Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 105 of 362
Found at i:34101351 original size:40 final size:40
Alignment explanation
Indices: 34101306--34101489 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
34101296 CTCGCACAAG
* *
34101306 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
34101346 GCCTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
34101386 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
34101426 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
34101466 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
34101490 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 123 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:34101401 original size:80 final size:80
Alignment explanation
Indices: 34101272--34101489 Score: 268
Period size: 80 Copynumber: 2.8 Consensus size: 80
34101262 ACCCAAGTAT
* * * *
34101272 CTTCGGAT-TTAG-CC-GATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGT
1 CTTCGGATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-
*
34101333 C-ACTAGCATAAATGC
65 CAACTAGCACAAATGC
* *
34101348 CTTCGGGA-CTTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CTTC-GGATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG
*
34101412 CAACTCGCACAAATGC
65 CAACTAGCACAAATGC
* * * *
34101428 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
34101490 CATTCGAATA
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
76 4 0.03
77 7 0.06
78 2 0.02
79 18 0.15
80 91 0.75
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CTTCGGATCTTAGCCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
AACTAGCACAAATGC
Found at i:34103575 original size:137 final size:137
Alignment explanation
Indices: 34103323--34103576 Score: 343
Period size: 137 Copynumber: 1.8 Consensus size: 137
34103313 TTGTAAAATG
* *** *
34103323 GGTCTGCTTACACAAGCTAACAGTCAGAATGTAAGCAATACAGTGTTGCTCACATAAGCTGATGA
1 GGTCTGCTCACACAAGCTAACAGTCAGAATGTAAGC-ATACAGTGCCACTCACACAAGCTGATGA
* * * *
34103388 GTATCTGCAACTAATGTTGGACCTCAGCCATCAGTTGGACATTCAAGACCAGTATTCGAAACATG
65 GTATCCGCAACTAATGTCGGAACTCAGCCATCAGTAGGACATTCAAGACCAGTATTCGAAACATG
34103453 GTAACCTA
130 GTAACCTA
34103461 GGTCTGCTCACACAAGCTAA-AGGTCAGAATGT-AGC-TACACGATGCCACTCACACAAGCTGAT
1 GGTCTGCTCACACAAGCTAACA-GTCAGAATGTAAGCATACA-G-TGCCACTCACACAAGCTGAT
* * *
34103523 GAGTATCCGCAACTAATGTCGGAACTTAGCCATCGGTAGGACATTCAGGACCAG
63 GAGTATCCGCAACTAATGTCGGAACTCAGCCATCAGTAGGACATTCAAGACCAG
34103577 CACCTGAAGC
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
135 4 0.04
136 1 0.01
137 67 0.66
138 29 0.29
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.23
Consensus pattern (137 bp):
GGTCTGCTCACACAAGCTAACAGTCAGAATGTAAGCATACAGTGCCACTCACACAAGCTGATGAG
TATCCGCAACTAATGTCGGAACTCAGCCATCAGTAGGACATTCAAGACCAGTATTCGAAACATGG
TAACCTA
Found at i:34106564 original size:31 final size:31
Alignment explanation
Indices: 34106526--34106588 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
34106516 TTCTAAATTA
34106526 AGATCCATTAAAAGCATTTTAAACTAGACTT
1 AGATCCATTAAAAGCATTTTAAACTAGACTT
34106557 AGATCCATTAAAAGCATTTTAAACTAGACTT
1 AGATCCATTAAAAGCATTTTAAACTAGACTT
34106588 A
1 A
34106589 TATATATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
AGATCCATTAAAAGCATTTTAAACTAGACTT
Found at i:34107507 original size:48 final size:48
Alignment explanation
Indices: 34107455--34107630 Score: 120
Period size: 48 Copynumber: 3.7 Consensus size: 48
34107445 AATGGTGTCG
* * **
34107455 ATGCCATGTCCTAGACATGATCTTGGATGGGACCTCATA-TCGATGCCA
1 ATGCCATGTCCCAAACATGATCTTACATGGGACCTCATACT-GATGCCA
* * * * *
34107503 ATGCCATATCCCAAATATGGTCTTACATGGGATCTCATACTGATGCCG
1 ATGCCATGTCCCAAACATGATCTTACATGGGACCTCATACTGATGCCA
* * * * * * * ** * *
34107551 ATGCCATGTCTCAGATATGGTCTTACACGAGATCTCATTTTGATGTCG
1 ATGCCATGTCCCAAACATGATCTTACATGGGACCTCATACTGATGCCA
* * * *
34107599 ATGCCATATCCCAAATATGGTCTTATATGGGA
1 ATGCCATGTCCCAAACATGATCTTACATGGGA
34107631 TCTAAATACT
Statistics
Matches: 104, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
48 103 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGATCTTACATGGGACCTCATACTGATGCCA
Found at i:34107553 original size:96 final size:96
Alignment explanation
Indices: 34107439--34107633 Score: 239
Period size: 96 Copynumber: 2.0 Consensus size: 96
34107429 TTACACAAAG
* * ** * *
34107439 TCTCATAATGGTGTCGATGCCATGTC-CTAGACATGATCTTGGATGGGACCTCATATCGATGCCA
1 TCTCATAATGATGCCGATGCCATGTCTC-AGACATGATCTTACACGAGACCTCATATCGATGCCA
34107503 ATGCCATATCCCAAATATGGTCTTACATGGGA
65 ATGCCATATCCCAAATATGGTCTTACATGGGA
* * * * * * * *
34107535 TCTCATACTGATGCCGATGCCATGTCTCAGATATGGTCTTACACGAGATCTCATTTTGATGTCGA
1 TCTCATAATGATGCCGATGCCATGTCTCAGACATGATCTTACACGAGACCTCATATCGATGCCAA
*
34107600 TGCCATATCCCAAATATGGTCTTATATGGGA
66 TGCCATATCCCAAATATGGTCTTACATGGGA
34107631 TCT
1 TCT
34107634 AAATACTCAC
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 82 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (96 bp):
TCTCATAATGATGCCGATGCCATGTCTCAGACATGATCTTACACGAGACCTCATATCGATGCCAA
TGCCATATCCCAAATATGGTCTTACATGGGA
Found at i:34107633 original size:48 final size:48
Alignment explanation
Indices: 34107481--34107633 Score: 191
Period size: 48 Copynumber: 3.2 Consensus size: 48
34107471 ATGATCTTGG
* *
34107481 ATGGGACCTCATA-TCGATGCCAATGCCATATCCCAAATATGGTCTTAC
1 ATGGGATCTCATACT-GATGCCGATGCCATATCCCAAATATGGTCTTAC
* * *
34107529 ATGGGATCTCATACTGATGCCGATGCCATGTCTCAGATATGGTCTTAC
1 ATGGGATCTCATACTGATGCCGATGCCATATCCCAAATATGGTCTTAC
* * ** * *
34107577 ACGAGATCTCATTTTGATGTCGATGCCATATCCCAAATATGGTCTTAT
1 ATGGGATCTCATACTGATGCCGATGCCATATCCCAAATATGGTCTTAC
34107625 ATGGGATCT
1 ATGGGATCT
34107634 AAATACTCAC
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
48 87 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (48 bp):
ATGGGATCTCATACTGATGCCGATGCCATATCCCAAATATGGTCTTAC
Found at i:34114217 original size:17 final size:17
Alignment explanation
Indices: 34114195--34114236 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
34114185 AACAAAATGG
34114195 AGTAAGCTATATAGCTT
1 AGTAAGCTATATAGCTT
34114212 AGTAAGCTATATAGCTT
1 AGTAAGCTATATAGCTT
34114229 AGTAAGCT
1 AGTAAGCT
34114237 CGTATGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (17 bp):
AGTAAGCTATATAGCTT
Found at i:34121634 original size:42 final size:43
Alignment explanation
Indices: 34121517--34121680 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 43
34121507 TAGAAAGCTC
*
34121517 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAAA-CAA
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
** **
34121559 ATATCAATGCCATTGTCCCAGACAAGGTCTTACACG-AAATCAA
1 ATA-CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
* * * *
34121602 ATACAATGCCAACATCCCAGATGTGTTTTTACACGTAAATCATA
1 ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-A
* *
34121646 AGT-CGATGCCAACGTCCCA-AGCGTTGTCTTACACG
1 A-TACAATGCCAACGTCCCAGA-CGTGGTCTTACACG
34121681 AAAACACATA
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 30 0.31
43 40 0.41
44 26 0.27
45 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACAATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAA
Found at i:34123280 original size:42 final size:42
Alignment explanation
Indices: 34123172--34123322 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
34123162 ATACCAATTC
* * * * *
34123172 CATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCGATGC
1 CATATCCCAGATATGGTCTTACACG-AAGTATCATATAGATGT
* *
34123214 CAATAGCCCAGCTATGGTCTTACACGAAGTATCATATCA-ATGT
1 C-ATATCCCAGATATGGTCTTACACGAAGTATCATAT-AGATGT
** * * *
34123257 TGTATCTCAGATATGGTGTTACACGAAGTCTCATATAGATGT
1 CATATCCCAGATATGGTCTTACACGAAGTATCATATAGATGT
34123299 CATATCCCAGATATGGTCTTACAC
1 CATATCCCAGATATGGTCTTACAC
34123323 ATAGTGTTAC
Statistics
Matches: 87, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 56 0.64
43 30 0.34
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAGTATCATATAGATGT
Found at i:34127454 original size:13 final size:13
Alignment explanation
Indices: 34127432--34127467 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
34127422 TGCAGGGGAC
*
34127432 ACACGGCCATACA
1 ACACGCCCATACA
34127445 ACACGCCCATACA
1 ACACGCCCATACA
34127458 ACACGCCCAT
1 ACACGCCCAT
34127468 GGGGACTGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.36, C:0.44, G:0.11, T:0.08
Consensus pattern (13 bp):
ACACGCCCATACA
Found at i:34131169 original size:76 final size:76
Alignment explanation
Indices: 34131040--34131193 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
34131030 TCAACAACCC
* *
34131040 ATTAAGCCACACTCAACCATTTGTCAAGCATTAATAAACTACATCACTCACAAGGCATTGACACA
1 ATTAAGCCACACTCAACCATTTGCCAAGCATTAATAAACTACATCACTAACAAGGCATTGACACA
*
34131105 TGCATGCATAT
66 TGCATACATAT
34131116 ATTAAGCCACACTCAACCATTTGCCAAGCATTAATAAACTACATCACTAACAAGGCATTGACACA
1 ATTAAGCCACACTCAACCATTTGCCAAGCATTAATAAACTACATCACTAACAAGGCATTGACACA
34131181 TGCATACATAT
66 TGCATACATAT
34131192 AT
1 AT
34131194 ATAATATATA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.25
Consensus pattern (76 bp):
ATTAAGCCACACTCAACCATTTGCCAAGCATTAATAAACTACATCACTAACAAGGCATTGACACA
TGCATACATAT
Found at i:34141716 original size:32 final size:32
Alignment explanation
Indices: 34141680--34141740 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
34141670 CATAACTTGA
34141680 CTCGTCTCATTCTCAATAATCATTGTAGTCAT
1 CTCGTCTCATTCTCAATAATCATTGTAGTCAT
34141712 CTCGTCTCATTCTCAATAATCATTGTAGT
