGTTTGCATAATAACATAGGTTTGCAGAATAACATGCAA
1 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
*
44481450 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATATAA
1 CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
*
44481493 CATGGGTTCGCAT
1 CATGGGTTTGCAT
44481506 CAAGACCAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.28
Consensus pattern (43 bp):
CATGGGTTTGCATAATAACATAGGTTCACAGAATAACATACAA
Found at i:44485295 original size:96 final size:96
Alignment explanation
Indices: 44485142--44485317 Score: 235
Period size: 96 Copynumber: 1.8 Consensus size: 96
44485132 AACTAATCTC
* * * * **
44485142 TCACCTATTGTGAAATGTTACTAGTGTAGTTTAAAAGATTATGAGGGTTTTCGATGTCCAATTAA
1 TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTTAAATGTCCAATTAA
44485207 ATATCCAAATAGAGAGAATACAATTAAGCTA
66 ATATCCAAATAGAGAGAATACAATTAAGCTA
* * * * * *
44485238 TCACCTTTTGTGCAATGCTATTGGTGTAGTTAAAAATATCATAAGGGTTTTAAATGTCCAATTCA
1 TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTTAAATGTCCAATTAA
*
44485303 ATATCCAACTAGAGA
66 ATATCCAAATAGAGA
44485318 AGAAAATAAG
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 67 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (96 bp):
TCACCTATTGTGAAATGCTACTAGTGTAGTTAAAAAGATCATAAGGGTTTTAAATGTCCAATTAA
ATATCCAAATAGAGAGAATACAATTAAGCTA
Found at i:44489633 original size:39 final size:39
Alignment explanation
Indices: 44489575--44489649 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
44489565 TTTAAGTCTT
*
44489575 CTTCACCGAAACTCCATAGTTTCAACTTCTCCAAGCAGA
1 CTTCACCAAAACTCCATAGTTTCAACTTCTCCAAGCAGA
**
44489614 CTTCACCAAAACTTTATAGTTTCAACTTCTCCAAGC
1 CTTCACCAAAACTCCATAGTTTCAACTTCTCCAAGC
44489650 TTCGGTCTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.31, C:0.32, G:0.08, T:0.29
Consensus pattern (39 bp):
CTTCACCAAAACTCCATAGTTTCAACTTCTCCAAGCAGA
Found at i:44490368 original size:20 final size:22
Alignment explanation
Indices: 44490345--44490386 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
44490335 GAGATTGGCA
*
44490345 TGTGATGA-GTTC-AATTGAGT
1 TGTGATGATATTCAAATTGAGT
44490365 TGTGATGATATTCAAATTGAGT
1 TGTGATGATATTCAAATTGAGT
44490387 ACTATGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.29, C:0.05, G:0.26, T:0.40
Consensus pattern (22 bp):
TGTGATGATATTCAAATTGAGT
Found at i:44491398 original size:20 final size:20
Alignment explanation
Indices: 44491375--44491443 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
44491365 TAAGTTTATT
*
44491375 ACAAACTTACTAAGCTTTAA
1 ACAAGCTTACTAAGCTTTAA
* *
44491395 ACAAGCTT-TTAAG-TTTATT
1 ACAAGCTTACTAAGCTTTA-A
*
44491414 ACGAGCTTACTAAGCTTTAA
1 ACAAGCTTACTAAGCTTTAA
44491434 ACAAGCTTAC
1 ACAAGCTTAC
44491444 CTCATTTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
18 4 0.10
19 11 0.28
20 20 0.51
21 4 0.10
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (20 bp):
ACAAGCTTACTAAGCTTTAA
Found at i:44491406 original size:39 final size:39
Alignment explanation
Indices: 44491363--44491441 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
44491353 TAAGTTAAAG
44491363 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
1 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
* *
44491402 TTTAAGTTTATTACGAGCTTACTAAGCTTTAAACAAGCT
1 TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
44491441 T
1 T
44491442 ACCTCATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (39 bp):
TTTAAGTTTATTACAAACTTACTAAGCTTTAAACAAGCT
Found at i:44492699 original size:9 final size:9
Alignment explanation
Indices: 44492676--44492708 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
44492666 AATTTATTAC
44492676 ATGAAAAAT
1 ATGAAAAAT
44492685 AT-AAAAAT
1 ATGAAAAAT
*
44492693 ATGAAAAAA
1 ATGAAAAAT
44492702 ATGAAAA
1 ATGAAAA
44492709 TCTAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (9 bp):
ATGAAAAAT
Found at i:44492708 original size:17 final size:17
Alignment explanation
Indices: 44492676--44492709 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44492666 AATTTATTAC
*
44492676 ATGAAAAATATAAAAAT
1 ATGAAAAAAATAAAAAT
*
44492693 ATGAAAAAAATGAAAAT
1 ATGAAAAAAATAAAAAT
44492710 CTAAGTTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (17 bp):
ATGAAAAAAATAAAAAT
Found at i:44501346 original size:163 final size:163
Alignment explanation
Indices: 44501076--44501398 Score: 479
Period size: 163 Copynumber: 2.0 Consensus size: 163
44501066 GGAAAAGAAA
* *
44501076 CCAAGGCTCATTAGATGGATTTTACTACTCCAAGAATTCGACATCGAGATTCGAGACAAGAGGGG
1 CCAAGGCTCATTAGATGGATTTTACTACTCCAAGAATTCGACATCAAGATTCGAGACAAGAAGGG
44501141 ATGCGAAAACTTAGTGGATGACCATTGAAGTAGATGAAAAACACCTTGTGATGACACTCCTATAA
66 ATGCGAAAACTTAGTGGATGACCATTGAAGTAGATGAAAAACACCTTGTGATGACACTCCTATAA
* * * *
44501206 GGGATGAGTTTCTTGAGGAGGGCTTATTTTCAG
131 AGAATGAGTTTCCTGAGGAGGGCCTATTTTCAG
* * *
44501239 CCAAGGCTCATTAGTTGGATTTTATTGCTCCAAGAATTCGACATCAAGATTCGAGACAAGAAGGG
1 CCAAGGCTCATTAGATGGATTTTACTACTCCAAGAATTCGACATCAAGATTCGAGACAAGAAGGG
* * * *
44501304 ATGCGAAAACTTGGTGG-TTAGCCACTTG-AGTAGATTAAAAACACCTTGTGATGACACTCTTAT
66 ATGCGAAAACTTAGTGGATGA-CCA-TTGAAGTAGATGAAAAACACCTTGTGATGACACTCCTAT
* *
44501367 AAAGAATGAGTTTCCTGATGATGGCCTATTTT
129 AAAGAATGAGTTTCCTGAGGAGGGCCTATTTT
44501399 TGGCCAAAAC
Statistics
Matches: 143, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
162 2 0.01
163 138 0.97
164 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (163 bp):
CCAAGGCTCATTAGATGGATTTTACTACTCCAAGAATTCGACATCAAGATTCGAGACAAGAAGGG
ATGCGAAAACTTAGTGGATGACCATTGAAGTAGATGAAAAACACCTTGTGATGACACTCCTATAA
AGAATGAGTTTCCTGAGGAGGGCCTATTTTCAG
Found at i:44502651 original size:4 final size:4
Alignment explanation
Indices: 44502642--44502710 Score: 52
Period size: 4 Copynumber: 15.8 Consensus size: 4
44502632 CAACCTAATT
44502642 TTTA TTTA TTTA TTTA TATTAA TTTA TATTAA TTTA TATTAA TTTA -TTA
1 TTTA TTTA TTTA TTTA T-TT-A TTTA T-TT-A TTTA T-TT-A TTTA TTTA
44502691 TTTA -TTA CTTTA TTTTA TTT
1 TTTA TTTA -TTTA -TTTA TTT
44502711 TCATGTTAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 18
0.74 0.01 0.24
Matches are distributed among these distances:
3 6 0.11
4 24 0.44
5 19 0.35
6 6 0.11
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.68
Consensus pattern (4 bp):
TTTA
Found at i:44502661 original size:10 final size:10
Alignment explanation
Indices: 44502645--44502688 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
44502635 CCTAATTTTT
44502645 ATTTAT-TT-
1 ATTTATATTA
44502653 ATTTATATTA
1 ATTTATATTA
44502663 ATTTATATTA
1 ATTTATATTA
44502673 ATTTATATTA
1 ATTTATATTA
44502683 ATTTAT
1 ATTTAT
44502689 TATTTATTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 6 0.18
9 2 0.06
10 26 0.76
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTATATTA
Found at i:44502676 original size:20 final size:18
Alignment explanation
Indices: 44502645--44502695 Score: 77
Period size: 20 Copynumber: 2.8 Consensus size: 18
44502635 CCTAATTTTT
44502645 ATTTATTTATTTATATTA
1 ATTTATTTATTTATATTA
44502663 ATTTATATTAATTTATATTA
1 ATTTAT-TT-ATTTATATTA
44502683 ATTTA-TTATTTAT
1 ATTTATTTATTTAT
44502696 TACTTTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.19
18 8 0.26
19 2 0.06
20 15 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATTTATTTATATTA
Found at i:44505586 original size:37 final size:37
Alignment explanation
Indices: 44505536--44505614 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44505526 TTATTACGAA
* * *
44505536 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44505573 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44505610 GTCTT
1 GTCTT
44505615 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44505820 original size:47 final size:47
Alignment explanation
Indices: 44505733--44506182 Score: 639
Period size: 47 Copynumber: 9.4 Consensus size: 47
44505723 CCTTTCGGGA
* * * * ** * * *
44505733 CTTATCACATTTATGCACTTTCACATCCATTATGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44505780 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44505827 GTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44505874 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
44505921 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44505968 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44506015 CTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-T-CACATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
44506066 CTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATAT--ATACACTTTCACATTCATCACATCGGCCATTAGGC
44506117 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44506164 CTTATCACATATATACACT
1 CTTATCACATATATACACT
44506183 CTCTTGGCTG
Statistics
Matches: 376, Mismatches: 21, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
47 276 0.73
48 1 0.00
49 11 0.03
50 1 0.00
51 87 0.23
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44508341 original size:40 final size:40
Alignment explanation
Indices: 44508297--44508479 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
44508287 CCAGCATGAT
*
44508297 TGCTCTTCGGGACCTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
44508337 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
44508377 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
44508418 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
44508458 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
44508480 CATCATTCGA
Statistics
Matches: 120, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.03
40 97 0.81
41 20 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:44508826 original size:29 final size:29
Alignment explanation