1 CTCGTCTCATTCTCAATAATCATTGTAGT
34141741 TACCCTACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.41
Consensus pattern (32 bp):
CTCGTCTCATTCTCAATAATCATTGTAGTCAT
Found at i:34142075 original size:48 final size:48
Alignment explanation
Indices: 34141997--34142114 Score: 123
Period size: 48 Copynumber: 2.5 Consensus size: 48
34141987 TATCCTAGAT
* * * *
34141997 ATGGTCTTACATAGGATCACCA-AACGATGCCAATGCC-ATGTCCCAAAC
1 ATGGTCTTACATGGGATC-TCATAACAATGCCAAT-CCTATATCCCAAAC
* * *
34142045 ATGGTCTTACATGGGATCTCATACCAATGCCAATCCTATATCCCAGAT
1 ATGGTCTTACATGGGATCTCATAACAATGCCAATCCTATATCCCAAAC
* *
34142093 ATGGTCTTATACGGGATCTCAT
1 ATGGTCTTACATGGGATCTCAT
34142115 CAAACCCCAA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
47 4 0.07
48 55 0.93
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGGTCTTACATGGGATCTCATAACAATGCCAATCCTATATCCCAAAC
Found at i:34143240 original size:13 final size:13
Alignment explanation
Indices: 34143227--34143269 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
34143217 TCACACAACT
*
34143227 GTGTCACTAGACT
1 GTGTCACTAGACC
34143240 GTGTCACTAGACC
1 GTGTCACTAGACC
34143253 GTGTCACTAGACC
1 GTGTCACTAGACC
34143266 GTGT
1 GTGT
34143270 AACAGCTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (13 bp):
GTGTCACTAGACC
Found at i:34146763 original size:15 final size:16
Alignment explanation
Indices: 34146736--34146767 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
34146726 TAACATTTAA
34146736 TAATTTTTAATAACTT
1 TAATTTTTAATAACTT
34146752 TAATTTTT-ATAACTT
1 TAATTTTTAATAACTT
34146767 T
1 T
34146768 TTAAAATTTT
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:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTTTAATAACTT
Found at i:34146779 original size:26 final size:25
Alignment explanation
Indices: 34146714--34146784 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
34146704 GAAGTCGCAA
* *
34146714 TTTTAAATTTTTTAACATTTAATAAT
1 TTTTAAAATTTTTAA-TTTTAATAAT
* *
34146740 TTTTAATAA-CTTTAATTTTTATAACT
1 TTTTAA-AATTTTTAATTTTAATAA-T
34146766 TTTTAAAATTTTT-ATTTTA
1 TTTTAAAATTTTTAATTTTA
34146785 TTTTAGTAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
25 14 0.39
26 21 0.58
27 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTAAAATTTTTAATTTTAATAAT
Found at i:34147145 original size:31 final size:31
Alignment explanation
Indices: 34147080--34147147 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
34147070 TTGTATATTT
*
34147080 TAAATTTTTACTACTTTTTTTATACTTTTCA
1 TAAATTTTTACTACTTTTTTTATAATTTTCA
* *
34147111 TAAATTTTTA-TA-TTTTTTATGTTAATTTTTA
1 TAAATTTTTACTACTTTTTT-T-ATAATTTTCA
34147142 TAAATT
1 TAAATT
34147148 GCTATCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 6 0.19
30 3 0.09
31 23 0.72
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (31 bp):
TAAATTTTTACTACTTTTTTTATAATTTTCA
Found at i:34148735 original size:21 final size:21
Alignment explanation
Indices: 34148692--34148730 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34148682 TACATGTGTT
34148692 AAAATAATTAGATATTAAATA
1 AAAATAATTAGATATTAAATA
34148713 AAAATAATTA-AT-TTAAAT
1 AAAATAATTAGATATTAAAT
34148731 TTAAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (21 bp):
AAAATAATTAGATATTAAATA
Found at i:34160382 original size:49 final size:49
Alignment explanation
Indices: 34160326--34160500 Score: 235
Period size: 49 Copynumber: 3.5 Consensus size: 49
34160316 CTAGTATGCA
34160326 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
* * * * *
34160375 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAT-CGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGA-TACACG
* * * *
34160426 TAGCAGCCTGCACTTAGTACTACATATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
34160475 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
34160501 CGTGACCTCA
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
49 60 0.57
50 11 0.10
51 35 0.33
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACACG
Found at i:34160455 original size:100 final size:100
Alignment explanation
Indices: 34160307--34160505 Score: 335
Period size: 100 Copynumber: 2.0 Consensus size: 100
34160297 CACTTGTAGC
* * * *
34160307 CAAAGCTATCTAGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATAC
1 CAAAGCTATCGAGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGATAC
34160372 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
* * *
34160407 CAAAGTTATCGAGTACGCATAGCAGCCTGCACTTAGTACTACATATGCGACCAATAATCCGGTAC
1 CAAAGCTATCGAGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGATAC
34160472 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
66 ACGTAGTAGCCTGCACTTAGTACTACACACGTGA
34160506 CCTCACAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
CAAAGCTATCGAGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGATAC
ACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
Found at i:34161552 original size:29 final size:29
Alignment explanation
Indices: 34161509--34161650 Score: 135
Period size: 29 Copynumber: 4.9 Consensus size: 29
34161499 GTGTGCTAAA
** *
34161509 CGATGGTCAAAACCATCGCTTTTCATATT
1 CGATGGTCATCACCATCCCTTTTCATATT
*
34161538 CGATGGTCATCACCATCCTTTTTCATATT
1 CGATGGTCATCACCATCCCTTTTCATATT
* * * **
34161567 TGATAGTCGA-AATTATCCCTTTTCATATT
1 CGATGGTC-ATCACCATCCCTTTTCATATT
* * *
34161596 TGATGGTCGTCAGCATCCCTTTTCATAATT
1 CGATGGTCATCACCATCCCTTTTCAT-ATT
*
34161626 -GATGGTCGTCACCATCCCTTTTCAT
1 CGATGGTCATCACCATCCCTTTTCAT
34161651 GGTCGATAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
29 90 0.96
30 4 0.04
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (29 bp):
CGATGGTCATCACCATCCCTTTTCATATT
Found at i:34161643 original size:58 final size:58
Alignment explanation
Indices: 34161518--34161650 Score: 167
Period size: 58 Copynumber: 2.3 Consensus size: 58
34161508 ACGATGGTCA
* * *
34161518 AAACCATCGCTTTTCATATTCGATGGTCATCACCATCCTTTTTCATATTTGATAGTCG
1 AAACCATCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATAATTGATAGTCG
** * * * *
34161576 AAATTATCCCTTTTCATATTTGATGGTCGTCAGCATCCCTTTTCATAATTGATGGTCG
1 AAACCATCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATAATTGATAGTCG
**
34161634 TCACCATCCCTTTTCAT
1 AAACCATCCCTTTTCAT
34161651 GGTCGATAAT
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
58 62 1.00
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.41
Consensus pattern (58 bp):
AAACCATCCCTTTTCATATTCGATGGTCATCACCATCCCTTTTCATAATTGATAGTCG
Found at i:34161663 original size:29 final size:29
Alignment explanation
Indices: 34161520--34161665 Score: 85
Period size: 29 Copynumber: 5.0 Consensus size: 29
34161510 GATGGTCAAA
* * ** *
34161520 ACCATCGCTTTTCATATTCGATGGTCATC
1 ACCATCCCTTTTCATAATCGATAATCGTC
* * * * **
34161549 ACCATCCTTTTTCATATTTGATAGTCGAA
1 ACCATCCCTTTTCATAATCGATAATCGTC
** * * **
34161578 ATTATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATAATCGATAATCGTC
* * **
34161607 AGCATCCCTTTTCATAATTGATGGTCGTC
1 ACCATCCCTTTTCATAATCGATAATCGTC
**
34161636 ACCATCCCTTTTCATGGTCGATAATCGTC
1 ACCATCCCTTTTCATAATCGATAATCGTC
34161665 A
1 A
34161666 ATACGTCAAA
Statistics
Matches: 95, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 95 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATCGATAATCGTC
Found at i:34164364 original size:8 final size:8
Alignment explanation
Indices: 34164351--34164377 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
34164341 GCAGATCGGC
34164351 AAAAGCTG
1 AAAAGCTG
34164359 AAAAGCTG
1 AAAAGCTG
34164367 AAAAGCTG
1 AAAAGCTG
34164375 AAA
1 AAA
34164378 CGTCGGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.22, T:0.11
Consensus pattern (8 bp):
AAAAGCTG
Found at i:34165092 original size:33 final size:34
Alignment explanation
Indices: 34165050--34165118 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
34165040 GTGTGCTGGA
*
34165050 TTACTGTATAGGGCTTA-GGCCCAAACTG-TATTG
1 TTACTGTATAGGGC-CAGGGCCCAAACTGTTATTG
*
34165083 TTACTGTATAGGGCCAGGGCCCAGACTGTTATTG
1 TTACTGTATAGGGCCAGGGCCCAAACTGTTATTG
34165117 TT
1 TT
34165119 TTGTATATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
32 1 0.03
33 24 0.75
34 7 0.22
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (34 bp):
TTACTGTATAGGGCCAGGGCCCAAACTGTTATTG
Found at i:34170157 original size:47 final size:42
Alignment explanation
Indices: 34170131--34170252 Score: 135
Period size: 39 Copynumber: 2.9 Consensus size: 42
34170121 CTTATCCCGG
34170131 AGTACCTATACTATGGCCCGTAGCCAAATCAATGTAAC-TTC
1 AGTACCTATACTATGGCCCGTAGCCAAATCAATGTAACTTTC
**
34170172 --TTTCTATACTATGGCCCGTAGCCAAATCAATGTAACTTCTTTC
1 AGTACCTATACTATGGCCCGTAGCCAAATCAATGTAA---CTTTC
*
34170215 AAAATACCTATA-TCATGGCCCGTAGCCAAATCAATGTA
1 --AGTACCTATACT-ATGGCCCGTAGCCAAATCAATGTA
34170253 TTATTTGCAC
Statistics
Matches: 68, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
39 33 0.49
42 1 0.01
43 3 0.04
46 1 0.01
47 30 0.44
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (42 bp):
AGTACCTATACTATGGCCCGTAGCCAAATCAATGTAACTTTC
Found at i:34170190 original size:39 final size:39
Alignment explanation
Indices: 34170136--34170214 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
34170126 CCCGGAGTAC
34170136 CTATACTATGGCCCGTAGCCAAATCAATGTAACTTCTTT
1 CTATACTATGGCCCGTAGCCAAATCAATGTAACTTCTTT
34170175 CTATACTATGGCCCGTAGCCAAATCAATGTAACTTCTTT
1 CTATACTATGGCCCGTAGCCAAATCAATGTAACTTCTTT
34170214 C
1 C
34170215 AAAATACCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (39 bp):