Indices: 44508787--44508865 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
44508777 CTTAATAATC
*
44508787 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
44508817 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
44508846 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
44508866 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:44508911 original size:43 final size:43
Alignment explanation
Indices: 44508847--44508950 Score: 199
Period size: 43 Copynumber: 2.4 Consensus size: 43
44508837 TGCATTTCAA
44508847 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
44508890 GCCCGCACACTTAGTGTCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
44508933 GCCCGCACACTTAGTGCC
1 GCCCGCACACTTAGTGCC
44508951 GAAAACCAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:44510833 original size:37 final size:37
Alignment explanation
Indices: 44510783--44510861 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
44510773 TTATTACGAA
* * *
44510783 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
44510820 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
44510857 GTCTT
1 GTCTT
44510862 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:44511066 original size:47 final size:47
Alignment explanation
Indices: 44511023--44511804 Score: 1321
Period size: 47 Copynumber: 16.5 Consensus size: 47
44511013 TTGGCCACTC
* * * *
44511023 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
* *
44511070 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511117 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511164 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511211 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511258 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511305 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511352 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511399 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
44511446 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511493 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
44511540 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
44511587 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
* * * *
44511634 GGCCTTATTACATATATACATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTA-T-CACACAT--ATACACTTTCACATTCATCACGTCGGCTATTA
* * *
44511685 GGCCTTATCACATATATACATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCAC--ACAT--ATACACTTTCACATTCATCACGTCGGCTATTA
* * *
44511736 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
*
44511783 GGCCTTATCACATATATACACT
1 GGCCTTATCACACATATACACT
44511805 CTCTTGGCTG
Statistics
Matches: 718, Mismatches: 11, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
47 618 0.86
48 1 0.00
49 11 0.02
50 1 0.00
51 87 0.12
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
Found at i:44514148 original size:105 final size:106
Alignment explanation
Indices: 44513960--44514153 Score: 291
Period size: 105 Copynumber: 1.8 Consensus size: 106
44513950 ATTAAACAAA
*
44513960 AAAATTAAGAGTGTGTTCGGCTGAGTAACTAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
1 AAAATTAAGAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
44514025 TCAAAAGGGCCAAAACATTCTTAACCAAAAAAAATAATAAT
66 TCAAAAGGGCCAAAACATTCTTAACCAAAAAAAATAATAAT
* * * * * * *
44514066 AAAA-TAAGAGTGTGTTGGGCTGAGTAACCGGGGTGGGGTGCTTGGTTTGTCATTCCTCTTCGTG
1 AAAATTAAGAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
* *
44514130 TCAAAAGGGTCAATACATTCTTAA
66 TCAAAAGGGCCAAAACATTCTTAA
44514154 GAAAAAATAC
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
105 74 0.95
106 4 0.05
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (106 bp):
AAAATTAAGAGTGTGTTCGGCTGAGTAACCAGGGTAGGCTGCTGGGGTTGTCATTCCACTTCGTG
TCAAAAGGGCCAAAACATTCTTAACCAAAAAAAATAATAAT
Found at i:44527323 original size:14 final size:14
Alignment explanation
Indices: 44527304--44527331 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44527294 TCAATTTATT
44527304 AATGAAATATTAAA
1 AATGAAATATTAAA
44527318 AATGAAATATTAAA
1 AATGAAATATTAAA
44527332 TATAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGAAATATTAAA
Found at i:44536673 original size:19 final size:19
Alignment explanation
Indices: 44536649--44536692 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
44536639 TAAAAGCAAC
44536649 ACAACATCAA-CCCAAATAA
1 ACAACAT-AAGCCCAAATAA
*
44536668 ACAACATAAGTCCAAATAA
1 ACAACATAAGCCCAAATAA
44536687 ACAACA
1 ACAACA
44536693 AAAACAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.59, C:0.27, G:0.02, T:0.11
Consensus pattern (19 bp):
ACAACATAAGCCCAAATAA
Found at i:44544522 original size:23 final size:23
Alignment explanation
Indices: 44544496--44544539 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
44544486 TTTGCACAAA
44544496 AAAATAATGATTTTA-TATTTTAT
1 AAAATAAT-ATTTTATTATTTTAT
*
44544519 AAAATAATTTTTTATTATTTT
1 AAAATAATATTTTATTATTTT
44544540 GAAAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
AAAATAATATTTTATTATTTTAT
Found at i:44544544 original size:22 final size:23
Alignment explanation
Indices: 44544496--44544545 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
44544486 TTTGCACAAA
*
44544496 AAAATAATGATTTTATATTTTAT
1 AAAATAATGATTTTATATTTTAG
*
44544519 AAAATAAT-TTTTTATTATTTT-G
1 AAAATAATGATTTTA-TATTTTAG
44544541 AAAAT
1 AAAAT
44544546 TTTTTATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
AAAATAATGATTTTATATTTTAG
Found at i:44544945 original size:180 final size:180
Alignment explanation
Indices: 44544636--44544980 Score: 466
Period size: 180 Copynumber: 1.9 Consensus size: 180
44544626 AATAGTTAAA
* * *
44544636 TTTTTTTTCTTTTCTTTTGAATTGAGAAAAATAATAATTAATTTTCAATTCTAATCTCTATACTT
1 TTTTTTTTCTTTTCTTTTGAATTGAGAAAAATAATAACTAAATTTCAATTCTAATCTCTACACTT
* * *
44544701 TTTTAATATTATATAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTAGATCAATTTTGAGA
66 TTTTAAGATTATAGAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTAGATCAAATTTGAGA
44544766 TTTAATCTCTATACTTCAATTTTGACATAATTTAGACATTTGTCCATTCT
131 TTTAATCTCTATACTTCAATTTTGACATAATTTAGACATTTGTCCATTCT
** *
44544816 TTTTCTTTTCTTTTCTTTTGACA-TGAG-AAAATAATGGCTAAATTTCAATTTTAATCCATCTAC
1 TTTT-TTTTCTTTTCTTTTGA-ATTGAGAAAAATAATAACTAAATTTCAATTCTAAT-C-TCTAC
* * * *
44544879 A-TTTTTTAAGATTATAGAA-GATGGTTGAATTTTAGTTTTGATCCTTATA-TTATGCTCAAATT
62 ACTTTTTTAAGATTATAGAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTA-GATCAAATT
* * *
44544941 TGAGATTTAATCTTTGTACTTTAATTTTGACATAATTTAG
126 TGAGATTTAATCTCTATACTTCAATTTTGACATAATTTAG
44544981 TGCCTCAACT
Statistics
Matches: 144, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
179 3 0.02
180 98 0.68
181 37 0.26
182 6 0.04
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (180 bp):
TTTTTTTTCTTTTCTTTTGAATTGAGAAAAATAATAACTAAATTTCAATTCTAATCTCTACACTT
TTTTAAGATTATAGAATAATGGTTAAATTTTAGTTTTGATCCCTATATTTAGATCAAATTTGAGA
TTTAATCTCTATACTTCAATTTTGACATAATTTAGACATTTGTCCATTCT
Found at i:44545402 original size:21 final size:21
Alignment explanation
Indices: 44545358--44545416 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
44545348 TATATTTTTG
**
44545358 TAATATTTT-TAGAATTTTGGT
1 TAATATTTTATA-AATTTTAAT
44545379 TAATATTTTATAAATTTTAAT
1 TAATATTTTATAAATTTTAAT
*
44545400 T-A-ATTTTATAATTTTTA
1 TAATATTTTATAAATTTTA
44545417 TGCTTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.41
20 1 0.03
21 17 0.50
22 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TAATATTTTATAAATTTTAAT
Found at i:44546602 original size:54 final size:54
Alignment explanation
Indices: 44546544--44546655 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
44546534 GAAGGATACT
* * * * * *
44546544 CTTTCATATTGTGCCACAAAGGCATTTTTTTCATATTGTGCCACAAAGGCGTTC
1 CTTTCACATTGCGCCACAAAGGCACTCTTTTCATATTGCGCCACAAAGACGTTC
* * * *
44546598 CTTTCACATTGCGTCACAAAGGCGCTCTTTTCATGTTGCGTCACAAAGACGTTC
1 CTTTCACATTGCGCCACAAAGGCACTCTTTTCATATTGCGCCACAAAGACGTTC
44546652 CTTT
1 CTTT
44546656 AGGGTTCTTC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTTCACATTGCGCCACAAAGGCACTCTTTTCATATTGCGCCACAAAGACGTTC
Found at i:44546621 original size:27 final size:27
Alignment explanation
Indices: 44546544--44546655 Score: 116
Period size: 27 Copynumber: 4.1 Consensus size: 27
44546534 GAAGGATACT
* * *
44546544 CTTTCATATTGTGCCACAAAGGCATTT
1 CTTTCATATTGCGCCACAAAGGCGTTC
* *
44546571 TTTTCATATTGTGCCACAAAGGCGTTC
1 CTTTCATATTGCGCCACAAAGGCGTTC
* * *
44546598 CTTTCACATTGCGTCACAAAGGCGCTC
1 CTTTCATATTGCGCCACAAAGGCGTTC
* * * *
44546625 TTTTCATGTTGCGTCACAAAGACGTTC
1 CTTTCATATTGCGCCACAAAGGCGTTC
44546652 CTTT
1 CTTT
44546656 AGGGTTCTTC
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
CTTTCATATTGCGCCACAAAGGCGTTC
Found at i:44551694 original size:24 final size:24
Alignment explanation
Indices: 44551639--44551684 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
44551629 TATGAAGTTA
44551639 AAAAAATTCAATTGCCCGTTTACT
1 AAAAAATTCAATTGCCCGTTTACT
*
44551663 AAAAAATTCAATTGCCTGTTTA
1 AAAAAATTCAATTGCCCGTTTA
44551685 TTGAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (24 bp):
AAAAAATTCAATTGCCCGTTTACT
Found at i:44560034 original size:24 final size:24
Alignment explanation
Indices: 44559998--44560056 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
44559988 ACAAGAAGAT
44559998 GAAAGGTTTAAGGAAGATGAAAGGC
1 GAAAGG-TTAAGGAAGATGAAAGGC
* * * *
44560023 GGAAGGTTAAGGGATATGAAAGGT
1 GAAAGGTTAAGGAAGATGAAAGGC
44560047 GAAAGGTTAA
1 GAAAGGTTAA
44560057 ACATCCACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (24 bp):
GAAAGGTTAAGGAAGATGAAAGGC