CTATACTATGGCCCGTAGCCAAATCAATGTAACTTCTTT
Found at i:34175039 original size:16 final size:17
Alignment explanation
Indices: 34175015--34175047 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34175005 TAATTATATT
34175015 AGATGCAAA-CTTACTA
1 AGATGCAAAGCTTACTA
*
34175031 AGATTCAAAGCTTACTA
1 AGATGCAAAGCTTACTA
34175048 TGTGAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (17 bp):
AGATGCAAAGCTTACTA
Found at i:34180248 original size:39 final size:39
Alignment explanation
Indices: 34180197--34180420 Score: 358
Period size: 39 Copynumber: 5.7 Consensus size: 39
34180187 TGTGTGAGAT
* *
34180197 TTATATCTGGGCTAAGTCCCGAAGGCATTCGTGCAGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
34180236 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
34180275 TTATGTCCGGGCTAAGTCCCGAAGGCATTCGTACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
34180314 TTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
34180353 TTATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTAGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
34180392 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
34180421 TGTGTTGGAA
Statistics
Matches: 170, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 170 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:34189906 original size:20 final size:20
Alignment explanation
Indices: 34189881--34189923 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
34189871 GGTAAGAATT
34189881 GTTTACTTCTTTCATATCAG
1 GTTTACTTCTTTCATATCAG
*
34189901 GTTTACTTCTTTCATATGAG
1 GTTTACTTCTTTCATATCAG
34189921 GTT
1 GTT
34189924 ACTAAGCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.16, G:0.14, T:0.51
Consensus pattern (20 bp):
GTTTACTTCTTTCATATCAG
Found at i:34192418 original size:15 final size:15
Alignment explanation
Indices: 34192398--34192426 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34192388 AAAAACAAAG
34192398 AAATAAATGAAAAAA
1 AAATAAATGAAAAAA
34192413 AAATAAATGAAAAA
1 AAATAAATGAAAAA
34192427 GAGAAACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (15 bp):
AAATAAATGAAAAAA
Found at i:34192472 original size:4 final size:4
Alignment explanation
Indices: 34192463--34192505 Score: 59
Period size: 4 Copynumber: 10.2 Consensus size: 4
34192453 AGAACAGGGG
*
34192463 AGAA AGAA AGGAA AGAA AGAA AGGAA GGAA AGAA AGAA AGAA A
1 AGAA AGAA A-GAA AGAA AGAA A-GAA AGAA AGAA AGAA AGAA A
34192506 TGGAGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:34192479 original size:13 final size:13
Alignment explanation
Indices: 34192463--34192505 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
34192453 AGAACAGGGG
34192463 AGAAAGAAAGGAA
1 AGAAAGAAAGGAA
34192476 AGAAAGAAAGGAA
1 AGAAAGAAAGGAA
*
34192489 GGAAAGAAA-GAA
1 AGAAAGAAAGGAA
34192501 AGAAA
1 AGAAA
34192506 TGGAGAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
12 7 0.25
13 21 0.75
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGGAA
Found at i:34192515 original size:17 final size:17
Alignment explanation
Indices: 34192463--34192505 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
34192453 AGAACAGGGG
34192463 AGAAAGAAAGGAAAGAA
1 AGAAAGAAAGGAAAGAA
*
34192480 AGAAAGGAAGGAAAGAA
1 AGAAAGAAAGGAAAGAA
34192497 AGAAAGAAA
1 AGAAAGAAA
34192506 TGGAGAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGAAAGAA
Found at i:34193578 original size:51 final size:51
Alignment explanation
Indices: 34193494--34193621 Score: 184
Period size: 51 Copynumber: 2.5 Consensus size: 51
34193484 ACTATGACTG
*
34193494 TTCCGGATTCATTCCGAAGAGGTACTCCATACCTGACTGTTACTGTTACTA
1 TTCCGGATTCGTTCCGAAGAGGTACTCCATACCTGACTGTTACTGTTACTA
* * * *
34193545 TTCCAGATTCGTTCCAAAGAGGTACTCCGTACCTGACTGTTACTGTTACTG
1 TTCCGGATTCGTTCCGAAGAGGTACTCCATACCTGACTGTTACTGTTACTA
* * *
34193596 TTCTGGATTTGTTCCGATGAGGTACT
1 TTCCGGATTCGTTCCGAAGAGGTACT
34193622 TTGTGTACCG
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (51 bp):
TTCCGGATTCGTTCCGAAGAGGTACTCCATACCTGACTGTTACTGTTACTA
Found at i:34193818 original size:18 final size:18
Alignment explanation
Indices: 34193797--34193831 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34193787 CTGAATAATT
*
34193797 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
34193815 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
34193832 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Found at i:34196665 original size:21 final size:22
Alignment explanation
Indices: 34196632--34196672 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34196622 TTCCTTTATG
*
34196632 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
34196653 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
34196673 CAATACATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:34199199 original size:40 final size:40
Alignment explanation
Indices: 34199146--34199294 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
34199136 ACTACTTGCT
34199146 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
34199186 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * * *
34199226 CAAATGCCTTTTGGACTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
34199266 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
34199295 CATCCGAATA
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 96 0.98
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:34204453 original size:41 final size:40
Alignment explanation
Indices: 34204326--34204470 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
34204316 CTCGCACAAG
* * * * * *
34204326 GCCTTCGGGTCTTAACCCGGCTATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
34204366 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
34204406 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
34204447 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
34204471 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:34206563 original size:24 final size:24
Alignment explanation
Indices: 34206532--34206654 Score: 205
Period size: 24 Copynumber: 5.2 Consensus size: 24
34206522 GGCCTGGCCT
*
34206532 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
34206556 CTTTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
34206580 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
34206603 CTTTTAATAACTTGGGCATAAGTC
1 CTTTTAATAACTGGGGCATAAGCC
34206627 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
34206650 CTTTT
1 CTTTT
34206655 TCACTTCCTC
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.48
24 48 0.52
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:34206588 original size:23 final size:23
Alignment explanation
Indices: 34206534--34206653 Score: 195
Period size: 23 Copynumber: 5.1 Consensus size: 23
34206524 CCTGGCCTCT
*
34206534 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34206557 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
34206581 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
34206604 TTTTAATAACTTGGGCATAAGTCC
1 -TTTAATAACTGGGGCATAAGCCC
34206628 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34206651 TTT
1 TTT
34206654 TTCACTTCCT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
23 47 0.52
24 43 0.48
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:34206588 original size:47 final size:47
Alignment explanation
Indices: 34206534--34206654 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
34206524 CCTGGCCTCT
*
34206534 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
34206581 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTTGGGCATAAGTCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
34206628 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
34206655 TCACTTCCTC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:34206734 original size:20 final size:20
Alignment explanation
Indices: 34206706--34206770 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
34206696 ATGAATACAG
*
34206706 CATGGGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
34206726 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
*
34206746 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAT
34206766 CATGT
1 CATGT
34206771 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:34214390 original size:31 final size:31
Alignment explanation
Indices: 34214352--34214415 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
34214342 CCTTTTCATA
34214352 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
34214383 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
34214414 TT
1 TT
34214416 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:34214660 original size:24 final size:24
Alignment explanation
Indices: 34214609--34214750 Score: 227
Period size: 24 Copynumber: 6.0 Consensus size: 24
34214599 ACTTTATCAT
*
34214609 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
34214634 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34214658 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34214681 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34214705 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
34214728 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34214751 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 46 0.41
24 53 0.48
25 12 0.11
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34214684 original size:23 final size:23
Alignment explanation
Indices: 34214630--34214749 Score: 213
Period size: 23 Copynumber: 5.1 Consensus size: 23
34214620 CCTAGCCTCT
*
34214630 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34214653 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
34214677 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34214700 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
34214724 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
34214747 TTT
1 TTT
34214750 TTCACTTCCT
Statistics
Matches: 94, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
23 49 0.52
24 45 0.48
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:34214684 original size:47 final size:47
Alignment explanation
Indices: 34214630--34214750 Score: 233
Period size: 47 Copynumber: 2.6 Consensus size: 47
34214620 CCTAGCCTCT
*
34214630 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
34214677 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
34214724 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
34214751 TCACTTCCTC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:34214827 original size:20 final size:20
Alignment explanation
Indices: 34214802--34214866 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
34214792 ATGAATACAG
34214802 CATGTGCATATCATACATAT
1 CATGTGCATATCATACATAT
*
34214822 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAT
* *
34214842 CATGTGCATATCGTACATAC
1 CATGTGCATATCATACATAT
34214862 CATGT
1 CATGT
34214867 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTGCATATCATACATAT
Found at i:34219322 original size:21 final size:22
Alignment explanation
Indices: 34219289--34219329 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
34219279 TTCCTTTATG
*
34219289 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
34219310 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
34219330 CAATACATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:34228089 original size:57 final size:59
Alignment explanation
Indices: 34227991--34228132 Score: 148
Period size: 57 Copynumber: 2.5 Consensus size: 59
34227981 TATCGTATTA
* ** * * *
34227991 CAGGATCACCAGTCCAGGCTAAAT-CTTTTATGTAACGTATGCTTAGAAGAG-CTTA-AT
1 CAGGATTACCAGTCCAGGCTAAATCCTAATATGTAACATATGC-TAGAAAAGAATTATAT
* * *
34228048 CAGGATTACCATTCCAGGCTAAATCCTAAT-TGTATCATATGCTCGAAAAGAATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCTAATATGTAACATATGCTAGAAAAGAATTATAT
* *
34228106 CAGGACTACCCGTCCAGGCTAAATCCT
1 CAGGATTACCAGTCCAGGCTAAATCCT
34228133 TTCTATAACG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
56 6 0.09
57 35 0.50
58 29 0.41
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (59 bp):
CAGGATTACCAGTCCAGGCTAAATCCTAATATGTAACATATGCTAGAAAAGAATTATAT
Found at i:34233158 original size:30 final size:30
Alignment explanation
Indices: 34233124--34233184 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
34233114 TCCTTAACTC
34233124 AAACTTTGGCAAAATTACAATTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTTCCCCT
* * * *
34233154 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTTCCCCT
34233184 A
1 A
34233185 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTTCCCCT
Found at i:34252688 original size:26 final size:26
Alignment explanation
Indices: 34252659--34252711 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
34252649 ATTCGTAACG
34252659 ACATAAACATGAGTTTAGTAATTCTA
1 ACATAAACATGAGTTTAGTAATTCTA
34252685 ACATAAACATGAGTTTAGTAATTCTA
1 ACATAAACATGAGTTTAGTAATTCTA
34252711 A
1 A
34252712 GTTAAGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (26 bp):
ACATAAACATGAGTTTAGTAATTCTA
Found at i:34256540 original size:17 final size:17
Alignment explanation
Indices: 34256518--34256553 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34256508 AAAATAAAAT
* *
34256518 AATAAAATTGAAAGGAA
1 AATAAAATTCAAAAGAA
34256535 AATAAAATTCAAAAGAA
1 AATAAAATTCAAAAGAA
34256552 AA
1 AA
34256554 AGAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.11, T:0.17
Consensus pattern (17 bp):
AATAAAATTCAAAAGAA
Found at i:34259819 original size:79 final size:81
Alignment explanation
Indices: 34259683--34259865 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34259673 TCGAATGATG
* *
34259683 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34259747 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
34259762 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
34259824 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
34259842 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34259866 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:34259881 original size:40 final size:40
Alignment explanation
Indices: 34259684--34259867 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
34259674 CGAATGATGT
* * * *
34259684 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
34259724 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
34259764 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34259802 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34259843 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34259868 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34259889 original size:79 final size:79
Alignment explanation
Indices: 34259736--34259900 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
34259726 GGACTAAGAT
* **
34259736 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34259801 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34259815 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
34259878 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34259894 CCGAAGG
1 CCGAAGG
34259901 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34267990 original size:79 final size:81
Alignment explanation
Indices: 34267854--34268036 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
34267844 TCGAATGATG
* *
34267854 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34267918 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
34267933 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
34267995 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
34268013 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34268037 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:34268052 original size:40 final size:40
Alignment explanation
Indices: 34267855--34268038 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
34267845 CGAATGATGT
* * * *
34267855 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
34267895 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
34267935 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34267973 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34268014 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34268039 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34268060 original size:79 final size:79
Alignment explanation
Indices: 34267907--34268071 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
34267897 GGACTAAGAT
* **
34267907 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34267972 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
34267986 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
34268049 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34268065 CCGAAGG
1 CCGAAGG
34268072 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34276125 original size:79 final size:81
Alignment explanation
Indices: 34275989--34276171 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
34275979 TCGAATGTTG
* *
34275989 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
34276053 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
34276068 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
34276130 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
34276148 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
34276172 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:34276187 original size:40 final size:40
Alignment explanation
Indices: 34275990--34276173 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
34275980 CGAATGTTGT
* * * *
34275990 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
34276030 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
34276070 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34276108 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
34276149 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34276174 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:34276195 original size:79 final size:79
Alignment explanation
Indices: 34276042--34276206 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
34276032 GGACTAAGAT
* **
34276042 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
34276107 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
34276121 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
34276184 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
34276200 CCGAAGG
1 CCGAAGG
34276207 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:34288469 original size:27 final size:27
Alignment explanation
Indices: 34288439--34288615 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
34288429 ATATTGAGTC
* *
34288439 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
34288466 CGCACACTTAGTGCTACGTAATCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
*
34288492 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
34288520 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