Found at i:44565888 original size:68 final size:64
Alignment explanation
Indices: 44565737--44565894 Score: 192
Period size: 64 Copynumber: 2.4 Consensus size: 64
44565727 TATATATTTT
* * *
44565737 AAAGTTCTTGAGCTGAAATTAATGTACGAATTTTATATACATATGTGATTCAAATATAGGTTAT
1 AAAGTTCTTGAGCTGAATTTAATGTACGAATTTTACATACATATGTGATTCAAATATAGGTTAC
* * *
44565801 AAAGTTCTTGAGCTGAATTTAATTTATGAATTTTACATACATATGTGTATGGTTCGAATATAGGT
1 AAAGTTCTTGAGCTGAATTTAATGTACGAATTTTACATACATATGTG-A---TTCAAATATAGGT
44565866 TAC
62 TAC
*
44565869 AAA-TTCTTTGAACTGAATTTTAATGT
1 AAAGTTC-TTGAGCTGAA-TTTAATGT
44565895 TGTAAATTAT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
64 43 0.54
65 1 0.01
67 3 0.04
68 26 0.32
69 7 0.09
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTACGAATTTTACATACATATGTGATTCAAATATAGGTTAC
Found at i:44567919 original size:33 final size:35
Alignment explanation
Indices: 44567872--44567943 Score: 112
Period size: 33 Copynumber: 2.1 Consensus size: 35
44567862 TAATATAAAT
* *
44567872 ATAAGTAGTTCCTTAACAA-ACTTTCAAGCA-AAC
1 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
44567905 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
1 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
44567940 ATAA
1 ATAA
44567944 TAGAAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 17 0.49
34 11 0.31
35 7 0.20
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (35 bp):
ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
Found at i:44573797 original size:3 final size:3
Alignment explanation
Indices: 44573789--44573827 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
44573779 AAGATAAAGG
* *
44573789 AGA AGA AGA AGA AGA AGA AGA AGA TGA AGA TGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
44573828 TAGAGTGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:44575862 original size:35 final size:35
Alignment explanation
Indices: 44575823--44575929 Score: 214
Period size: 35 Copynumber: 3.1 Consensus size: 35
44575813 AATGCTAAGG
44575823 AATGACCTTTTTCCCTCATTTAATGTACCTTGAAT
1 AATGACCTTTTTCCCTCATTTAATGTACCTTGAAT
44575858 AATGACCTTTTTCCCTCATTTAATGTACCTTGAAT
1 AATGACCTTTTTCCCTCATTTAATGTACCTTGAAT
44575893 AATGACCTTTTTCCCTCATTTAATGTACCTTGAAT
1 AATGACCTTTTTCCCTCATTTAATGTACCTTGAAT
44575928 AA
1 AA
44575930 CGAGAAAGAC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 72 1.00
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.42
Consensus pattern (35 bp):
AATGACCTTTTTCCCTCATTTAATGTACCTTGAAT
Found at i:44586080 original size:13 final size:14
Alignment explanation
Indices: 44586062--44586090 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
44586052 ATAAATATTT
44586062 TATTTTTT-AAAAA
1 TATTTTTTCAAAAA
44586075 TATTTTTTCAAAAA
1 TATTTTTTCAAAAA
44586089 TA
1 TA
44586091 AAATATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
TATTTTTTCAAAAA
Found at i:44586092 original size:20 final size:19
Alignment explanation
Indices: 44586071--44586114 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
44586061 TTATTTTTTA
*
44586071 AAAATATTTTTTCAAA-AAT
1 AAAATATGTTTT-AAATAAT
44586090 AAAATATGTTTTAAATAATT
1 AAAATATGTTTTAAATAA-T
44586110 AAAAT
1 AAAAT
44586115 GTAGATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATGTTTTAAATAAT
Found at i:44587463 original size:32 final size:33
Alignment explanation
Indices: 44587415--44587478 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
44587405 AATTAAAATG
44587415 TATATATAGAATGAATCTTA-ACAAATGATTGTC
1 TATATATAGAATGAATC-TAGACAAATGATTGTC
* *
44587448 TATATTTA-AATGAATCTAGACAAATGGTTGT
1 TATATATAGAATGAATCTAGACAAATGATTGT
44587479 GAGGTTCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 2 0.07
32 19 0.68
33 7 0.25
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (33 bp):
TATATATAGAATGAATCTAGACAAATGATTGTC
Found at i:44588629 original size:21 final size:22
Alignment explanation
Indices: 44588605--44588653 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
44588595 CACATTTGAG
*
44588605 ATTTTTATATAT-ATATTTAAA
1 ATTTTTAAATATAATATTTAAA
* *
44588626 ATTTTTAAATATAATTTTTAGA
1 ATTTTTAAATATAATATTTAAA
44588648 ATTTTT
1 ATTTTT
44588654 GAATTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTTTAAATATAATATTTAAA
Found at i:44596260 original size:34 final size:34
Alignment explanation
Indices: 44596217--44596284 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
44596207 GCATTTTTGA
* *
44596217 CACTGTACTGAGATGGGCTAAGG-CCAAAACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAAACTGT
* *
44596250 CACTGATACTGAAAAGGGCTCAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAAACTGT
44596285 TCAACTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 15 0.52
35 9 0.31
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAAACTGT
Found at i:44602257 original size:24 final size:24
Alignment explanation
Indices: 44602195--44602251 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
44602185 GAAACAAAAT
* **
44602195 AATATATATAGAACAATTTGAAGTA
1 AATA-ATATAAAACAATTCAAAGTA
*
44602220 AATAGTATAAAACAATTCAAAGTA
1 AATAATATAAAACAATTCAAAGTA
44602244 AATAATAT
1 AATAATAT
44602252 GCAACATAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.30
Consensus pattern (24 bp):
AATAATATAAAACAATTCAAAGTA
Found at i:44602351 original size:22 final size:23
Alignment explanation
Indices: 44602307--44602351 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
44602297 GACGATTTTA
44602307 AAATAATATATAAAAAGTTGAAAAC
1 AAATAATATATAAAAA--TGAAAAC
*
44602332 AAATAATATGTAAAAA-GAAA
1 AAATAATATATAAAAATGAAA
44602352 GTTTCAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
25 15 0.79
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (23 bp):
AAATAATATATAAAAATGAAAAC
Found at i:44608617 original size:51 final size:52
Alignment explanation
Indices: 44608559--44608665 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 52
44608549 TTTCATTTTC
** * *
44608559 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGATT-CTATTTCTCA
1 ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
* * *
44608610 ATTTTCATTAAGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTACTCC
1 ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
44608662 ATTT
1 ATTT
44608666 CTATTCATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 36 0.75
52 12 0.25
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (52 bp):
ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
Found at i:44610141 original size:19 final size:19
Alignment explanation
Indices: 44610114--44610152 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44610104 AGATTAATAA
*
44610114 TTAAGTAATCCTAATTAAC
1 TTAAGTAATCATAATTAAC
* *
44610133 TTAATTAATTATAATTAAC
1 TTAAGTAATCATAATTAAC
44610152 T
1 T
44610153 AACTCTAACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.44
Consensus pattern (19 bp):
TTAAGTAATCATAATTAAC
Found at i:44613753 original size:21 final size:22
Alignment explanation
Indices: 44613724--44613774 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
44613714 CTACAACTTA
* *
44613724 AAGCGGAGGTAGTAGCGAGGG-
1 AAGCAGAGGTAGTAGCAAGGGC
44613745 AAGCAGAGGTAGTAGCAAGGGC
1 AAGCAGAGGTAGTAGCAAGGGC
44613767 AA-CAGAGG
1 AAGCAGAGG
44613775 CAACAAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.45, T:0.08
Consensus pattern (22 bp):
AAGCAGAGGTAGTAGCAAGGGC
Found at i:44620635 original size:46 final size:45
Alignment explanation
Indices: 44620567--44620729 Score: 123
Period size: 46 Copynumber: 3.6 Consensus size: 45
44620557 TTTTTTGTGC
* * ** *
44620567 AGGTTAAACCCTAACGATTGACCAGACACTACTATTCAATTCGTGT
1 AGGTTCAACCCTAATGGGTGACCAGACACTA-TATTCGATTCGTGT
* ** **
44620613 AGGTTCAGCCCTAATGGGTGACCA-AGCACTATTACCCGATTTATGT
1 AGGTTCAACCCTAATGGGTGACCAGA-CACTA-TATTCGATTCGTGT
* * * *
44620659 AGGTTCATCCCTAATGGGTGACCTGGCAGTAT-TGTCTGATTCGTGT
1 AGGTTCAACCCTAATGGGTGACCAGACACTATAT-TC-GATTCGTGT
* *
44620705 AGGTTTAACCCTAATGGGTAACCAG
1 AGGTTCAACCCTAATGGGTGACCAG
44620730 GAATTATGAT
Statistics
Matches: 90, Mismatches: 23, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
45 3 0.03
46 87 0.97
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
AGGTTCAACCCTAATGGGTGACCAGACACTATATTCGATTCGTGT
Found at i:44621531 original size:35 final size:35
Alignment explanation
Indices: 44621485--44621555 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
44621475 TATGCTTTGG
*
44621485 ATTAGGTTTGAATGGTATGATTGAAATTTTAGGTC
1 ATTAGGTTTGAATGGTATGAATGAAATTTTAGGTC
*
44621520 ATTAGGTTTGAATGGTATGAATGACATTTTAGGTC
1 ATTAGGTTTGAATGGTATGAATGAAATTTTAGGTC
44621555 A
1 A
44621556 CCTTGTAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.04, G:0.25, T:0.41
Consensus pattern (35 bp):
ATTAGGTTTGAATGGTATGAATGAAATTTTAGGTC
Found at i:44623615 original size:18 final size:17
Alignment explanation
Indices: 44623589--44623622 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44623579 CATGTTGCAT
44623589 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
44623607 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
44623623 GAGCCAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:44636436 original size:22 final size:21
Alignment explanation
Indices: 44636411--44636454 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
44636401 TGATAAACTT
44636411 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
44636433 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
44636454 T
1 T
44636455 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:44646795 original size:61 final size:61
Alignment explanation
Indices: 44646726--44646914 Score: 146