34288547 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
34288574 CGCACACTTAGTGCAACATAGA-CAAAT
1 CGCACACTTAGTGCTACATA-ATCAACT
34288601 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34288616 GTACAATTTA
Statistics
Matches: 128, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.17
27 84 0.66
28 22 0.17
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:34288604 original size:81 final size:81
Alignment explanation
Indices: 34288460--34288614 Score: 224
Period size: 81 Copynumber: 1.9 Consensus size: 81
34288450 TGCTATATAA
* * *
34288460 TCAACTCGCACACTTAGTGCTACGTAATCAATCGCACACTTAGTGCTACATAGTCAAACTCGCAC
1 TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGACAAACTCGCAC
34288525 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * *
34288541 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGACAAA-TCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCA-ATCGCACACTTAGTGCAACATAGACAAACTCGC
34288604 ACACTTAGTGC
64 ACACTTAGTGC
34288615 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.02
81 40 0.61
82 25 0.38
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAATCGCACACTTAGTGCAACATAGACAAACTCGCAC
ACTTAGTGCCGCATGG
Found at i:34395661 original size:25 final size:24
Alignment explanation
Indices: 34395592--34395673 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
34395582 TGGAGAGCCT
*
34395592 AGCCTCTTTTAAT-AACTGGGGGCAA
1 AGCC-CTTTTGATAAACT-GGGGCAA
34395617 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGC-AA
* *
34395642 AGCCCTTTTCGGTAAA-TGGGG-AT
1 AGCCCTTTT-GATAAACTGGGGCAA
34395665 AGCCCTTTT
1 AGCCCTTTT
34395674 TTGCACCACT
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
23 10 0.20
24 12 0.24
25 24 0.47
26 5 0.10
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:34395825 original size:20 final size:21
Alignment explanation
Indices: 34395728--34395826 Score: 125
Period size: 21 Copynumber: 4.8 Consensus size: 21
34395718 TTATGAATAC
34395728 ATCATGTGGCATATC-ATACAT
1 ATCATGT-GCATATCAATACAT
*
34395749 ATCATGTGCATATC-GTACAT
1 ATCATGTGCATATCAATACAT
34395769 AATCATGTGCATATCAATACAT
1 -ATCATGTGCATATCAATACAT
34395791 AT-ATGTGACATATCAATACAT
1 ATCATGTG-CATATCAATACAT
*
34395812 ATCATG-GTATATCAA
1 ATCATGTGCATATCAA
34395827 ATCCATCCCA
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
20 24 0.34
21 39 0.55
22 8 0.11
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
ATCATGTGCATATCAATACAT
Found at i:34405132 original size:46 final size:46
Alignment explanation
Indices: 34405077--34405224 Score: 128
Period size: 46 Copynumber: 3.2 Consensus size: 46
34405067 TCAAACTCAG
34405077 ACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGA
1 ACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGA
* * * * *
34405123 ACTCAACTCAACGAGCTTGGATGCCTAGTT-ACATCTC-T---CGAACAC-A
1 ACTCAACTCAACGAG-TT-CA-GAC-A-TTCGCATC-CATAAGTGAACTCGA
* *
34405169 GACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGG
1 -ACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGA
34405216 ACTCAACTC
1 ACTCAACTC
34405225 CAAGTTCGGA
Statistics
Matches: 77, Mismatches: 12, Indels: 26
0.67 0.10 0.23
Matches are distributed among these distances:
42 3 0.04
43 6 0.08
44 2 0.03
46 32 0.42
47 22 0.29
48 1 0.01
49 2 0.03
50 6 0.08
51 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (46 bp):
ACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGA
Found at i:34405173 original size:93 final size:93
Alignment explanation
Indices: 34405014--34405224 Score: 368
Period size: 93 Copynumber: 2.3 Consensus size: 93
34405004 TGTAACTCGC
* *
34405014 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGGATGCCTAGTTACATCTCTCAAACTCAGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACACAGAC
34405079 TCAACTCAACGAGTTCAGACATTCGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
* * *
34405107 CCATAAGTGAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTCGAACACAGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACACAGAC
*
34405172 TCAACTCAACGAGTTCGGACATTCGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
34405200 CCATAAGTGAACTCGGACTCAACTC
1 CCATAAGTGAACTCGGACTCAACTC
34405225 CAAGTTCGGA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 111 1.00
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCAAACACAGAC
TCAACTCAACGAGTTCAGACATTCGCAT
Found at i:34405183 original size:47 final size:47
Alignment explanation
Indices: 34405022--34405184 Score: 142
Period size: 47 Copynumber: 3.5 Consensus size: 47
34405012 GCCCATAAGT
* * *
34405022 GAACTCGGACTCAACTCAACGATCTCGGATGCCTAGTTACATCTCTC
1 GAACTCAGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
* * * * *
34405069 AAACTCAGACTCAACTCAACGAG-TT-CA-GAC-A-TTCGCATC-CATAAGT
1 GAACTCAGACTCAACTCAACGAGCTTGGATGCCTAGTT-ACATCTC-T---C
34405115 GAACTC-GAACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
1 GAACTCAG-ACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
*
34405162 GAACACAGACTCAACTCAACGAG
1 GAACTCAGACTCAACTCAACGAG
34405185 TTCGGACATT
Statistics
Matches: 89, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
42 3 0.03
43 6 0.07
44 2 0.02
45 2 0.02
46 21 0.24
47 42 0.47
48 2 0.02
49 2 0.02
50 6 0.07
51 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGCTTGGATGCCTAGTTACATCTCTC
Found at i:34407751 original size:40 final size:40
Alignment explanation
Indices: 34407662--34407847 Score: 157
Period size: 40 Copynumber: 4.7 Consensus size: 40
34407652 GCTCCTCGTT
* * * *
34407662 CAAATGCCTTCGGGACATAGCCCGGTTTTAATGA-CTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCA
* *
34407702 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGAA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* * *
34407742 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
34407782 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
34407823 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34407848 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 20, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
39 5 0.04
40 99 0.83
41 15 0.13
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:34407856 original size:41 final size:41
Alignment explanation
Indices: 34407779--34407856 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34407769 CTTGTATCTC
* * *
34407779 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34407820 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34407857 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34416120 original size:20 final size:20
Alignment explanation
Indices: 34416095--34416181 Score: 165
Period size: 20 Copynumber: 4.3 Consensus size: 20
34416085 ATTTTGATAT
34416095 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34416115 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
34416135 ACATGATATGTACGATATGC
1 ACATGATATGTATGATATGC
34416155 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
34416175 ACATGAT
1 ACATGAT
34416182 GTATTCATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:34416122 original size:11 final size:11
Alignment explanation
Indices: 34416106--34416181 Score: 83
Period size: 11 Copynumber: 7.5 Consensus size: 11
34416096 CATGATATGT
34416106 ATGATATGCAC
1 ATGATATGCAC
*
34416117 ATGATATG--T
1 ATGATATGCAC
34416126 ATGATATGCAC
1 ATGATATGCAC
*
34416137 ATGATATGTAC
1 ATGATATGCAC
34416148 --GATATGCAC
1 ATGATATGCAC
*
34416157 ATGATATG--T
1 ATGATATGCAC
34416166 ATGATATGCAC
1 ATGATATGCAC
34416177 ATGAT
1 ATGAT
34416182 GTATTCATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 24 0.45
11 29 0.55
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:34416298 original size:24 final size:24
Alignment explanation
Indices: 34416232--34416314 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 24
34416222 AGGAAGTGCA
* *
34416232 AAAAGGGCTATGCCCCAGTTTACC
1 AAAAGGGCTTTGCCCCAGTTTATC
34416256 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGC-TTTGCCCCAGTTTATC
*
34416282 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATC
34416305 AAAAGAGGCT
1 AAAAG-GGCT
34416315 AGGCCTCCAG
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 9 0.17
24 14 0.26
25 16 0.30
26 14 0.26
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATC
Found at i:34416559 original size:31 final size:31
Alignment explanation
Indices: 34416524--34416613 Score: 110
Period size: 38 Copynumber: 2.7 Consensus size: 31
34416514 GTTTACAGTG
34416524 AAGGCTTCGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
34416555 AAGGCTTCGGCCCAGTGTTATGAGATATGAAATATGAA
1 AAGGCTTCGGCCCA--G---T-A-ATATGAAATATGAA
34416593 AAGGCTTCGGCCCAGT-ATATG
1 AAGGCTTCGGCCCAGTAATATG
34416614 CTGAGATGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 15
0.78 0.00 0.22
Matches are distributed among these distances:
30 5 0.10
31 14 0.27
33 2 0.04
36 2 0.04
37 1 0.02
38 28 0.54
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:34420357 original size:12 final size:12
Alignment explanation
Indices: 34420340--34420364 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34420330 ATTTATATTT
34420340 TTAATTTTTAAA
1 TTAATTTTTAAA
34420352 TTAATTTTTAAA
1 TTAATTTTTAAA
34420364 T
1 T
34420365 ACACAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAATTTTTAAA
Found at i:34422913 original size:3 final size:3
Alignment explanation
Indices: 34422905--34422951 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
34422895 ATCTATCAAG
* *
34422905 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGG TGA TGG TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
34422952 GTCTTGAGGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.38, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:34423592 original size:26 final size:26
Alignment explanation
Indices: 34423556--34423607 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
34423546 ATTGTAATTT
34423556 CCTAAGGCTTAAAAACAGACGCCTAA
1 CCTAAGGCTTAAAAACAGACGCCTAA
34423582 CCTAAGGCTTAAAAACAGACGCCTAA
1 CCTAAGGCTTAAAAACAGACGCCTAA
34423608 TTCTGTAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (26 bp):
CCTAAGGCTTAAAAACAGACGCCTAA
Found at i:34425433 original size:82 final size:81
Alignment explanation
Indices: 34425293--34425473 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
34425283 ACTGAGCAAT
* ** * * * *
34425293 TTCAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAAAACTGAGT
1 TTCAAACGCCGCTAAAAACAAAGAAATAGCAGCGTTTCTGGTCCAAACGCCACTAAAAACTAAGC
* *
34425358 TATAGCGGCGTTTTTTG
66 AATAGCGGC-ATTTTTG
*
34425375 TTCAAACGCCGCTAAAAACAAAGAAATAGCAGCGTTT-TTGTCCAAACGCCACTAAAAAACTAAG
1 TTCAAACGCCGCTAAAAACAAAGAAATAGCAGCGTTTCTGGTCCAAACGCCACT-AAAAACTAAG
34425439 CAATAGCGGCATTTTTG
65 CAATAGCGGCATTTTTG
*
34425456 TTACAAACACCG-TAAAAA
1 TT-CAAACGCCGCTAAAAA
34425474 GTTAATTTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
81 29 0.34
82 57 0.66
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (81 bp):
TTCAAACGCCGCTAAAAACAAAGAAATAGCAGCGTTTCTGGTCCAAACGCCACTAAAAACTAAGC
AATAGCGGCATTTTTG
Found at i:34425473 original size:41 final size:41
Alignment explanation
Indices: 34425295--34425463 Score: 198
Period size: 41 Copynumber: 4.1 Consensus size: 41
34425285 TGAGCAATTT
* * *
34425295 CAAACGCCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTC
1 CAAACGCCACTAAAAACTAAGCAATAGCGGCGTTTTTGTTC
* **
34425336 CAAACGCCACTAAAAACTGAGTTATAGCGGCGTTTTTTGTT-
1 CAAACGCCACTAAAAACTAAGCAATAGCGGCG-TTTTTGTTC
* * * *
34425377 CAAACGCCGCTAAAAACAAAGAAATAGCAGCGTTTTTG-TC
1 CAAACGCCACTAAAAACTAAGCAATAGCGGCGTTTTTGTTC
* *
34425417 CAAACGCCACTAAAAAACTAAGCAATAGCGGCATTTTTGTTA
1 CAAACGCCACT-AAAAACTAAGCAATAGCGGCGTTTTTGTTC
34425459 CAAAC
1 CAAAC
34425464 ACCGTAAAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 16 0.15
41 79 0.73
42 12 0.11
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (41 bp):
CAAACGCCACTAAAAACTAAGCAATAGCGGCGTTTTTGTTC
Found at i:34425818 original size:14 final size:15
Alignment explanation
Indices: 34425789--34425823 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
34425779 TATGGTTTTC
34425789 TCTAAACCCTTAAAT
1 TCTAAACCCTTAAAT
34425804 TCTAAACCC-TAAAT
1 TCTAAACCCTTAAAT
34425818 TCTAAA
1 TCTAAA
34425824 AACATAGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (15 bp):
TCTAAACCCTTAAAT
Found at i:34426092 original size:21 final size:21
Alignment explanation
Indices: 34426067--34426107 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34426057 TTAAGTTTAT
34426067 GGTTTAGGGTTT-GTTATTTTG
1 GGTTTAGGGTTTAGTT-TTTTG
34426088 GGTTTAGGGTTTAGTTTTTT
1 GGTTTAGGGTTTAGTTTTTT
34426108 AAATTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.10, C:0.00, G:0.32, T:0.59
Consensus pattern (21 bp):
GGTTTAGGGTTTAGTTTTTTG
Found at i:34426327 original size:21 final size:21
Alignment explanation
Indices: 34426303--34426344 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34426293 TTAGGGTATT
34426303 GGGTGTAGGACTTAGTCTATA
1 GGGTGTAGGACTTAGTCTATA
* **
34426324 GGGTTTAGGGTTTAGTCTATA
1 GGGTGTAGGACTTAGTCTATA
34426345 AGCTTTAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.07, G:0.33, T:0.38
Consensus pattern (21 bp):
GGGTGTAGGACTTAGTCTATA
Found at i:34426334 original size:7 final size:7
Alignment explanation
Indices: 34426322--34426401 Score: 54
Period size: 7 Copynumber: 11.4 Consensus size: 7
34426312 ACTTAGTCTA
34426322 TAGGGTT
1 TAGGGTT
34426329 TAGGGTT
1 TAGGGTT
** *
34426336 TAGTCTA
1 TAGGGTT
* *
34426343 TAAGCTT
1 TAGGGTT
34426350 TAGGGTT
1 TAGGGTT
*
34426357 TATGGTAT
1 TAGGGT-T
34426365 T-GGGTT
1 TAGGGTT
*
34426371 TAAGGTT
1 TAGGGTT
** *
34426378 TAGTCTA
1 TAGGGTT
34426385 TAGGGTT
1 TAGGGTT
34426392 TAGGGTT
1 TAGGGTT
34426399 TAG
1 TAG
34426402 TCTATAAAAA
Statistics
Matches: 53, Mismatches: 18, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
6 2 0.04
7 49 0.92
8 2 0.04
ACGTcount: A:0.20, C:0.04, G:0.33, T:0.44
Consensus pattern (7 bp):
TAGGGTT
Found at i:34426351 original size:21 final size:21
Alignment explanation
Indices: 34426314--34426407 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
34426304 GGTGTAGGAC
34426314 TTAGTCTATAGGGTTTAGGGT
1 TTAGTCTATAGGGTTTAGGGT
* *
34426335 TTAGTCTATAAGCTTTAGGGT
1 TTAGTCTATAGGGTTTAGGGT
* * *
34426356 TTA-TGGTATTGGGTTTAAGGT
1 TTAGT-CTATAGGGTTTAGGGT
34426377 TTAGTCTATAGGGTTTAGGGT
1 TTAGTCTATAGGGTTTAGGGT
34426398 TTAGTCTATA
1 TTAGTCTATA
34426408 AAAATTTGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
20 1 0.02
21 59 0.97
22 1 0.02
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (21 bp):
TTAGTCTATAGGGTTTAGGGT
Found at i:34426700 original size:84 final size:84
Alignment explanation
Indices: 34426505--34426702 Score: 222
Period size: 84 Copynumber: 2.4 Consensus size: 84
34426495 TTAGTTTTGT
* * * *
34426505 ATTAGCGGCGCATT-GTAAAAAACGCCACTAAAAATATGGGAAATTGAATAAAAACGCTGTCGTT
1 ATTAGCGGCGC-TTAGTAAAAAACGCCACAAAAAATATGAGAAATTAAATAAAAACGCTATCGTT
*
34426569 TGAAGTGGCGCGGTAGTGGA
65 TGAAGTAGCGCGGTAGTGGA
* * * * *
34426589 CTTTGTGGCGCTTAGTAAAAAATGCCACAAAAAATATGAGAAATTAAATGAAAACGAC-ATCGTT
1 ATTAGCGGCGCTTAGTAAAAAACGCCACAAAAAATATGAGAAATTAAATAAAAACG-CTATCGTT
* *
34426653 TTAAGTAGCGGGGTAGTGGA
65 TGAAGTAGCGCGGTAGTGGA
* *
34426673 ATTAGCGGCG-TTAGGTCATAAACGCCACAA
1 ATTAGCGGCGCTTA-GTAAAAAACGCCACAA
34426703 TATATCAGTA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
83 5 0.05
84 87 0.94
85 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (84 bp):
ATTAGCGGCGCTTAGTAAAAAACGCCACAAAAAATATGAGAAATTAAATAAAAACGCTATCGTTT
GAAGTAGCGCGGTAGTGGA
Found at i:34426816 original size:122 final size:123
Alignment explanation
Indices: 34426595--34426842 Score: 320
Period size: 122 Copynumber: 2.0 Consensus size: 123
34426585 TGGACTTTGT
34426595 GGCGCTTAGTAAAAAATGCCACAAAAAATATGAGAAATTAAATGAAAACGACATCGTTTTAAGTA
1 GGCGCTTAGTAAAAAATGCCACAAAAAATATGAGAAATTAAATGAAAACGACATCGTTTTAAGTA
* * * * *
34426660 GCGGGGTAGTGGAATTAGCGGCGTTAGGTCATAAACGCCACAATATATCAGTATTAGC
66 GCGAGGTAGTGAAATTAGCGGCGCTAGGTCATAAACACCACAATAGATCAGTATTAGC
* ** * * *
34426718 GGCGCTTA-TTAAAAATGCTGCTAAAAATATGAGAAATTGAATGAAAAC-AGCGTCGTTTTAAGT
1 GGCGCTTAGTAAAAAATGCCACAAAAAATATGAGAAATTAAATGAAAACGA-CATCGTTTTAAGT
* * * ** *
34426781 GGCGAGGTAGTGAAATTAGTGGCGCTAGGTTATAAACACCGTAATAGGTCAGTATTAGC
65 AGCGAGGTAGTGAAATTAGCGGCGCTAGGTCATAAACACCACAATAGATCAGTATTAGC
34426840 GGC
1 GGC
34426843 CAAAATGACC
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
121 1 0.01
122 98 0.92
123 8 0.07
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (123 bp):
GGCGCTTAGTAAAAAATGCCACAAAAAATATGAGAAATTAAATGAAAACGACATCGTTTTAAGTA
GCGAGGTAGTGAAATTAGCGGCGCTAGGTCATAAACACCACAATAGATCAGTATTAGC
Found at i:34427508 original size:16 final size:16
Alignment explanation
Indices: 34427487--34427517 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34427477 CGCAGATTTT
*
34427487 TGTTGTTAAGGCTTTC
1 TGTTGTTAAGCCTTTC
34427503 TGTTGTTAAGCCTTT
1 TGTTGTTAAGCCTTT
34427518 GATTTGTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.52
Consensus pattern (16 bp):
TGTTGTTAAGCCTTTC
Found at i:34429480 original size:9 final size:9
Alignment explanation
Indices: 34429457--34429494 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
34429447 TTAAAGTTTA
34429457 AATTT-CAT
1 AATTTACAT
*
34429465 AACTTACAT
1 AATTTACAT
34429474 AATTTACAT
1 AATTTACAT
*
34429483 AACTTACAT
1 AATTTACAT
34429492 AAT
1 AAT
34429495 ATATCATATC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (9 bp):
AATTTACAT
Found at i:34429545 original size:8 final size:9
Alignment explanation
Indices: 34429462--34429627 Score: 121
Period size: 9 Copynumber: 18.6 Consensus size: 9
34429452 GTTTAAATTT
34429462 CATAACTTA
1 CATAACTTA
*
34429471 CATAATTTA
1 CATAACTTA
34429480 CATAACTTA
1 CATAACTTA
34429489 CATAA-TATA
1 CATAACT-TA
34429498 TCAT-A--T-
1 -CATAACTTA
*
34429504 CATAACTCA
1 CATAACTTA
*
34429513 CATAACTCA
1 CATAACTTA
* *
34429522 TACAACTTA
1 CATAACTTA
34429531 CATAACTTA
1 CATAACTTA
34429540 -ATAACTTA
1 CATAACTTA
* * *
34429548 TATGTATCATA
1 CA--TAACTTA
34429559 TCATAACTTA
1 -CATAACTTA
*
34429569 CATAACTCA
1 CATAACTTA
34429578 CATAACTTA
1 CATAACTTA
*
34429587 CATAACTCA
1 CATAACTTA
*
34429596 CAT-ACATCA
1 CATAAC-TTA
*
34429605 CATAACTCA
1 CATAACTTA
34429614 CATAACTTA
1 CATAACTTA
34429623 CATAA
1 CATAA
34429628 TACATAAATA
Statistics
Matches: 128, Mismatches: 17, Indels: 24
0.76 0.10 0.14
Matches are distributed among these distances:
5 3 0.02
6 1 0.01
7 1 0.01
8 11 0.09
9 96 0.75
10 10 0.08
11 5 0.04
12 1 0.01
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.32
Consensus pattern (9 bp):
CATAACTTA
Found at i:34429572 original size:56 final size:59
Alignment explanation
Indices: 34429465--34429599 Score: 186
Period size: 56 Copynumber: 2.3 Consensus size: 59
34429455 TAAATTTCAT
* *
34429465 AACTTACATAATTTACATAACTTACATAATATATCATATCATAACTCACATAACTCATAC