Period size: 61 Copynumber: 3.2 Consensus size: 61
44646716 TCAAATTATA
44646726 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATG
1 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATG
* * ** ** ** * * * *
44646787 TAAAATTATTAA--GTCA-AAAAATTGT-ATTA-ATGGTTAGTAAAAT-TATCA-AAT-T--ATA
1 TAAAATTATTAATTGTTAGTACCA--GTCAAAACAT--TTTTTCAAATCTAACATTATGTGAATG
* *
44646842 TAAACTTATTAATTGTTAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATG
1 TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATG
44646903 TAAAATTATTAA
1 TAAAATTATTAA
44646915 GTCAAAAAAT
Statistics
Matches: 87, Mismatches: 27, Indels: 28
0.61 0.19 0.20
Matches are distributed among these distances:
55 13 0.15
56 8 0.09
57 10 0.11
58 12 0.14
59 10 0.11
60 9 0.10
61 25 0.29
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (61 bp):
TAAAATTATTAATTGTTAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATG
Found at i:44646885 original size:116 final size:116
Alignment explanation
Indices: 44646677--44647010 Score: 650
Period size: 116 Copynumber: 2.9 Consensus size: 116
44646667 TGATAAATTG
44646677 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
44646742 TAGTACCAGTCAAAACATTTTTTCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
*
44646793 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAACTTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
44646858 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
44646909 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
44646974 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
44647011 CATTAAGGTT
Statistics
Matches: 215, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 215 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:44647039 original size:21 final size:21
Alignment explanation
Indices: 44647015--44647058 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
44647005 ACATTACATT
44647015 AAGG-TTAGGGTTTTTAAGTTA
1 AAGGTTTAGGGTTTTTAA-TTA
44647036 AAGGTTTAGGGTTTTTAATTA
1 AAGGTTTAGGGTTTTTAATTA
44647057 AA
1 AA
44647059 TTAGGTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (21 bp):
AAGGTTTAGGGTTTTTAATTA
Found at i:44647073 original size:29 final size:29
Alignment explanation
Indices: 44647041--44647616 Score: 317
Period size: 29 Copynumber: 21.3 Consensus size: 29
44647031 AGTTAAAGGT
44647041 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
44647070 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
44647099 TTAGGGTTTTTAATGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAA-----TTAAATT--A--GG-TTAGGG
44647138 TTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647167 TTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647196 TTATGGTTTTTAAGTT-AA--AGGTTTAGGG
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGG
*
44647224 TT----TTTAATTAAATT--A-G--GTTAGGG
1 TTAGGGTTT--TT-AATTAAATTAGGTTAGGG
*
44647247 TTATGGTTTTTAATTAAATTAGGTTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
44647276 TTAGGGTTTTTAATT-AA--A--TTA-GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
44647299 TTAGGGTTTTTAATT-AA--A--TTA-GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647322 TTAGGGCTTTTAATTAAATT-----A-GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647345 TTAGGGTTTTTAATT---TTAAGTTAAGGG
1 TTAGGGTTTTTAATTAAATTAGGTT-AGGG
*
44647372 TTTAGAGTTTTTAATTAAATTA-G-T----
1 -TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647396 TTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647425 TTAGGGTTTTTAAGTT---TAAGGTTTAGGG
1 TTAGGGTTTTTAA-TTAAATTAGG-TTAGGG
*
44647453 TT----TTTAATTAAATT--A-G--GTTAGGG
1 TTAGGGTTT--TT-AATTAAATTAGGTTAGGG
*
44647476 TTAGGGTTTGTAATT-AA-T---TTA-GG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647499 TTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
44647528 TTAGGGTTTTTAAGT---TTA-G---GGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
*
44647550 TTAGGGTTTTTAATTAAATTAGATTAGGG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
44647579 TTAGGGTTTGTAATTAATTTAGGTTAAGGG
1 TTAGGGTTTTTAATTAAATTAGGTT-AGGG
*
44647609 TTAAGGTT
1 TTAGGGTT
44647617 AGGGTTTTTA
Statistics
Matches: 448, Mismatches: 29, Indels: 139
0.73 0.05 0.23
Matches are distributed among these distances:
20 2 0.00
22 15 0.03
23 108 0.24
24 27 0.06
25 11 0.02
26 14 0.03
27 19 0.04
28 33 0.07
29 165 0.37
30 17 0.04
31 3 0.01
32 1 0.00
34 12 0.03
36 1 0.00
38 1 0.00
39 19 0.04
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (29 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:44647122 original size:39 final size:39
Alignment explanation
Indices: 44647074--44647151 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
44647064 TTAGGGTTAG
44647074 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
44647113 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
44647152 TAAATTAGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.49
Consensus pattern (39 bp):
GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
Found at i:44647123 original size:68 final size:68
Alignment explanation
Indices: 44647045--44647180 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
44647035 AAAGGTTTAG
44647045 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
1 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
44647110 AAT
66 AAT
44647113 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
1 GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
44647178 AAT
66 AAT
44647181 TAAATTAGGT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (68 bp):
GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTT
AAT
Found at i:44647217 original size:21 final size:21
Alignment explanation
Indices: 44647192--44647235 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
44647182 AAATTAGGTT
*
44647192 AAGG-TTATGGTTTTTAAGTTA
1 AAGGTTTAGGGTTTTTAA-TTA
44647213 AAGGTTTAGGGTTTTTAATTA
1 AAGGTTTAGGGTTTTTAATTA
44647234 AA
1 AA
44647236 TTAGGTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (21 bp):
AAGGTTTAGGGTTTTTAATTA
Found at i:44647235 original size:80 final size:80
Alignment explanation
Indices: 44647138--44647506 Score: 478
Period size: 80 Copynumber: 4.8 Consensus size: 80
44647128 TAGGTTAGGG
* *
44647138 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTATGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
44647203 TTTTAAGTTAAAGGT
66 TTTTAAGTTAAAGGT
*
44647218 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
44647283 TTTTAA-TTAAATTAGG-
66 TTTTAAGTT-AA--AGGT
* *****
44647299 TTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGCTTTTAATTAAATTAGGTTAGGGTTTTTAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
*
44647358 TTTTAAGTTAAGGGT
66 TTTTAAGTTAAAGGT
* *
44647373 TTAGAGTTTTTAATTAAATTA-G-T----TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
*
44647432 TTTTAAGTTTAAGGT
66 TTTTAAGTTAAAGGT
* *
44647447 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTAATTAATTTAGGTTAGGGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
44647507 TTTAATTAAA
Statistics
Matches: 249, Mismatches: 25, Indels: 30
0.82 0.08 0.10
Matches are distributed among these distances:
73 2 0.01
74 76 0.31
75 42 0.17
76 6 0.02
77 2 0.01
78 1 0.00
79 2 0.01
80 100 0.40
81 15 0.06
82 3 0.01
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.47
Consensus pattern (80 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGT
TTTTAAGTTAAAGGT
Found at i:44647320 original size:18 final size:21
Alignment explanation
Indices: 44647275--44647414 Score: 118
Period size: 23 Copynumber: 6.0 Consensus size: 21
44647265 TTAGGTTAGG
44647275 GTTAGGGTTTTTAATTAAATTA
1 GTTAGGGTTTTTAATTAAA-TA
44647297 GGTTAGGGTTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
*
44647320 GGTTAGGGCTTTTAATTAAATTA
1 -GTTAGGGTTTTTAATTAAA-TA
*
44647343 GGTTAGGGTTTTTAATTTTAAGTTAA
1 -GTTAGGGTTTTTAA--TTAA-AT-A
*
44647369 GGGTTTAGAGTTTTTAATTAAATTA
1 --G-TTAGGGTTTTTAATTAAA-TA
44647394 GTTTAGGGTTTTTAATTAAAT
1 G-TTAGGGTTTTTAATTAAAT
44647415 TAGGTTAAGG
Statistics
Matches: 104, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
22 1 0.01
23 77 0.74
25 6 0.06
26 6 0.06
27 2 0.02
28 12 0.12
ACGTcount: A:0.30, C:0.01, G:0.21, T:0.49
Consensus pattern (21 bp):
GTTAGGGTTTTTAATTAAATA
Found at i:44647503 original size:103 final size:102
Alignment explanation
Indices: 44647136--44647740 Score: 576
Period size: 103 Copynumber: 5.8 Consensus size: 102
44647126 ATTAGGTTAG
* *
44647136 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGG-TTAT
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
** * * *
44647200 GGTT--TTTAAGTTAAAGGTTTAGGGTTTTTAATTAAATTAGGTTA
66 AATTAAATTAGGTT-AAGG-TTAGGGTTTTTAAGT---TTA----A
*
44647244 GGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTT
1 -GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTT
* * *
44647309 TAATTAAATTAGGTTAGGGCTT----TTAATTAA-ATT-A
65 TAATTAAATTAGGTTAAGG-TTAGGGTT-TTTAAGTTTAA
* * *
44647343 GGTTAGGGTTTTTAATT---TTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGTTTAGGGTTT
1 GGTTAGGGTTTTTAATTAAATTAGGTT-AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTT
44647405 TTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTTAA
64 TTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTTAA
* *
44647444 GGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTAATTAATTTAGGTTAGGGTTTT
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTT
*
44647509 TAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTTAG
65 TAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTTAA
* * *
44647547 GGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTGTAATTAATTTAGGTTAAGGGTTA
1 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT-AGGGTT-
* * * * * * * *
44647612 AGGTTAGGGTTTTTAATTA-ATTTAGGGTAGGG--GTTAAGGGTTAA
63 --TTTA----ATTAAATTAGGTTAAGGTTAGGGTTTTTAA-GTTTAA
* *
44647656 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTTTAG
1 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTT-T
* *
44647721 T-GTTAAATTAGGTTAGGGTT
65 TAATTAAATTAGGTTAAGGTT
44647741 TTTATTACAT
Statistics
Matches: 425, Mismatches: 44, Indels: 62
0.80 0.08 0.12
Matches are distributed among these distances:
95 6 0.01
96 6 0.01
97 49 0.12
98 16 0.04
99 5 0.01
100 11 0.03
101 8 0.02
102 15 0.04
103 122 0.29
104 12 0.03
105 7 0.02
107 11 0.03
108 60 0.14
109 64 0.15
110 15 0.04
111 12 0.03
112 6 0.01
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.46
Consensus pattern (102 bp):
GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTT
AATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTTAA
Found at i:44647546 original size:15 final size:15
Alignment explanation
Indices: 44647522--44647551 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44647512 TTAAATTAGG
44647522 TTAAGGTTAGGGTTT
1 TTAAGGTTAGGGTTT
*
44647537 TTAAGTTTAGGGTTT
1 TTAAGGTTAGGGTTT
44647552 AGGGTTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (15 bp):
TTAAGGTTAGGGTTT
Found at i:44647583 original size:36 final size:36
Alignment explanation
Indices: 44647543--44647695 Score: 133
Period size: 36 Copynumber: 4.2 Consensus size: 36
44647533 GTTTTTAAGT
44647543 TTAGGGTTTAGGGTTTTTAATTAAATTA-G--A---
1 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG
* *
44647573 TTAGGG-TTAGGGTTTGTAATTAATTTAGGTTAAGGG
1 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTT-AGGG
* * *
44647609 TTAAGG-TTAGGGTTTTTAATTAATTTAGGGTAGGGG
1 TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTA-GGG
44647645 TTAAGGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 TT-AGGG-T----TTAGGGTTTTTAATTAAATTAGGTTAGGG
44647687 TTAGGGTTT
1 TTAGGGTTT
44647696 TTAATTAATT
Statistics
Matches: 100, Mismatches: 8, Indels: 24
0.76 0.06 0.18
Matches are distributed among these distances:
29 19 0.19
30 7 0.07
33 1 0.01
35 1 0.01
36 35 0.35
37 3 0.03
40 1 0.01
41 4 0.04
42 5 0.05
43 24 0.24
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.43
Consensus pattern (36 bp):
TTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGG
Found at i:44647603 original size:74 final size:73
Alignment explanation
Indices: 44647161--44647610 Score: 300
Period size: 74 Copynumber: 5.9 Consensus size: 73
44647151 TTAAATTAGG
* *
44647161 TTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTATGGTTTTTAAGTTAA---AGGTTTAGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGATT-AGGTTAGGGTTTTTAA-TTAATTTAGG-TTAGG
44647223 GTTTTTAATTAAATTA
63 G--TTT--TT-AATTA
* * *
44647239 GGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGG
1 --TTAGGGTTAGGGTTTTTAATTAAATTAGATTA-GGTTAGGGTTTTTAATTAATTTAGGTTAGG
44647304 GTTTTTAATTAAA
63 GTTTTTAATT--A
* *
44647317 TTA-GGTTAGGGCTTTTAATT--A--A-ATTAGGTTAGGGTTTTTAATTTTAAGTTAAGGGTTTA
1 TTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTTTTAA--TTAA-TTTA-GG-TTA
*
44647376 GAGTTTTTAATTAAA
61 GGGTTTTTAATT--A
* * * *
44647391 TTA-GTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGT--TTAAGGTTTAGGG
1 TTAGGGTTAGGGTTTTTAATTAAATTAGATT-AGGTTAGGGTTTTTAATTAATTTAGG-TTAGGG
44647453 TTTTTAATTAAA
64 TTTTTAATT--A
***** *
44647465 TTA-GGTTAGGGTTAGGGTTTGTAATTA-ATTTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGG
1 TTAGGGTTAGGGTTTTTAATT-AAATTAGA-TTAGGTTAGGGTTTTTAATT-AA-T---TT-AGG
*
44647528 TTAGGGTTTTTAAGT-
58 TTAGGGTTTTTAATTA
*
44647543 TTAGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTGTAATTAATTTAGGTTAAGG
1 TTAGGG-TTAGGGTTTTTAATTAAATTAGATTA-GGTTAGGGTTTTTAATTAATTTAGGTT-AGG
44647608 GTT
63 GTT
44647611 AAGGTTAGGG
Statistics
Matches: 307, Mismatches: 31, Indels: 69
0.75 0.08 0.17
Matches are distributed among these distances:
69 15 0.05
70 3 0.01
71 5 0.02
72 2 0.01
73 3 0.01
74 91 0.30
75 34 0.11
76 8 0.03
77 2 0.01
78 8 0.03
79 22 0.07
80 87 0.28
81 21 0.07
82 6 0.02
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (73 bp):
TTAGGGTTAGGGTTTTTAATTAAATTAGATTAGGTTAGGGTTTTTAATTAATTTAGGTTAGGGTT
TTTAATTA
Found at i:44647642 original size:23 final size:23
Alignment explanation
Indices: 44647612--44647744 Score: 94
Period size: 23 Copynumber: 5.7 Consensus size: 23
44647602 TTAAGGGTTA
44647612 AGGTTAGGGTTTTTAATTAATTT
1 AGGTTAGGGTTTTTAATTAATTT
* * *** *
44647635 AGGGTAGGG--GTTAA-GGGTTA
1 AGGTTAGGGTTTTTAATTAATTT
44647655 AGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGTTAGGGTTTTTAATT-AA-T---TT
44647683 AGGGTTAGGGTTTTTAATTAATTT
1 A-GGTTAGGGTTTTTAATTAATTT
* * *
44647707 AGGTTAGGGTTTAGT-GTTAAATT
1 AGGTTAGGGTTT-TTAATTAATTT
44647730 AGGTTAGGGTTTTTA
1 AGGTTAGGGTTTTTA
44647745 TTACATCAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
20 10 0.12
21 4 0.05
22 5 0.06
23 37 0.45
24 4 0.05
25 1 0.01
27 1 0.01
28 4 0.05
29 17 0.20
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (23 bp):
AGGTTAGGGTTTTTAATTAATTT
Found at i:44647650 original size:43 final size:42
Alignment explanation
Indices: 44647600--44647694 Score: 156
Period size: 43 Copynumber: 2.3 Consensus size: 42
44647590 AATTAATTTA
*
44647600 GGTTAAGGGTTAAGGTTAGGGTTTTTAATTAATTTAGGGTAGG
1 GGTTAAGGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTA-G
*
44647643 GGTTAAGGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAG
1 GGTTAAGGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAG
44647685 GGTT-AGGGTT
1 GGTTAAGGGTT
44647695 TTTAATTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
41 6 0.12
42 5 0.10
43 39 0.78
ACGTcount: A:0.25, C:0.00, G:0.35, T:0.40
Consensus pattern (42 bp):
GGTTAAGGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAG
Found at i:44647688 original size:29 final size:29
Alignment explanation
Indices: 44647650--44647717 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
44647640 AGGGGTTAAG
*
44647650 GGTTAAGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTAGGGTTTTTAATTAAATTA
*
44647679 GGTTAGGGTTAGGGTTTTTAATTAATTTA
1 GGTTAGGGTTAGGGTTTTTAATTAAATTA
44647708 GGTTAGGGTT
1 GGTTAGGGTT
44647718 TAGTGTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.25, C:0.00, G:0.29, T:0.46
Consensus pattern (29 bp):
GGTTAGGGTTAGGGTTTTTAATTAAATTA
Found at i:44647740 original size:29 final size:25
Alignment explanation
Indices: 44647671--44647740 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 25
44647661 GGGTTTTTAA
44647671 TTAAATTAGGTTAGGGTTAGGGTTT
1 TTAAATTAGGTTAGGGTTAGGGTTT
**
44647696 TT-AATTAATTTA-GGTTAGGGTTTAGT
1 TTAAATTAGGTTAGGGTTAGGG-TT--T
44647722 GTTAAATTAGGTTAGGGTT
1 -TTAAATTAGGTTAGGGTT
44647741 TTTATTACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
23 8 0.23
24 10 0.29
25 2 0.06
26 1 0.03
27 2 0.06
28 8 0.23
29 4 0.11
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (25 bp):
TTAAATTAGGTTAGGGTTAGGGTTT
Found at i:44647824 original size:43 final size:45
Alignment explanation
Indices: 44647750--44647835 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 45
44647740 TTTTATTACA
*
44647750 TCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*
44647795 TCAAA-AAATTTCTATTTT-TTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
44647836 TTCAAAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 22 0.56
44 12 0.31
45 5 0.13
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:44648951 original size:7 final size:7
Alignment explanation
Indices: 44648941--44648965 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
44648931 TTATATACAT
44648941 AATACTA
1 AATACTA
44648948 AATACTA
1 AATACTA
44648955 AATACTA
1 AATACTA
44648962 AATA
1 AATA
44648966 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:44650169 original size:22 final size:22
Alignment explanation
Indices: 44650144--44650200 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
44650134 AAACATGGAT
*
44650144 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTGTGGAAGGAAA
*
44650166 TTGAAAGAATTGTGGAAGGAAA
1 TTGAGAGAATTGTGGAAGGAAA
44650188 TTGAGAGGAATTG
1 TTGAGA-GAATTG
44650201 AAAGGAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 25 0.81
23 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (22 bp):
TTGAGAGAATTGTGGAAGGAAA
Found at i:44651608 original size:16 final size:16
Alignment explanation
Indices: 44651587--44651619 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
44651577 GAAGAAACGG
44651587 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
44651603 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
44651619 T
1 T
44651620 AGCAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.36, T:0.24
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:44651664 original size:45 final size:44
Alignment explanation
Indices: 44651599--44651695 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
44651589 GAATAGAGGC
*
44651599 GTAATGGAATAGAGGTGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
44651644 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
44651688 GGAATGGA
1 GTAATGGA
44651696 GGTGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:44651873 original size:18 final size:17
Alignment explanation
Indices: 44651852--44651886 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44651842 TTATTATTAA
*
44651852 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44651870 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44651887 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44652067 original size:19 final size:19