1 AACTTACATAACTTACATAACTTA-ATAATATATCATATCATAACTCACATAACTCACAC
* * *
34429525 AACTTACATAACTTA-ATAACTT-AT-ATGTATCATATCATAACTTACATAACTCACAT
1 AACTTACATAACTTACATAACTTAATAATATATCATATCATAACTCACATAACTCACAC
*
34429581 AACTTACATAACTCACATA
1 AACTTACATAACTTACATA
34429600 CATCACATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
56 42 0.62
57 5 0.07
59 7 0.10
60 14 0.21
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.33
Consensus pattern (59 bp):
AACTTACATAACTTACATAACTTAATAATATATCATATCATAACTCACATAACTCACAC
Found at i:34434395 original size:12 final size:12
Alignment explanation
Indices: 34434378--34434403 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34434368 AAGATCGAGG
34434378 GATGAATCTGAT
1 GATGAATCTGAT
34434390 GATGAATCTGAT
1 GATGAATCTGAT
34434402 GA
1 GA
34434404 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:34438645 original size:38 final size:38
Alignment explanation
Indices: 34438603--34438739 Score: 141
Period size: 38 Copynumber: 3.6 Consensus size: 38
34438593 CGCAACTATA
*
34438603 TGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
34438641 TGCTGGTATTATATCCGAGTTAAATCCC-CAAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGC-AGGCTTCG
** * *
34438679 TGCTGGTATTATATCTAAGTTTAAAGTCCCGTAGGCTTCG
1 TGCTGGTATTATATC-CGGGTTAAA-TCCCGCAGGCTTCG
* * *
34438719 TGCTGGTGTTATGTTCGGGTT
1 TGCTGGTATTATATCCGGGTT
34438740 TTATACCTCG
Statistics
Matches: 78, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 1 0.01
38 47 0.60
39 8 0.10
40 22 0.28
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:34440933 original size:43 final size:41
Alignment explanation
Indices: 34440836--34440950 Score: 149
Period size: 43 Copynumber: 2.8 Consensus size: 41
34440826 TTTGTGACAA
* *
34440836 AAAGTGCCGCTAAAGGACATGTTCTTTAGCTGCGTTTGGTG
1 AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGGTG
*** *
34440877 AAAGCATCGCTAAAGGTCATATTCTTTAGCGGCGTTTGTGGTG
1 AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCG-TT-TGGTG
*
34440920 AAAGTGCCACTAAAGGTCATGTTCTTTAGCG
1 AAAGTGCCGCTAAAGGTCATGTTCTTTAGCG
34440951 ACATTTTTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 28 0.46
42 2 0.03
43 31 0.51
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
AAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTGGTG
Found at i:34441315 original size:15 final size:15
Alignment explanation
Indices: 34441295--34441323 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34441285 AGTGGTTATC
34441295 ATTTTTTTTCTTCAA
1 ATTTTTTTTCTTCAA
34441310 ATTTTTTTTCTTCA
1 ATTTTTTTTCTTCA
34441324 GATGATCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTTTCTTCAA
Found at i:34443154 original size:21 final size:23
Alignment explanation
Indices: 34443115--34443156 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
34443105 ATTTGTGATT
34443115 AGGGACTAAATTGTGAAAATGTG
1 AGGGACTAAATTGTGAAAATGTG
*
34443138 AGGG-CTAATTTGT-AAAATG
1 AGGGACTAAATTGTGAAAATG
34443157 CCCTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.29
Consensus pattern (23 bp):
AGGGACTAAATTGTGAAAATGTG
Found at i:34443645 original size:43 final size:42
Alignment explanation
Indices: 34443511--34443667 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
34443501 TGTGTTATCG
* * *
34443511 TGTAAGACCATGTCTA-CGACGTTGGCATCG-ACTTATGTTTTACA
1 TGTAAGACCACGTC-AGGGACGTTGGCATCGTA-TT-TG-ATTACA
* *
34443555 TGTAAGACCACGTCAGGGACGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACGTCAGGGACGTTGGCATCGTATTTGATTACA
* *
34443597 TGTAAGATCC-TGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGA-CCACGTCAGGGAC-GTTGGCATCG-TATTTGATTACA
* * *
34443640 TGTAAGACCACATCTGGGACATTGGCAT
1 TGTAAGACCACGTCAGGGACGTTGGCAT
34443668 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 28 0.30
43 37 0.39
44 28 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCAGGGACGTTGGCATCGTATTTGATTACA
Found at i:34447267 original size:14 final size:14
Alignment explanation
Indices: 34447248--34447276 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34447238 CCCAAACAAA
34447248 CTAGGATGAGCATT
1 CTAGGATGAGCATT
34447262 CTAGGATGAGCATT
1 CTAGGATGAGCATT
34447276 C
1 C
34447277 AATTGGTTGA
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:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (14 bp):
CTAGGATGAGCATT
Found at i:34459944 original size:13 final size:13
Alignment explanation
Indices: 34459928--34459959 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
34459918 CTCACACGGG
34459928 CGTGTCACATGGC
1 CGTGTCACATGGC
34459941 CGTGTCACATGGC
1 CGTGTCACATGGC
34459954 CGTGTC
1 CGTGTC
34459960 CCTTTGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.25
Consensus pattern (13 bp):
CGTGTCACATGGC
Found at i:34462744 original size:71 final size:67
Alignment explanation
Indices: 34462645--34462786 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
34462635 TCACCAGATA
* * * *
34462645 CAGATATTGTGGCTAGGCCACTAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAGGCCACCAAAACAG--ATAT-T-TGTGGCGAAGCCACCAGATTGCAGCGA
*
34462710 GGTTGC
62 GGCTGC
* * *
34462716 CAGATATTGTGACGAGGTCACCAAAACAGATATTTGTGGTGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAGGCCACCAAAACAGATATTTGTGGCGAAGCCACCAGATTGCAGCGAGGCT
34462781 GC
66 GC
34462783 CAGA
1 CAGA
34462787 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 34 0.54
68 1 0.02
69 4 0.06
71 24 0.38
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (67 bp):
CAGATATTGTGACGAGGCCACCAAAACAGATATTTGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:34467713 original size:27 final size:27
Alignment explanation
Indices: 34467679--34467743 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
34467669 ACCCTACTCT
*
34467679 CGGC-GATGAGCTACGTACACCAACGC
1 CGGCTGATGAGCTACATACACCAACGC
*
34467705 CGGCTGATGAGCTGCATACACCAACGC
1 CGGCTGATGAGCTACATACACCAACGC
*
34467732 CGGCTGACGAGC
1 CGGCTGATGAGC
34467744 CTCAGTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 4 0.11
27 31 0.89
ACGTcount: A:0.25, C:0.34, G:0.29, T:0.12
Consensus pattern (27 bp):
CGGCTGATGAGCTACATACACCAACGC
Found at i:34479930 original size:38 final size:38
Alignment explanation
Indices: 34479834--34480005 Score: 220
Period size: 38 Copynumber: 4.5 Consensus size: 38
34479824 GCTTAAAGGT
* * *
34479834 CCGCAGGCTTCATGCTGGTATTATATTCGAGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
*
34479872 CCACAGG-TTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
34479909 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
* * * * *
34479947 CTGCAGGCTTAGTGCTGGTATTATATTCGAGCTTAAAGTT
1 CCGCAGGCTTCGTGCTGGTATTATATCCG-GGTTAAA-TC
* *
34479987 CCGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTCGTGCTGGT
34480006 GACTGGATTC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
37 33 0.28
38 62 0.53
39 6 0.05
40 17 0.14
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
Found at i:34485819 original size:44 final size:42
Alignment explanation
Indices: 34485750--34485907 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 42
34485740 ATGTGTTATT
* * *
34485750 GTGTAAGACCACGTCTGGGATGTTGGCATTG-ACTTATGATTTAC
1 GTGTAAGACCACATCTGGGACGTTGGCATCGTA-TT-TGATTT-C
34485794 GTGTAAGACCACAT-TAGGGACGTTGGCATCGTATTTGATTTC
1 GTGTAAGACCACATCT-GGGACGTTGGCATCGTATTTGATTTC
* *** * *
34485836 GTGTAAGATCTTGTCTGGGACAG-TGGCATCGATATTTAATTAC
1 GTGTAAGACCACATCTGGGAC-GTTGGCATCG-TATTTGATTTC
*
34485879 ATGTAAGACCACATCTGGGACGTTGGCAT
1 GTGTAAGACCACATCTGGGACGTTGGCAT
34485908 TGTACGAGCT
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
42 25 0.27
43 40 0.43
44 28 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCACATCTGGGACGTTGGCATCGTATTTGATTTC
Found at i:34487405 original size:6 final size:6
Alignment explanation
Indices: 34487385--34487437 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
34487375 TTGCCCTAAA
* *
34487385 ACAGAT ACAGAAT ACAGAT ACAGAT ACAGGT ACAGAT ACA-AGT ATAGAT
1 ACAGAT ACAG-AT ACAGAT ACAGAT ACAGAT ACAGAT ACAGA-T ACAGAT
34487434 ACAG
1 ACAG
34487438 GTGCACACCT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 1 0.03
6 32 0.80
7 7 0.17
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (6 bp):
ACAGAT
Found at i:34489263 original size:42 final size:42
Alignment explanation
Indices: 34489146--34489267 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
34489136 TACCATACCA
* * **
34489146 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
* * *
34489188 ATGCCAATAGCCCA-ACTATGGTCTTACACGAAATCTTATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACAAGAAATCTCATATCG
34489231 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCA
34489268 ACTAACCTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
Found at i:34502950 original size:40 final size:40
Alignment explanation
Indices: 34502857--34503114 Score: 337
Period size: 40 Copynumber: 6.5 Consensus size: 40
34502847 AAGCCAAGTA
* * *
34502857 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34502895 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34502935 CCTTTGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34502975 CCTTCGGGACTTAGCTCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34503015 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34503055 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
34503096 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34503115 TTATCATCCA