Alignment explanation
Indices: 44652018--44652069 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
44652008 TAGTCCATTG
44652018 TTTTT-AATATTAAACAATA
1 TTTTTAAATA-TAAACAATA
**
44652037 -TTTTATGTTATAAACAATA
1 TTTTTA-AATATAAACAATA
44652056 TTTTTAAATATAAA
1 TTTTTAAATATAAA
44652070 GTAAATTACG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 4 0.15
19 15 0.58
20 7 0.27
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (19 bp):
TTTTTAAATATAAACAATA
Found at i:44652533 original size:6 final size:6
Alignment explanation
Indices: 44652522--44652551 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
44652512 ATTTTCAGGA
44652522 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT
1 CTGCAT CTGCAT CTGCAT CTGCAT CTGCAT
44652552 TAATTTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.33, G:0.17, T:0.33
Consensus pattern (6 bp):
CTGCAT
Found at i:44658520 original size:14 final size:14
Alignment explanation
Indices: 44658501--44658540 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
44658491 TTGTTTGGCA
44658501 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
44658515 GTAAAAT-TATTTCC
1 GTAAAATGT-TTTCC
*
44658529 GGAAAATGTTTT
1 GTAAAATGTTTT
44658541 ACTTTTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 1 0.04
14 21 0.91
15 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:44660869 original size:25 final size:25
Alignment explanation
Indices: 44660830--44660881 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
44660820 AAAATGTCTG
44660830 CTGCTTAGAAGAGAATGGAAAATGT
1 CTGCTTAGAAGAGAATGGAAAATGT
44660855 CTGCTTAG-AGAAGAATGGAAAATGT
1 CTGCTTAGAAG-AGAATGGAAAATGT
44660880 CT
1 CT
44660882 TACCAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (25 bp):
CTGCTTAGAAGAGAATGGAAAATGT
Found at i:44663541 original size:16 final size:15
Alignment explanation
Indices: 44663520--44663551 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44663510 CGTTTTTTGA
44663520 ATTTTTTTGAATTTTT
1 ATTTTTTT-AATTTTT
44663536 ATTTTTTTAATTTTT
1 ATTTTTTTAATTTTT
44663551 A
1 A
44663552 AATTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (15 bp):
ATTTTTTTAATTTTT
Found at i:44669796 original size:18 final size:18
Alignment explanation
Indices: 44669754--44669796 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
44669744 CTAAAATTGG
*
44669754 AGAAGAAAGCTTTGAAAA
1 AGAAAAAAGCTTTGAAAA
*
44669772 AGCAAAAAGCGTTTGAAAA
1 AGAAAAAAGC-TTTGAAAA
44669791 A-AAAAA
1 AGAAAAA
44669797 GGTAAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.60, C:0.07, G:0.19, T:0.14
Consensus pattern (18 bp):
AGAAAAAAGCTTTGAAAA
Found at i:44679495 original size:16 final size:15
Alignment explanation
Indices: 44679474--44679526 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
44679464 TCAGATTATC
*
44679474 AATTAAATCTTAAATT
1 AATTAAAT-ATAAATT
44679490 AATTAATATATAAATT
1 AATTAA-ATATAAATT
*
44679506 AAATAAATATATAATAT
1 AATTAAATATA-AAT-T
44679523 AATT
1 AATT
44679527 CAATTAGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 5 0.16
16 20 0.65
17 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATTAAATATAAATT
Found at i:44679516 original size:17 final size:16
Alignment explanation
Indices: 44679484--44679519 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
44679474 AATTAAATCT
*
44679484 TAAATTAATTAATATA
1 TAAATTAATAAATATA
44679500 TAAATTAAATAAATATA
1 TAAATT-AATAAATATA
44679517 TAA
1 TAA
44679520 TATAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTAATAAATATA
Found at i:44682698 original size:87 final size:86
Alignment explanation
Indices: 44682552--44682712 Score: 250
Period size: 87 Copynumber: 1.9 Consensus size: 86
44682542 ATTTAAGTTT
* * * *
44682552 GGTGAATTCATCAAGTCCATCTCAATATGATCACCCAAACTCTGGGATATGAACTCATTAAGAGT
1 GGTGAATACATCAAGTCCATCTCAATAGGACCACCCAAAATCTGGGATATGAACTCATTAAGAGT
44682617 AATAAACTCAACCTCTTTAGTC
66 AA-AAACTCAACCTCTTTAGTC
* * *
44682639 GGTGAATACATCAAGTCCATCTCAATAGGACCACCCAAAATTTGGGCTATGAATTCATTAAGAGT
1 GGTGAATACATCAAGTCCATCTCAATAGGACCACCCAAAATCTGGGATATGAACTCATTAAGAGT
44682704 AAAAACTCA
66 AAAAACTCA
44682713 TTTTTATACA
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
86 7 0.10
87 60 0.90
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (86 bp):
GGTGAATACATCAAGTCCATCTCAATAGGACCACCCAAAATCTGGGATATGAACTCATTAAGAGT
AAAAACTCAACCTCTTTAGTC
Found at i:44686493 original size:11 final size:11
Alignment explanation
Indices: 44686479--44686521 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
44686469 AGTTAAATAT
44686479 TATTTTATTAA
1 TATTTTATTAA
*
44686490 TATTTTGCTTAGA
1 TATTTT-ATTA-A
44686503 TA-TTTATTAA
1 TATTTTATTAA
44686513 TATTTTATT
1 TATTTTATT
44686522 TAGAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
10 3 0.11
11 15 0.56
12 6 0.22
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:44686524 original size:23 final size:23
Alignment explanation
Indices: 44686482--44686525 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
44686472 TAAATATTAT
*
44686482 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
*
44686505 TTTATTAATATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
44686526 AAAATTGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:44689376 original size:25 final size:25
Alignment explanation
Indices: 44689326--44689404 Score: 81
Period size: 25 Copynumber: 3.0 Consensus size: 25
44689316 AATTTCAATA
44689326 ATGTAATTATTATTATTTTATATAT
1 ATGTAATTATTATTATTTTATATAT
*
44689351 ATGTAATTATTTTTTTATAATTTATATAT
1 ATGTAATTA--TTATTAT--TTTATATAT
44689380 ATGT-ATATATTTATT-TTTTATATAT
1 ATGTAAT-TA-TTATTATTTTATATAT
44689405 GTACACGTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
25 18 0.38
27 7 0.15
28 7 0.15
29 15 0.32
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
ATGTAATTATTATTATTTTATATAT
Found at i:44697883 original size:50 final size:50
Alignment explanation
Indices: 44697693--44698083 Score: 201
Period size: 50 Copynumber: 7.9 Consensus size: 50
44697683 CCTATCTCTT
* * * ** * * *
44697693 TGGCATTATAGTGGAGCAGATTGAAGCCGCAACGGCGAATCTTACTCCCC
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
** * * * * * **
44697743 TGGCGGTGTAGTGGAACATATTAAAGCTACGATGGCGAATCTTGTTTCCC
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
*** * ** * * ** * ** *
44697793 CAACATTGCAATTAAAAAGATTGAGGCCGCAACGACGAATCTTAATTCCC
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
** * * **
44697843 TGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGTGAATCTTGTTTCCC
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
** * ** * * * *
44697893 -AACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCC
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
* * * **
44697942 TGGCAGTATAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCC
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
** * * * * ** *
44697992 -AACATTGCAATTGAAAATATTGAAGCCGCAACGGTGAATCTTACTTCCC
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
* * *
44698041 TGGCGTTGTAATGGAACAGAATGAAGCTACGACGATGAATCTT
1 TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTT
44698084 GTTTCCCCGA
Statistics
Matches: 232, Mismatches: 107, Indels: 4
0.68 0.31 0.01
Matches are distributed among these distances:
49 69 0.30
50 163 0.70
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (50 bp):
TGGCATTGTAATGGAACAGATTGAAGCTACGACGGTGAATCTTACTTCCC
Found at i:44697944 original size:99 final size:100
Alignment explanation
Indices: 44697710--44698116 Score: 593
Period size: 99 Copynumber: 4.1 Consensus size: 100
44697700 ATAGTGGAGC
* *
44697710 AGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACATATTAAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGA
* *
44697775 TGGCGAATCTTGTTTCCCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * *
44697810 AGATTGAGGCCGCAACGACGAATCTTAATTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGA
44697875 CGGTGAATCTTGTTT-CCCAACATTGCAATTAAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * *
44697909 AGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTATAGTGGAACAGATTGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGA
*
44697974 CGGTGAATCTTGTTT-CCCAACATTGCAATTGAAA
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
* * * * * *
44698008 ATATTGAAGCCGCAACGGTGAATCTTACTTCCCTGGCGTTGTAATGGAACAGAATGAAGCTACGA
1 AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGA
* * * * *
44698073 CGATGAATCTTGTTTCCCCGACATTCCAGTTAAAC
66 CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
44698108 AGATTGAAG
1 AGATTGAAG
44698117 ATAGAAAATC
Statistics
Matches: 276, Mismatches: 30, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
99 181 0.66
100 95 0.34
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGA
CGGTGAATCTTGTTTCCCCAACATTGCAATTAAAA
Found at i:44698040 original size:49 final size:49
Alignment explanation
Indices: 44697791--44698040 Score: 167
Period size: 49 Copynumber: 5.1 Consensus size: 49
44697781 ATCTTGTTTC
* * * ** *
44697791 CCCAACATTGCAATTAAAAAGATTGAGGCCGCAACGACGAATCTTAATT
1 CCCAACATTGCAATTGAAAAGATTGAAGCCACAACGGTGAATCTTACTT
** ** * * * * * * * **
44697840 CCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGTGAATCTTGTTT
1 CCC-AACATTGCAATTGAAAAGATTGAAGCCACAACGGTGAATCTTACTT
* *
44697890 CCCAACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
1 CCCAACATTGCAATTGAAAAGATTGAAGCCACAACGGTGAATCTTACTT
** * ** * * * * * **
44697939 CCCTGGCAGTATAGTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTT
1 CCC-AACATTGCAATTGAAAAGATTGAAGCCACAACGGTGAATCTTACTT
* *
44697989 CCCAACATTGCAATTGAAAATATTGAAGCCGCAACGGTGAATCTTACTT
1 CCCAACATTGCAATTGAAAAGATTGAAGCCACAACGGTGAATCTTACTT
44698038 CCC
1 CCC
44698041 TGGCGTTGTA
Statistics
Matches: 138, Mismatches: 61, Indels: 4
0.68 0.30 0.02
Matches are distributed among these distances:
49 72 0.52
50 66 0.48
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (49 bp):
CCCAACATTGCAATTGAAAAGATTGAAGCCACAACGGTGAATCTTACTT
Found at i:44698114 original size:199 final size:199
Alignment explanation
Indices: 44697709--44698116 Score: 593
Period size: 199 Copynumber: 2.1 Consensus size: 199
44697699 TATAGTGGAG
* * * *
44697709 CAGATTGAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGAACATATTAAAGCTACG
1 CAGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTAAAGCTACG
* *
44697774 ATGGCGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAGGCCGCAACGACGAATCTTAAT
66 ACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTAAT
* * * *
44697839 TCCCTGGCGGTGTAGTGGAACAGATTAAAGCTACGACGGTGAATCTTGTTTCCCAACATTGCAAT
131 TCCCTGGCGGTGTAATGGAACAGAATAAAGCTACGACGATGAATCTTGTTTCCCAACATTCCAAT
44697904 TAAA
196 TAAA
* * *
44697908 AAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAGTATAGTGGAACAGATTGAAGCTACG
1 CAGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTAAAGCTACG
* * * ** *
44697973 ACGGTGAATCTTGTTT-CCCAACATTGCAATTGAAAATATTGAAGCCGCAACGGTGAATCTTACT
66 ACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTAAT
* * * *
44698037 TCCCTGGCGTTGTAATGGAACAGAATGAAGCTACGACGATGAATCTTGTTTCCCCGACATTCCAG
131 TCCCTGGCGGTGTAATGGAACAGAATAAAGCTACGACGATGAATCTTGTTT-CCCAACATTCCAA
44698102 TTAAA
195 TTAAA
44698107 CAGATTGAAG
1 CAGATTGAAG
44698117 ATAGAAAATC
Statistics
Matches: 184, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
198 88 0.48
199 96 0.52
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (199 bp):
CAGATTGAAGCCACAACGGCGAATCTTACTCCCCTGGCAGTATAGTGGAACAGATTAAAGCTACG
ACGGCGAATCTTGTTTCCCCAACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTAAT
TCCCTGGCGGTGTAATGGAACAGAATAAAGCTACGACGATGAATCTTGTTTCCCAACATTCCAAT
TAAA
Found at i:44698177 original size:44 final size:42
Alignment explanation
Indices: 44698123--44698628 Score: 234
Period size: 44 Copynumber: 11.9 Consensus size: 42
44698113 GAAGATAGAA
44698123 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-C-AT
* * *
44698167 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAT
* * * *
44698210 AGATCTTATCTCTCTGAAGTTGCAGAT--AGCAGATCATATC-T
1 A-ATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTAAAGCAT
* * * * *
44698251 AGTCTTATCTCTCTGAAGTTGTAGGGGAGCAGACTGAGTAAGCA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCAT
* * * * * *
44698295 AGTCTTATC-CTCTTAAAGTTGCAATGGGGCAGACTGAAGATGGCA-
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A--GCAT
44698340 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-C-AT
* * * ** *
44698384 AATCCTATCTCCCTGAAGTTACAGTAGAGTGGATTAAAACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAT
* * * * * * * ** *
44698425 GATCTTATCTCTCTAAAGTTACAG-AGAGAAAATTGCATC-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAT
* * * **
44698465 AGTCTTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATG-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA-AA-GCAT
* * * * * *** *
44698508 GGATCTTATCTCTCTGAAATTACAGTAGAGCAGATCGCATCA-
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAT
* * * *
44698550 AAT-TTATCT---TTAAGTTGCAGCGGATCA-AGTTGAAGCTAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGC-AT
*
44698589 AAGTCTTATCTCCCTGAAGTGGCAGTGGAGCAGATTAAAG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
44698629 TTAGCAAATT
Statistics
Matches: 343, Mismatches: 87, Indels: 64
0.69 0.18 0.13
Matches are distributed among these distances:
36 1 0.00
37 16 0.05
38 1 0.00
39 2 0.01
40 56 0.16
41 43 0.13
42 6 0.02
43 19 0.06
44 167 0.49
45 31 0.09
46 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (42 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAT
Found at i:44700146 original size:27 final size:27
Alignment explanation
Indices: 44700116--44700199 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 27
44700106 AATTTCAATA
44700116 ATGTAATTATTATTATTATTTATATAT
1 ATGTAATTATTATTATTATTTATATAT
* *
44700143 ATGTAATTATTTTTTTATAATTTATATAT
1 ATGTAATTA--TTATTATTATTTATATAT
44700172 ATGT-A-TA-TATTTATT-TTT-TATAT
1 ATGTAATTATTA-TTATTATTTATATAT
44700195 ATGTA
1 ATGTA
44700200 CATGTAAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
23 9 0.18
24 4 0.08
25 4 0.08
27 11 0.22
28 1 0.02
29 20 0.41
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.61
Consensus pattern (27 bp):
ATGTAATTATTATTATTATTTATATAT
Found at i:44701570 original size:14 final size:14
Alignment explanation
Indices: 44701553--44701581 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44701543 CCAGGTAATG
44701553 ATATATAAAAATAA
1 ATATATAAAAATAA
44701567 ATATATAAAAATAA
1 ATATATAAAAATAA
44701581 A
1 A
44701582 ACATGGAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
ATATATAAAAATAA
Found at i:44704062 original size:15 final size:15
Alignment explanation
Indices: 44704042--44704071 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
44704032 CAAGGATTAA
*
44704042 CAATGATGAAACACT
1 CAATGACGAAACACT
44704057 CAATGACGAAACACT
1 CAATGACGAAACACT
44704072 AAAACACACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.23, G:0.13, T:0.17
Consensus pattern (15 bp):
CAATGACGAAACACT
Found at i:44706663 original size:15 final size:16
Alignment explanation
Indices: 44706629--44706677 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
44706619 AATTTTATAA
*
44706629 AATATTTT-AATTTTT
1 AATATTTTAAATTTAT
44706644 AATATTTTAAATTTAT
1 AATATTTTAAATTTAT
*
44706660 -ATATTTATAAATTAAT
1 AATATTT-TAAATTTAT
44706676 AA
1 AA
44706678 AATAAATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 14 0.48
16 14 0.48
17 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATATTTTAAATTTAT
Found at i:44708535 original size:24 final size:24
Alignment explanation
Indices: 44708489--44708535 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
44708479 TTATTTTTGG
* **
44708489 AAAAAAATAAAAATTAGTTGTCGA
1 AAAAAAACAAAAATTAGGAGTCGA
*
44708513 AAAAAAACAAAAATTGGGAGTCG
1 AAAAAAACAAAAATTAGGAGTCG
44708536 CCACCAATCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.57, C:0.06, G:0.17, T:0.19
Consensus pattern (24 bp):
AAAAAAACAAAAATTAGGAGTCGA
Found at i:44711582 original size:44 final size:44
Alignment explanation
Indices: 44711466--44712106 Score: 200
Period size: 44 Copynumber: 14.7 Consensus size: 44
44711456 CAACTTTAAC
* *
44711466 CTGCTCCACTGCAACTTCAGGGAGATAAG-GTCTGC-AATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCTTA-CTT-AGT
*
44711511 TTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGT
* * * * *
44711555 CTACTCCACTGCAACTTCAGGGAGATAAGACTAG-AT-GTGA-T
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGT
* * * * * ** * *
44711596 CTACT-CTCTGCAACTTTAGAGAAATAAGATCCAAGGTT--TTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAGT
* * * * * * * *
44711639 CCGTTCCACTGCAATTTTAGGGAGATAGGATTATCGGCTT--TAACT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAGT
** *
44711684 -TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGC-TATCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTA-CTT-AGT
* *
44711728 CTGCCCCACTGCAACTTCA-GGAGGATAAGACTTACTTACTTAGT
1 CTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGT
* * **
44711772 CTGCTCCATTGCAACTTTAGGGAGATAAGA-TTAG---A-TGGGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GCTTACTTAG-T
* ** * * * ** * *
44711813 CTGCT-CTCTGTGATTTCAGAGAAATAAGATCCAAGGTT--TTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTACTTAGT
* ** * * * * *
44711856 -TCGTTCCACTATAACTTCAGGAAGATAGGATTATCGGCTT--TAACT
1 CT-GCTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTACTTAGT
* * *
44711901 -TGCTCCACTGCAACTTCAGAGAGATAAG-GTCTGC-AATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCTTA-CTT-AGT
* *
44711945 CTGC-CTCACTGCAACTTTA-GGACGATAAGACTTGCTTACTTCGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGT
* * *
44711989 CTGCTCCACTGCAACTTCAGGGAGTTAAG-GTCTGC-AATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCTTA-CTT-AGT
*
44712034 CTGC-CTCATTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAGT
1 CTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTTACTTAGT
*
44712078 CTGCTCCACTGCAACTTCAAGGAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
44712107 GCTAGATGGG
Statistics
Matches: 438, Mismatches: 103, Indels: 111
0.67 0.16 0.17
Matches are distributed among these distances:
40 39 0.09
41 17 0.04
42 9 0.02
43 17 0.04
44 207 0.47
45 141 0.32
46 8 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCTTACTTAGT
Found at i:44711725 original size:217 final size:217
Alignment explanation
Indices: 44711337--44712017 Score: 979
Period size: 217 Copynumber: 3.1 Consensus size: 217
44711327 ACTCCATTAA
* * ** * * ** *
44711337 TCTGTTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTTCTCTCTGCAACTGCAGAGAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTTAGAGAA
* **
44711402 ATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTTT-GGGAGATAGGATTATCAACTTTAAC
66 ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAA-TTTTAGGGAGATAGGATTATCGGCTTTAAC
* *
44711466 CTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTTTGCCTCACTGCAACTTCAG
130 TTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAG
44711531 GAGGATAAGACTTGCTTACTTAG