Statistics
Matches: 197, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 140 0.71
41 24 0.12
42 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34512058 original size:40 final size:40
Alignment explanation
Indices: 34511965--34512222 Score: 355
Period size: 40 Copynumber: 6.5 Consensus size: 40
34511955 AAGCCAAGTA
* * *
34511965 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34512003 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34512043 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34512083 CCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34512123 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34512163 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
34512204 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34512223 TTATCATCCA
Statistics
Matches: 201, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.08
40 144 0.72
41 24 0.12
42 4 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34514515 original size:49 final size:47
Alignment explanation
Indices: 34514347--34514794 Score: 640
Period size: 47 Copynumber: 9.6 Consensus size: 47
34514337 CCCTTCGAGA
* * * * * *
34514347 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
34514394 CCTGTCACATATAT--A----CACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34514435 CTTATCACATATATACACTTTCACATTCATCACATCGGCAATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34514482 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34514531 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34514580 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34514629 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34514675 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34514722 CTTATCACATATATACACGTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34514769 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
34514795 CACAATTATC
Statistics
Matches: 368, Mismatches: 24, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
41 32 0.09
43 1 0.00
45 1 0.00
46 45 0.12
47 147 0.40
49 142 0.39
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34514581 original size:98 final size:96
Alignment explanation
Indices: 34514409--34514794 Score: 656
Period size: 98 Copynumber: 4.1 Consensus size: 96
34514399 CACATATATA
*
34514409 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
34514474 AATTAGGCCTTATCACATATATATACACTTT
66 CATTAGGCCTTATCACATATATATACACTTT
34514505 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 CACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCG
34514570 GCCATTAGGCCTTATCACATATATATACACTTT
64 GCCATTAGGCCTTATCACATATATATACACTTT
* *
34514603 CACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGG-
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
34514667 CATTAGGCCTTATCAC--ATATATACACTTT
66 CATTAGGCCTTATCACATATATATACACTTT
* * *
34514696 CACATTCATCACATCGGCTATTAAGCCTTATCACATATATACACGTTCACATTCATCACATCGGC
1 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
34514761 CATTAGGCCTTATCACATATATATACA--TT
66 CATTAGGCCTTATCACATATATATACACTTT
34514790 CACAT
1 CACAT
34514795 CACAATTATC
Statistics
Matches: 276, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
93 72 0.26
94 23 0.08
95 16 0.06
96 72 0.26
98 93 0.34
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (96 bp):
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
CATTAGGCCTTATCACATATATATACACTTT
Found at i:34534311 original size:26 final size:26
Alignment explanation
Indices: 34534275--34534326 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
34534265 AAATGTGAAA
*
34534275 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
34534301 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
34534327 GTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:34534452 original size:104 final size:104
Alignment explanation
Indices: 34534198--34534567 Score: 627
Period size: 104 Copynumber: 3.6 Consensus size: 104
34534188 TGTATATAAA
** *
34534198 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
*
34534262 TTGAAATGTGAAAAGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
34534301 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
34534366 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
34534405 AGGGGTTGCTAAGTGCTGATTTCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
34534470 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
34534509 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
34534568 ATAACGGTTA
Statistics
Matches: 254, Mismatches: 11, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
103 91 0.36
104 163 0.64
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:34541895 original size:26 final size:26
Alignment explanation
Indices: 34541860--34541910 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
34541850 ATGTGAAAAG
*
34541860 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
34541886 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
34541911 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:34541921 original size:104 final size:104
Alignment explanation
Indices: 34541781--34542146 Score: 609
Period size: 104 Copynumber: 3.6 Consensus size: 104
34541771 TTGTATATAA
** *
34541781 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
34541845 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
34541885 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
34541950 TGAAATGTG-AAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
34541988 AGGGGTTGCTAAGTGCTGATT-CCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
34542052 TGAAA--TGAAAA-GGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
** *
34542088 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
34542147 ATAACGGTTA
Statistics
Matches: 251, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
100 48 0.19
101 36 0.14
102 48 0.19
103 50 0.20
104 68 0.27
105 1 0.00
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:34542098 original size:26 final size:26
Alignment explanation
Indices: 34542062--34542114 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
34542052 TGAAATGAAA
*
34542062 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
34542088 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
34542114 A
1 A
34542115 TTCAGCGGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.15, C:0.23, G:0.34, T:0.28
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:34554068 original size:37 final size:37
Alignment explanation
Indices: 34554026--34554099 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
34554016 ATACATGAAA
34554026 CATCAAGACACATAATACATGGTAGAAATGAAATATT
1 CATCAAGACACATAATACATGGTAGAAATGAAATATT
34554063 CATCAAGACACATAATACATGGTAGAAATGAAATATT
1 CATCAAGACACATAATACATGGTAGAAATGAAATATT
34554100 TACATTTCAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (37 bp):
CATCAAGACACATAATACATGGTAGAAATGAAATATT
Found at i:34559772 original size:40 final size:40
Alignment explanation
Indices: 34559690--34559908 Score: 257
Period size: 40 Copynumber: 5.5 Consensus size: 40
34559680 ACCCAAGTAT
* ** * *
34559690 CTTCGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
34559727 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
34559767 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
34559807 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
34559847 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
34559887 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
34559909 CATTCGAATA
Statistics
Matches: 153, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
37 7 0.05
38 4 0.03
39 16 0.10
40 125 0.82
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:34559943 original size:19 final size:21
Alignment explanation
Indices: 34559910--34559949 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
34559900 CCCGGATATC
34559910 ATTCGAATAACCATG-CACAT
1 ATTCGAATAACCATGACACAT
*
34559930 ATTC-AATAATCATGACACAT
1 ATTCGAATAACCATGACACAT
34559950 CCATATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (21 bp):
ATTCGAATAACCATGACACAT
Found at i:34567731 original size:40 final size:40
Alignment explanation
Indices: 34567641--34567856 Score: 235
Period size: 40 Copynumber: 5.5 Consensus size: 40
34567631 ACCCAAGTAT
* ** * *
34567641 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
34567679 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
34567719 CTTCAGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
34567759 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
34567799 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAT-C
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCA-CAAATGC
34567839 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
34567857 GTATCATTCG
Statistics
Matches: 147, Mismatches: 24, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
38 11 0.07
39 18 0.12
40 110 0.75
41 8 0.05
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:34580209 original size:29 final size:29
Alignment explanation
Indices: 34580150--34580207 Score: 107
Period size: 30 Copynumber: 2.0 Consensus size: 29
34580140 CAAATAGCCG
34580150 AAGCTAGTTAAATCGCACACTTAGTGCCC
1 AAGCTAGTTAAATCGCACACTTAGTGCCC
34580179 AAGCTAGTTTAAATCGCACACTTAGTGCC
1 AAGCTAG-TTAAATCGCACACTTAGTGCC
34580208 AAAACTTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCC
Done.