195 GAGGATAAGACTTGCTTACTTAG
* *
44711554 TCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTACTCTCTGCAACTTTAGAGAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTTAGAGAA
44711619 ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAATTTTAGGGAGATAGGATTATCGGCTTTAACT
66 ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAATTTTAGGGAGATAGGATTATCGGCTTTAACT
* * * *
44711684 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAATCTGCCCCACTGCAACTTCAGG
131 TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
*
44711749 AGGATAAGACTTACTTACTTAG
196 AGGATAAGACTTGCTTACTTAG
* * * * * **
44711771 TCTGCTCCATTGCAACTTTAGGGAGATAAGATTAGATGGGATCTGCTCTCTGTGA-TTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTT-AGAGA
* ** * * *
44711835 AATAAGATCCAAGGTTTTAATTCGTTCCACTATAACTTCAGGAAGATAGGATTATCGGCTTTAAC
65 AATAAGATCCAAGGTTTTAATCCGTTCCACTGCAATTTTAGGGAGATAGGATTATCGGCTTTAAC
* *
44711900 TTGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTAG
130 TTGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAG
* *
44711965 GACGATAAGACTTGCTTACTTCG
195 GAGGATAAGACTTGCTTACTTAG
*
44711988 TCTGCTCCACTGCAACTTCAGGGAGTTAAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG
44712018 GTCTGCAATC
Statistics
Matches: 415, Mismatches: 47, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
216 7 0.02
217 408 0.98
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (217 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTACTCTCTGCAACTTTAGAGAA
ATAAGATCCAAGGTTTTAATCCGTTCCACTGCAATTTTAGGGAGATAGGATTATCGGCTTTAACT
TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
AGGATAAGACTTGCTTACTTAG
Found at i:44711741 original size:45 final size:44
Alignment explanation
Indices: 44711688--44711801 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 44
44711678 TTAACTTGCT
** *
44711688 CCACTGCAACTTCAGGGAGATAAGGTTTGC-TATCTTCAATCTGCC
1 CCACTGCAACTTCAGGGAGATAAGACTTACTTA-CTT-AATCTGCC
* *
44711733 CCACTGCAACTTCA-GGAGGATAAGACTTACTTACTTAGTCTGCT
1 CCACTGCAACTTCAGGGA-GATAAGACTTACTTACTTAATCTGCC
* *
44711777 CCATTGCAACTTTAGGGAGATAAGA
1 CCACTGCAACTTCAGGGAGATAAGA
44711802 TTAGATGGGA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
44 28 0.47
45 29 0.49
46 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGACTTACTTACTTAATCTGCC
Found at i:44711972 original size:45 final size:44
Alignment explanation
Indices: 44711906--44712107 Score: 186
Period size: 45 Copynumber: 4.5 Consensus size: 44
44711896 TAACTTGCTC
44711906 CACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCT
1 CACTGCAACTTCAG-GAGATAAGGTCTGCAATCTTCAGTCTGCCT
* * *
44711951 CACTGCAACTTTAGGACGATAA-GACTTGC-TTACTTC-GTCTG-CT
1 CACTGCAACTTCAGGA-GATAAGGTC-TGCAAT-CTTCAGTCTGCCT
*
44711994 CCACTGCAACTTCAGGGAGTTAAGGTCTGCAATCTTCAGTCTGCCT
1 -CACTGCAACTTCA-GGAGATAAGGTCTGCAATCTTCAGTCTGCCT
* * *
44712040 CATTGCAACTTCAGGAGGATAA-GACTTGC-TTACTT-AGTCTG-CT
1 CACTGCAACTTCAGGA-GATAAGGTC-TGCAAT-CTTCAGTCTGCCT
44712083 CCACTGCAACTTCAAGGAGATAAGG
1 -CACTGCAACTTC-AGGAGATAAGG
44712108 CTAGATGGGA
Statistics
Matches: 130, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
43 4 0.03
44 61 0.47
45 63 0.48
46 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
CACTGCAACTTCAGGAGATAAGGTCTGCAATCTTCAGTCTGCCT
Found at i:44711999 original size:89 final size:89
Alignment explanation
Indices: 44711901--44712107 Score: 344
Period size: 89 Copynumber: 2.3 Consensus size: 89
44711891 GGCTTTAACT
*
44711901 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
*
44711966 ACGATAAGACTTGCTTACTTCGTC
66 ACGATAAGACTTGCTTACTTAGTC
* * *
44711990 TGCTCCACTGCAACTTCAGGGAGTTAAGGTCTGCAATCTTCAGTCTGCCTCATTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
*
44712055 AGGATAAGACTTGCTTACTTAGTC
66 ACGATAAGACTTGCTTACTTAGTC
44712079 TGCTCCACTGCAACTTCA-AGGAGATAAGG
1 TGCTCCACTGCAACTTCAGA-GAGATAAGG
44712108 CTAGATGGGA
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
89 109 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.29
Consensus pattern (89 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
ACGATAAGACTTGCTTACTTAGTC
Found at i:44712173 original size:434 final size:431
Alignment explanation
Indices: 44711337--44712182 Score: 956
Period size: 434 Copynumber: 1.9 Consensus size: 431
44711327 ACTCCATTAA
* * *
44711337 TCTGTTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTTCTCTCTGCAACTGCAGAGAG
1 TCTGCTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTGCAGAGAA
* ** *
44711402 ATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTTTGGGAGATAGGATTATCAACTTTAACC
66 ATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTCAGGAAGATAGGATTATCAACTTTAACC
* *
44711467 TGCTCCACTGCAACTTCAGGGAGATAAGGTCTGCAATCTTCAGTTTGCCTCACTGCAACTTCAGG
131 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
* *
44711532 AGGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATC
196 ACGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTCATC
* * * * * *
44711597 TACTCTCTGCAACTTTAGAGAAATAAGATCCAAGGTTTTAATCCGTTCCACTGCAATTTTAGGGA
261 TACTCTCTGCAACTTCAGAGAAATAAGA-CCAAGCTTTTAATCCGCTCCACTGCAACTTCAAGGA
* * * * * *
44711662 GATAGGATTATCGGCTTTAACTTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATCTTCAA
325 GATAGGATGATCGG--TGAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTATCCAATCTTCAA
**
44711727 TCTGCCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAG
388 TCCACCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAG
* ** * * ** * *
44711771 TCTGCTCCATTGCAACTTTAGGGAGATAAGATTAGATGGGATCTGCTCTCTGTGATTTCAGAGAA
1 TCTGCTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTGCAGAGAA
* * * ** *
44711836 ATAAGATCCAAGGTTTTAATTCGTTCCACTATAACTTCAGGAAGATAGGATTATCGGCTTTAACT
66 ATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTCAGGAAGATAGGATTATCAACTTTAACC
*
44711901 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTTAGG
131 TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
* * * * *
44711966 ACGATAAGACTTGCTTACTTCGTCTGCTCCACTGCAACTTCAGGGAGTTAAGGTCT-GCAATCTT
196 ACGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAA-GACTAG--AT-GT
* * ** * *
44712030 CAGTCTGC-CTCATTGCAACTTCAG-GAGGATAAGA-CTTGCTTACTTAGTCTGCTCCACTGCAA
257 CA-TCTACTCTC--TGCAACTTCAGAGA-AATAAGACCAAGCTT--TTAATCCGCTCCACTGCAA
* * *
44712092 CTTCAAGGAGATAAGGCTAGAT-GG-GATC-TGCT-CTCTGCAACTTCAGAGAGATAA-G-ATCC
316 CTTCAAGGAGAT-AGGAT-GATCGGTGAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTATCC
* * *
44712151 AATGTTTTAATCCACTCCACTGCAACTTCAGG
379 AAT-CTTCAATCCACCCCACTGCAACTTCAGG
44712183 GAGATAGGAT
Statistics
Matches: 341, Mismatches: 58, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
433 4 0.01
434 242 0.71
435 23 0.07
436 6 0.02
437 11 0.03
438 6 0.02
439 41 0.12
440 6 0.02
441 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (431 bp):
TCTGCTCCACTGCAACTTTAGAAAGATAAGAGTAGATGCGATCTGCTCTCTGCAACTGCAGAGAA
ATAAGATCCAAGGTTTTAATCCGCTCCACTACAACTTCAGGAAGATAGGATTATCAACTTTAACC
TGCTCCACTGCAACTTCAGAGAGATAAGGTCTGCAATCTTCAGTCTGCCTCACTGCAACTTCAGG
ACGATAAGACTTGCTTACTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTCATC
TACTCTCTGCAACTTCAGAGAAATAAGACCAAGCTTTTAATCCGCTCCACTGCAACTTCAAGGAG
ATAGGATGATCGGTGAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTATCCAATCTTCAATCC
ACCCCACTGCAACTTCAGGAGGATAAGACTTACTTACTTAG
Found at i:44715020 original size:27 final size:26
Alignment explanation
Indices: 44714983--44715035 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 26
44714973 CCGTCAAAGT
44714983 TTAATTCCAAGAATGATTTTCTTGGG
1 TTAATTCCAAGAATGATTTTCTTGGG
44715009 TTAATCTCCAAGAATGATTTTCTTGGG
1 TTAAT-TCCAAGAATGATTTTCTTGGG
44715036 ATCTCTTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (26 bp):
TTAATTCCAAGAATGATTTTCTTGGG
Found at i:44723967 original size:15 final size:15
Alignment explanation
Indices: 44723949--44723983 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44723939 CAAATGCCAT
44723949 AATAATAAATACAAC
1 AATAATAAATACAAC
*
44723964 AATAATAAATACATC
1 AATAATAAATACAAC
44723979 AATAA
1 AATAA
44723984 CATAGAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAATACAAC
Found at i:44725427 original size:14 final size:15
Alignment explanation
Indices: 44725399--44725431 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
44725389 TTTCTTTTAA
44725399 AAAATAACAAAAACG
1 AAAATAACAAAAACG
44725414 AAAATAAC-AAAACG
1 AAAATAACAAAAACG
44725428 AAAA
1 AAAA
44725432 AAAAAGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.76, C:0.12, G:0.06, T:0.06
Consensus pattern (15 bp):
AAAATAACAAAAACG
Found at i:44725432 original size:15 final size:16
Alignment explanation
Indices: 44725398--44725432 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
44725388 ATTTCTTTTA
44725398 AAAAATAACAAAAACG
1 AAAAATAACAAAAACG
44725414 -AAAATAAC-AAAACG
1 AAAAATAACAAAAACG
44725428 AAAAA
1 AAAAA
44725433 AAAAGCTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.77, C:0.11, G:0.06, T:0.06
Consensus pattern (16 bp):
AAAAATAACAAAAACG
Found at i:44726371 original size:39 final size:40
Alignment explanation
Indices: 44726313--44726395 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 40
44726303 TTCCGGTTCT
*
44726313 TTCATAACAACCAACACATTATAAG-AAAAAAATATACCA
1 TTCATAACAACCAACACATTATAAGAAAAAAAATACACCA
* *
44726352 TTCATAACAACCAATACATTATAGGAAAAAAAATACACCA
1 TTCATAACAACCAACACATTATAAGAAAAAAAATACACCA
44726392 TTCA
1 TTCA
44726396 AAATCTTGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 23 0.57
40 17 0.43
ACGTcount: A:0.54, C:0.20, G:0.04, T:0.22
Consensus pattern (40 bp):
TTCATAACAACCAACACATTATAAGAAAAAAAATACACCA
Done.